[{"doi":"10.1038/s41467-022-34723-6","language":[{"iso":"eng"}],"external_id":{"isi":["000884426700001"],"pmid":["36379956"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"isi":1,"quality_controlled":"1","publication_identifier":{"issn":["2041-1723"]},"month":"11","author":[{"last_name":"Huang","first_name":"Jian","full_name":"Huang, Jian"},{"first_name":"Lei","last_name":"Zhao","full_name":"Zhao, Lei"},{"last_name":"Malik","first_name":"Shikha","full_name":"Malik, Shikha"},{"last_name":"Gentile","first_name":"Benjamin R.","full_name":"Gentile, Benjamin R."},{"full_name":"Xiong, Va","last_name":"Xiong","first_name":"Va"},{"full_name":"Arazi, Tzahi","first_name":"Tzahi","last_name":"Arazi"},{"full_name":"Owen, Heather A.","first_name":"Heather A.","last_name":"Owen"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"last_name":"Zhao","first_name":"Dazhong","full_name":"Zhao, Dazhong"}],"volume":13,"date_updated":"2023-08-04T08:52:01Z","date_created":"2023-01-12T12:02:41Z","pmid":1,"year":"2022","acknowledgement":"We thank A. Cheung,W. Lukowitz, V.Walbot, D.Weijers, and R. Yadegari for critically reading the manuscript; E. Xiong and G. Zhang for preparing some experiments, T. Schuck, J. Gonnering, and P. Engevold for plant care, the Arabidopsis Biological Resource Center (ABRC) for ARF10,ARF16, ARF17, EMS1,MIR160a BAC clones and cDNAs, the SALK_090804 seed, T. Nakagawa for pGBW vectors, Y. Zhao for the YUC1 cDNA, Q. Chen for the pHEE401E vector, R. Yadegari for pAT5G01860::n1GFP, pAT5G45980:n1GFP, pAT5G50490::n1GFP, pAT5G56200:n1GFP vectors, and D.Weijers for the pGreenII KAN SV40-3×GFP and R2D2 vectors, W. Yang for the splmutant, Y. Qin for the pKNU::KNU-VENUS vector and seed, G. Tang for the STTM160/160-48 vector, and L. Colombo for pPIN1::PIN1-GFP spl and pin1-5 seeds. This work was supported by the US National Science Foundation (NSF)-Israel Binational Science Foundation (BSF) research grant to D.Z. (IOS-1322796) and T.A. (2012756). D.Z. also\r\ngratefully acknowledges supports of the Shaw Scientist Award from the Greater Milwaukee Foundation, USDA National Institute of Food and Agriculture (NIFA, 2022-67013-36294), the UWM Discovery and Innovation Grant, the Bradley Catalyst Award from the UWM Research\r\nFoundation, and WiSys and UW System Applied Research Funding Programs.","publisher":"Springer Nature","department":[{"_id":"JiFr"}],"publication_status":"published","file_date_updated":"2023-01-23T11:17:33Z","article_number":"6960","date_published":"2022-11-15T00:00:00Z","citation":{"chicago":"Huang, Jian, Lei Zhao, Shikha Malik, Benjamin R. Gentile, Va Xiong, Tzahi Arazi, Heather A. Owen, Jiří Friml, and Dazhong Zhao. “Specification of Female Germline by MicroRNA Orchestrated Auxin Signaling in Arabidopsis.” Nature Communications. Springer Nature, 2022. https://doi.org/10.1038/s41467-022-34723-6.","mla":"Huang, Jian, et al. “Specification of Female Germline by MicroRNA Orchestrated Auxin Signaling in Arabidopsis.” Nature Communications, vol. 13, 6960, Springer Nature, 2022, doi:10.1038/s41467-022-34723-6.","short":"J. Huang, L. Zhao, S. Malik, B.R. Gentile, V. Xiong, T. Arazi, H.A. Owen, J. Friml, D. Zhao, Nature Communications 13 (2022).","ista":"Huang J, Zhao L, Malik S, Gentile BR, Xiong V, Arazi T, Owen HA, Friml J, Zhao D. 2022. Specification of female germline by microRNA orchestrated auxin signaling in Arabidopsis. Nature Communications. 13, 6960.","apa":"Huang, J., Zhao, L., Malik, S., Gentile, B. R., Xiong, V., Arazi, T., … Zhao, D. (2022). Specification of female germline by microRNA orchestrated auxin signaling in Arabidopsis. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-022-34723-6","ieee":"J. Huang et al., “Specification of female germline by microRNA orchestrated auxin signaling in Arabidopsis,” Nature Communications, vol. 13. Springer Nature, 2022.","ama":"Huang J, Zhao L, Malik S, et al. Specification of female germline by microRNA orchestrated auxin signaling in Arabidopsis. Nature Communications. 2022;13. doi:10.1038/s41467-022-34723-6"},"publication":"Nature Communications","article_type":"original","has_accepted_license":"1","article_processing_charge":"No","day":"15","scopus_import":"1","keyword":["General Physics and Astronomy","General Biochemistry","Genetics and Molecular Biology","General Chemistry","Multidisciplinary"],"file":[{"file_name":"2022_NatureCommunications_Huang.pdf","access_level":"open_access","content_type":"application/pdf","file_size":3375249,"creator":"dernst","relation":"main_file","file_id":"12346","date_updated":"2023-01-23T11:17:33Z","date_created":"2023-01-23T11:17:33Z","checksum":"233922a7b9507d9d48591e6799e4526e","success":1}],"oa_version":"Published Version","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"12130","intvolume":" 13","ddc":["580"],"status":"public","title":"Specification of female germline by microRNA orchestrated auxin signaling in Arabidopsis","abstract":[{"lang":"eng","text":"Germline determination is essential for species survival and evolution in multicellular organisms. In most flowering plants, formation of the female germline is initiated with specification of one megaspore mother cell (MMC) in each ovule; however, the molecular mechanism underlying this key event remains unclear. Here we report that spatially restricted auxin signaling promotes MMC fate in Arabidopsis. Our results show that the microRNA160 (miR160) targeted gene ARF17 (AUXIN RESPONSE FACTOR17) is required for promoting MMC specification by genetically interacting with the SPL/NZZ (SPOROCYTELESS/NOZZLE) gene. Alterations of auxin signaling cause formation of supernumerary MMCs in an ARF17- and SPL/NZZ-dependent manner. Furthermore, miR160 and ARF17 are indispensable for attaining a normal auxin maximum at the ovule apex via modulating the expression domain of PIN1 (PIN-FORMED1) auxin transporter. Our findings elucidate the mechanism by which auxin signaling promotes the acquisition of female germline cell fate in plants."}],"type":"journal_article"},{"date_published":"2022-10-03T00:00:00Z","publication":"Molecular Plant","citation":{"ama":"Johnson AJ, Kaufmann W, Sommer CM, et al. Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution. Molecular Plant. 2022;15(10):1533-1542. doi:10.1016/j.molp.2022.09.003","apa":"Johnson, A. J., Kaufmann, W., Sommer, C. M., Costanzo, T., Dahhan, D. A., Bednarek, S. Y., & Friml, J. (2022). Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution. Molecular Plant. Elsevier. https://doi.org/10.1016/j.molp.2022.09.003","ieee":"A. J. Johnson et al., “Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution,” Molecular Plant, vol. 15, no. 10. Elsevier, pp. 1533–1542, 2022.","ista":"Johnson AJ, Kaufmann W, Sommer CM, Costanzo T, Dahhan DA, Bednarek SY, Friml J. 2022. Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution. Molecular Plant. 15(10), 1533–1542.","short":"A.J. Johnson, W. Kaufmann, C.M. Sommer, T. Costanzo, D.A. Dahhan, S.Y. Bednarek, J. Friml, Molecular Plant 15 (2022) 1533–1542.","mla":"Johnson, Alexander J., et al. “Three-Dimensional Visualization of Planta Clathrin-Coated Vesicles at Ultrastructural Resolution.” Molecular Plant, vol. 15, no. 10, Elsevier, 2022, pp. 1533–42, doi:10.1016/j.molp.2022.09.003.","chicago":"Johnson, Alexander J, Walter Kaufmann, Christoph M Sommer, Tommaso Costanzo, Dana A. Dahhan, Sebastian Y. Bednarek, and Jiří Friml. “Three-Dimensional Visualization of Planta Clathrin-Coated Vesicles at Ultrastructural Resolution.” Molecular Plant. Elsevier, 2022. https://doi.org/10.1016/j.molp.2022.09.003."},"article_type":"original","page":"1533-1542","day":"03","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","scopus_import":"1","keyword":["Plant Science","Molecular Biology"],"oa_version":"Published Version","file":[{"content_type":"application/pdf","file_size":2307251,"creator":"dernst","access_level":"open_access","file_name":"2022_MolecularPlant_Johnson.pdf","checksum":"04d5c12490052d03e4dc4412338a43dd","success":1,"date_updated":"2023-01-30T07:46:51Z","date_created":"2023-01-30T07:46:51Z","relation":"main_file","file_id":"12435"}],"_id":"12239","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution","ddc":["580"],"status":"public","intvolume":" 15","abstract":[{"text":"Biological systems are the sum of their dynamic three-dimensional (3D) parts. Therefore, it is critical to study biological structures in 3D and at high resolution to gain insights into their physiological functions. Electron microscopy of metal replicas of unroofed cells and isolated organelles has been a key technique to visualize intracellular structures at nanometer resolution. However, many of these methods require specialized equipment and personnel to complete them. Here, we present novel accessible methods to analyze biological structures in unroofed cells and biochemically isolated organelles in 3D and at nanometer resolution, focusing on Arabidopsis clathrin-coated vesicles (CCVs). While CCVs are essential trafficking organelles, their detailed structural information is lacking due to their poor preservation when observed via classical electron microscopy protocols experiments. First, we establish a method to visualize CCVs in unroofed cells using scanning transmission electron microscopy tomography, providing sufficient resolution to define the clathrin coat arrangements. Critically, the samples are prepared directly on electron microscopy grids, removing the requirement to use extremely corrosive acids, thereby enabling the use of this method in any electron microscopy lab. Secondly, we demonstrate that this standardized sample preparation allows the direct comparison of isolated CCV samples with those visualized in cells. Finally, to facilitate the high-throughput and robust screening of metal replicated samples, we provide a deep learning analysis method to screen the “pseudo 3D” morphologies of CCVs imaged with 2D modalities. Collectively, our work establishes accessible ways to examine the 3D structure of biological samples and provide novel insights into the structure of plant CCVs.","lang":"eng"}],"issue":"10","type":"journal_article","doi":"10.1016/j.molp.2022.09.003","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"LifeSc"},{"_id":"Bio"}],"language":[{"iso":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["36081349"],"isi":["000882769800009"]},"isi":1,"quality_controlled":"1","project":[{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"month":"10","publication_identifier":{"issn":["1674-2052"]},"author":[{"last_name":"Johnson","first_name":"Alexander J","orcid":"0000-0002-2739-8843","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","full_name":"Johnson, Alexander J"},{"first_name":"Walter","last_name":"Kaufmann","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9735-5315","full_name":"Kaufmann, Walter"},{"full_name":"Sommer, Christoph M","first_name":"Christoph M","last_name":"Sommer","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1216-9105"},{"orcid":"0000-0001-9732-3815","id":"D93824F4-D9BA-11E9-BB12-F207E6697425","last_name":"Costanzo","first_name":"Tommaso","full_name":"Costanzo, Tommaso"},{"first_name":"Dana A.","last_name":"Dahhan","full_name":"Dahhan, Dana A."},{"first_name":"Sebastian Y.","last_name":"Bednarek","full_name":"Bednarek, Sebastian Y."},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2023-01-16T09:51:49Z","date_updated":"2023-08-04T09:39:24Z","volume":15,"acknowledgement":"A.J. is supported by funding from the Austrian Science Fund I3630B25 (to J.F.). This research was supported by the Scientific Service Units of Institute of Science and Technology Austria (ISTA) through resources provided by the Electron Microscopy Facility, Lab Support Facility, and the Imaging and Optics Facility. We acknowledge Prof. David Robinson (Heidelberg) and Prof. Jan Traas (Lyon) for making us aware of previously published classical on-grid preparation methods. No conflict of interest declared.","year":"2022","pmid":1,"publication_status":"published","publisher":"Elsevier","department":[{"_id":"JiFr"},{"_id":"EM-Fac"},{"_id":"Bio"}],"file_date_updated":"2023-01-30T07:46:51Z"},{"day":"06","has_accepted_license":"1","article_processing_charge":"Yes","date_published":"2022-06-06T00:00:00Z","publication":"International Journal of Molecular Sciences","citation":{"ama":"Bilanovičová V, Rýdza N, Koczka L, et al. The hydrophilic loop of Arabidopsis PIN1 auxin efflux carrier harbors hallmarks of an intrinsically disordered protein. International Journal of Molecular Sciences. 2022;23(11):6352. doi:10.3390/ijms23116352","ieee":"V. Bilanovičová et al., “The hydrophilic loop of Arabidopsis PIN1 auxin efflux carrier harbors hallmarks of an intrinsically disordered protein,” International Journal of Molecular Sciences, vol. 23, no. 11. MDPI, p. 6352, 2022.","apa":"Bilanovičová, V., Rýdza, N., Koczka, L., Hess, M., Feraru, E., Friml, J., & Nodzyński, T. (2022). The hydrophilic loop of Arabidopsis PIN1 auxin efflux carrier harbors hallmarks of an intrinsically disordered protein. International Journal of Molecular Sciences. MDPI. https://doi.org/10.3390/ijms23116352","ista":"Bilanovičová V, Rýdza N, Koczka L, Hess M, Feraru E, Friml J, Nodzyński T. 2022. The hydrophilic loop of Arabidopsis PIN1 auxin efflux carrier harbors hallmarks of an intrinsically disordered protein. International Journal of Molecular Sciences. 23(11), 6352.","short":"V. Bilanovičová, N. Rýdza, L. Koczka, M. Hess, E. Feraru, J. Friml, T. Nodzyński, International Journal of Molecular Sciences 23 (2022) 6352.","mla":"Bilanovičová, V., et al. “The Hydrophilic Loop of Arabidopsis PIN1 Auxin Efflux Carrier Harbors Hallmarks of an Intrinsically Disordered Protein.” International Journal of Molecular Sciences, vol. 23, no. 11, MDPI, 2022, p. 6352, doi:10.3390/ijms23116352.","chicago":"Bilanovičová, V, N Rýdza, L Koczka, M Hess, E Feraru, Jiří Friml, and T Nodzyński. “The Hydrophilic Loop of Arabidopsis PIN1 Auxin Efflux Carrier Harbors Hallmarks of an Intrinsically Disordered Protein.” International Journal of Molecular Sciences. MDPI, 2022. https://doi.org/10.3390/ijms23116352."},"article_type":"original","page":"6352","abstract":[{"text":"Much of plant development depends on cell-to-cell redistribution of the plant hormone auxin, which is facilitated by the plasma membrane (PM) localized PIN FORMED (PIN) proteins. Auxin export activity, developmental roles, subcellular trafficking, and polarity of PINs have been well studied, but their structure remains elusive besides a rough outline that they contain two groups of 5 alpha-helices connected by a large hydrophilic loop (HL). Here, we focus on the PIN1 HL as we could produce it in sufficient quantities for biochemical investigations to provide insights into its secondary structure. Circular dichroism (CD) studies revealed its nature as an intrinsically disordered protein (IDP), manifested by the increase of structure content upon thermal melting. Consistent with IDPs serving as interaction platforms, PIN1 loops homodimerize. PIN1 HL cytoplasmic overexpression in Arabidopsis disrupts early endocytic trafficking of PIN1 and PIN2 and causes defects in the cotyledon vasculature formation. In summary, we demonstrate that PIN1 HL has an intrinsically disordered nature, which must be considered to gain further structural insights. Some secondary structures may form transiently during pairing with known and yet-to-be-discovered interactors.","lang":"eng"}],"issue":"11","type":"journal_article","file":[{"date_created":"2022-07-06T07:36:59Z","date_updated":"2022-07-06T07:36:59Z","success":1,"checksum":"e997a57a928ec9d51fad8ce824a05935","file_id":"11492","relation":"main_file","creator":"cchlebak","file_size":2324542,"content_type":"application/pdf","file_name":"2022_IntJMolSci_Bilanovicova.pdf","access_level":"open_access"}],"oa_version":"Published Version","_id":"11489","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","title":"The hydrophilic loop of Arabidopsis PIN1 auxin efflux carrier harbors hallmarks of an intrinsically disordered protein","ddc":["570"],"status":"public","intvolume":" 23","month":"06","publication_identifier":{"issn":["1422-0067"]},"doi":"10.3390/ijms23116352","language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"pmid":["35683031"],"isi":["000808733300001"]},"isi":1,"quality_controlled":"1","project":[{"_id":"262EF96E-B435-11E9-9278-68D0E5697425","grant_number":"P29988","name":"RNA-directed DNA methylation in plant development","call_identifier":"FWF"}],"file_date_updated":"2022-07-06T07:36:59Z","author":[{"last_name":"Bilanovičová","first_name":"V","full_name":"Bilanovičová, V"},{"last_name":"Rýdza","first_name":"N","full_name":"Rýdza, N"},{"full_name":"Koczka, L","first_name":"L","last_name":"Koczka"},{"full_name":"Hess, M","last_name":"Hess","first_name":"M"},{"full_name":"Feraru, E","first_name":"E","last_name":"Feraru"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"},{"last_name":"Nodzyński","first_name":"T","full_name":"Nodzyński, T"}],"date_created":"2022-07-05T15:14:34Z","date_updated":"2023-08-09T10:13:57Z","volume":23,"year":"2022","acknowledgement":"We thank Charo del Genio from Coventry University and Richard Napier from the University of Warwick for helpful discussion concerning protein modeling and inspiration concerning CD spectroscopy, respectively. We thank Jan Hejatko for sharing the published AHP2 construct. We also thank Josef Houser from the core facility BIC CEITEC for valuable assistance, discussions, and ideas relating to CD. We acknowledge the: Core Facility CELLIM of CEITEC supported by the Czech-BioImaging large RI project (LM2018129 funded by MEYS CR), part of the Euro-BioImaging (www.eurobioimaging.eu accessed on 1 January 2016) ALM and medical imaging Node (Brno, CZ), CF Biomolecular Interactions and Crystallization of CIISB, Instruct-CZ Centre, supported by MEYS CR (LM2018127) and European Regional Development Fund-Project “UP CIISB“ (No. CZ.02.1.01/0.0/0.0/18_046/0015974) for their support with obtaining scientific data presented in this paper; Plant Sciences Core Facility of CEITEC Masaryk University for technical support. Open Access Funding by the Austrian Science Fund (FWF).","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"MDPI"},{"publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"month":"11","doi":"10.1038/s41586-022-05369-7","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"main_file_link":[{"open_access":"1","url":"http://wrap.warwick.ac.uk/168325/1/WRAP-denylate-cyclase-activity-TIR1-AFB-auxin-receptors-root-growth-22.pdf"}],"external_id":{"isi":["000875061600013"],"pmid":["36289340"]},"oa":1,"project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}],"isi":1,"quality_controlled":"1","ec_funded":1,"author":[{"last_name":"Qi","first_name":"Linlin","orcid":"0000-0001-5187-8401","id":"44B04502-A9ED-11E9-B6FC-583AE6697425","full_name":"Qi, Linlin"},{"full_name":"Kwiatkowski, Mateusz","last_name":"Kwiatkowski","first_name":"Mateusz"},{"id":"83c96512-15b2-11ec-abd3-b7eede36184f","last_name":"Chen","first_name":"Huihuang","full_name":"Chen, Huihuang"},{"orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","last_name":"Hörmayer","first_name":"Lukas","full_name":"Hörmayer, Lukas"},{"first_name":"Scott A","last_name":"Sinclair","id":"2D99FE6A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4566-0593","full_name":"Sinclair, Scott A"},{"full_name":"Zou, Minxia","id":"5c243f41-03f3-11ec-841c-96faf48a7ef9","first_name":"Minxia","last_name":"Zou"},{"first_name":"Charo I.","last_name":"del Genio","full_name":"del Genio, Charo I."},{"full_name":"Kubeš, Martin F.","first_name":"Martin F.","last_name":"Kubeš"},{"full_name":"Napier, Richard","last_name":"Napier","first_name":"Richard"},{"full_name":"Jaworski, Krzysztof","last_name":"Jaworski","first_name":"Krzysztof"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"}],"volume":611,"date_updated":"2023-10-03T11:04:53Z","date_created":"2023-01-12T12:06:05Z","pmid":1,"year":"2022","acknowledgement":"This research was supported by the Lab Support Facility (LSF) and the Imaging and Optics Facility (IOF) of IST Austria. We thank C. Gehring for suggestions and advice; and K. U. Torii and G. Stacey for seeds and plasmids. This project was funded by a European Research Council Advanced Grant (ETAP-742985). M.F.K. and R.N. acknowledge the support of the EU MSCA-IF project CrysPINs (792329). M.K. was supported by the project POWR.03.05.00-00-Z302/17 Universitas Copernicana Thoruniensis in Futuro–IDS “Academia Copernicana”. CIDG acknowledges support from UKRI under Future Leaders Fellowship grant number MR/T020652/1.","department":[{"_id":"JiFr"}],"publisher":"Springer Nature","publication_status":"published","article_processing_charge":"No","day":"03","scopus_import":"1","date_published":"2022-11-03T00:00:00Z","citation":{"ama":"Qi L, Kwiatkowski M, Chen H, et al. Adenylate cyclase activity of TIR1/AFB auxin receptors in plants. Nature. 2022;611(7934):133-138. doi:10.1038/s41586-022-05369-7","apa":"Qi, L., Kwiatkowski, M., Chen, H., Hörmayer, L., Sinclair, S. A., Zou, M., … Friml, J. (2022). Adenylate cyclase activity of TIR1/AFB auxin receptors in plants. Nature. Springer Nature. https://doi.org/10.1038/s41586-022-05369-7","ieee":"L. Qi et al., “Adenylate cyclase activity of TIR1/AFB auxin receptors in plants,” Nature, vol. 611, no. 7934. Springer Nature, pp. 133–138, 2022.","ista":"Qi L, Kwiatkowski M, Chen H, Hörmayer L, Sinclair SA, Zou M, del Genio CI, Kubeš MF, Napier R, Jaworski K, Friml J. 2022. Adenylate cyclase activity of TIR1/AFB auxin receptors in plants. Nature. 611(7934), 133–138.","short":"L. Qi, M. Kwiatkowski, H. Chen, L. Hörmayer, S.A. Sinclair, M. Zou, C.I. del Genio, M.F. Kubeš, R. Napier, K. Jaworski, J. Friml, Nature 611 (2022) 133–138.","mla":"Qi, Linlin, et al. “Adenylate Cyclase Activity of TIR1/AFB Auxin Receptors in Plants.” Nature, vol. 611, no. 7934, Springer Nature, 2022, pp. 133–38, doi:10.1038/s41586-022-05369-7.","chicago":"Qi, Linlin, Mateusz Kwiatkowski, Huihuang Chen, Lukas Hörmayer, Scott A Sinclair, Minxia Zou, Charo I. del Genio, et al. “Adenylate Cyclase Activity of TIR1/AFB Auxin Receptors in Plants.” Nature. Springer Nature, 2022. https://doi.org/10.1038/s41586-022-05369-7."},"publication":"Nature","page":"133-138","article_type":"original","issue":"7934","abstract":[{"lang":"eng","text":"The phytohormone auxin is the major coordinative signal in plant development1, mediating transcriptional reprogramming by a well-established canonical signalling pathway. TRANSPORT INHIBITOR RESPONSE 1 (TIR1)/AUXIN-SIGNALING F-BOX (AFB) auxin receptors are F-box subunits of ubiquitin ligase complexes. In response to auxin, they associate with Aux/IAA transcriptional repressors and target them for degradation via ubiquitination2,3. Here we identify adenylate cyclase (AC) activity as an additional function of TIR1/AFB receptors across land plants. Auxin, together with Aux/IAAs, stimulates cAMP production. Three separate mutations in the AC motif of the TIR1 C-terminal region, all of which abolish the AC activity, each render TIR1 ineffective in mediating gravitropism and sustained auxin-induced root growth inhibition, and also affect auxin-induced transcriptional regulation. These results highlight the importance of TIR1/AFB AC activity in canonical auxin signalling. They also identify a unique phytohormone receptor cassette combining F-box and AC motifs, and the role of cAMP as a second messenger in plants."}],"type":"journal_article","oa_version":"Submitted Version","_id":"12144","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":" 611","title":"Adenylate cyclase activity of TIR1/AFB auxin receptors in plants","status":"public"},{"date_published":"2022-12-05T00:00:00Z","article_type":"original","page":"2638-2651.e6","publication":"Developmental Cell","citation":{"chicago":"Xiao, Huixin, Yumei Hu, Yaping Wang, Jinkui Cheng, Jinyi Wang, Guojingwei Chen, Qian Li, et al. “Nitrate Availability Controls Translocation of the Transcription Factor NAC075 for Cell-Type-Specific Reprogramming of Root Growth.” Developmental Cell. Elsevier, 2022. https://doi.org/10.1016/j.devcel.2022.11.006.","mla":"Xiao, Huixin, et al. “Nitrate Availability Controls Translocation of the Transcription Factor NAC075 for Cell-Type-Specific Reprogramming of Root Growth.” Developmental Cell, vol. 57, no. 23, Elsevier, 2022, p. 2638–2651.e6, doi:10.1016/j.devcel.2022.11.006.","short":"H. Xiao, Y. Hu, Y. Wang, J. Cheng, J. Wang, G. Chen, Q. Li, S. Wang, Y. Wang, S.-S. Wang, Y. Wang, W. Xuan, Z. Li, Y. Guo, Z. Gong, J. Friml, J. Zhang, Developmental Cell 57 (2022) 2638–2651.e6.","ista":"Xiao H, Hu Y, Wang Y, Cheng J, Wang J, Chen G, Li Q, Wang S, Wang Y, Wang S-S, Wang Y, Xuan W, Li Z, Guo Y, Gong Z, Friml J, Zhang J. 2022. Nitrate availability controls translocation of the transcription factor NAC075 for cell-type-specific reprogramming of root growth. Developmental Cell. 57(23), 2638–2651.e6.","ieee":"H. Xiao et al., “Nitrate availability controls translocation of the transcription factor NAC075 for cell-type-specific reprogramming of root growth,” Developmental Cell, vol. 57, no. 23. Elsevier, p. 2638–2651.e6, 2022.","apa":"Xiao, H., Hu, Y., Wang, Y., Cheng, J., Wang, J., Chen, G., … Zhang, J. (2022). Nitrate availability controls translocation of the transcription factor NAC075 for cell-type-specific reprogramming of root growth. Developmental Cell. Elsevier. https://doi.org/10.1016/j.devcel.2022.11.006","ama":"Xiao H, Hu Y, Wang Y, et al. Nitrate availability controls translocation of the transcription factor NAC075 for cell-type-specific reprogramming of root growth. Developmental Cell. 2022;57(23):2638-2651.e6. doi:10.1016/j.devcel.2022.11.006"},"day":"05","article_processing_charge":"No","keyword":["Developmental Biology","Cell Biology","General Biochemistry","Genetics and Molecular Biology","Molecular Biology"],"scopus_import":"1","oa_version":"None","status":"public","title":"Nitrate availability controls translocation of the transcription factor NAC075 for cell-type-specific reprogramming of root growth","intvolume":" 57","_id":"12120","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"text":"Plant root architecture flexibly adapts to changing nitrate (NO3−) availability in the soil; however, the underlying molecular mechanism of this adaptive development remains under-studied. To explore the regulation of NO3−-mediated root growth, we screened for low-nitrate-resistant mutant (lonr) and identified mutants that were defective in the NAC transcription factor NAC075 (lonr1) as being less sensitive to low NO3− in terms of primary root growth. We show that NAC075 is a mobile transcription factor relocating from the root stele tissues to the endodermis based on NO3− availability. Under low-NO3− availability, the kinase CBL-interacting protein kinase 1 (CIPK1) is activated, and it phosphorylates NAC075, restricting its movement from the stele, which leads to the transcriptional regulation of downstream target WRKY53, consequently leading to adapted root architecture. Our work thus identifies an adaptive mechanism involving translocation of transcription factor based on nutrient availability and leading to cell-specific reprogramming of plant root growth.","lang":"eng"}],"issue":"23","type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1016/j.devcel.2022.11.006","quality_controlled":"1","isi":1,"external_id":{"pmid":["36473460"],"isi":["000919603800005"]},"month":"12","publication_identifier":{"issn":["1534-5807"]},"date_updated":"2023-10-04T08:23:20Z","date_created":"2023-01-12T11:57:00Z","volume":57,"author":[{"first_name":"Huixin","last_name":"Xiao","full_name":"Xiao, Huixin"},{"full_name":"Hu, Yumei","first_name":"Yumei","last_name":"Hu"},{"full_name":"Wang, Yaping","last_name":"Wang","first_name":"Yaping"},{"last_name":"Cheng","first_name":"Jinkui","full_name":"Cheng, Jinkui"},{"full_name":"Wang, Jinyi","last_name":"Wang","first_name":"Jinyi"},{"full_name":"Chen, Guojingwei","first_name":"Guojingwei","last_name":"Chen"},{"first_name":"Qian","last_name":"Li","full_name":"Li, Qian"},{"first_name":"Shuwei","last_name":"Wang","full_name":"Wang, Shuwei"},{"last_name":"Wang","first_name":"Yalu","full_name":"Wang, Yalu"},{"first_name":"Shao-Shuai","last_name":"Wang","full_name":"Wang, Shao-Shuai"},{"first_name":"Yi","last_name":"Wang","full_name":"Wang, Yi"},{"full_name":"Xuan, Wei","last_name":"Xuan","first_name":"Wei"},{"first_name":"Zhen","last_name":"Li","full_name":"Li, Zhen"},{"first_name":"Yan","last_name":"Guo","full_name":"Guo, Yan"},{"first_name":"Zhizhong","last_name":"Gong","full_name":"Gong, Zhizhong"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří"},{"first_name":"Jing","last_name":"Zhang","full_name":"Zhang, Jing"}],"publication_status":"published","publisher":"Elsevier","department":[{"_id":"JiFr"}],"acknowledgement":"The authors are grateful to Jörg Kudla, Ying Miao, Yu Zheng, Gang Li, and Jun Zheng for providing published materials and to Wenkun Zhou and Caifu Jiang for helpful discussions. This work was supported by grants from the National Key Research and Development Program of China (2021YFF1000500), the National Natural Science Foundation of China (32170265 and 32022007), the Beijing Municipal Natural Science Foundation (5192011), and the Chinese Universities Scientific Fund (2022TC153).","year":"2022","pmid":1},{"external_id":{"pmid":["36071161"],"isi":["000851357500002"]},"oa":1,"quality_controlled":"1","isi":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"},{"grant_number":"P29988","_id":"262EF96E-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"RNA-directed DNA methylation in plant development"}],"doi":"10.1038/s41586-022-05187-x","acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"},{"_id":"LifeSc"}],"language":[{"iso":"eng"}],"month":"09","publication_identifier":{"eissn":["1476-4687"],"issn":["0028-0836"]},"year":"2022","acknowledgement":"We acknowledge K. Kubiasová for excellent technical assistance, J. Neuhold, A. Lehner and A. Sedivy for technical assistance with protein production and purification at Vienna Biocenter Core Facilities; Creoptix for performing GCI; and the Bioimaging, Electron Microscopy and Life Science Facilities at ISTA, the Plant Sciences Core Facility of CEITEC Masaryk University, the Core Facility CELLIM (MEYS CR, LM2018129 Czech-BioImaging) and J. Sprakel for their assistance. J.F. is grateful to R. Napier for many insightful suggestions and support. We thank all past and present members of the Friml group for their support and for other contributions to this effort to clarify the controversial role of ABP1 over the past seven years. The project received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 742985 to J.F. and 833867 to D.W.); the Austrian Science Fund (FWF; P29988 to J.F.); the Netherlands Organization for Scientific Research (NWO; VICI grant 865.14.001 to D.W. and VENI grant VI.Veni.212.003 to A.K.); the Ministry of Education, Science and Technological Development of the Republic of Serbia (contract no. 451-03-68/2022-14/200053 to B.D.Ž.); and the MEXT/JSPS KAKENHI to K.T. (20K06685) and T.K. (20H05687 and 20H05910).","pmid":1,"publication_status":"published","publisher":"Springer Nature","department":[{"_id":"JiFr"},{"_id":"GradSch"},{"_id":"EvBe"},{"_id":"EM-Fac"}],"author":[{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0003-1286-7368","id":"35A03822-F248-11E8-B48F-1D18A9856A87","last_name":"Gallei","first_name":"Michelle C","full_name":"Gallei, Michelle C"},{"id":"0AE74790-0E0B-11E9-ABC7-1ACFE5697425","orcid":"0000-0003-4783-1752","first_name":"Zuzana","last_name":"Gelová","full_name":"Gelová, Zuzana"},{"full_name":"Johnson, Alexander J","first_name":"Alexander J","last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843"},{"full_name":"Mazur, Ewa","first_name":"Ewa","last_name":"Mazur"},{"id":"2DB5D88C-D7B3-11E9-B8FD-7907E6697425","last_name":"Monzer","first_name":"Aline","full_name":"Monzer, Aline"},{"full_name":"Rodriguez Solovey, Lesia","id":"3922B506-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7244-7237","first_name":"Lesia","last_name":"Rodriguez Solovey"},{"last_name":"Roosjen","first_name":"Mark","full_name":"Roosjen, Mark"},{"last_name":"Verstraeten","first_name":"Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","full_name":"Verstraeten, Inge"},{"full_name":"Živanović, Branka D.","first_name":"Branka D.","last_name":"Živanović"},{"last_name":"Zou","first_name":"Minxia","id":"5c243f41-03f3-11ec-841c-96faf48a7ef9","full_name":"Zou, Minxia"},{"full_name":"Fiedler, Lukas","id":"7c417475-8972-11ed-ae7b-8b674ca26986","first_name":"Lukas","last_name":"Fiedler"},{"id":"e3fdddd5-f6e0-11ea-865d-ca99ee6367f4","last_name":"Giannini","first_name":"Caterina","full_name":"Giannini, Caterina"},{"full_name":"Grones, Peter","first_name":"Peter","last_name":"Grones"},{"full_name":"Hrtyan, Mónika","id":"45A71A74-F248-11E8-B48F-1D18A9856A87","last_name":"Hrtyan","first_name":"Mónika"},{"last_name":"Kaufmann","first_name":"Walter","orcid":"0000-0001-9735-5315","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","full_name":"Kaufmann, Walter"},{"last_name":"Kuhn","first_name":"Andre","full_name":"Kuhn, Andre"},{"full_name":"Narasimhan, Madhumitha","orcid":"0000-0002-8600-0671","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","last_name":"Narasimhan","first_name":"Madhumitha"},{"id":"6ac4636d-15b2-11ec-abd3-fb8df79972ae","last_name":"Randuch","first_name":"Marek","full_name":"Randuch, Marek"},{"last_name":"Rýdza","first_name":"Nikola","full_name":"Rýdza, Nikola"},{"first_name":"Koji","last_name":"Takahashi","full_name":"Takahashi, Koji"},{"last_name":"Tan","first_name":"Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","full_name":"Tan, Shutang"},{"full_name":"Teplova, Anastasiia","first_name":"Anastasiia","last_name":"Teplova","id":"e3736151-106c-11ec-b916-c2558e2762c6"},{"full_name":"Kinoshita, Toshinori","last_name":"Kinoshita","first_name":"Toshinori"},{"full_name":"Weijers, Dolf","first_name":"Dolf","last_name":"Weijers"},{"last_name":"Rakusová","first_name":"Hana","full_name":"Rakusová, Hana"}],"date_created":"2023-01-16T10:04:48Z","date_updated":"2023-11-07T08:16:09Z","volume":609,"file_date_updated":"2023-11-02T17:12:37Z","ec_funded":1,"publication":"Nature","citation":{"ama":"Friml J, Gallei MC, Gelová Z, et al. ABP1–TMK auxin perception for global phosphorylation and auxin canalization. Nature. 2022;609(7927):575-581. doi:10.1038/s41586-022-05187-x","ieee":"J. Friml et al., “ABP1–TMK auxin perception for global phosphorylation and auxin canalization,” Nature, vol. 609, no. 7927. Springer Nature, pp. 575–581, 2022.","apa":"Friml, J., Gallei, M. C., Gelová, Z., Johnson, A. J., Mazur, E., Monzer, A., … Rakusová, H. (2022). ABP1–TMK auxin perception for global phosphorylation and auxin canalization. Nature. Springer Nature. https://doi.org/10.1038/s41586-022-05187-x","ista":"Friml J, Gallei MC, Gelová Z, Johnson AJ, Mazur E, Monzer A, Rodriguez Solovey L, Roosjen M, Verstraeten I, Živanović BD, Zou M, Fiedler L, Giannini C, Grones P, Hrtyan M, Kaufmann W, Kuhn A, Narasimhan M, Randuch M, Rýdza N, Takahashi K, Tan S, Teplova A, Kinoshita T, Weijers D, Rakusová H. 2022. ABP1–TMK auxin perception for global phosphorylation and auxin canalization. Nature. 609(7927), 575–581.","short":"J. Friml, M.C. Gallei, Z. Gelová, A.J. Johnson, E. Mazur, A. Monzer, L. Rodriguez Solovey, M. Roosjen, I. Verstraeten, B.D. Živanović, M. Zou, L. Fiedler, C. Giannini, P. Grones, M. Hrtyan, W. Kaufmann, A. Kuhn, M. Narasimhan, M. Randuch, N. Rýdza, K. Takahashi, S. Tan, A. Teplova, T. Kinoshita, D. Weijers, H. Rakusová, Nature 609 (2022) 575–581.","mla":"Friml, Jiří, et al. “ABP1–TMK Auxin Perception for Global Phosphorylation and Auxin Canalization.” Nature, vol. 609, no. 7927, Springer Nature, 2022, pp. 575–81, doi:10.1038/s41586-022-05187-x.","chicago":"Friml, Jiří, Michelle C Gallei, Zuzana Gelová, Alexander J Johnson, Ewa Mazur, Aline Monzer, Lesia Rodriguez Solovey, et al. “ABP1–TMK Auxin Perception for Global Phosphorylation and Auxin Canalization.” Nature. Springer Nature, 2022. https://doi.org/10.1038/s41586-022-05187-x."},"article_type":"original","page":"575-581","date_published":"2022-09-15T00:00:00Z","scopus_import":"1","day":"15","has_accepted_license":"1","article_processing_charge":"No","_id":"12291","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"ABP1–TMK auxin perception for global phosphorylation and auxin canalization","ddc":["580"],"intvolume":" 609","oa_version":"Submitted Version","file":[{"checksum":"a6055c606aefb900bf62ae3e7d15f921","success":1,"date_updated":"2023-11-02T17:12:37Z","date_created":"2023-11-02T17:12:37Z","relation":"main_file","file_id":"14483","content_type":"application/pdf","file_size":79774945,"creator":"amally","access_level":"open_access","file_name":"Friml Nature 2022_merged.pdf"}],"type":"journal_article","abstract":[{"lang":"eng","text":"The phytohormone auxin triggers transcriptional reprogramming through a well-characterized perception machinery in the nucleus. By contrast, mechanisms that underlie fast effects of auxin, such as the regulation of ion fluxes, rapid phosphorylation of proteins or auxin feedback on its transport, remain unclear1,2,3. Whether auxin-binding protein 1 (ABP1) is an auxin receptor has been a source of debate for decades1,4. Here we show that a fraction of Arabidopsis thaliana ABP1 is secreted and binds auxin specifically at an acidic pH that is typical of the apoplast. ABP1 and its plasma-membrane-localized partner, transmembrane kinase 1 (TMK1), are required for the auxin-induced ultrafast global phospho-response and for downstream processes that include the activation of H+-ATPase and accelerated cytoplasmic streaming. abp1 and tmk mutants cannot establish auxin-transporting channels and show defective auxin-induced vasculature formation and regeneration. An ABP1(M2X) variant that lacks the capacity to bind auxin is unable to complement these defects in abp1 mutants. These data indicate that ABP1 is the auxin receptor for TMK1-based cell-surface signalling, which mediates the global phospho-response and auxin canalization."}],"issue":"7927"},{"article_processing_charge":"No","has_accepted_license":"1","day":"20","page":"248","citation":{"chicago":"Gallei, Michelle C. “Auxin and Strigolactone Non-Canonical Signaling Regulating Development in Arabidopsis Thaliana.” Institute of Science and Technology Austria, 2022. https://doi.org/10.15479/at:ista:11626.","mla":"Gallei, Michelle C. Auxin and Strigolactone Non-Canonical Signaling Regulating Development in Arabidopsis Thaliana. Institute of Science and Technology Austria, 2022, doi:10.15479/at:ista:11626.","short":"M.C. Gallei, Auxin and Strigolactone Non-Canonical Signaling Regulating Development in Arabidopsis Thaliana, Institute of Science and Technology Austria, 2022.","ista":"Gallei MC. 2022. Auxin and strigolactone non-canonical signaling regulating development in Arabidopsis thaliana. Institute of Science and Technology Austria.","ieee":"M. C. Gallei, “Auxin and strigolactone non-canonical signaling regulating development in Arabidopsis thaliana,” Institute of Science and Technology Austria, 2022.","apa":"Gallei, M. C. (2022). Auxin and strigolactone non-canonical signaling regulating development in Arabidopsis thaliana. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:11626","ama":"Gallei MC. Auxin and strigolactone non-canonical signaling regulating development in Arabidopsis thaliana. 2022. doi:10.15479/at:ista:11626"},"date_published":"2022-07-20T00:00:00Z","alternative_title":["ISTA Thesis"],"type":"dissertation","abstract":[{"lang":"eng","text":"Plant growth and development is well known to be both, flexible and dynamic. The high capacity for post-embryonic organ formation and tissue regeneration requires tightly regulated intercellular communication and coordinated tissue polarization. One of the most important drivers for patterning and polarity in plant development is the phytohormone auxin. Auxin has the unique characteristic to establish polarized channels for its own active directional cell to cell transport. This fascinating phenomenon is called auxin canalization. Those auxin transport channels are characterized by the expression and polar, subcellular localization of PIN auxin efflux carriers. PIN proteins have the ability to dynamically change their localization and auxin itself can affect this by interfering with trafficking. Most of the underlying molecular mechanisms of canalization still remain enigmatic. What is known so far is that canonical auxin signaling is indispensable but also other non-canonical signaling components are thought to play a role. In order to shed light into the mysteries auf auxin canalization this study revisits the branches of auxin signaling in detail. Further a new auxin analogue, PISA, is developed which triggers auxin-like responses but does not directly activate canonical transcriptional auxin signaling. We revisit the direct auxin effect on PIN trafficking where we found that, contradictory to previous observations, auxin is very specifically promoting endocytosis of PIN2 but has no overall effect on endocytosis. Further, we evaluate which cellular processes related to PIN subcellular dynamics are involved in the establishment of auxin conducting channels and the formation of vascular tissue. We are re-evaluating the function of AUXIN BINDING PROTEIN 1 (ABP1) and provide a comprehensive picture about its developmental phneotypes and involvement in auxin signaling and canalization. Lastly, we are focusing on the crosstalk between the hormone strigolactone (SL) and auxin and found that SL is interfering with essentially all processes involved in auxin canalization in a non-transcriptional manner. Lastly we identify a new way of SL perception and signaling which is emanating from mitochondria, is independent of canonical SL signaling and is modulating primary root growth."}],"status":"public","ddc":["575"],"title":"Auxin and strigolactone non-canonical signaling regulating development in Arabidopsis thaliana","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","_id":"11626","file":[{"creator":"mgallei","content_type":"application/pdf","file_size":9730864,"file_name":"Thesis_Gallei.pdf","access_level":"open_access","date_updated":"2022-07-25T09:08:47Z","date_created":"2022-07-25T09:08:47Z","checksum":"bd7ac35403cf5b4b2607287d2a104b3a","file_id":"11645","relation":"main_file"},{"file_size":19560720,"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","creator":"mgallei","access_level":"closed","file_name":"Thesis_Gallei_source.docx","checksum":"a9e54fe5471ba25dc13c2150c1b8ccbb","date_created":"2022-07-25T09:09:09Z","date_updated":"2022-07-25T09:39:58Z","relation":"source_file","file_id":"11646"},{"checksum":"3994f7f20058941b5bb8a16886b21e71","date_created":"2022-07-25T09:09:32Z","date_updated":"2022-07-25T09:39:58Z","file_id":"11647","relation":"source_file","creator":"mgallei","file_size":24542837,"content_type":"application/pdf","access_level":"closed","file_name":"Thesis_Gallei_to_print.pdf","description":"This is the print version of the thesis including the full appendix"},{"file_name":"Thesis_Gallei_Appendix.pdf","access_level":"open_access","content_type":"application/pdf","file_size":15435966,"creator":"mgallei","relation":"main_file","file_id":"11650","date_updated":"2022-07-25T11:48:45Z","date_created":"2022-07-25T11:48:45Z","checksum":"f24acd3c0d864f4c6676e8b0d7bfa76b"}],"oa_version":"Published Version","publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-019-0"]},"month":"07","project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"}],"oa":1,"language":[{"iso":"eng"}],"degree_awarded":"PhD","supervisor":[{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"id":"38F4F166-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8510-9739","first_name":"Eva","last_name":"Benková","full_name":"Benková, Eva"},{"first_name":"Eilon","last_name":"Shani","full_name":"Shani, Eilon"}],"doi":"10.15479/at:ista:11626","ec_funded":1,"file_date_updated":"2022-07-25T11:48:45Z","department":[{"_id":"GradSch"},{"_id":"JiFr"}],"publisher":"Institute of Science and Technology Austria","publication_status":"published","year":"2022","date_updated":"2023-11-07T08:20:13Z","date_created":"2022-07-20T11:21:53Z","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"8931"},{"relation":"part_of_dissertation","status":"public","id":"9287"},{"status":"public","relation":"part_of_dissertation","id":"7142"},{"relation":"part_of_dissertation","status":"public","id":"7465"},{"status":"public","relation":"part_of_dissertation","id":"8138"},{"id":"6260","relation":"part_of_dissertation","status":"public"},{"id":"10411","status":"public","relation":"part_of_dissertation"}]},"author":[{"first_name":"Michelle C","last_name":"Gallei","id":"35A03822-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1286-7368","full_name":"Gallei, Michelle C"}]},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"10411","ddc":["580"],"status":"public","title":"Bending to auxin: Fast acid growth for tropisms","intvolume":" 27","file":[{"relation":"main_file","file_id":"14480","checksum":"3d94980ee1ff6bec100dd813f6a921a6","success":1,"date_updated":"2023-11-02T17:00:03Z","date_created":"2023-11-02T17:00:03Z","access_level":"open_access","file_name":"Li Plants 2021_accepted.pdf","content_type":"application/pdf","file_size":805779,"creator":"amally"}],"oa_version":"Submitted Version","type":"journal_article","abstract":[{"lang":"eng","text":"The phytohormone auxin is the major growth regulator governing tropic responses including gravitropism. Auxin build-up at the lower side of stimulated shoots promotes cell expansion, whereas in roots it inhibits growth, leading to upward shoot bending and downward root bending, respectively. Yet it remains an enigma how the same signal can trigger such opposite cellular responses. In this review, we discuss several recent unexpected insights into the mechanisms underlying auxin regulation of growth, challenging several existing models. We focus on the divergent mechanisms of apoplastic pH regulation in shoots and roots revisiting the classical Acid Growth Theory and discuss coordinated involvement of multiple auxin signaling pathways. From this emerges a more comprehensive, updated picture how auxin regulates growth."}],"issue":"5","publication":"Trends in Plant Science","citation":{"chicago":"Li, Lanxin, Michelle C Gallei, and Jiří Friml. “Bending to Auxin: Fast Acid Growth for Tropisms.” Trends in Plant Science. Cell Press, 2022. https://doi.org/10.1016/j.tplants.2021.11.006.","short":"L. Li, M.C. Gallei, J. Friml, Trends in Plant Science 27 (2022) 440–449.","mla":"Li, Lanxin, et al. “Bending to Auxin: Fast Acid Growth for Tropisms.” Trends in Plant Science, vol. 27, no. 5, Cell Press, 2022, pp. 440–49, doi:10.1016/j.tplants.2021.11.006.","ieee":"L. Li, M. C. Gallei, and J. Friml, “Bending to auxin: Fast acid growth for tropisms,” Trends in Plant Science, vol. 27, no. 5. Cell Press, pp. 440–449, 2022.","apa":"Li, L., Gallei, M. C., & Friml, J. (2022). Bending to auxin: Fast acid growth for tropisms. Trends in Plant Science. Cell Press. https://doi.org/10.1016/j.tplants.2021.11.006","ista":"Li L, Gallei MC, Friml J. 2022. Bending to auxin: Fast acid growth for tropisms. Trends in Plant Science. 27(5), 440–449.","ama":"Li L, Gallei MC, Friml J. Bending to auxin: Fast acid growth for tropisms. Trends in Plant Science. 2022;27(5):440-449. doi:10.1016/j.tplants.2021.11.006"},"article_type":"original","page":"440-449","date_published":"2022-05-01T00:00:00Z","scopus_import":"1","day":"01","has_accepted_license":"1","article_processing_charge":"No","acknowledgement":"The authors thank Alexandra Mally for editing the text. This work was supported by the Austrian Science Fund (FWF) I 3630-B25 to Jiří Friml and the DOC Fellowship of the Austrian Academy of Sciences to Lanxin Li. All figures were created with BioRender.com.","year":"2022","pmid":1,"publication_status":"published","publisher":"Cell Press","department":[{"_id":"JiFr"}],"author":[{"id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X","first_name":"Lanxin","last_name":"Li","full_name":"Li, Lanxin"},{"full_name":"Gallei, Michelle C","orcid":"0000-0003-1286-7368","id":"35A03822-F248-11E8-B48F-1D18A9856A87","last_name":"Gallei","first_name":"Michelle C"},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"11626"}]},"date_updated":"2023-11-07T08:20:14Z","date_created":"2021-12-05T23:01:43Z","volume":27,"file_date_updated":"2023-11-02T17:00:03Z","external_id":{"isi":["000793707900005"],"pmid":["34848141"]},"oa":1,"quality_controlled":"1","isi":1,"project":[{"_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630","call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants"},{"grant_number":"25351","_id":"26B4D67E-B435-11E9-9278-68D0E5697425","name":"A Case Study of Plant Growth Regulation: Molecular Mechanism of Auxin-mediated Rapid Growth Inhibition in Arabidopsis Root"}],"doi":"10.1016/j.tplants.2021.11.006","language":[{"iso":"eng"}],"month":"05","publication_identifier":{"issn":["1360-1385"]}},{"article_type":"original","citation":{"ista":"Ingole KD, Nagarajan N, Uhse S, Giannini C, Djamei A. 2022. Tetracycline-controlled (TetON) gene expression system for the smut fungus Ustilago maydis. Frontiers in Fungal Biology. 3, 1029114.","ieee":"K. D. Ingole, N. Nagarajan, S. Uhse, C. Giannini, and A. Djamei, “Tetracycline-controlled (TetON) gene expression system for the smut fungus Ustilago maydis,” Frontiers in Fungal Biology, vol. 3. Frontiers Media, 2022.","apa":"Ingole, K. D., Nagarajan, N., Uhse, S., Giannini, C., & Djamei, A. (2022). Tetracycline-controlled (TetON) gene expression system for the smut fungus Ustilago maydis. Frontiers in Fungal Biology. Frontiers Media. https://doi.org/10.3389/ffunb.2022.1029114","ama":"Ingole KD, Nagarajan N, Uhse S, Giannini C, Djamei A. Tetracycline-controlled (TetON) gene expression system for the smut fungus Ustilago maydis. Frontiers in Fungal Biology. 2022;3. doi:10.3389/ffunb.2022.1029114","chicago":"Ingole, Kishor D., Nithya Nagarajan, Simon Uhse, Caterina Giannini, and Armin Djamei. “Tetracycline-Controlled (TetON) Gene Expression System for the Smut Fungus Ustilago Maydis.” Frontiers in Fungal Biology. Frontiers Media, 2022. https://doi.org/10.3389/ffunb.2022.1029114.","mla":"Ingole, Kishor D., et al. “Tetracycline-Controlled (TetON) Gene Expression System for the Smut Fungus Ustilago Maydis.” Frontiers in Fungal Biology, vol. 3, 1029114, Frontiers Media, 2022, doi:10.3389/ffunb.2022.1029114.","short":"K.D. Ingole, N. Nagarajan, S. Uhse, C. Giannini, A. Djamei, Frontiers in Fungal Biology 3 (2022)."},"publication":"Frontiers in Fungal Biology","date_published":"2022-10-19T00:00:00Z","scopus_import":"1","article_processing_charge":"Yes","has_accepted_license":"1","day":"19","intvolume":" 3","ddc":["579"],"status":"public","title":"Tetracycline-controlled (TetON) gene expression system for the smut fungus Ustilago maydis","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","_id":"13240","file":[{"success":1,"checksum":"2254e0119c0749d6f7237084fefcece6","date_updated":"2023-07-17T11:46:34Z","date_created":"2023-07-17T11:46:34Z","file_id":"13242","relation":"main_file","creator":"dernst","file_size":27966699,"content_type":"application/pdf","access_level":"open_access","file_name":"2023_FrontiersFungalBio_Ingole.pdf"}],"oa_version":"Published Version","type":"journal_article","abstract":[{"text":"Ustilago maydis is a biotrophic phytopathogenic fungus that causes corn smut disease. As a well-established model system, U. maydis is genetically fully accessible with large omics datasets available and subject to various biological questions ranging from DNA-repair, RNA-transport, and protein secretion to disease biology. For many genetic approaches, tight control of transgene regulation is important. Here we established an optimised version of the Tetracycline-ON (TetON) system for U. maydis. We demonstrate the Tetracycline concentration-dependent expression of fluorescent protein transgenes and the system’s suitability for the induced expression of the toxic protein BCL2 Associated X-1 (Bax1). The Golden Gate compatible vector system contains a native minimal promoter from the mating factor a-1 encoding gene, mfa with ten copies of the tet-regulated operator (tetO) and a codon optimised Tet-repressor (tetR*) which is translationally fused to the native transcriptional corepressor Mql1 (UMAG_05501). The metabolism-independent transcriptional regulator system is functional both, in liquid culture as well as on solid media in the presence of the inducer and can become a useful tool for toxin-antitoxin studies, identification of antifungal proteins, and to study functions of toxic gene products in Ustilago maydis.","lang":"eng"}],"quality_controlled":"1","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"language":[{"iso":"eng"}],"doi":"10.3389/ffunb.2022.1029114","publication_identifier":{"eissn":["2673-6128"]},"month":"10","department":[{"_id":"JiFr"}],"publisher":"Frontiers Media","publication_status":"published","acknowledgement":"The research leading to these results received funding from the European Research Council under the European Union’s Seventh Framework Programme ERC-2013-STG (grant agreement: 335691), the Austrian Science Fund (I 3033-B22), the Austrian Academy of Sciences, and the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany's Excellence Strategy EXC-2070-390732324 (PhenoRob) and DFG grant (DJ 64/5-1).\r\nWe would like to thank the GMI/IMBA/IMP core facilities for their excellent technical support. We would like to acknowledge Dr. Sinéad A. O’Sullivan from DZNE, University of Bonn for providing anti-GFP antibodies. The authors are thankful to the Excellence University of Bonn for providing infrastructure and instrumentation facilities at the INRES-Plant Pathology department.","year":"2022","volume":3,"date_updated":"2024-03-06T14:01:57Z","date_created":"2023-07-16T22:01:12Z","author":[{"last_name":"Ingole","first_name":"Kishor D.","full_name":"Ingole, Kishor D."},{"full_name":"Nagarajan, Nithya","first_name":"Nithya","last_name":"Nagarajan"},{"full_name":"Uhse, Simon","last_name":"Uhse","first_name":"Simon"},{"first_name":"Caterina","last_name":"Giannini","id":"e3fdddd5-f6e0-11ea-865d-ca99ee6367f4","full_name":"Giannini, Caterina"},{"first_name":"Armin","last_name":"Djamei","full_name":"Djamei, Armin"}],"article_number":"1029114","file_date_updated":"2023-07-17T11:46:34Z"},{"publication_identifier":{"eisbn":["978-1-0716-1677-2"],"isbn":["978-1-0716-1676-5"]},"month":"10","language":[{"iso":"eng"}],"doi":"10.1007/978-1-0716-1677-2_2","project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7"},{"name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630"}],"quality_controlled":"1","external_id":{"pmid":["34647246"]},"ec_funded":1,"volume":2368,"date_created":"2021-11-11T09:26:10Z","date_updated":"2022-08-26T09:13:00Z","author":[{"full_name":"Zhang, Yuzhou","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2627-6956","first_name":"Yuzhou","last_name":"Zhang"},{"full_name":"Li, Lanxin","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X","first_name":"Lanxin","last_name":"Li"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří"}],"editor":[{"first_name":"Elison B","last_name":"Blancaflor","full_name":"Blancaflor, Elison B"}],"department":[{"_id":"JiFr"}],"publisher":"Springer Nature","publication_status":"published","pmid":1,"year":"2021","acknowledgement":"The Ceratopteris richardii spores were obtained from the lab of Jo Ann Banks at Purdue University. This work was supported by funding from the European Union’s Horizon 2020 research and innovation program (ERC grant agreement number 742985), Austrian Science Fund (FWF, grant number I 3630-B25), IST Fellow program and DOC Fellowship of the Austrian Academy of Sciences.","article_processing_charge":"No","day":"14","series_title":"MIMB","scopus_import":"1","date_published":"2021-10-14T00:00:00Z","page":"43-51","citation":{"ama":"Zhang Y, Li L, Friml J. Evaluation of gravitropism in non-seed plants. In: Blancaflor EB, ed. Plant Gravitropism. Vol 2368. MIMB. Springer Nature; 2021:43-51. doi:10.1007/978-1-0716-1677-2_2","ista":"Zhang Y, Li L, Friml J. 2021.Evaluation of gravitropism in non-seed plants. In: Plant Gravitropism. Methods in Molecular Biology, vol. 2368, 43–51.","apa":"Zhang, Y., Li, L., & Friml, J. (2021). Evaluation of gravitropism in non-seed plants. In E. B. Blancaflor (Ed.), Plant Gravitropism (Vol. 2368, pp. 43–51). Springer Nature. https://doi.org/10.1007/978-1-0716-1677-2_2","ieee":"Y. Zhang, L. Li, and J. Friml, “Evaluation of gravitropism in non-seed plants,” in Plant Gravitropism, vol. 2368, E. B. Blancaflor, Ed. Springer Nature, 2021, pp. 43–51.","mla":"Zhang, Yuzhou, et al. “Evaluation of Gravitropism in Non-Seed Plants.” Plant Gravitropism, edited by Elison B Blancaflor, vol. 2368, Springer Nature, 2021, pp. 43–51, doi:10.1007/978-1-0716-1677-2_2.","short":"Y. Zhang, L. Li, J. Friml, in:, E.B. Blancaflor (Ed.), Plant Gravitropism, Springer Nature, 2021, pp. 43–51.","chicago":"Zhang, Yuzhou, Lanxin Li, and Jiří Friml. “Evaluation of Gravitropism in Non-Seed Plants.” In Plant Gravitropism, edited by Elison B Blancaflor, 2368:43–51. MIMB. Springer Nature, 2021. https://doi.org/10.1007/978-1-0716-1677-2_2."},"publication":"Plant Gravitropism","abstract":[{"text":"Tropisms are among the most important growth responses for plant adaptation to the surrounding environment. One of the most common tropisms is root gravitropism. Root gravitropism enables the plant to anchor securely to the soil enabling the absorption of water and nutrients. Most of the knowledge related to the plant gravitropism has been acquired from the flowering plants, due to limited research in non-seed plants. Limited research on non-seed plants is due in large part to the lack of standard research methods. Here, we describe the experimental methods to evaluate gravitropism in representative non-seed plant species, including the non-vascular plant moss Physcomitrium patens, the early diverging extant vascular plant lycophyte Selaginella moellendorffii and fern Ceratopteris richardii. In addition, we introduce the methods used for statistical analysis of the root gravitropism in non-seed plant species.","lang":"eng"}],"alternative_title":["Methods in Molecular Biology"],"type":"book_chapter","oa_version":"None","intvolume":" 2368","title":"Evaluation of gravitropism in non-seed plants","status":"public","_id":"10267","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"_id":"10268","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Automated time-lapse imaging and manipulation of cell divisions in Arabidopsis roots by vertical-stage confocal microscopy","status":"public","intvolume":" 2382","oa_version":"None","type":"book_chapter","alternative_title":["Methods in Molecular Biology"],"abstract":[{"text":"The analysis of dynamic cellular processes such as plant cytokinesis stands and falls with live-cell time-lapse confocal imaging. Conventional approaches to time-lapse imaging of cell division in Arabidopsis root tips are tedious and have low throughput. Here, we describe a protocol for long-term time-lapse simultaneous imaging of multiple root tips on a vertical-stage confocal microscope with automated root tracking. We also provide modifications of the basic protocol to implement this imaging method in the analysis of genetic, pharmacological or laser ablation wounding-mediated experimental manipulations. Our method dramatically improves the efficiency of cell division time-lapse imaging by increasing the throughput, while reducing the person-hour requirements of such experiments.","lang":"eng"}],"publication":"Plant Cell Division","citation":{"short":"L. Hörmayer, J. Friml, M. Glanc, in:, Plant Cell Division, Humana Press, 2021, pp. 105–114.","mla":"Hörmayer, Lukas, et al. “Automated Time-Lapse Imaging and Manipulation of Cell Divisions in Arabidopsis Roots by Vertical-Stage Confocal Microscopy.” Plant Cell Division, vol. 2382, Humana Press, 2021, pp. 105–14, doi:10.1007/978-1-0716-1744-1_6.","chicago":"Hörmayer, Lukas, Jiří Friml, and Matous Glanc. “Automated Time-Lapse Imaging and Manipulation of Cell Divisions in Arabidopsis Roots by Vertical-Stage Confocal Microscopy.” In Plant Cell Division, 2382:105–14. MIMB. Humana Press, 2021. https://doi.org/10.1007/978-1-0716-1744-1_6.","ama":"Hörmayer L, Friml J, Glanc M. Automated time-lapse imaging and manipulation of cell divisions in Arabidopsis roots by vertical-stage confocal microscopy. In: Plant Cell Division. Vol 2382. MIMB. Humana Press; 2021:105-114. doi:10.1007/978-1-0716-1744-1_6","ieee":"L. Hörmayer, J. Friml, and M. Glanc, “Automated time-lapse imaging and manipulation of cell divisions in Arabidopsis roots by vertical-stage confocal microscopy,” in Plant Cell Division, vol. 2382, Humana Press, 2021, pp. 105–114.","apa":"Hörmayer, L., Friml, J., & Glanc, M. (2021). Automated time-lapse imaging and manipulation of cell divisions in Arabidopsis roots by vertical-stage confocal microscopy. In Plant Cell Division (Vol. 2382, pp. 105–114). Humana Press. https://doi.org/10.1007/978-1-0716-1744-1_6","ista":"Hörmayer L, Friml J, Glanc M. 2021.Automated time-lapse imaging and manipulation of cell divisions in Arabidopsis roots by vertical-stage confocal microscopy. In: Plant Cell Division. Methods in Molecular Biology, vol. 2382, 105–114."},"page":"105-114","date_published":"2021-10-28T00:00:00Z","scopus_import":"1","series_title":"MIMB","day":"28","article_processing_charge":"No","year":"2021","acknowledgement":"We thank B. De Rybel for allowing M.G. to work on this manuscript during a postdoc in his laboratory, and EMBO for supporting M.G. with a Long-Term fellowship (ALTF 1005-2019) during this time. We acknowledge the service and support by the Bioimaging Facility at IST Austria, and finally, we thank A. Mally for proofreading and correcting the manuscript.","pmid":1,"publication_status":"published","publisher":"Humana Press","department":[{"_id":"JiFr"}],"author":[{"full_name":"Hörmayer, Lukas","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","last_name":"Hörmayer","first_name":"Lukas"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"last_name":"Glanc","first_name":"Matous","orcid":"0000-0003-0619-7783","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","full_name":"Glanc, Matous"}],"date_updated":"2022-06-03T06:47:06Z","date_created":"2021-11-11T10:03:30Z","volume":2382,"external_id":{"pmid":["34705235"]},"quality_controlled":"1","doi":"10.1007/978-1-0716-1744-1_6","acknowledged_ssus":[{"_id":"Bio"}],"language":[{"iso":"eng"}],"month":"10","publication_identifier":{"eissn":["1940-6029"],"isbn":["978-1-0716-1743-4"],"eisbn":["978-1-0716-1744-1"],"issn":["1064-3745"]}},{"acknowledged_ssus":[{"_id":"Bio"}],"language":[{"iso":"eng"}],"doi":"10.1111/nph.16887","isi":1,"quality_controlled":"1","project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"},{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000570187900001"]},"month":"01","publication_identifier":{"eissn":["14698137"],"issn":["0028646X"]},"date_updated":"2023-08-04T11:01:21Z","date_created":"2020-09-28T08:59:28Z","volume":229,"author":[{"last_name":"Li","first_name":"Hongjiang","orcid":"0000-0001-5039-9660","id":"33CA54A6-F248-11E8-B48F-1D18A9856A87","full_name":"Li, Hongjiang"},{"full_name":"von Wangenheim, Daniel","last_name":"von Wangenheim","first_name":"Daniel","orcid":"0000-0002-6862-1247","id":"49E91952-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Zhang, Xixi","first_name":"Xixi","last_name":"Zhang","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","orcid":"0000-0001-7048-4627"},{"full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","last_name":"Tan","first_name":"Shutang"},{"orcid":"0000-0002-8821-8236","id":"39CD9926-F248-11E8-B48F-1D18A9856A87","last_name":"Darwish-Miranda","first_name":"Nasser","full_name":"Darwish-Miranda, Nasser"},{"full_name":"Naramoto, Satoshi","last_name":"Naramoto","first_name":"Satoshi"},{"first_name":"Krzysztof T","last_name":"Wabnik","id":"4DE369A4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7263-0560","full_name":"Wabnik, Krzysztof T"},{"first_name":"Riet","last_name":"de Rycke","full_name":"de Rycke, Riet"},{"last_name":"Kaufmann","first_name":"Walter","orcid":"0000-0001-9735-5315","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","full_name":"Kaufmann, Walter"},{"id":"381929CE-F248-11E8-B48F-1D18A9856A87","first_name":"Daniel J","last_name":"Gütl","full_name":"Gütl, Daniel J"},{"last_name":"Tejos","first_name":"Ricardo","full_name":"Tejos, Ricardo"},{"full_name":"Grones, Peter","first_name":"Peter","last_name":"Grones","id":"399876EC-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Ke","first_name":"Meiyu","full_name":"Ke, Meiyu"},{"full_name":"Chen, Xu","last_name":"Chen","first_name":"Xu","id":"4E5ADCAA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Dettmer, Jan","first_name":"Jan","last_name":"Dettmer"},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"publication_status":"published","department":[{"_id":"JiFr"},{"_id":"EM-Fac"},{"_id":"Bio"},{"_id":"EvBe"}],"publisher":"Wiley","acknowledgement":"We thank Dr Ingo Heilmann (Martin‐Luther‐University Halle‐Wittenberg) for the XVE>>PIP5K1‐YFP line, Dr Brad Day (Michigan State University) for the ndr1‐1 mutant and the complementation lines, and Dr Patricia C. Zambryski (University of California, Berkeley) for the 35S::P30‐GFP line, the Bioimaging team (IST Austria) for assistance with imaging, group members for discussions, Martine De Cock for help in preparing the manuscript and Nataliia Gnyliukh for critical reading and revision of the manuscript. This project received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (grant agreement No. 742985) and Comisión Nacional de Investigación Científica y Tecnológica (Project CONICYT‐PAI 82130047). DvW received funding from the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007‐2013) under REA grant agreement no. 291734.","year":"2021","file_date_updated":"2021-02-04T09:44:17Z","ec_funded":1,"date_published":"2021-01-01T00:00:00Z","article_type":"original","page":"351-369","publication":"New Phytologist","citation":{"apa":"Li, H., von Wangenheim, D., Zhang, X., Tan, S., Darwish-Miranda, N., Naramoto, S., … Friml, J. (2021). Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana. New Phytologist. Wiley. https://doi.org/10.1111/nph.16887","ieee":"H. Li et al., “Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana,” New Phytologist, vol. 229, no. 1. Wiley, pp. 351–369, 2021.","ista":"Li H, von Wangenheim D, Zhang X, Tan S, Darwish-Miranda N, Naramoto S, Wabnik KT, de Rycke R, Kaufmann W, Gütl DJ, Tejos R, Grones P, Ke M, Chen X, Dettmer J, Friml J. 2021. Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana. New Phytologist. 229(1), 351–369.","ama":"Li H, von Wangenheim D, Zhang X, et al. Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana. New Phytologist. 2021;229(1):351-369. doi:10.1111/nph.16887","chicago":"Li, Hongjiang, Daniel von Wangenheim, Xixi Zhang, Shutang Tan, Nasser Darwish-Miranda, Satoshi Naramoto, Krzysztof T Wabnik, et al. “Cellular Requirements for PIN Polar Cargo Clustering in Arabidopsis Thaliana.” New Phytologist. Wiley, 2021. https://doi.org/10.1111/nph.16887.","short":"H. Li, D. von Wangenheim, X. Zhang, S. Tan, N. Darwish-Miranda, S. Naramoto, K.T. Wabnik, R. de Rycke, W. Kaufmann, D.J. Gütl, R. Tejos, P. Grones, M. Ke, X. Chen, J. Dettmer, J. Friml, New Phytologist 229 (2021) 351–369.","mla":"Li, Hongjiang, et al. “Cellular Requirements for PIN Polar Cargo Clustering in Arabidopsis Thaliana.” New Phytologist, vol. 229, no. 1, Wiley, 2021, pp. 351–69, doi:10.1111/nph.16887."},"day":"01","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","scopus_import":"1","oa_version":"Published Version","file":[{"file_id":"9084","relation":"main_file","success":1,"checksum":"b45621607b4cab97eeb1605ab58e896e","date_created":"2021-02-04T09:44:17Z","date_updated":"2021-02-04T09:44:17Z","access_level":"open_access","file_name":"2021_NewPhytologist_Li.pdf","creator":"dernst","file_size":4061962,"content_type":"application/pdf"}],"status":"public","ddc":["580"],"title":"Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana","intvolume":" 229","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8582","abstract":[{"text":"Cell and tissue polarization is fundamental for plant growth and morphogenesis. The polar, cellular localization of Arabidopsis PIN‐FORMED (PIN) proteins is crucial for their function in directional auxin transport. The clustering of PIN polar cargoes within the plasma membrane has been proposed to be important for the maintenance of their polar distribution. However, the more detailed features of PIN clusters and the cellular requirements of cargo clustering remain unclear.\r\nHere, we characterized PIN clusters in detail by means of multiple advanced microscopy and quantification methods, such as 3D quantitative imaging or freeze‐fracture replica labeling. The size and aggregation types of PIN clusters were determined by electron microscopy at the nanometer level at different polar domains and at different developmental stages, revealing a strong preference for clustering at the polar domains.\r\nPharmacological and genetic studies revealed that PIN clusters depend on phosphoinositol pathways, cytoskeletal structures and specific cell‐wall components as well as connections between the cell wall and the plasma membrane.\r\nThis study identifies the role of different cellular processes and structures in polar cargo clustering and provides initial mechanistic insight into the maintenance of polarity in plants and other systems.","lang":"eng"}],"issue":"1","type":"journal_article"},{"has_accepted_license":"1","article_processing_charge":"No","day":"01","scopus_import":"1","date_published":"2021-03-01T00:00:00Z","page":"548-562","article_type":"original","citation":{"ista":"He P, Zhang Y, Li H, Fu X, Shang H, Zou C, Friml J, Xiao G. 2021. GhARF16-1 modulates leaf development by transcriptionally regulating the GhKNOX2-1 gene in cotton. Plant Biotechnology Journal. 19(3), 548–562.","apa":"He, P., Zhang, Y., Li, H., Fu, X., Shang, H., Zou, C., … Xiao, G. (2021). GhARF16-1 modulates leaf development by transcriptionally regulating the GhKNOX2-1 gene in cotton. Plant Biotechnology Journal. Wiley. https://doi.org/10.1111/pbi.13484","ieee":"P. He et al., “GhARF16-1 modulates leaf development by transcriptionally regulating the GhKNOX2-1 gene in cotton,” Plant Biotechnology Journal, vol. 19, no. 3. Wiley, pp. 548–562, 2021.","ama":"He P, Zhang Y, Li H, et al. GhARF16-1 modulates leaf development by transcriptionally regulating the GhKNOX2-1 gene in cotton. Plant Biotechnology Journal. 2021;19(3):548-562. doi:10.1111/pbi.13484","chicago":"He, P, Yuzhou Zhang, H Li, X Fu, H Shang, C Zou, Jiří Friml, and G Xiao. “GhARF16-1 Modulates Leaf Development by Transcriptionally Regulating the GhKNOX2-1 Gene in Cotton.” Plant Biotechnology Journal. Wiley, 2021. https://doi.org/10.1111/pbi.13484.","mla":"He, P., et al. “GhARF16-1 Modulates Leaf Development by Transcriptionally Regulating the GhKNOX2-1 Gene in Cotton.” Plant Biotechnology Journal, vol. 19, no. 3, Wiley, 2021, pp. 548–62, doi:10.1111/pbi.13484.","short":"P. He, Y. Zhang, H. Li, X. Fu, H. Shang, C. Zou, J. Friml, G. Xiao, Plant Biotechnology Journal 19 (2021) 548–562."},"publication":"Plant Biotechnology Journal","issue":"3","abstract":[{"lang":"eng","text":"The leaf is a crucial organ evolved with remarkable morphological diversity to maximize plant photosynthesis. The leaf shape is a key trait that affects photosynthesis, flowering rates, disease resistance, and yield. Although many genes regulating leaf development have been identified in the past years, the precise regulatory architecture underlying the generation of diverse leaf shapes remains to be elucidated. We used cotton as a reference model to probe the genetic framework underlying divergent leaf forms. Comparative transcriptome analysis revealed that the GhARF16‐1 and GhKNOX2‐1 genes might be potential regulators of leaf shape. We functionally characterized the auxin‐responsive factor ARF16‐1 acting upstream of GhKNOX2‐1 to determine leaf morphology in cotton. The transcription of GhARF16‐1 was significantly higher in lobed‐leaved cotton than in smooth‐leaved cotton. Furthermore, the overexpression of GhARF16‐1 led to the upregulation of GhKNOX2‐1 and resulted in more and deeper serrations in cotton leaves, similar to the leaf shape of cotton plants overexpressing GhKNOX2‐1. We found that GhARF16‐1 specifically bound to the promoter of GhKNOX2‐1 to induce its expression. The heterologous expression of GhARF16‐1 and GhKNOX2‐1 in Arabidopsis led to lobed and curly leaves, and a genetic analysis revealed that GhKNOX2‐1 is epistatic to GhARF16‐1 in Arabidopsis, suggesting that the GhARF16‐1 and GhKNOX2‐1 interaction paradigm also functions to regulate leaf shape in Arabidopsis. To our knowledge, our results uncover a novel mechanism by which auxin, through the key component ARF16‐1 and its downstream‐activated gene KNOX2‐1, determines leaf morphology in eudicots."}],"type":"journal_article","oa_version":"Published Version","file":[{"date_created":"2021-04-12T12:29:07Z","date_updated":"2021-04-12T12:29:07Z","checksum":"63845be37fb962586e0c7773f2355970","success":1,"relation":"main_file","file_id":"9321","content_type":"application/pdf","file_size":15691871,"creator":"dernst","file_name":"2021_PlantBiotechJournal_He.pdf","access_level":"open_access"}],"intvolume":" 19","title":"GhARF16-1 modulates leaf development by transcriptionally regulating the GhKNOX2-1 gene in cotton","status":"public","ddc":["580"],"_id":"8606","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"issn":["1467-7644","1467-7652"]},"month":"03","language":[{"iso":"eng"}],"doi":"10.1111/pbi.13484","isi":1,"quality_controlled":"1","external_id":{"isi":["000577682300001"],"pmid":["32981232"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"file_date_updated":"2021-04-12T12:29:07Z","volume":19,"date_created":"2020-10-05T12:44:33Z","date_updated":"2023-08-04T11:03:10Z","author":[{"last_name":"He","first_name":"P","full_name":"He, P"},{"orcid":"0000-0003-2627-6956","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","last_name":"Zhang","first_name":"Yuzhou","full_name":"Zhang, Yuzhou"},{"full_name":"Li, H","last_name":"Li","first_name":"H"},{"full_name":"Fu, X","last_name":"Fu","first_name":"X"},{"full_name":"Shang, H","first_name":"H","last_name":"Shang"},{"first_name":"C","last_name":"Zou","full_name":"Zou, C"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"full_name":"Xiao, G","first_name":"G","last_name":"Xiao"}],"department":[{"_id":"JiFr"}],"publisher":"Wiley","publication_status":"published","pmid":1,"acknowledgement":"We are thankful to Professor Yuxian Zhu from Wuhan University for his extremely valuable remarks and helpful comments on the manuscript. This work was supported by the Shaanxi Natural Science Foundation (2019JQ‐062 and 2020JQ‐410), Shaanxi Youth Entrusted Talents Program (20190205), China Postdoctoral Science Foundation (2018M640947, 2020T130394), Shaanxi Postdoctoral Project (2018BSHYDZZ76), Natural Science Basic Research Plan in Shaanxi Province of China (2018JZ3006), Fundamental Research Funds for the Central Universities (GK201903064, GK201901004, GK202002005 and GK202001004), and State Key Laboratory of Cotton Biology Open Fund (CB2020A12).","year":"2021"},{"issue":"1","abstract":[{"lang":"eng","text":"The phytohormone auxin plays a central role in shaping plant growth and development. With decades of genetic and biochemical studies, numerous core molecular components and their networks, underlying auxin biosynthesis, transport, and signaling, have been identified. Notably, protein phosphorylation, catalyzed by kinases and oppositely hydrolyzed by phosphatases, has been emerging to be a crucial type of post-translational modification, regulating physiological and developmental auxin output at all levels. In this review, we comprehensively discuss earlier and recent advances in our understanding of genetics, biochemistry, and cell biology of the kinases and phosphatases participating in auxin action. We provide insights into the mechanisms by which reversible protein phosphorylation defines developmental auxin responses, discuss current challenges, and provide our perspectives on future directions involving the integration of the control of protein phosphorylation into the molecular auxin network."}],"type":"journal_article","file":[{"checksum":"917e60e57092f22e16beac70b1775ea6","success":1,"date_created":"2021-01-07T14:03:53Z","date_updated":"2021-01-07T14:03:53Z","relation":"main_file","file_id":"8995","content_type":"application/pdf","file_size":871088,"creator":"dernst","access_level":"open_access","file_name":"2020_MolecularPlant_Tan.pdf"}],"oa_version":"Published Version","intvolume":" 14","title":"Pho-view of auxin: Reversible protein phosphorylation in auxin biosynthesis, transport and signaling","ddc":["580"],"status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8992","has_accepted_license":"1","article_processing_charge":"No","day":"04","scopus_import":"1","date_published":"2021-01-04T00:00:00Z","page":"151-165","article_type":"original","citation":{"ista":"Tan S, Luschnig C, Friml J. 2021. Pho-view of auxin: Reversible protein phosphorylation in auxin biosynthesis, transport and signaling. Molecular Plant. 14(1), 151–165.","ieee":"S. Tan, C. Luschnig, and J. Friml, “Pho-view of auxin: Reversible protein phosphorylation in auxin biosynthesis, transport and signaling,” Molecular Plant, vol. 14, no. 1. Elsevier, pp. 151–165, 2021.","apa":"Tan, S., Luschnig, C., & Friml, J. (2021). Pho-view of auxin: Reversible protein phosphorylation in auxin biosynthesis, transport and signaling. Molecular Plant. Elsevier. https://doi.org/10.1016/j.molp.2020.11.004","ama":"Tan S, Luschnig C, Friml J. Pho-view of auxin: Reversible protein phosphorylation in auxin biosynthesis, transport and signaling. Molecular Plant. 2021;14(1):151-165. doi:10.1016/j.molp.2020.11.004","chicago":"Tan, Shutang, Christian Luschnig, and Jiří Friml. “Pho-View of Auxin: Reversible Protein Phosphorylation in Auxin Biosynthesis, Transport and Signaling.” Molecular Plant. Elsevier, 2021. https://doi.org/10.1016/j.molp.2020.11.004.","mla":"Tan, Shutang, et al. “Pho-View of Auxin: Reversible Protein Phosphorylation in Auxin Biosynthesis, Transport and Signaling.” Molecular Plant, vol. 14, no. 1, Elsevier, 2021, pp. 151–65, doi:10.1016/j.molp.2020.11.004.","short":"S. Tan, C. Luschnig, J. Friml, Molecular Plant 14 (2021) 151–165."},"publication":"Molecular Plant","ec_funded":1,"file_date_updated":"2021-01-07T14:03:53Z","volume":14,"date_updated":"2023-08-04T11:21:13Z","date_created":"2021-01-03T23:01:23Z","author":[{"full_name":"Tan, Shutang","first_name":"Shutang","last_name":"Tan","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285"},{"full_name":"Luschnig, Christian","last_name":"Luschnig","first_name":"Christian"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"}],"department":[{"_id":"JiFr"}],"publisher":"Elsevier","publication_status":"published","pmid":1,"year":"2021","acknowledgement":"This work was supported by the European Union’s Horizon 2020 Program (ERC grant agreement no. 742985 to J.F.). S.T. was funded by a European Molecular Biology Organization (EMBO) long-term postdoctoral fellowship (ALTF 723-2015). C.L. is supported by the Austrian Science Fund (FWF; P 31493).","publication_identifier":{"eissn":["17529867"],"issn":["16742052"]},"month":"01","language":[{"iso":"eng"}],"doi":"10.1016/j.molp.2020.11.004","project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"name":"Long Term Fellowship","_id":"256FEF10-B435-11E9-9278-68D0E5697425","grant_number":"723-2015"}],"isi":1,"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000605359400014"],"pmid":["33186755"]},"oa":1},{"publication":"PNAS","citation":{"mla":"Abas, Lindy, et al. “Naphthylphthalamic Acid Associates with and Inhibits PIN Auxin Transporters.” PNAS, vol. 118, no. 1, e2020857118, National Academy of Sciences, 2021, doi:10.1073/pnas.2020857118.","short":"L. Abas, M. Kolb, J. Stadlmann, D.P. Janacek, K. Lukic, C. Schwechheimer, L.A. Sazanov, L. Mach, J. Friml, U.Z. Hammes, PNAS 118 (2021).","chicago":"Abas, Lindy, Martina Kolb, Johannes Stadlmann, Dorina P. Janacek, Kristina Lukic, Claus Schwechheimer, Leonid A Sazanov, Lukas Mach, Jiří Friml, and Ulrich Z. Hammes. “Naphthylphthalamic Acid Associates with and Inhibits PIN Auxin Transporters.” PNAS. National Academy of Sciences, 2021. https://doi.org/10.1073/pnas.2020857118.","ama":"Abas L, Kolb M, Stadlmann J, et al. Naphthylphthalamic acid associates with and inhibits PIN auxin transporters. PNAS. 2021;118(1). doi:10.1073/pnas.2020857118","ista":"Abas L, Kolb M, Stadlmann J, Janacek DP, Lukic K, Schwechheimer C, Sazanov LA, Mach L, Friml J, Hammes UZ. 2021. Naphthylphthalamic acid associates with and inhibits PIN auxin transporters. PNAS. 118(1), e2020857118.","ieee":"L. Abas et al., “Naphthylphthalamic acid associates with and inhibits PIN auxin transporters,” PNAS, vol. 118, no. 1. National Academy of Sciences, 2021.","apa":"Abas, L., Kolb, M., Stadlmann, J., Janacek, D. P., Lukic, K., Schwechheimer, C., … Hammes, U. Z. (2021). Naphthylphthalamic acid associates with and inhibits PIN auxin transporters. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.2020857118"},"article_type":"original","date_published":"2021-01-05T00:00:00Z","scopus_import":"1","day":"05","article_processing_charge":"No","_id":"8993","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","title":"Naphthylphthalamic acid associates with and inhibits PIN auxin transporters","intvolume":" 118","oa_version":"Published Version","type":"journal_article","abstract":[{"text":"N-1-naphthylphthalamic acid (NPA) is a key inhibitor of directional (polar) transport of the hormone auxin in plants. For decades, it has been a pivotal tool in elucidating the unique polar auxin transport-based processes underlying plant growth and development. Its exact mode of action has long been sought after and is still being debated, with prevailing mechanistic schemes describing only indirect connections between NPA and the main transporters responsible for directional transport, namely PIN auxin exporters. Here we present data supporting a model in which NPA associates with PINs in a more direct manner than hitherto postulated. We show that NPA inhibits PIN activity in a heterologous oocyte system and that expression of NPA-sensitive PINs in plant, yeast, and oocyte membranes leads to specific saturable NPA binding. We thus propose that PINs are a bona fide NPA target. This offers a straightforward molecular basis for NPA inhibition of PIN-dependent auxin transport and a logical parsimonious explanation for the known physiological effects of NPA on plant growth, as well as an alternative hypothesis to interpret past and future results. We also introduce PIN dimerization and describe an effect of NPA on this, suggesting that NPA binding could be exploited to gain insights into structural aspects of PINs related to their transport mechanism.","lang":"eng"}],"issue":"1","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1073/pnas.2020857118"}],"oa":1,"external_id":{"isi":["000607270100073"],"pmid":["33443187"]},"quality_controlled":"1","isi":1,"project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"}],"doi":"10.1073/pnas.2020857118","language":[{"iso":"eng"}],"month":"01","publication_identifier":{"eissn":["10916490"],"issn":["00278424"]},"acknowledgement":"This work was supported by Austrian Science Fund Grant FWF P21533-B20 (to L.A.); German Research Foundation Grant DFG HA3468/6-1 (to U.Z.H.); and European Research Council Grant 742985 (to J.F.). We thank Herta Steinkellner and Alexandra Castilho for N. benthamiana plants, Fabian Nagelreiter for statistical advice, Lanassa Bassukas for help with [ɣ32P]-\r\nATP assays, and Josef Penninger for providing access to mass spectrometry instruments at the Vienna BioCenter Core Facilities. We thank PNAS reviewers for the many comments and suggestions that helped to improve this manuscript.","year":"2021","pmid":1,"publication_status":"published","publisher":"National Academy of Sciences","department":[{"_id":"JiFr"},{"_id":"LeSa"}],"author":[{"first_name":"Lindy","last_name":"Abas","full_name":"Abas, Lindy"},{"last_name":"Kolb","first_name":"Martina","full_name":"Kolb, Martina"},{"last_name":"Stadlmann","first_name":"Johannes","full_name":"Stadlmann, Johannes"},{"full_name":"Janacek, Dorina P.","last_name":"Janacek","first_name":"Dorina P."},{"last_name":"Lukic","first_name":"Kristina","orcid":"0000-0003-1581-881X","id":"2B04DB84-F248-11E8-B48F-1D18A9856A87","full_name":"Lukic, Kristina"},{"first_name":"Claus","last_name":"Schwechheimer","full_name":"Schwechheimer, Claus"},{"last_name":"Sazanov","first_name":"Leonid A","orcid":"0000-0002-0977-7989","id":"338D39FE-F248-11E8-B48F-1D18A9856A87","full_name":"Sazanov, Leonid A"},{"full_name":"Mach, Lukas","last_name":"Mach","first_name":"Lukas"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"full_name":"Hammes, Ulrich Z.","last_name":"Hammes","first_name":"Ulrich Z."}],"related_material":{"link":[{"url":"https://doi.org/10.1073/pnas.2102232118","relation":"erratum"}]},"date_updated":"2023-08-07T13:29:23Z","date_created":"2021-01-03T23:01:23Z","volume":118,"article_number":"e2020857118","ec_funded":1},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"9254","status":"public","title":"Cell kinetics of auxin transport and activity in Arabidopsis root growth and skewing","ddc":["580"],"intvolume":" 12","oa_version":"Published Version","file":[{"file_id":"9275","relation":"main_file","date_created":"2021-03-22T11:18:58Z","date_updated":"2021-03-22T11:18:58Z","success":1,"checksum":"e1022f3aee349853ded2b2b3e092362d","file_name":"2021_NatureComm_Hu.pdf","access_level":"open_access","creator":"dernst","content_type":"application/pdf","file_size":8602096}],"type":"journal_article","abstract":[{"text":"Auxin is a key regulator of plant growth and development. Local auxin biosynthesis and intercellular transport generates regional gradients in the root that are instructive for processes such as specification of developmental zones that maintain root growth and tropic responses. Here we present a toolbox to study auxin-mediated root development that features: (i) the ability to control auxin synthesis with high spatio-temporal resolution and (ii) single-cell nucleus tracking and morphokinetic analysis infrastructure. Integration of these two features enables cutting-edge analysis of root development at single-cell resolution based on morphokinetic parameters under normal growth conditions and during cell-type-specific induction of auxin biosynthesis. We show directional auxin flow in the root and refine the contributions of key players in this process. In addition, we determine the quantitative kinetics of Arabidopsis root meristem skewing, which depends on local auxin gradients but does not require PIN2 and AUX1 auxin transporter activities. Beyond the mechanistic insights into root development, the tools developed here will enable biologists to study kinetics and morphology of various critical processes at the single cell-level in whole organisms.","lang":"eng"}],"publication":"Nature Communications","citation":{"ista":"Hu Y, Omary M, Hu Y, Doron O, Hörmayer L, Chen Q, Megides O, Chekli O, Ding Z, Friml J, Zhao Y, Tsarfaty I, Shani E. 2021. Cell kinetics of auxin transport and activity in Arabidopsis root growth and skewing. Nature Communications. 12, 1657.","ieee":"Y. Hu et al., “Cell kinetics of auxin transport and activity in Arabidopsis root growth and skewing,” Nature Communications, vol. 12. Springer Nature, 2021.","apa":"Hu, Y., Omary, M., Hu, Y., Doron, O., Hörmayer, L., Chen, Q., … Shani, E. (2021). Cell kinetics of auxin transport and activity in Arabidopsis root growth and skewing. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-021-21802-3","ama":"Hu Y, Omary M, Hu Y, et al. Cell kinetics of auxin transport and activity in Arabidopsis root growth and skewing. Nature Communications. 2021;12. doi:10.1038/s41467-021-21802-3","chicago":"Hu, Yangjie, Moutasem Omary, Yun Hu, Ohad Doron, Lukas Hörmayer, Qingguo Chen, Or Megides, et al. “Cell Kinetics of Auxin Transport and Activity in Arabidopsis Root Growth and Skewing.” Nature Communications. Springer Nature, 2021. https://doi.org/10.1038/s41467-021-21802-3.","mla":"Hu, Yangjie, et al. “Cell Kinetics of Auxin Transport and Activity in Arabidopsis Root Growth and Skewing.” Nature Communications, vol. 12, 1657, Springer Nature, 2021, doi:10.1038/s41467-021-21802-3.","short":"Y. Hu, M. Omary, Y. Hu, O. Doron, L. Hörmayer, Q. Chen, O. Megides, O. Chekli, Z. Ding, J. Friml, Y. Zhao, I. Tsarfaty, E. Shani, Nature Communications 12 (2021)."},"article_type":"original","date_published":"2021-03-12T00:00:00Z","scopus_import":"1","day":"12","article_processing_charge":"No","has_accepted_license":"1","acknowledgement":"This work was supported by grants from the Israel Science Foundation (2378/19 to E.S.), the Joint NSFC-ISF Research Grant (3419/20 to E.S. and Z.D.), the Human Frontier Science Program (HFSP—LIY000540/2020 to E.S.), the European Research Council Starting Grant (757683- RobustHormoneTrans to E.S.), PBC postdoctoral fellowships (to Y.H. and M.O.), NIH (GM114660 to Y.Z.), Breast Cancer Research Foundation (BCRF to I.T.).","year":"2021","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Springer Nature","author":[{"first_name":"Yangjie","last_name":"Hu","full_name":"Hu, Yangjie"},{"full_name":"Omary, Moutasem","last_name":"Omary","first_name":"Moutasem"},{"full_name":"Hu, Yun","first_name":"Yun","last_name":"Hu"},{"full_name":"Doron, Ohad","first_name":"Ohad","last_name":"Doron"},{"full_name":"Hörmayer, Lukas","first_name":"Lukas","last_name":"Hörmayer","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Chen, Qingguo","last_name":"Chen","first_name":"Qingguo"},{"full_name":"Megides, Or","first_name":"Or","last_name":"Megides"},{"full_name":"Chekli, Ori","last_name":"Chekli","first_name":"Ori"},{"full_name":"Ding, Zhaojun","last_name":"Ding","first_name":"Zhaojun"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"full_name":"Zhao, Yunde","first_name":"Yunde","last_name":"Zhao"},{"first_name":"Ilan","last_name":"Tsarfaty","full_name":"Tsarfaty, Ilan"},{"full_name":"Shani, Eilon","first_name":"Eilon","last_name":"Shani"}],"date_updated":"2023-08-07T14:17:55Z","date_created":"2021-03-21T23:01:19Z","volume":12,"article_number":"1657","file_date_updated":"2021-03-22T11:18:58Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000630419400048"],"pmid":["33712581"]},"quality_controlled":"1","isi":1,"doi":"10.1038/s41467-021-21802-3","language":[{"iso":"eng"}],"month":"03","publication_identifier":{"eissn":["20411723"]}},{"type":"journal_article","issue":"7","abstract":[{"lang":"eng","text":"Endoplasmic reticulum–plasma membrane contact sites (ER–PM CS) play fundamental roles in all eukaryotic cells. Arabidopsis thaliana mutants lacking the ER–PM protein tether synaptotagmin1 (SYT1) exhibit decreased PM integrity under multiple abiotic stresses, such as freezing, high salt, osmotic stress, and mechanical damage. Here, we show that, together with SYT1, the stress-induced SYT3 is an ER–PM tether that also functions in maintaining PM integrity. The ER–PM CS localization of SYT1 and SYT3 is dependent on PM phosphatidylinositol-4-phosphate and is regulated by abiotic stress. Lipidomic analysis revealed that cold stress increased the accumulation of diacylglycerol at the PM in a syt1/3 double mutant relative to wild-type while the levels of most glycerolipid species remain unchanged. In addition, the SYT1-green fluorescent protein fusion preferentially binds diacylglycerol in vivo with little affinity for polar glycerolipids. Our work uncovers a SYT-dependent mechanism of stress adaptation counteracting the detrimental accumulation of diacylglycerol at the PM produced during episodes of abiotic stress."}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"9443","intvolume":" 33","status":"public","title":"Synaptotagmins at the endoplasmic reticulum-plasma membrane contact sites maintain diacylglycerol homeostasis during abiotic stress","ddc":["580"],"oa_version":"Published Version","file":[{"file_id":"10141","relation":"main_file","date_updated":"2021-10-14T13:36:38Z","date_created":"2021-10-14T13:36:38Z","success":1,"checksum":"22d596678d00310d793611864a6d0fcd","file_name":"2021_PlantCell_RuizLopez.pdf","access_level":"open_access","creator":"cchlebak","content_type":"application/pdf","file_size":2952028}],"scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"01","citation":{"ista":"Ruiz-Lopez N, Pérez-Sancho J, Esteban Del Valle A, Haslam R, Vanneste S, Catalá R, Perea-Resa C, Van Damme D, García-Hernández S, Albert A, Vallarino J, Lin J, Friml J, Macho A, Salinas J, Rosado A, Napier J, Amorim-Silva V, Botella M. 2021. Synaptotagmins at the endoplasmic reticulum-plasma membrane contact sites maintain diacylglycerol homeostasis during abiotic stress. Plant Cell. 33(7), 2431–2453.","apa":"Ruiz-Lopez, N., Pérez-Sancho, J., Esteban Del Valle, A., Haslam, R., Vanneste, S., Catalá, R., … Botella, M. (2021). Synaptotagmins at the endoplasmic reticulum-plasma membrane contact sites maintain diacylglycerol homeostasis during abiotic stress. Plant Cell. American Society of Plant Biologists. https://doi.org/10.1093/plcell/koab122","ieee":"N. Ruiz-Lopez et al., “Synaptotagmins at the endoplasmic reticulum-plasma membrane contact sites maintain diacylglycerol homeostasis during abiotic stress,” Plant Cell, vol. 33, no. 7. American Society of Plant Biologists, pp. 2431–2453, 2021.","ama":"Ruiz-Lopez N, Pérez-Sancho J, Esteban Del Valle A, et al. Synaptotagmins at the endoplasmic reticulum-plasma membrane contact sites maintain diacylglycerol homeostasis during abiotic stress. Plant Cell. 2021;33(7):2431-2453. doi:10.1093/plcell/koab122","chicago":"Ruiz-Lopez, N, J Pérez-Sancho, A Esteban Del Valle, RP Haslam, S Vanneste, R Catalá, C Perea-Resa, et al. “Synaptotagmins at the Endoplasmic Reticulum-Plasma Membrane Contact Sites Maintain Diacylglycerol Homeostasis during Abiotic Stress.” Plant Cell. American Society of Plant Biologists, 2021. https://doi.org/10.1093/plcell/koab122.","mla":"Ruiz-Lopez, N., et al. “Synaptotagmins at the Endoplasmic Reticulum-Plasma Membrane Contact Sites Maintain Diacylglycerol Homeostasis during Abiotic Stress.” Plant Cell, vol. 33, no. 7, American Society of Plant Biologists, 2021, pp. 2431–53, doi:10.1093/plcell/koab122.","short":"N. Ruiz-Lopez, J. Pérez-Sancho, A. Esteban Del Valle, R. Haslam, S. Vanneste, R. Catalá, C. Perea-Resa, D. Van Damme, S. García-Hernández, A. Albert, J. Vallarino, J. Lin, J. Friml, A. Macho, J. Salinas, A. Rosado, J. Napier, V. Amorim-Silva, M. Botella, Plant Cell 33 (2021) 2431–2453."},"publication":"Plant Cell","page":"2431-2453","article_type":"original","date_published":"2021-07-01T00:00:00Z","ec_funded":1,"file_date_updated":"2021-10-14T13:36:38Z","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","pmid":1,"year":"2021","acknowledgement":"We would also like to thank Lothar Willmitzer for the lipidomic analysis at the Max Planck Institute of Molecular Plant Physiology (Potsdam, Germany). We thank Manuela Vega from SCI for her technical assistance in image analysis. We thank John R. Pearson and the Bionand Nanoimaging Unit, F. David Navas Fernández and the SCAI Imaging Facility and The Plant Cell Biology facility at the Shanghai Center for Plant Stress Biology for assistance with confocal microscopy. The FaFAH1 clone was a gift from Iraida Amaya Saavedra (IFAPA-Centro de Churriana, Málaga, Spain). The AHA3 antibody against the H+-ATPase was a gift from Ramón Serrano Salom (Instituto de Biología Molecular y Celular de Plantas, Valencia, Spain). The MAP-mTU2-SAC1 construct was provided by Yvon Jaillais (Laboratoire Reproduction et Développement des Plantes, Univ Lyon, France). The pGWB5 from the pGWB vector series, was provided by Tsuyoshi Nakagawa (Department of Molecular and Functional Genomics, Shimane University). We thank Plan Propio from the University of Málaga for financial support.\r\nFunding","publisher":"American Society of Plant Biologists","department":[{"_id":"JiFr"}],"publication_status":"published","author":[{"first_name":"N","last_name":"Ruiz-Lopez","full_name":"Ruiz-Lopez, N"},{"last_name":"Pérez-Sancho","first_name":"J","full_name":"Pérez-Sancho, J"},{"full_name":"Esteban Del Valle, A","first_name":"A","last_name":"Esteban Del Valle"},{"last_name":"Haslam","first_name":"RP","full_name":"Haslam, RP"},{"last_name":"Vanneste","first_name":"S","full_name":"Vanneste, S"},{"first_name":"R","last_name":"Catalá","full_name":"Catalá, R"},{"last_name":"Perea-Resa","first_name":"C","full_name":"Perea-Resa, C"},{"full_name":"Van Damme, D","last_name":"Van Damme","first_name":"D"},{"full_name":"García-Hernández, S","last_name":"García-Hernández","first_name":"S"},{"last_name":"Albert","first_name":"A","full_name":"Albert, A"},{"last_name":"Vallarino","first_name":"J","full_name":"Vallarino, J"},{"last_name":"Lin","first_name":"J","full_name":"Lin, J"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"last_name":"Macho","first_name":"AP","full_name":"Macho, AP"},{"full_name":"Salinas, J","last_name":"Salinas","first_name":"J"},{"full_name":"Rosado, A","last_name":"Rosado","first_name":"A"},{"last_name":"Napier","first_name":"JA","full_name":"Napier, JA"},{"last_name":"Amorim-Silva","first_name":"V","full_name":"Amorim-Silva, V"},{"full_name":"Botella, MA","first_name":"MA","last_name":"Botella"}],"volume":33,"date_created":"2021-06-02T13:13:58Z","date_updated":"2023-08-08T13:54:32Z","publication_identifier":{"issn":["1040-4651"],"eissn":["1532-298x"]},"month":"07","oa":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"external_id":{"isi":["000703938100026"],"pmid":["33944955"]},"project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"}],"quality_controlled":"1","isi":1,"doi":"10.1093/plcell/koab122","language":[{"iso":"eng"}]},{"oa_version":"Published Version","file":[{"file_id":"9691","relation":"main_file","success":1,"checksum":"6715712ec306c321f0204c817b7f8ae7","date_created":"2021-07-19T12:13:34Z","date_updated":"2021-07-19T12:13:34Z","access_level":"open_access","file_name":"2021_PlantCell_Gao.pdf","creator":"cziletti","content_type":"application/pdf","file_size":10566921}],"_id":"9657","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","title":"GmPIN-dependent polar auxin transport is involved in soybean nodule development","ddc":["580"],"intvolume":" 33","abstract":[{"text":"To overcome nitrogen deficiency, legume roots establish symbiotic interactions with nitrogen-fixing rhizobia that is fostered in specialized organs (nodules). Similar to other organs, nodule formation is determined by a local maximum of the phytohormone auxin at the primordium site. However, how auxin regulates nodule development remains poorly understood. Here, we found that in soybean, (Glycine max), dynamic auxin transport driven by PIN-FORMED (PIN) transporter GmPIN1 is involved in nodule primordium formation. GmPIN1 was specifically expressed in nodule primordium cells and GmPIN1 was polarly localized in these cells. Two nodulation regulators, (iso)flavonoids trigger expanded distribution of GmPIN1b to root cortical cells, and cytokinin rearranges GmPIN1b polarity. Gmpin1abc triple mutants generated with CRISPR-Cas9 showed impaired establishment of auxin maxima in nodule meristems and aberrant divisions in the nodule primordium cells. Moreover, overexpression of GmPIN1 suppressed nodule primordium initiation. GmPIN9d, an ortholog of Arabidopsis thaliana PIN2, acts together with GmPIN1 later in nodule development to acropetally transport auxin in vascular bundles, fine-tuning the auxin supply for nodule enlargement. Our findings reveal how PIN-dependent auxin transport modulates different aspects of soybean nodule development and suggest that establishment of auxin gradient is a prerequisite for the proper interaction between legumes and rhizobia.","lang":"eng"}],"issue":"9","type":"journal_article","date_published":"2021-07-07T00:00:00Z","publication":"Plant Cell","citation":{"mla":"Gao, Z., et al. “GmPIN-Dependent Polar Auxin Transport Is Involved in Soybean Nodule Development.” Plant Cell, vol. 33, no. 9, American Society of Plant Biologists, 2021, pp. 2981–3003, doi:10.1093/plcell/koab183.","short":"Z. Gao, Z. Chen, Y. Cui, M. Ke, H. Xu, Q. Xu, J. Chen, Y. Li, L. Huang, H. Zhao, D. Huang, S. Mai, T. Xu, X. Liu, S. Li, Y. Guan, W. Yang, J. Friml, J. Petrášek, J. Zhang, X. Chen, Plant Cell 33 (2021) 2981–3003.","chicago":"Gao, Z, Z Chen, Y Cui, M Ke, H Xu, Q Xu, J Chen, et al. “GmPIN-Dependent Polar Auxin Transport Is Involved in Soybean Nodule Development.” Plant Cell. American Society of Plant Biologists, 2021. https://doi.org/10.1093/plcell/koab183.","ama":"Gao Z, Chen Z, Cui Y, et al. GmPIN-dependent polar auxin transport is involved in soybean nodule development. Plant Cell. 2021;33(9):2981–3003. doi:10.1093/plcell/koab183","ista":"Gao Z, Chen Z, Cui Y, Ke M, Xu H, Xu Q, Chen J, Li Y, Huang L, Zhao H, Huang D, Mai S, Xu T, Liu X, Li S, Guan Y, Yang W, Friml J, Petrášek J, Zhang J, Chen X. 2021. GmPIN-dependent polar auxin transport is involved in soybean nodule development. Plant Cell. 33(9), 2981–3003.","ieee":"Z. Gao et al., “GmPIN-dependent polar auxin transport is involved in soybean nodule development,” Plant Cell, vol. 33, no. 9. American Society of Plant Biologists, pp. 2981–3003, 2021.","apa":"Gao, Z., Chen, Z., Cui, Y., Ke, M., Xu, H., Xu, Q., … Chen, X. (2021). GmPIN-dependent polar auxin transport is involved in soybean nodule development. Plant Cell. American Society of Plant Biologists. https://doi.org/10.1093/plcell/koab183"},"article_type":"original","page":"2981–3003","day":"07","has_accepted_license":"1","article_processing_charge":"No","author":[{"full_name":"Gao, Z","last_name":"Gao","first_name":"Z"},{"full_name":"Chen, Z","last_name":"Chen","first_name":"Z"},{"first_name":"Y","last_name":"Cui","full_name":"Cui, Y"},{"full_name":"Ke, M","first_name":"M","last_name":"Ke"},{"last_name":"Xu","first_name":"H","full_name":"Xu, H"},{"last_name":"Xu","first_name":"Q","full_name":"Xu, Q"},{"full_name":"Chen, J","first_name":"J","last_name":"Chen"},{"full_name":"Li, Y","first_name":"Y","last_name":"Li"},{"full_name":"Huang, L","last_name":"Huang","first_name":"L"},{"last_name":"Zhao","first_name":"H","full_name":"Zhao, H"},{"full_name":"Huang, D","last_name":"Huang","first_name":"D"},{"last_name":"Mai","first_name":"S","full_name":"Mai, S"},{"last_name":"Xu","first_name":"T","full_name":"Xu, T"},{"full_name":"Liu, X","last_name":"Liu","first_name":"X"},{"full_name":"Li, S","last_name":"Li","first_name":"S"},{"first_name":"Y","last_name":"Guan","full_name":"Guan, Y"},{"last_name":"Yang","first_name":"W","full_name":"Yang, W"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"first_name":"J","last_name":"Petrášek","full_name":"Petrášek, J"},{"full_name":"Zhang, J","first_name":"J","last_name":"Zhang"},{"last_name":"Chen","first_name":"X","full_name":"Chen, X"}],"date_updated":"2023-08-10T14:01:41Z","date_created":"2021-07-14T15:32:43Z","volume":33,"year":"2021","pmid":1,"publication_status":"published","publisher":"American Society of Plant Biologists","department":[{"_id":"JiFr"}],"file_date_updated":"2021-07-19T12:13:34Z","doi":"10.1093/plcell/koab183","language":[{"iso":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"external_id":{"pmid":["34240197"],"isi":["000702165300012"]},"isi":1,"quality_controlled":"1","month":"07","publication_identifier":{"eissn":["1532-298x"],"issn":["1040-4651"]}},{"type":"journal_article","issue":"2","abstract":[{"text":"Tropisms, growth responses to environmental stimuli such as light or gravity, are spectacular examples of adaptive plant development. The plant hormone auxin serves as a major coordinative signal. The PIN auxin exporters, through their dynamic polar subcellular localizations, redirect auxin fluxes in response to environmental stimuli and the resulting auxin gradients across organs underly differential cell elongation and bending. In this review, we discuss recent advances concerning regulations of PIN polarity during tropisms, focusing on PIN phosphorylation and trafficking. We also cover how environmental cues regulate PIN actions during tropisms, and a crucial role of auxin feedback on PIN polarity during bending termination. Finally, the interactions between different tropisms are reviewed to understand plant adaptive growth in the natural environment.","lang":"eng"}],"_id":"9656","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 232","ddc":["580"],"title":"PIN-mediated polar auxin transport regulations in plant tropic responses","status":"public","oa_version":"Published Version","file":[{"file_id":"10105","relation":"main_file","success":1,"checksum":"6422a6eb329b52d96279daaee0fcf189","date_updated":"2021-10-07T13:42:47Z","date_created":"2021-10-07T13:42:47Z","access_level":"open_access","file_name":"2021_NewPhytologist_Han.pdf","creator":"kschuh","file_size":1939800,"content_type":"application/pdf"}],"scopus_import":"1","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","day":"01","citation":{"short":"H. Han, M. Adamowski, L. Qi, S. Alotaibi, J. Friml, New Phytologist 232 (2021) 510–522.","mla":"Han, Huibin, et al. “PIN-Mediated Polar Auxin Transport Regulations in Plant Tropic Responses.” New Phytologist, vol. 232, no. 2, Wiley, 2021, pp. 510–22, doi:10.1111/nph.17617.","chicago":"Han, Huibin, Maciek Adamowski, Linlin Qi, SS Alotaibi, and Jiří Friml. “PIN-Mediated Polar Auxin Transport Regulations in Plant Tropic Responses.” New Phytologist. Wiley, 2021. https://doi.org/10.1111/nph.17617.","ama":"Han H, Adamowski M, Qi L, Alotaibi S, Friml J. PIN-mediated polar auxin transport regulations in plant tropic responses. New Phytologist. 2021;232(2):510-522. doi:10.1111/nph.17617","apa":"Han, H., Adamowski, M., Qi, L., Alotaibi, S., & Friml, J. (2021). PIN-mediated polar auxin transport regulations in plant tropic responses. New Phytologist. Wiley. https://doi.org/10.1111/nph.17617","ieee":"H. Han, M. Adamowski, L. Qi, S. Alotaibi, and J. Friml, “PIN-mediated polar auxin transport regulations in plant tropic responses,” New Phytologist, vol. 232, no. 2. Wiley, pp. 510–522, 2021.","ista":"Han H, Adamowski M, Qi L, Alotaibi S, Friml J. 2021. PIN-mediated polar auxin transport regulations in plant tropic responses. New Phytologist. 232(2), 510–522."},"publication":"New Phytologist","page":"510-522","article_type":"original","date_published":"2021-10-01T00:00:00Z","ec_funded":1,"file_date_updated":"2021-10-07T13:42:47Z","pmid":1,"acknowledgement":"We are grateful to Lukas Fiedler, Alexandra Mally (IST Austria) and Dr. Bartel Vanholme (VIB, Ghent) for their critical comments on the manuscript. We apologize to those researchers whose great work was not cited. This work is supported by the European Research Council under the European Union’s Horizon 2020 research and innovation Programme (ERC grant agreement number 742985), and the Austrian Science Fund (FWF, grant number I 3630-B25) to JF. HH is supported by the China Scholarship Council (CSC scholarship, 201506870018) and a starting grant from Jiangxi Agriculture University (9232308314).","year":"2021","publisher":"Wiley","department":[{"_id":"JiFr"}],"publication_status":"published","author":[{"full_name":"Han, Huibin","id":"31435098-F248-11E8-B48F-1D18A9856A87","last_name":"Han","first_name":"Huibin"},{"id":"45F536D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6463-5257","first_name":"Maciek","last_name":"Adamowski","full_name":"Adamowski, Maciek"},{"orcid":"0000-0001-5187-8401","id":"44B04502-A9ED-11E9-B6FC-583AE6697425","last_name":"Qi","first_name":"Linlin","full_name":"Qi, Linlin"},{"last_name":"Alotaibi","first_name":"SS","full_name":"Alotaibi, SS"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"}],"volume":232,"date_created":"2021-07-14T15:29:14Z","date_updated":"2023-08-10T14:02:41Z","publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646x"]},"month":"10","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000680587100001"],"pmid":["34254313"]},"project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF"}],"quality_controlled":"1","isi":1,"doi":"10.1111/nph.17617","language":[{"iso":"eng"}]},{"month":"07","publication_identifier":{"eissn":["20734425"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000690558000001"]},"isi":1,"quality_controlled":"1","doi":"10.3390/genes12081141","language":[{"iso":"eng"}],"article_number":"1141","file_date_updated":"2021-08-16T09:02:40Z","acknowledgement":"We thank S. Cutler (Riverside, USA) for providing the ABA biosynthesis mutants and ABA signaling mutants.","year":"2021","publication_status":"published","publisher":"MDPI","department":[{"_id":"JiFr"}],"author":[{"full_name":"Zeng, Yinwei","last_name":"Zeng","first_name":"Yinwei"},{"last_name":"Verstraeten","first_name":"Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","full_name":"Verstraeten, Inge"},{"full_name":"Trinh, Hoang Khai","last_name":"Trinh","first_name":"Hoang Khai"},{"full_name":"Heugebaert, Thomas","last_name":"Heugebaert","first_name":"Thomas"},{"full_name":"Stevens, Christian V.","first_name":"Christian V.","last_name":"Stevens"},{"last_name":"Garcia-Maquilon","first_name":"Irene","full_name":"Garcia-Maquilon, Irene"},{"full_name":"Rodriguez, Pedro L.","first_name":"Pedro L.","last_name":"Rodriguez"},{"first_name":"Steffen","last_name":"Vanneste","full_name":"Vanneste, Steffen"},{"last_name":"Geelen","first_name":"Danny","full_name":"Geelen, Danny"}],"date_created":"2021-08-15T22:01:28Z","date_updated":"2023-08-11T10:32:21Z","volume":12,"scopus_import":"1","day":"27","has_accepted_license":"1","article_processing_charge":"Yes","publication":"Genes","citation":{"ieee":"Y. Zeng et al., “Arabidopsis hypocotyl adventitious root formation is suppressed by ABA signaling,” Genes, vol. 12, no. 8. MDPI, 2021.","apa":"Zeng, Y., Verstraeten, I., Trinh, H. K., Heugebaert, T., Stevens, C. V., Garcia-Maquilon, I., … Geelen, D. (2021). Arabidopsis hypocotyl adventitious root formation is suppressed by ABA signaling. Genes. MDPI. https://doi.org/10.3390/genes12081141","ista":"Zeng Y, Verstraeten I, Trinh HK, Heugebaert T, Stevens CV, Garcia-Maquilon I, Rodriguez PL, Vanneste S, Geelen D. 2021. Arabidopsis hypocotyl adventitious root formation is suppressed by ABA signaling. Genes. 12(8), 1141.","ama":"Zeng Y, Verstraeten I, Trinh HK, et al. Arabidopsis hypocotyl adventitious root formation is suppressed by ABA signaling. Genes. 2021;12(8). doi:10.3390/genes12081141","chicago":"Zeng, Yinwei, Inge Verstraeten, Hoang Khai Trinh, Thomas Heugebaert, Christian V. Stevens, Irene Garcia-Maquilon, Pedro L. Rodriguez, Steffen Vanneste, and Danny Geelen. “Arabidopsis Hypocotyl Adventitious Root Formation Is Suppressed by ABA Signaling.” Genes. MDPI, 2021. https://doi.org/10.3390/genes12081141.","short":"Y. Zeng, I. Verstraeten, H.K. Trinh, T. Heugebaert, C.V. Stevens, I. Garcia-Maquilon, P.L. Rodriguez, S. Vanneste, D. Geelen, Genes 12 (2021).","mla":"Zeng, Yinwei, et al. “Arabidopsis Hypocotyl Adventitious Root Formation Is Suppressed by ABA Signaling.” Genes, vol. 12, no. 8, 1141, MDPI, 2021, doi:10.3390/genes12081141."},"article_type":"original","date_published":"2021-07-27T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"Roots are composed of different root types and, in the dicotyledonous Arabidopsis, typically consist of a primary root that branches into lateral roots. Adventitious roots emerge from non-root tissue and are formed upon wounding or other types of abiotic stress. Here, we investigated adventitious root (AR) formation in Arabidopsis hypocotyls under conditions of altered abscisic acid (ABA) signaling. Exogenously applied ABA suppressed AR formation at 0.25 µM or higher doses. AR formation was less sensitive to the synthetic ABA analog pyrabactin (PB). However, PB was a more potent inhibitor at concentrations above 1 µM, suggesting that it was more selective in triggering a root inhibition response. Analysis of a series of phosphonamide and phosphonate pyrabactin analogs suggested that adventitious root formation and lateral root branching are differentially regulated by ABA signaling. ABA biosynthesis and signaling mutants affirmed a general inhibitory role of ABA and point to PYL1 and PYL2 as candidate ABA receptors that regulate AR inhibition."}],"issue":"8","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"9909","title":"Arabidopsis hypocotyl adventitious root formation is suppressed by ABA signaling","ddc":["580","570"],"status":"public","intvolume":" 12","file":[{"date_updated":"2021-08-16T09:02:40Z","date_created":"2021-08-16T09:02:40Z","success":1,"checksum":"3d99535618cf9a5b14d264408fa52e97","file_id":"9919","relation":"main_file","creator":"asandaue","content_type":"application/pdf","file_size":1340305,"file_name":"2021_Genes_Zeng.pdf","access_level":"open_access"}],"oa_version":"Published Version"},{"day":"05","article_processing_charge":"No","scopus_import":"1","date_published":"2021-11-05T00:00:00Z","publication":"New Phytologist","citation":{"short":"I. Kashkan, M. Hrtyan, K. Retzer, J. Humpolíčková, A. Jayasree, R. Filepová, Z. Vondráková, S. Simon, D. Rombaut, T.B. Jacobs, M.J. Frilander, J. Hejátko, J. Friml, J. Petrášek, K. Růžička, New Phytologist 233 (2021) 329–343.","mla":"Kashkan, Ivan, et al. “Mutually Opposing Activity of PIN7 Splicing Isoforms Is Required for Auxin-Mediated Tropic Responses in Arabidopsis Thaliana.” New Phytologist, vol. 233, Wiley, 2021, pp. 329–43, doi:10.1111/nph.17792.","chicago":"Kashkan, Ivan, Mónika Hrtyan, Katarzyna Retzer, Jana Humpolíčková, Aswathy Jayasree, Roberta Filepová, Zuzana Vondráková, et al. “Mutually Opposing Activity of PIN7 Splicing Isoforms Is Required for Auxin-Mediated Tropic Responses in Arabidopsis Thaliana.” New Phytologist. Wiley, 2021. https://doi.org/10.1111/nph.17792.","ama":"Kashkan I, Hrtyan M, Retzer K, et al. Mutually opposing activity of PIN7 splicing isoforms is required for auxin-mediated tropic responses in Arabidopsis thaliana. New Phytologist. 2021;233:329-343. doi:10.1111/nph.17792","ieee":"I. Kashkan et al., “Mutually opposing activity of PIN7 splicing isoforms is required for auxin-mediated tropic responses in Arabidopsis thaliana,” New Phytologist, vol. 233. Wiley, pp. 329–343, 2021.","apa":"Kashkan, I., Hrtyan, M., Retzer, K., Humpolíčková, J., Jayasree, A., Filepová, R., … Růžička, K. (2021). Mutually opposing activity of PIN7 splicing isoforms is required for auxin-mediated tropic responses in Arabidopsis thaliana. New Phytologist. Wiley. https://doi.org/10.1111/nph.17792","ista":"Kashkan I, Hrtyan M, Retzer K, Humpolíčková J, Jayasree A, Filepová R, Vondráková Z, Simon S, Rombaut D, Jacobs TB, Frilander MJ, Hejátko J, Friml J, Petrášek J, Růžička K. 2021. Mutually opposing activity of PIN7 splicing isoforms is required for auxin-mediated tropic responses in Arabidopsis thaliana. New Phytologist. 233, 329–343."},"article_type":"original","page":"329-343","abstract":[{"lang":"eng","text":"Advanced transcriptome sequencing has revealed that the majority of eukaryotic genes undergo alternative splicing (AS). Nonetheless, little effort has been dedicated to investigating the functional relevance of particular splicing events, even those in the key developmental and hormonal regulators. Combining approaches of genetics, biochemistry and advanced confocal microscopy, we describe the impact of alternative splicing on the PIN7 gene in the model plant Arabidopsis thaliana. PIN7 encodes a polarly localized transporter for the phytohormone auxin and produces two evolutionarily conserved transcripts, PIN7a and PIN7b. PIN7a and PIN7b, differing in a four amino acid stretch, exhibit almost identical expression patterns and subcellular localization. We reveal that they are closely associated and mutually influence each other's mobility within the plasma membrane. Phenotypic complementation tests indicate that the functional contribution of PIN7b per se is minor, but it markedly reduces the prominent PIN7a activity, which is required for correct seedling apical hook formation and auxin-mediated tropic responses. Our results establish alternative splicing of the PIN family as a conserved, functionally relevant mechanism, revealing an additional regulatory level of auxin-mediated plant development."}],"type":"journal_article","oa_version":"Preprint","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"10282","status":"public","title":"Mutually opposing activity of PIN7 splicing isoforms is required for auxin-mediated tropic responses in Arabidopsis thaliana","intvolume":" 233","month":"11","publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646X"]},"doi":"10.1111/nph.17792","language":[{"iso":"eng"}],"oa":1,"main_file_link":[{"url":"https://www.biorxiv.org/content/10.1101/2020.05.02.074070v2","open_access":"1"}],"external_id":{"pmid":["34637542"],"isi":["000714678100001"]},"quality_controlled":"1","isi":1,"author":[{"full_name":"Kashkan, Ivan","first_name":"Ivan","last_name":"Kashkan"},{"id":"45A71A74-F248-11E8-B48F-1D18A9856A87","last_name":"Hrtyan","first_name":"Mónika","full_name":"Hrtyan, Mónika"},{"full_name":"Retzer, Katarzyna","last_name":"Retzer","first_name":"Katarzyna"},{"first_name":"Jana","last_name":"Humpolíčková","full_name":"Humpolíčková, Jana"},{"full_name":"Jayasree, Aswathy","first_name":"Aswathy","last_name":"Jayasree"},{"full_name":"Filepová, Roberta","last_name":"Filepová","first_name":"Roberta"},{"full_name":"Vondráková, Zuzana","last_name":"Vondráková","first_name":"Zuzana"},{"full_name":"Simon, Sibu","orcid":"0000-0002-1998-6741","id":"4542EF9A-F248-11E8-B48F-1D18A9856A87","last_name":"Simon","first_name":"Sibu"},{"first_name":"Debbie","last_name":"Rombaut","full_name":"Rombaut, Debbie"},{"last_name":"Jacobs","first_name":"Thomas B.","full_name":"Jacobs, Thomas B."},{"full_name":"Frilander, Mikko J.","first_name":"Mikko J.","last_name":"Frilander"},{"last_name":"Hejátko","first_name":"Jan","full_name":"Hejátko, Jan"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"last_name":"Petrášek","first_name":"Jan","full_name":"Petrášek, Jan"},{"first_name":"Kamil","last_name":"Růžička","full_name":"Růžička, Kamil"}],"date_updated":"2023-08-14T11:46:43Z","date_created":"2021-11-14T23:01:24Z","volume":233,"year":"2021","acknowledgement":"We thank Claus Schwechheimer for the pin34 and pin347 seeds, Yuliia Mironova for technical assistance, Ksenia Timofeyenko and Dmitry Konovalov for help with the evolutional analysis, Konstantin Kutashev and Siarhei Dabravolski for assistance with FRET-FLIM, Huibin Han for advice with hypocotyl imaging, Karel Müller for the initial qRT-PCR on the tobacco cell lines, Stano Pekár for suggestions regarding the statistical analysis of the morphodynamic measurements, and Jozef Mravec, Dolf Weijers and Lindy Abas for their comments on the manuscript. This work was supported by the Czech Science Foundation (projects 16-26428S and 19-23773S to IK, MH and KRůžička, 19-18917S to JHumpolíčková and 18-26981S to JF), and the Ministry of Education, Youth and Sports of the Czech Republic (MEYS, CZ.02.1.01/0.0/0.0/16_019/0000738) to KRůžička and JHejátko. The imaging facilities of the Institute of Experimental Botany and CEITEC are supported by MEYS (LM2018129 – Czech BioImaging and CZ.02.1.01/0.0/0.0/16_013/0001775). The authors declare no competing interests.","pmid":1,"publication_status":"published","publisher":"Wiley","department":[{"_id":"JiFr"}]},{"month":"11","publication_identifier":{"eissn":["2055-0278"]},"doi":"10.1038/s41477-021-01011-y","language":[{"iso":"eng"}],"external_id":{"isi":["000717408000002"],"pmid":["34764442"]},"isi":1,"quality_controlled":"1","author":[{"full_name":"Xu, Enjun","first_name":"Enjun","last_name":"Xu"},{"last_name":"Chai","first_name":"Liang","full_name":"Chai, Liang"},{"full_name":"Zhang, Shiqi","last_name":"Zhang","first_name":"Shiqi"},{"full_name":"Yu, Ruixue","last_name":"Yu","first_name":"Ruixue"},{"full_name":"Zhang, Xixi","last_name":"Zhang","first_name":"Xixi","orcid":"0000-0001-7048-4627","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A"},{"last_name":"Xu","first_name":"Chongyi","full_name":"Xu, Chongyi"},{"full_name":"Hu, Yuxin","last_name":"Hu","first_name":"Yuxin"}],"date_created":"2021-11-21T23:01:30Z","date_updated":"2023-08-14T11:54:02Z","volume":7,"year":"2021","acknowledgement":"We thank J. Li (Institute of Genetics and Developmental Biology, China) for providing the at14-1, atmax2-1, atmax3-9, atmax4-1, atmax1-1, kai2-2 (Col-0 background) mutants and B. Xu for providing the complementary DNA of P. patens. We are grateful to L. Wang for assistance with MST, B. Han for assistance with UPLC–MS, J. Li for assistance with confocal microscopy and B. Mikael and J. Zhang for their comments on the manuscript. This work was supported by grants from Strategic Priority Research Program of Chinese Academy of Sciences (Y.H., XDB27030102) and the National Natural Science Foundation of China (E.X., 31700253; Y.H., 31830055).","pmid":1,"publication_status":"published","publisher":"Springer Nature","department":[{"_id":"JiFr"}],"day":"11","article_processing_charge":"No","scopus_import":"1","date_published":"2021-11-11T00:00:00Z","publication":"Nature Plants","citation":{"mla":"Xu, Enjun, et al. “Catabolism of Strigolactones by a Carboxylesterase.” Nature Plants, vol. 7, Springer Nature, 2021, pp. 1495–1504, doi:10.1038/s41477-021-01011-y.","short":"E. Xu, L. Chai, S. Zhang, R. Yu, X. Zhang, C. Xu, Y. Hu, Nature Plants 7 (2021) 1495–1504.","chicago":"Xu, Enjun, Liang Chai, Shiqi Zhang, Ruixue Yu, Xixi Zhang, Chongyi Xu, and Yuxin Hu. “Catabolism of Strigolactones by a Carboxylesterase.” Nature Plants. Springer Nature, 2021. https://doi.org/10.1038/s41477-021-01011-y.","ama":"Xu E, Chai L, Zhang S, et al. Catabolism of strigolactones by a carboxylesterase. Nature Plants. 2021;7:1495–1504. doi:10.1038/s41477-021-01011-y","ista":"Xu E, Chai L, Zhang S, Yu R, Zhang X, Xu C, Hu Y. 2021. Catabolism of strigolactones by a carboxylesterase. Nature Plants. 7, 1495–1504.","ieee":"E. Xu et al., “Catabolism of strigolactones by a carboxylesterase,” Nature Plants, vol. 7. Springer Nature, pp. 1495–1504, 2021.","apa":"Xu, E., Chai, L., Zhang, S., Yu, R., Zhang, X., Xu, C., & Hu, Y. (2021). Catabolism of strigolactones by a carboxylesterase. Nature Plants. Springer Nature. https://doi.org/10.1038/s41477-021-01011-y"},"article_type":"original","page":"1495–1504 ","abstract":[{"text":"Strigolactones (SLs) are carotenoid-derived plant hormones that control shoot branching and communications between host plants and symbiotic fungi or root parasitic plants. Extensive studies have identified the key components participating in SL biosynthesis and signalling, whereas the catabolism or deactivation of endogenous SLs in planta remains largely unknown. Here, we report that the Arabidopsis carboxylesterase 15 (AtCXE15) and its orthologues function as efficient hydrolases of SLs. We show that overexpression of AtCXE15 promotes shoot branching by dampening SL-inhibited axillary bud outgrowth. We further demonstrate that AtCXE15 could bind and efficiently hydrolyse SLs both in vitro and in planta. We also provide evidence that AtCXE15 is capable of catalysing hydrolysis of diverse SL analogues and that such CXE15-dependent catabolism of SLs is evolutionarily conserved in seed plants. These results disclose a catalytic mechanism underlying homoeostatic regulation of SLs in plants, which also provides a rational approach to spatial-temporally manipulate the endogenous SLs and thus architecture of crops and ornamental plants.","lang":"eng"}],"type":"journal_article","oa_version":"None","_id":"10326","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Catabolism of strigolactones by a carboxylesterase","status":"public","intvolume":" 7"},{"type":"journal_article","abstract":[{"text":"The quality control system for messenger RNA (mRNA) is fundamental for cellular activities in eukaryotes. To elucidate the molecular mechanism of 3'-Phosphoinositide-Dependent Protein Kinase1 (PDK1), a master regulator that is essential throughout eukaryotic growth and development, we employed a forward genetic approach to screen for suppressors of the loss-of-function T-DNA insertion double mutant pdk1.1 pdk1.2 in Arabidopsis thaliana. Notably, the severe growth attenuation of pdk1.1 pdk1.2 was rescued by sop21 (suppressor of pdk1.1 pdk1.2), which harbours a loss-of-function mutation in PELOTA1 (PEL1). PEL1 is a homologue of mammalian PELOTA and yeast (Saccharomyces cerevisiae) DOM34p, which each form a heterodimeric complex with the GTPase HBS1 (HSP70 SUBFAMILY B SUPPRESSOR1, also called SUPERKILLER PROTEIN7, SKI7), a protein that is responsible for ribosomal rescue and thereby assures the quality and fidelity of mRNA molecules during translation. Genetic analysis further revealed that a dysfunctional PEL1-HBS1 complex failed to degrade the T-DNA-disrupted PDK1 transcripts, which were truncated but functional, and thus rescued the growth and developmental defects of pdk1.1 pdk1.2. Our studies demonstrated the functionality of a homologous PELOTA-HBS1 complex and identified its essential regulatory role in plants, providing insights into the mechanism of mRNA quality control.","lang":"eng"}],"issue":"4","_id":"9368","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","title":"mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth","intvolume":" 186","oa_version":"Published Version","day":"30","article_processing_charge":"No","publication":"Plant Physiology","citation":{"ieee":"W. Kong et al., “mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth,” Plant Physiology, vol. 186, no. 4. American Society of Plant Biologists, pp. 2003–2020, 2021.","apa":"Kong, W., Tan, S., Zhao, Q., Lin, D., Xu, Z., Friml, J., & Xue, H. (2021). mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth. Plant Physiology. American Society of Plant Biologists. https://doi.org/10.1093/plphys/kiab199","ista":"Kong W, Tan S, Zhao Q, Lin D, Xu Z, Friml J, Xue H. 2021. mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth. Plant Physiology. 186(4), 2003–2020.","ama":"Kong W, Tan S, Zhao Q, et al. mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth. Plant Physiology. 2021;186(4):2003-2020. doi:10.1093/plphys/kiab199","chicago":"Kong, W, Shutang Tan, Q Zhao, DL Lin, ZH Xu, Jiří Friml, and HW Xue. “MRNA Surveillance Complex PELOTA-HBS1 Eegulates Phosphoinositide-Sependent Protein Kinase1 and Plant Growth.” Plant Physiology. American Society of Plant Biologists, 2021. https://doi.org/10.1093/plphys/kiab199.","short":"W. Kong, S. Tan, Q. Zhao, D. Lin, Z. Xu, J. Friml, H. Xue, Plant Physiology 186 (2021) 2003–2020.","mla":"Kong, W., et al. “MRNA Surveillance Complex PELOTA-HBS1 Eegulates Phosphoinositide-Sependent Protein Kinase1 and Plant Growth.” Plant Physiology, vol. 186, no. 4, American Society of Plant Biologists, 2021, pp. 2003–20, doi:10.1093/plphys/kiab199."},"article_type":"original","page":"2003-2020","date_published":"2021-04-30T00:00:00Z","year":"2021","acknowledgement":"We gratefully acknowledge the Arabidopsis Biological Resource Centre (ABRC) for providing T-DNA insertional mutants, and Prof. Remko Offringa for sharing published seeds. We thank Yuchuan Liu (Shanghai OE Biotech Co., Ltd) for help with proteomics data analysis, Xixi Zhang (IST Austria) for providing the pDONR-P4P1r-mCherry plasmid, and Yao Xiao (Technical University of Munich), Alexander Johnson (IST Austria) and Hana Semeradova (IST Austria) for helpful discussions. The study was supported by National Natural Science Foundation of China (NSFC, 31721001, 91954206, to H.-W. X.), “Ten-Thousand Talent Program” (to H.-W. X.) and Collaborative Innovation Center of Crop Stress Biology, Henan Province, and Austrian Science Fund (FWF): I 3630-B25 (to J. F.). S.T. was funded by a European Molecular Biology Organization (EMBO) long-term postdoctoral fellowship (ALTF 723-2015).","pmid":1,"publication_status":"published","publisher":"American Society of Plant Biologists","department":[{"_id":"JiFr"}],"author":[{"full_name":"Kong, W","last_name":"Kong","first_name":"W"},{"full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","last_name":"Tan","first_name":"Shutang"},{"full_name":"Zhao, Q","first_name":"Q","last_name":"Zhao"},{"first_name":"DL","last_name":"Lin","full_name":"Lin, DL"},{"full_name":"Xu, ZH","first_name":"ZH","last_name":"Xu"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"last_name":"Xue","first_name":"HW","full_name":"Xue, HW"}],"date_updated":"2023-09-05T12:20:27Z","date_created":"2021-05-03T13:28:20Z","volume":186,"month":"04","publication_identifier":{"eissn":["1532-2548"],"issn":["0032-0889"]},"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"external_id":{"pmid":["33930167"],"isi":["000703922000025"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1093/plphys/kiab199"}],"oa":1,"quality_controlled":"1","isi":1,"project":[{"grant_number":"723-2015","_id":"256FEF10-B435-11E9-9278-68D0E5697425","name":"Long Term Fellowship"},{"grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF"}],"doi":"10.1093/plphys/kiab199","language":[{"iso":"eng"}]},{"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"9290","intvolume":" 31","status":"public","title":"AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells","ddc":["580"],"oa_version":"Published Version","file":[{"file_name":"2021_CurrentBiology_Glanc.pdf","access_level":"open_access","creator":"dernst","file_size":4324371,"content_type":"application/pdf","file_id":"9303","relation":"main_file","date_updated":"2021-04-01T10:53:42Z","date_created":"2021-04-01T10:53:42Z","success":1,"checksum":"b1723040ecfd8c81194185472eb62546"}],"type":"journal_article","issue":"9","abstract":[{"lang":"eng","text":"Polar subcellular localization of the PIN exporters of the phytohormone auxin is a key determinant of directional, intercellular auxin transport and thus a central topic of both plant cell and developmental biology. Arabidopsis mutants lacking PID, a kinase that phosphorylates PINs, or the MAB4/MEL proteins of unknown molecular function display PIN polarity defects and phenocopy pin mutants, but mechanistic insights into how these factors convey PIN polarity are missing. Here, by combining protein biochemistry with quantitative live-cell imaging, we demonstrate that PINs, MAB4/MELs, and AGC kinases interact in the same complex at the plasma membrane. MAB4/MELs are recruited to the plasma membrane by the PINs and in concert with the AGC kinases maintain PIN polarity through limiting lateral diffusion-based escape of PINs from the polar domain. The PIN-MAB4/MEL-PID protein complex has self-reinforcing properties thanks to positive feedback between AGC kinase-mediated PIN phosphorylation and MAB4/MEL recruitment. We thus uncover the molecular mechanism by which AGC kinases and MAB4/MEL proteins regulate PIN localization and plant development."}],"citation":{"short":"M. Glanc, K. Van Gelderen, L. Hörmayer, S. Tan, S. Naramoto, X. Zhang, D. Domjan, L. Vcelarova, R. Hauschild, A.J. Johnson, E. de Koning, M. van Dop, E. Rademacher, S. Janson, X. Wei, G. Molnar, M. Fendrych, B. De Rybel, R. Offringa, J. Friml, Current Biology 31 (2021) 1918–1930.","mla":"Glanc, Matous, et al. “AGC Kinases and MAB4/MEL Proteins Maintain PIN Polarity by Limiting Lateral Diffusion in Plant Cells.” Current Biology, vol. 31, no. 9, Elsevier, 2021, pp. 1918–30, doi:10.1016/j.cub.2021.02.028.","chicago":"Glanc, Matous, K Van Gelderen, Lukas Hörmayer, Shutang Tan, S Naramoto, Xixi Zhang, David Domjan, et al. “AGC Kinases and MAB4/MEL Proteins Maintain PIN Polarity by Limiting Lateral Diffusion in Plant Cells.” Current Biology. Elsevier, 2021. https://doi.org/10.1016/j.cub.2021.02.028.","ama":"Glanc M, Van Gelderen K, Hörmayer L, et al. AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. Current Biology. 2021;31(9):1918-1930. doi:10.1016/j.cub.2021.02.028","apa":"Glanc, M., Van Gelderen, K., Hörmayer, L., Tan, S., Naramoto, S., Zhang, X., … Friml, J. (2021). AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2021.02.028","ieee":"M. Glanc et al., “AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells,” Current Biology, vol. 31, no. 9. Elsevier, pp. 1918–1930, 2021.","ista":"Glanc M, Van Gelderen K, Hörmayer L, Tan S, Naramoto S, Zhang X, Domjan D, Vcelarova L, Hauschild R, Johnson AJ, de Koning E, van Dop M, Rademacher E, Janson S, Wei X, Molnar G, Fendrych M, De Rybel B, Offringa R, Friml J. 2021. AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. Current Biology. 31(9), 1918–1930."},"publication":"Current Biology","page":"1918-1930","article_type":"original","date_published":"2021-03-10T00:00:00Z","has_accepted_license":"1","article_processing_charge":"No","day":"10","pmid":1,"acknowledgement":"We acknowledge Ben Scheres, Christian Luschnig, and Claus Schwechheimer for sharing published material. We thank Monika Hrtyan and Dorota Jaworska at IST Austria and Gerda Lamers and Ward de Winter at IBL Netherlands for technical assistance; Corinna Hartinger, Jakub Hajný, Lesia Rodriguez, Mingyue Li, and Lindy Abas for experimental support; and the Bioimaging Facility at IST Austria and the Bioimaging Core at VIB for imaging support. We are grateful to Christian Luschnig, Lindy Abas, and Roman Pleskot for valuable discussions. We also acknowledge the EMBO for supporting M.G. with a long-term fellowship ( ALTF 1005-2019 ) during the finalization and revision of this manuscript in the laboratory of B.D.R., and we thank R. Pierik for allowing K.V.G. to work on this manuscript during a postdoc in his laboratory at Utrecht University. This work was supported by grants from the European Research Council under the European Union’s Seventh Framework Programme (ERC grant agreements 742985 to J.F., 714055 to B.D.R., and 803048 to M.F.), the Austrian Science Fund (FWF; I 3630-B25 to J.F.), Chemical Sciences (partly) financed by the Dutch Research Council (NWO-CW TOP 700.58.301 to R.O.), the Dutch Research Council (NWO-VICI 865.17.002 to R. Pierik), Grants-in-Aid from the Ministry of Education, Culture, Sports, Science and Technology, Japan (KAKENHI grant 17K17595 to S.N.), the Ministry of Education, Youth and Sports of the Czech Republic (MŠMT project NPUI-LO1417 ), and a China Scholarship Council (to X.W.).","year":"2021","department":[{"_id":"JiFr"}],"publisher":"Elsevier","publication_status":"published","author":[{"full_name":"Glanc, Matous","last_name":"Glanc","first_name":"Matous","orcid":"0000-0003-0619-7783","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2"},{"full_name":"Van Gelderen, K","first_name":"K","last_name":"Van Gelderen"},{"full_name":"Hörmayer, Lukas","orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","last_name":"Hörmayer","first_name":"Lukas"},{"full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","last_name":"Tan","first_name":"Shutang"},{"full_name":"Naramoto, S","first_name":"S","last_name":"Naramoto"},{"full_name":"Zhang, Xixi","last_name":"Zhang","first_name":"Xixi","orcid":"0000-0001-7048-4627","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A"},{"orcid":"0000-0003-2267-106X","id":"C684CD7A-257E-11EA-9B6F-D8588B4F947F","last_name":"Domjan","first_name":"David","full_name":"Domjan, David"},{"last_name":"Vcelarova","first_name":"L","full_name":"Vcelarova, L"},{"last_name":"Hauschild","first_name":"Robert","orcid":"0000-0001-9843-3522","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","full_name":"Hauschild, Robert"},{"full_name":"Johnson, Alexander J","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","first_name":"Alexander J","last_name":"Johnson"},{"full_name":"de Koning, E","last_name":"de Koning","first_name":"E"},{"last_name":"van Dop","first_name":"M","full_name":"van Dop, M"},{"full_name":"Rademacher, E","first_name":"E","last_name":"Rademacher"},{"full_name":"Janson, S","last_name":"Janson","first_name":"S"},{"full_name":"Wei, X","first_name":"X","last_name":"Wei"},{"full_name":"Molnar, Gergely","last_name":"Molnar","first_name":"Gergely","id":"34F1AF46-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Fendrych, Matyas","last_name":"Fendrych","first_name":"Matyas","orcid":"0000-0002-9767-8699","id":"43905548-F248-11E8-B48F-1D18A9856A87"},{"full_name":"De Rybel, B","last_name":"De Rybel","first_name":"B"},{"full_name":"Offringa, R","first_name":"R","last_name":"Offringa"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"}],"volume":31,"date_created":"2021-03-26T12:09:33Z","date_updated":"2023-09-05T13:03:34Z","ec_funded":1,"file_date_updated":"2021-04-01T10:53:42Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"pmid":["33705718"],"isi":["000653077800004"]},"project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"},{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","isi":1,"doi":"10.1016/j.cub.2021.02.028","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"}],"publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"month":"03"},{"language":[{"iso":"eng"}],"doi":"10.1016/j.cub.2020.10.011","quality_controlled":"1","isi":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["33157019"],"isi":["000614361000039"]},"oa":1,"publication_identifier":{"issn":["0960-9822"],"eissn":["1879-0445"]},"month":"01","volume":31,"date_updated":"2023-09-05T13:03:15Z","date_created":"2020-12-01T13:39:46Z","author":[{"last_name":"Marquès-Bueno","first_name":"MM","full_name":"Marquès-Bueno, MM"},{"full_name":"Armengot, L","last_name":"Armengot","first_name":"L"},{"last_name":"Noack","first_name":"LC","full_name":"Noack, LC"},{"full_name":"Bareille, J","first_name":"J","last_name":"Bareille"},{"full_name":"Rodriguez Solovey, Lesia","last_name":"Rodriguez Solovey","first_name":"Lesia","orcid":"0000-0002-7244-7237","id":"3922B506-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Platre","first_name":"MP","full_name":"Platre, MP"},{"first_name":"V","last_name":"Bayle","full_name":"Bayle, V"},{"full_name":"Liu, M","last_name":"Liu","first_name":"M"},{"last_name":"Opdenacker","first_name":"D","full_name":"Opdenacker, D"},{"full_name":"Vanneste, S","first_name":"S","last_name":"Vanneste"},{"full_name":"Möller, BK","last_name":"Möller","first_name":"BK"},{"full_name":"Nimchuk, ZL","first_name":"ZL","last_name":"Nimchuk"},{"full_name":"Beeckman, T","last_name":"Beeckman","first_name":"T"},{"first_name":"AI","last_name":"Caño-Delgado","full_name":"Caño-Delgado, AI"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"},{"full_name":"Jaillais, Y","first_name":"Y","last_name":"Jaillais"}],"department":[{"_id":"JiFr"}],"publisher":"Elsevier","publication_status":"published","pmid":1,"acknowledgement":"We thank the SiCE group for discussions and comments; S. Yalovsky, B. Scheres, and the NASC/ABRC collection for providing transgenic Arabidopsis lines and plasmids; L. Kalmbach and M. Barberon for the gift of pLOK180_pFR7m34GW; A. Lacroix, J. Berger, and P. Bolland for plant care; and M. Fendrych for help with microfluidics in the J.F. lab. We acknowledge\r\nthe contribution of the SFR Biosciences (UMS3444/CNRS, US8/Inser m, ENS de Lyon, UCBL) facilities: C. Lionet, E. Chatre, and J. Brocard at LBIPLATIM-MICROSCOPY for assistance with imaging, and V. GuegenChaignon and A. Page at the Protein Science Facility (PSF) for assistance with protein purification and mass spectrometry. Y.J. was funded by ERC\r\ngrant 3363360-APPL under FP/2007–2013. Y.J. and Z.L.N. were funded by an ANR- and NSF-supported ERA-CAPS project (SICOPID: ANR-17-CAPS0003-01/NSF PGRP IOS-1841917). A.I.C.-D. is funded by an ERC consolidator grant (ERC-2015-CoG–683163) and BIO2016-78955 grant from the Spanish Ministry of Economy and Competitiveness. Exchanges between the Y.J. and T.B. laboratories were funded by Tournesol grant 35656NB. B.K.M. was\r\nfunded by the Omics@vib Marie Curie COFUND and Research Foundation Flanders for a postdoctoral fellowship.","year":"2021","file_date_updated":"2021-02-04T11:37:50Z","date_published":"2021-01-11T00:00:00Z","article_type":"original","citation":{"ama":"Marquès-Bueno M, Armengot L, Noack L, et al. Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. Current Biology. 2021;31(1). doi:10.1016/j.cub.2020.10.011","apa":"Marquès-Bueno, M., Armengot, L., Noack, L., Bareille, J., Rodriguez Solovey, L., Platre, M., … Jaillais, Y. (2021). Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2020.10.011","ieee":"M. Marquès-Bueno et al., “Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism,” Current Biology, vol. 31, no. 1. Elsevier, 2021.","ista":"Marquès-Bueno M, Armengot L, Noack L, Bareille J, Rodriguez Solovey L, Platre M, Bayle V, Liu M, Opdenacker D, Vanneste S, Möller B, Nimchuk Z, Beeckman T, Caño-Delgado A, Friml J, Jaillais Y. 2021. Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. Current Biology. 31(1).","short":"M. Marquès-Bueno, L. Armengot, L. Noack, J. Bareille, L. Rodriguez Solovey, M. Platre, V. Bayle, M. Liu, D. Opdenacker, S. Vanneste, B. Möller, Z. Nimchuk, T. Beeckman, A. Caño-Delgado, J. Friml, Y. Jaillais, Current Biology 31 (2021).","mla":"Marquès-Bueno, MM, et al. “Auxin-Regulated Reversible Inhibition of TMK1 Signaling by MAKR2 Modulates the Dynamics of Root Gravitropism.” Current Biology, vol. 31, no. 1, Elsevier, 2021, doi:10.1016/j.cub.2020.10.011.","chicago":"Marquès-Bueno, MM, L Armengot, LC Noack, J Bareille, Lesia Rodriguez Solovey, MP Platre, V Bayle, et al. “Auxin-Regulated Reversible Inhibition of TMK1 Signaling by MAKR2 Modulates the Dynamics of Root Gravitropism.” Current Biology. Elsevier, 2021. https://doi.org/10.1016/j.cub.2020.10.011."},"publication":"Current Biology","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","day":"11","oa_version":"Published Version","file":[{"file_id":"9090","relation":"main_file","date_updated":"2021-02-04T11:37:50Z","date_created":"2021-02-04T11:37:50Z","success":1,"checksum":"30b3393d841fb2b1e2b22fb42b5c8fff","file_name":"2021_CurrentBiology_MarquesBueno.pdf","access_level":"open_access","creator":"dernst","content_type":"application/pdf","file_size":3458646}],"intvolume":" 31","title":"Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism","status":"public","ddc":["570"],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8824","issue":"1","abstract":[{"lang":"eng","text":"Plants are able to orient their growth according to gravity, which ultimately controls both shoot and root architecture.1 Gravitropism is a dynamic process whereby gravistimulation induces the asymmetric distribution of the plant hormone auxin, leading to asymmetric growth, organ bending, and subsequent reset of auxin distribution back to the original pre-gravistimulation situation.1, 2, 3 Differential auxin accumulation during the gravitropic response depends on the activity of polarly localized PIN-FORMED (PIN) auxin-efflux carriers.1, 2, 3, 4 In particular, the timing of this dynamic response is regulated by PIN2,5,6 but the underlying molecular mechanisms are poorly understood. Here, we show that MEMBRANE ASSOCIATED KINASE REGULATOR2 (MAKR2) controls the pace of the root gravitropic response. We found that MAKR2 is required for the PIN2 asymmetry during gravitropism by acting as a negative regulator of the cell-surface signaling mediated by the receptor-like kinase TRANSMEMBRANE KINASE1 (TMK1).2,7, 8, 9, 10 Furthermore, we show that the MAKR2 inhibitory effect on TMK1 signaling is antagonized by auxin itself, which triggers rapid MAKR2 membrane dissociation in a TMK1-dependent manner. Our findings suggest that the timing of the root gravitropic response is orchestrated by the reversible inhibition of the TMK1 signaling pathway at the cell surface."}],"type":"journal_article"},{"type":"journal_article","abstract":[{"lang":"eng","text":"• The phenylpropanoid pathway serves a central role in plant metabolism, providing numerous compounds involved in diverse physiological processes. Most carbon entering the pathway is incorporated into lignin. Although several phenylpropanoid pathway mutants show seedling growth arrest, the role for lignin in seedling growth and development is unexplored.\r\n• We use complementary pharmacological and genetic approaches to block CINNAMATE‐4‐HYDROXYLASE (C4H) functionality in Arabidopsis seedlings and a set of molecular and biochemical techniques to investigate the underlying phenotypes.\r\n• Blocking C4H resulted in reduced lateral rooting and increased adventitious rooting apically in the hypocotyl. These phenotypes coincided with an inhibition in auxin transport. The upstream accumulation in cis‐cinnamic acid was found to likely cause polar auxin transport inhibition. Conversely, a downstream depletion in lignin perturbed phloem‐mediated auxin transport. Restoring lignin deposition effectively reestablished phloem transport and, accordingly, auxin homeostasis.\r\n• Our results show that the accumulation of bioactive intermediates and depletion in lignin jointly cause the aberrant phenotypes upon blocking C4H, and demonstrate that proper deposition of lignin is essential for the establishment of auxin distribution in seedlings. Our data position the phenylpropanoid pathway and lignin in a new physiological framework, consolidating their importance in plant growth and development."}],"issue":"6","title":"Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport","status":"public","intvolume":" 230","_id":"9288","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","oa_version":"Published Version","scopus_import":"1","day":"17","article_processing_charge":"No","article_type":"original","page":"2275-2291","publication":"New Phytologist","citation":{"chicago":"El Houari, I, C Van Beirs, HE Arents, Huibin Han, A Chanoca, D Opdenacker, J Pollier, et al. “Seedling Developmental Defects upon Blocking CINNAMATE-4-HYDROXYLASE Are Caused by Perturbations in Auxin Transport.” New Phytologist. Wiley, 2021. https://doi.org/10.1111/nph.17349.","mla":"El Houari, I., et al. “Seedling Developmental Defects upon Blocking CINNAMATE-4-HYDROXYLASE Are Caused by Perturbations in Auxin Transport.” New Phytologist, vol. 230, no. 6, Wiley, 2021, pp. 2275–91, doi:10.1111/nph.17349.","short":"I. El Houari, C. Van Beirs, H. Arents, H. Han, A. Chanoca, D. Opdenacker, J. Pollier, V. Storme, W. Steenackers, M. Quareshy, R. Napier, T. Beeckman, J. Friml, B. De Rybel, W. Boerjan, B. Vanholme, New Phytologist 230 (2021) 2275–2291.","ista":"El Houari I, Van Beirs C, Arents H, Han H, Chanoca A, Opdenacker D, Pollier J, Storme V, Steenackers W, Quareshy M, Napier R, Beeckman T, Friml J, De Rybel B, Boerjan W, Vanholme B. 2021. Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport. New Phytologist. 230(6), 2275–2291.","ieee":"I. El Houari et al., “Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport,” New Phytologist, vol. 230, no. 6. Wiley, pp. 2275–2291, 2021.","apa":"El Houari, I., Van Beirs, C., Arents, H., Han, H., Chanoca, A., Opdenacker, D., … Vanholme, B. (2021). Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport. New Phytologist. Wiley. https://doi.org/10.1111/nph.17349","ama":"El Houari I, Van Beirs C, Arents H, et al. Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport. New Phytologist. 2021;230(6):2275-2291. doi:10.1111/nph.17349"},"date_published":"2021-03-17T00:00:00Z","publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Wiley","year":"2021","pmid":1,"date_created":"2021-03-26T12:09:01Z","date_updated":"2023-09-05T15:46:55Z","volume":230,"author":[{"full_name":"El Houari, I","last_name":"El Houari","first_name":"I"},{"full_name":"Van Beirs, C","last_name":"Van Beirs","first_name":"C"},{"full_name":"Arents, HE","last_name":"Arents","first_name":"HE"},{"id":"31435098-F248-11E8-B48F-1D18A9856A87","first_name":"Huibin","last_name":"Han","full_name":"Han, Huibin"},{"full_name":"Chanoca, A","first_name":"A","last_name":"Chanoca"},{"full_name":"Opdenacker, D","first_name":"D","last_name":"Opdenacker"},{"first_name":"J","last_name":"Pollier","full_name":"Pollier, J"},{"last_name":"Storme","first_name":"V","full_name":"Storme, V"},{"last_name":"Steenackers","first_name":"W","full_name":"Steenackers, W"},{"full_name":"Quareshy, M","last_name":"Quareshy","first_name":"M"},{"full_name":"Napier, R","first_name":"R","last_name":"Napier"},{"full_name":"Beeckman, T","last_name":"Beeckman","first_name":"T"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"first_name":"B","last_name":"De Rybel","full_name":"De Rybel, B"},{"full_name":"Boerjan, W","first_name":"W","last_name":"Boerjan"},{"full_name":"Vanholme, B","last_name":"Vanholme","first_name":"B"}],"month":"03","publication_identifier":{"issn":["0028-646x"],"eissn":["1469-8137"]},"quality_controlled":"1","isi":1,"oa":1,"external_id":{"pmid":["33728703"],"isi":["000639552400001"]},"main_file_link":[{"url":"https://biblio.ugent.be/publication/8703799/file/8703800.pdf","open_access":"1"}],"language":[{"iso":"eng"}],"doi":"10.1111/nph.17349"},{"article_processing_charge":"No","has_accepted_license":"1","day":"01","scopus_import":"1","date_published":"2021-01-01T00:00:00Z","citation":{"ista":"Ke M, Ma Z, Wang D, Sun Y, Wen C, Huang D, Chen Z, Yang L, Tan S, Li R, Friml J, Miao Y, Chen X. 2021. Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana. New Phytologist. 229(2), 963–978.","apa":"Ke, M., Ma, Z., Wang, D., Sun, Y., Wen, C., Huang, D., … Chen, X. (2021). Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana. New Phytologist. Wiley. https://doi.org/10.1111/nph.16915","ieee":"M. Ke et al., “Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana,” New Phytologist, vol. 229, no. 2. Wiley, pp. 963–978, 2021.","ama":"Ke M, Ma Z, Wang D, et al. Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana. New Phytologist. 2021;229(2):963-978. doi:10.1111/nph.16915","chicago":"Ke, M, Z Ma, D Wang, Y Sun, C Wen, D Huang, Z Chen, et al. “Salicylic Acid Regulates PIN2 Auxin Transporter Hyper-Clustering and Root Gravitropic Growth via Remorin-Dependent Lipid Nanodomain Organization in Arabidopsis Thaliana.” New Phytologist. Wiley, 2021. https://doi.org/10.1111/nph.16915.","mla":"Ke, M., et al. “Salicylic Acid Regulates PIN2 Auxin Transporter Hyper-Clustering and Root Gravitropic Growth via Remorin-Dependent Lipid Nanodomain Organization in Arabidopsis Thaliana.” New Phytologist, vol. 229, no. 2, Wiley, 2021, pp. 963–78, doi:10.1111/nph.16915.","short":"M. Ke, Z. Ma, D. Wang, Y. Sun, C. Wen, D. Huang, Z. Chen, L. Yang, S. Tan, R. Li, J. Friml, Y. Miao, X. Chen, New Phytologist 229 (2021) 963–978."},"publication":"New Phytologist","page":"963-978","article_type":"original","issue":"2","abstract":[{"lang":"eng","text":"To adapt to the diverse array of biotic and abiotic cues, plants have evolved sophisticated mechanisms to sense changes in environmental conditions and modulate their growth. Growth-promoting hormones and defence signalling fine tune plant development antagonistically. During host-pathogen interactions, this defence-growth trade-off is mediated by the counteractive effects of the defence hormone salicylic acid (SA) and the growth hormone auxin. Here we revealed an underlying mechanism of SA regulating auxin signalling by constraining the plasma membrane dynamics of PIN2 auxin efflux transporter in Arabidopsis thaliana roots. The lateral diffusion of PIN2 proteins is constrained by SA signalling, during which PIN2 proteins are condensed into hyperclusters depending on REM1.2-mediated nanodomain compartmentalisation. Furthermore, membrane nanodomain compartmentalisation by SA or Remorin (REM) assembly significantly suppressed clathrin-mediated endocytosis. Consequently, SA-induced heterogeneous surface condensation disrupted asymmetric auxin distribution and the resultant gravitropic response. Our results demonstrated a defence-growth trade-off mechanism by which SA signalling crosstalked with auxin transport by concentrating membrane-resident PIN2 into heterogeneous compartments."}],"type":"journal_article","file":[{"creator":"dernst","content_type":"application/pdf","file_size":3674502,"access_level":"open_access","file_name":"2021_NewPhytologist_Ke.pdf","success":1,"checksum":"d36b6a8c6fafab66264e0d27114dae63","date_created":"2021-02-04T09:53:16Z","date_updated":"2021-02-04T09:53:16Z","file_id":"9085","relation":"main_file"}],"oa_version":"Published Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8608","intvolume":" 229","title":"Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana","ddc":["580"],"status":"public","publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646x"]},"month":"01","doi":"10.1111/nph.16915","language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["32901934"],"isi":["000573568000001"]},"oa":1,"quality_controlled":"1","isi":1,"file_date_updated":"2021-02-04T09:53:16Z","author":[{"first_name":"M","last_name":"Ke","full_name":"Ke, M"},{"full_name":"Ma, Z","first_name":"Z","last_name":"Ma"},{"full_name":"Wang, D","first_name":"D","last_name":"Wang"},{"first_name":"Y","last_name":"Sun","full_name":"Sun, Y"},{"first_name":"C","last_name":"Wen","full_name":"Wen, C"},{"full_name":"Huang, D","last_name":"Huang","first_name":"D"},{"full_name":"Chen, Z","first_name":"Z","last_name":"Chen"},{"full_name":"Yang, L","last_name":"Yang","first_name":"L"},{"full_name":"Tan, Shutang","last_name":"Tan","first_name":"Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Li","first_name":"R","full_name":"Li, R"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"first_name":"Y","last_name":"Miao","full_name":"Miao, Y"},{"last_name":"Chen","first_name":"X","full_name":"Chen, X"}],"volume":229,"date_updated":"2023-09-05T16:06:24Z","date_created":"2020-10-05T12:45:36Z","pmid":1,"acknowledgement":"This work was supported by the National Key Research andDevelopment Programme of China (2017YFA0506100), theNational Natural Science Foundation of China (31870170 and31701168), and the Fok Ying Tung Education Foundation(161027) to XC; NTU startup grant (M4081533) and NIM/01/2016 (NTU, Singapore) to YM. We thank Lei Shi andZhongquan Lin for microscopy assistance.","year":"2021","department":[{"_id":"JiFr"}],"publisher":"Wiley","publication_status":"published"},{"day":"08","article_processing_charge":"No","scopus_import":"1","date_published":"2021-02-08T00:00:00Z","publication":"Autophagy","citation":{"ieee":"D. J. Klionsky et al., “Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition),” Autophagy, vol. 17, no. 1. Taylor & Francis, pp. 1–382, 2021.","apa":"Klionsky, D. J., Abdel-Aziz, A. K., Abdelfatah, S., Abdellatif, M., Abdoli, A., Abel, S., … Tong, C. K. (2021). Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition). Autophagy. Taylor & Francis. https://doi.org/10.1080/15548627.2020.1797280","ista":"Klionsky DJ et al. 2021. Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition). Autophagy. 17(1), 1–382.","ama":"Klionsky DJ, Abdel-Aziz AK, Abdelfatah S, et al. Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition). Autophagy. 2021;17(1):1-382. doi:10.1080/15548627.2020.1797280","chicago":"Klionsky, Daniel J., Amal Kamal Abdel-Aziz, Sara Abdelfatah, Mahmoud Abdellatif, Asghar Abdoli, Steffen Abel, Hagai Abeliovich, et al. “Guidelines for the Use and Interpretation of Assays for Monitoring Autophagy (4th Edition).” Autophagy. Taylor & Francis, 2021. https://doi.org/10.1080/15548627.2020.1797280.","short":"D.J. Klionsky, A.K. Abdel-Aziz, S. Abdelfatah, M. Abdellatif, A. Abdoli, S. Abel, H. Abeliovich, M.H. Abildgaard, Y.P. Abudu, A. Acevedo-Arozena, I.E. Adamopoulos, K. Adeli, T.E. Adolph, A. Adornetto, E. Aflaki, G. Agam, A. Agarwal, B.B. Aggarwal, M. Agnello, P. Agostinis, J.N. Agrewala, A. Agrotis, P.V. Aguilar, S.T. Ahmad, Z.M. Ahmed, U. Ahumada-Castro, S. Aits, S. Aizawa, Y. Akkoc, T. Akoumianaki, H.A. Akpinar, A.M. Al-Abd, L. Al-Akra, A. Al-Gharaibeh, M.A. Alaoui-Jamali, S. Alberti, E. Alcocer-Gómez, C. Alessandri, M. Ali, M.A. Alim Al-Bari, S. Aliwaini, J. Alizadeh, E. Almacellas, A. Almasan, A. Alonso, G.D. Alonso, N. Altan-Bonnet, D.C. Altieri, É.M.C. Álvarez, S. Alves, C. Alves Da Costa, M.M. Alzaharna, M. Amadio, C. Amantini, C. Amaral, S. Ambrosio, A.O. Amer, V. Ammanathan, Z. An, S.U. Andersen, S.A. Andrabi, M. Andrade-Silva, A.M. Andres, S. Angelini, D. Ann, U.C. Anozie, M.Y. Ansari, P. Antas, A. Antebi, Z. Antón, T. Anwar, L. Apetoh, N. Apostolova, T. Araki, Y. Araki, K. Arasaki, W.L. Araújo, J. Araya, C. Arden, M.A. Arévalo, S. Arguelles, E. Arias, J. Arikkath, H. Arimoto, A.R. Ariosa, D. Armstrong-James, L. Arnauné-Pelloquin, A. Aroca, D.S. Arroyo, I. Arsov, R. Artero, D.M.L. Asaro, M. Aschner, M. Ashrafizadeh, O. Ashur-Fabian, A.G. Atanasov, A.K. Au, P. Auberger, H.W. Auner, L. Aurelian, R. Autelli, L. Avagliano, Y. Ávalos, S. Aveic, C.A. Aveleira, T. Avin-Wittenberg, Y. Aydin, S. Ayton, S. Ayyadevara, M. Azzopardi, M. Baba, J.M. Backer, S.K. Backues, D.H. Bae, O.N. Bae, S.H. Bae, E.H. Baehrecke, A. Baek, S.H. Baek, S.H. Baek, G. Bagetta, A. Bagniewska-Zadworna, H. Bai, J. Bai, X. Bai, Y. Bai, N. Bairagi, S. Baksi, T. Balbi, C.T. Baldari, W. Balduini, A. Ballabio, M. Ballester, S. Balazadeh, R. Balzan, R. Bandopadhyay, S. Banerjee, S. Banerjee, Á. Bánréti, Y. Bao, M.S. Baptista, A. Baracca, C. Barbati, A. Bargiela, D. Barilà, P.G. Barlow, S.J. Barmada, E. Barreiro, G.E. Barreto, J. Bartek, B. Bartel, A. Bartolome, G.R. Barve, S.H. Basagoudanavar, D.C. Bassham, R.C. Bast, A. Basu, H. Batoko, I. Batten, E.E. Baulieu, B.L. Baumgarner, J. Bayry, R. Beale, I. Beau, F. Beaumatin, L.R.G. Bechara, G.R. Beck, M.F. Beers, J. Begun, C. Behrends, G.M.N. Behrens, R. Bei, E. Bejarano, S. Bel, C. Behl, A. Belaid, N. Belgareh-Touzé, C. Bellarosa, F. Belleudi, M. Belló Pérez, R. Bello-Morales, J.S.D.O. Beltran, S. Beltran, D.M. Benbrook, M. Bendorius, B.A. Benitez, I. Benito-Cuesta, J. Bensalem, M.W. Berchtold, S. Berezowska, D. Bergamaschi, M. Bergami, A. Bergmann, L. Berliocchi, C. Berlioz-Torrent, A. Bernard, L. Berthoux, C.G. Besirli, S. Besteiro, V.M. Betin, R. Beyaert, J.S. Bezbradica, K. Bhaskar, I. Bhatia-Kissova, R. Bhattacharya, S. Bhattacharya, S. Bhattacharyya, M.S. Bhuiyan, S.K. Bhutia, L. Bi, X. Bi, T.J. Biden, K. Bijian, V.A. Billes, N. Binart, C. Bincoletto, A.B. Birgisdottir, G. Bjorkoy, G. Blanco, A. Blas-Garcia, J. Blasiak, R. Blomgran, K. Blomgren, J.S. Blum, E. Boada-Romero, M. Boban, K. Boesze-Battaglia, P. Boeuf, B. Boland, P. Bomont, P. Bonaldo, S.R. Bonam, L. Bonfili, J.S. Bonifacino, B.A. Boone, M.D. Bootman, M. Bordi, C. Borner, B.C. Bornhauser, G. Borthakur, J. Bosch, S. Bose, L.M. Botana, J. Botas, C.M. Boulanger, M.E. Boulton, M. Bourdenx, B. Bourgeois, N.M. Bourke, G. Bousquet, P. Boya, P.V. Bozhkov, L.H.M. Bozi, T.O. Bozkurt, D.E. Brackney, C.H. Brandts, R.J. Braun, G.H. Braus, R. Bravo-Sagua, J.M. Bravo-San Pedro, P. Brest, M.A. Bringer, A. Briones-Herrera, V.C. Broaddus, P. Brodersen, J.L. Brodsky, S.L. Brody, P.G. Bronson, J.M. Bronstein, C.N. Brown, R.E. Brown, P.C. Brum, J.H. Brumell, N. Brunetti-Pierri, D. Bruno, R.J. Bryson-Richardson, C. Bucci, C. Buchrieser, M. Bueno, L.E. Buitrago-Molina, S. Buraschi, S. Buch, J.R. Buchan, E.M. Buckingham, H. Budak, M. Budini, G. Bultynck, F. Burada, J.R. Burgoyne, M.I. Burón, V. Bustos, S. Büttner, E. Butturini, A. Byrd, I. Cabas, S. Cabrera-Benitez, K. Cadwell, J. Cai, L. Cai, Q. Cai, M. Cairó, J.A. Calbet, G.A. Caldwell, K.A. Caldwell, J.A. Call, R. Calvani, A.C. Calvo, M. Calvo-Rubio Barrera, N.O.S. Camara, J.H. Camonis, N. Camougrand, M. Campanella, E.M. Campbell, F.X. Campbell-Valois, S. Campello, I. Campesi, J.C. Campos, O. Camuzard, J. Cancino, D. Candido De Almeida, L. Canesi, I. Caniggia, B. Canonico, C. Cantí, B. Cao, M. Caraglia, B. Caramés, E.H. Carchman, E. Cardenal-Muñoz, C. Cardenas, L. Cardenas, S.M. Cardoso, J.S. Carew, G.F. Carle, G. Carleton, S. Carloni, D. Carmona-Gutierrez, L.A. Carneiro, O. Carnevali, J.M. Carosi, S. Carra, A. Carrier, L. Carrier, B. Carroll, A.B. Carter, A.N. Carvalho, M. Casanova, C. Casas, J. Casas, C. Cassioli, E.F. Castillo, K. Castillo, S. Castillo-Lluva, F. Castoldi, M. Castori, A.F. Castro, M. Castro-Caldas, J. Castro-Hernandez, S. Castro-Obregon, S.D. Catz, C. Cavadas, F. Cavaliere, G. Cavallini, M. Cavinato, M.L. Cayuela, P. Cebollada Rica, V. Cecarini, F. Cecconi, M. Cechowska-Pasko, S. Cenci, V. Ceperuelo-Mallafré, J.J. Cerqueira, J.M. Cerutti, D. Cervia, V.B. Cetintas, S. Cetrullo, H.J. Chae, A.S. Chagin, C.Y. Chai, G. Chakrabarti, O. Chakrabarti, T. Chakraborty, T. Chakraborty, M. Chami, G. Chamilos, D.W. Chan, E.Y.W. Chan, E.D. Chan, H.Y.E. Chan, H.H. Chan, H. Chan, M.T.V. Chan, Y.S. Chan, P.K. Chandra, C.P. Chang, C. Chang, H.C. Chang, K. Chang, J. Chao, T. Chapman, N. Charlet-Berguerand, S. Chatterjee, S.K. Chaube, A. Chaudhary, S. Chauhan, E. Chaum, F. Checler, M.E. Cheetham, C.S. Chen, G.C. Chen, J.F. Chen, L.L. Chen, L. Chen, L. Chen, M. Chen, M.K. Chen, N. Chen, Q. Chen, R.H. Chen, S. Chen, W. Chen, W. Chen, X.M. Chen, X.W. Chen, X. Chen, Y. Chen, Y.G. Chen, Y. Chen, Y. Chen, Y.J. Chen, Y.Q. Chen, Z.S. Chen, Z. Chen, Z.H. Chen, Z.J. Chen, Z. Chen, H. Cheng, J. Cheng, S.Y. Cheng, W. Cheng, X. Cheng, X.T. Cheng, Y. Cheng, Z. Cheng, Z. Chen, H. Cheong, J.K. Cheong, B.V. Chernyak, S. Cherry, C.F.R. Cheung, C.H.A. Cheung, K.H. Cheung, E. Chevet, R.J. Chi, A.K.S. Chiang, F. Chiaradonna, R. Chiarelli, M. Chiariello, N. Chica, S. Chiocca, M. Chiong, S.H. Chiou, A.I. Chiramel, V. Chiurchiù, D.H. Cho, S.K. Choe, A.M.K. Choi, M.E. Choi, K.R. Choudhury, N.S. Chow, C.T. Chu, J.P. Chua, J.J.E. Chua, H. Chung, K.P. Chung, S. Chung, S.H. Chung, Y.L. Chung, V. Cianfanelli, I.A. Ciechomska, M. Cifuentes, L. Cinque, S. Cirak, M. Cirone, M.J. Clague, R. Clarke, E. Clementi, E.M. Coccia, P. Codogno, E. Cohen, M.M. Cohen, T. Colasanti, F. Colasuonno, R.A. Colbert, A. Colell, M. Čolić, N.S. Coll, M.O. Collins, M.I. Colombo, D.A. 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Tong, Autophagy 17 (2021) 1–382.","mla":"Klionsky, Daniel J., et al. “Guidelines for the Use and Interpretation of Assays for Monitoring Autophagy (4th Edition).” Autophagy, vol. 17, no. 1, Taylor & Francis, 2021, pp. 1–382, doi:10.1080/15548627.2020.1797280."},"article_type":"review","page":"1-382","abstract":[{"text":"In 2008, we published the first set of guidelines for standardizing research in autophagy. Since then, this topic has received increasing attention, and many scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Thus, it is important to formulate on a regular basis updated guidelines for monitoring autophagy in different organisms. Despite numerous reviews, there continues to be confusion regarding acceptable methods to evaluate autophagy, especially in multicellular eukaryotes. Here, we present a set of guidelines for investigators to select and interpret methods to examine autophagy and related processes, and for reviewers to provide realistic and reasonable critiques of reports that are focused on these processes. These guidelines are not meant to be a dogmatic set of rules, because the appropriateness of any assay largely depends on the question being asked and the system being used. Moreover, no individual assay is perfect for every situation, calling for the use of multiple techniques to properly monitor autophagy in each experimental setting. Finally, several core components of the autophagy machinery have been implicated in distinct autophagic processes (canonical and noncanonical autophagy), implying that genetic approaches to block autophagy should rely on targeting two or more autophagy-related genes that ideally participate in distinct steps of the pathway. Along similar lines, because multiple proteins involved in autophagy also regulate other cellular pathways including apoptosis, not all of them can be used as a specific marker for bona fide autophagic responses. Here, we critically discuss current methods of assessing autophagy and the information they can, or cannot, provide. Our ultimate goal is to encourage intellectual and technical innovation in the field. ","lang":"eng"}],"issue":"1","type":"journal_article","oa_version":"Published Version","_id":"9298","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)","status":"public","intvolume":" 17","month":"02","publication_identifier":{"eissn":["1554-8635"],"issn":["1554-8627"]},"doi":"10.1080/15548627.2020.1797280","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1080/15548627.2020.1797280"}],"external_id":{"pmid":["33634751"],"isi":["000636121800001"]},"oa":1,"quality_controlled":"1","isi":1,"author":[{"full_name":"Klionsky, Daniel J.","first_name":"Daniel J.","last_name":"Klionsky"},{"full_name":"Abdel-Aziz, Amal Kamal","first_name":"Amal Kamal","last_name":"Abdel-Aziz"},{"last_name":"Abdelfatah","first_name":"Sara","full_name":"Abdelfatah, Sara"},{"full_name":"Abdellatif, Mahmoud","first_name":"Mahmoud","last_name":"Abdellatif"},{"full_name":"Abdoli, Asghar","first_name":"Asghar","last_name":"Abdoli"},{"last_name":"Abel","first_name":"Steffen","full_name":"Abel, Steffen"},{"full_name":"Abeliovich, Hagai","last_name":"Abeliovich","first_name":"Hagai"},{"full_name":"Abildgaard, Marie H.","first_name":"Marie H.","last_name":"Abildgaard"},{"last_name":"Abudu","first_name":"Yakubu Princely","full_name":"Abudu, Yakubu Princely"},{"first_name":"Abraham","last_name":"Acevedo-Arozena","full_name":"Acevedo-Arozena, Abraham"},{"full_name":"Adamopoulos, Iannis E.","first_name":"Iannis E.","last_name":"Adamopoulos"},{"full_name":"Adeli, Khosrow","last_name":"Adeli","first_name":"Khosrow"},{"first_name":"Timon E.","last_name":"Adolph","full_name":"Adolph, Timon E."},{"full_name":"Adornetto, Annagrazia","last_name":"Adornetto","first_name":"Annagrazia"},{"last_name":"Aflaki","first_name":"Elma","full_name":"Aflaki, Elma"},{"first_name":"Galila","last_name":"Agam","full_name":"Agam, Galila"},{"full_name":"Agarwal, Anupam","last_name":"Agarwal","first_name":"Anupam"},{"last_name":"Aggarwal","first_name":"Bharat B.","full_name":"Aggarwal, Bharat B."},{"first_name":"Maria","last_name":"Agnello","full_name":"Agnello, Maria"},{"last_name":"Agostinis","first_name":"Patrizia","full_name":"Agostinis, Patrizia"},{"first_name":"Javed N.","last_name":"Agrewala","full_name":"Agrewala, Javed N."},{"full_name":"Agrotis, Alexander","first_name":"Alexander","last_name":"Agrotis"},{"full_name":"Aguilar, Patricia V.","last_name":"Aguilar","first_name":"Patricia V."},{"last_name":"Ahmad","first_name":"S. 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Charlie","full_name":"Dong, X. Charlie"},{"full_name":"Kenchappa, Chandra Shekar","first_name":"Chandra Shekar","last_name":"Kenchappa"},{"full_name":"Li, Zuguo","last_name":"Li","first_name":"Zuguo"},{"full_name":"Lin, Yong","last_name":"Lin","first_name":"Yong"},{"full_name":"Oshima, Shigeru","last_name":"Oshima","first_name":"Shigeru"},{"full_name":"Rong, Yueguang","last_name":"Rong","first_name":"Yueguang"},{"first_name":"Judith C.","last_name":"Sluimer","full_name":"Sluimer, Judith C."},{"full_name":"Stallings, Christina L.","first_name":"Christina L.","last_name":"Stallings"},{"first_name":"Chun Kit","last_name":"Tong","full_name":"Tong, Chun Kit"}],"date_updated":"2023-10-16T09:43:56Z","date_created":"2021-03-28T22:01:44Z","volume":17,"year":"2021","acknowledgement":"This work was supported by the National Institute of General Medical Sciences [GM131919]. Due to space and other limitations, it is not possible to include all other sources of financial support.","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"},{"_id":"CaHe"}],"publisher":"Taylor & Francis"},{"publication":"Nature","citation":{"ista":"Li L, Verstraeten I, Roosjen M, Takahashi K, Rodriguez Solovey L, Merrin J, Chen J, Shabala L, Smet W, Ren H, Vanneste S, Shabala S, De Rybel B, Weijers D, Kinoshita T, Gray WM, Friml J. 2021. Cell surface and intracellular auxin signalling for H+ fluxes in root growth. Nature. 599(7884), 273–277.","apa":"Li, L., Verstraeten, I., Roosjen, M., Takahashi, K., Rodriguez Solovey, L., Merrin, J., … Friml, J. (2021). Cell surface and intracellular auxin signalling for H+ fluxes in root growth. Nature. Springer Nature. https://doi.org/10.1038/s41586-021-04037-6","ieee":"L. Li et al., “Cell surface and intracellular auxin signalling for H+ fluxes in root growth,” Nature, vol. 599, no. 7884. Springer Nature, pp. 273–277, 2021.","ama":"Li L, Verstraeten I, Roosjen M, et al. Cell surface and intracellular auxin signalling for H+ fluxes in root growth. Nature. 2021;599(7884):273-277. doi:10.1038/s41586-021-04037-6","chicago":"Li, Lanxin, Inge Verstraeten, Mark Roosjen, Koji Takahashi, Lesia Rodriguez Solovey, Jack Merrin, Jian Chen, et al. “Cell Surface and Intracellular Auxin Signalling for H+ Fluxes in Root Growth.” Nature. Springer Nature, 2021. https://doi.org/10.1038/s41586-021-04037-6.","mla":"Li, Lanxin, et al. “Cell Surface and Intracellular Auxin Signalling for H+ Fluxes in Root Growth.” Nature, vol. 599, no. 7884, Springer Nature, 2021, pp. 273–77, doi:10.1038/s41586-021-04037-6.","short":"L. Li, I. Verstraeten, M. Roosjen, K. Takahashi, L. Rodriguez Solovey, J. Merrin, J. Chen, L. Shabala, W. Smet, H. Ren, S. Vanneste, S. Shabala, B. De Rybel, D. Weijers, T. Kinoshita, W.M. Gray, J. Friml, Nature 599 (2021) 273–277."},"article_type":"original","page":"273-277","date_published":"2021-11-11T00:00:00Z","scopus_import":"1","keyword":["Multidisciplinary"],"day":"11","article_processing_charge":"No","_id":"10223","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Cell surface and intracellular auxin signalling for H+ fluxes in root growth","status":"public","intvolume":" 599","oa_version":"Preprint","type":"journal_article","abstract":[{"text":"Growth regulation tailors development in plants to their environment. A prominent example of this is the response to gravity, in which shoots bend up and roots bend down1. This paradox is based on opposite effects of the phytohormone auxin, which promotes cell expansion in shoots while inhibiting it in roots via a yet unknown cellular mechanism2. Here, by combining microfluidics, live imaging, genetic engineering and phosphoproteomics in Arabidopsis thaliana, we advance understanding of how auxin inhibits root growth. We show that auxin activates two distinct, antagonistically acting signalling pathways that converge on rapid regulation of apoplastic pH, a causative determinant of growth. Cell surface-based TRANSMEMBRANE KINASE1 (TMK1) interacts with and mediates phosphorylation and activation of plasma membrane H+-ATPases for apoplast acidification, while intracellular canonical auxin signalling promotes net cellular H+ influx, causing apoplast alkalinization. Simultaneous activation of these two counteracting mechanisms poises roots for rapid, fine-tuned growth modulation in navigating complex soil environments.","lang":"eng"}],"issue":"7884","external_id":{"isi":["000713338100006"],"pmid":["34707283"]},"main_file_link":[{"url":"https://www.doi.org/10.21203/rs.3.rs-266395/v3","open_access":"1"}],"oa":1,"isi":1,"quality_controlled":"1","project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"},{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"},{"name":"International IST Doctoral Program","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385"},{"name":"A Case Study of Plant Growth Regulation: Molecular Mechanism of Auxin-mediated Rapid Growth Inhibition in Arabidopsis Root","_id":"26B4D67E-B435-11E9-9278-68D0E5697425","grant_number":"25351"}],"doi":"10.1038/s41586-021-04037-6","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"M-Shop"},{"_id":"Bio"}],"language":[{"iso":"eng"}],"month":"11","publication_identifier":{"eissn":["14764687"],"issn":["00280836"]},"acknowledgement":"We thank N. Gnyliukh and L. Hörmayer for technical assistance and N. Paris for sharing PM-Cyto seeds. We gratefully acknowledge the Life Science, Machine Shop and Bioimaging Facilities of IST Austria. This project has received funding from the European Research Council Advanced Grant (ETAP-742985) and the Austrian Science Fund (FWF) under I 3630-B25 to J.F., the National Institutes of Health (GM067203) to W.M.G., the Netherlands Organization for Scientific Research (NWO; VIDI-864.13.001), Research Foundation-Flanders (FWO; Odysseus II G0D0515N) and a European Research Council Starting Grant (TORPEDO-714055) to W.S. and B.D.R., the VICI grant (865.14.001) from the Netherlands Organization for Scientific Research to M.R. and D.W., the Australian Research Council and China National Distinguished Expert Project (WQ20174400441) to S.S., the MEXT/JSPS KAKENHI to K.T. (20K06685) and T.K. (20H05687 and 20H05910), the European Union’s Horizon 2020 research and innovation programme under Marie Skłodowska-Curie grant agreement no. 665385 and the DOC Fellowship of the Austrian Academy of Sciences to L.L., and the China Scholarship Council to J.C.","year":"2021","pmid":1,"publication_status":"published","publisher":"Springer Nature","department":[{"_id":"JiFr"},{"_id":"NanoFab"}],"author":[{"orcid":"0000-0002-5607-272X","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","last_name":"Li","first_name":"Lanxin","full_name":"Li, Lanxin"},{"full_name":"Verstraeten, Inge","last_name":"Verstraeten","first_name":"Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Roosjen, Mark","first_name":"Mark","last_name":"Roosjen"},{"full_name":"Takahashi, Koji","last_name":"Takahashi","first_name":"Koji"},{"first_name":"Lesia","last_name":"Rodriguez Solovey","id":"3922B506-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7244-7237","full_name":"Rodriguez Solovey, Lesia"},{"last_name":"Merrin","first_name":"Jack","orcid":"0000-0001-5145-4609","id":"4515C308-F248-11E8-B48F-1D18A9856A87","full_name":"Merrin, Jack"},{"full_name":"Chen, Jian","last_name":"Chen","first_name":"Jian"},{"full_name":"Shabala, Lana","first_name":"Lana","last_name":"Shabala"},{"last_name":"Smet","first_name":"Wouter","full_name":"Smet, Wouter"},{"last_name":"Ren","first_name":"Hong","full_name":"Ren, Hong"},{"first_name":"Steffen","last_name":"Vanneste","full_name":"Vanneste, Steffen"},{"full_name":"Shabala, Sergey","first_name":"Sergey","last_name":"Shabala"},{"last_name":"De Rybel","first_name":"Bert","full_name":"De Rybel, Bert"},{"full_name":"Weijers, Dolf","last_name":"Weijers","first_name":"Dolf"},{"first_name":"Toshinori","last_name":"Kinoshita","full_name":"Kinoshita, Toshinori"},{"full_name":"Gray, William M.","last_name":"Gray","first_name":"William M."},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"}],"related_material":{"record":[{"relation":"earlier_version","status":"public","id":"10095"}],"link":[{"relation":"press_release","description":"News on IST Webpage","url":"https://ist.ac.at/en/news/stop-and-grow/"}]},"date_updated":"2023-10-18T08:30:53Z","date_created":"2021-11-07T23:01:25Z","volume":599,"ec_funded":1},{"scopus_import":"1","day":"01","article_processing_charge":"No","has_accepted_license":"1","publication":"Plant, Cell & Environment","citation":{"ista":"Zhao Y, Wu L, Fu Q, Wang D, Li J, Yao B, Yu S, Jiang L, Qian J, Zhou X, Han L, Zhao S, Ma C, Zhang Y, Luo C, Dong Q, Li S, Zhang L, Jiang X, Li Y, Luo H, Li K, Yang J, Luo Q, Li L, Peng S, Huang H, Zuo Z, Liu C, Wang L, Li C, He X, Friml J, Du Y. 2021. INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance. Plant, Cell & Environment. 44(6), 1846–1857.","apa":"Zhao, Y., Wu, L., Fu, Q., Wang, D., Li, J., Yao, B., … Du, Y. (2021). INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance. Plant, Cell & Environment. Wiley. https://doi.org/10.1111/pce.14029","ieee":"Y. Zhao et al., “INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance,” Plant, Cell & Environment, vol. 44, no. 6. Wiley, pp. 1846–1857, 2021.","ama":"Zhao Y, Wu L, Fu Q, et al. INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance. Plant, Cell & Environment. 2021;44(6):1846-1857. doi:10.1111/pce.14029","chicago":"Zhao, Y, L Wu, Q Fu, D Wang, J Li, B Yao, S Yu, et al. “INDITTO2 Transposon Conveys Auxin-Mediated DRO1 Transcription for Rice Drought Avoidance.” Plant, Cell & Environment. Wiley, 2021. https://doi.org/10.1111/pce.14029.","mla":"Zhao, Y., et al. “INDITTO2 Transposon Conveys Auxin-Mediated DRO1 Transcription for Rice Drought Avoidance.” Plant, Cell & Environment, vol. 44, no. 6, Wiley, 2021, pp. 1846–57, doi:10.1111/pce.14029.","short":"Y. Zhao, L. Wu, Q. Fu, D. Wang, J. Li, B. Yao, S. Yu, L. Jiang, J. Qian, X. Zhou, L. Han, S. Zhao, C. Ma, Y. Zhang, C. Luo, Q. Dong, S. Li, L. Zhang, X. Jiang, Y. Li, H. Luo, K. Li, J. Yang, Q. Luo, L. Li, S. Peng, H. Huang, Z. Zuo, C. Liu, L. Wang, C. Li, X. He, J. Friml, Y. Du, Plant, Cell & Environment 44 (2021) 1846–1857."},"article_type":"original","page":"1846-1857","date_published":"2021-06-01T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"Transposable elements exist widely throughout plant genomes and play important roles in plant evolution. Auxin is an important regulator that is traditionally associated with root development and drought stress adaptation. The DEEPER ROOTING 1 (DRO1) gene is a key component of rice drought avoidance. Here, we identified a transposon that acts as an autonomous auxin‐responsive promoter and its presence at specific genome positions conveys physiological adaptations related to drought avoidance. Rice varieties with high and auxin‐mediated transcription of DRO1 in the root tip show deeper and longer root phenotypes and are thus better adapted to drought. The INDITTO2 transposon contains an auxin response element and displays auxin‐responsive promoter activity; it is thus able to convey auxin regulation of transcription to genes in its proximity. In the rice Acuce, which displays DRO1‐mediated drought adaptation, the INDITTO2 transposon was found to be inserted at the promoter region of the DRO1 locus. Transgenesis‐based insertion of the INDITTO2 transposon into the DRO1 promoter of the non‐adapted rice variety Nipponbare was sufficient to promote its drought avoidance. Our data identify an example of how transposons can act as promoters and convey hormonal regulation to nearby loci, improving plant fitness in response to different abiotic stresses."}],"issue":"6","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"9189","status":"public","title":"INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance","ddc":["580"],"intvolume":" 44","file":[{"content_type":"application/pdf","file_size":8437528,"creator":"amally","access_level":"open_access","file_name":"Zhao PlantCellEnv 2021_accepted.pdf","checksum":"a812418fede076741c9c4dc07f317068","success":1,"date_created":"2023-11-02T17:02:11Z","date_updated":"2023-11-02T17:02:11Z","relation":"main_file","file_id":"14481"}],"oa_version":"Submitted Version","month":"06","publication_identifier":{"eissn":["1365-3040"],"issn":["0140-7791"]},"oa":1,"external_id":{"isi":["000625398600001"],"pmid":["33576018"]},"isi":1,"quality_controlled":"1","doi":"10.1111/pce.14029","language":[{"iso":"eng"}],"file_date_updated":"2023-11-02T17:02:11Z","year":"2021","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Wiley","author":[{"full_name":"Zhao, Y","last_name":"Zhao","first_name":"Y"},{"first_name":"L","last_name":"Wu","full_name":"Wu, L"},{"last_name":"Fu","first_name":"Q","full_name":"Fu, Q"},{"full_name":"Wang, D","first_name":"D","last_name":"Wang"},{"first_name":"J","last_name":"Li","full_name":"Li, J"},{"first_name":"B","last_name":"Yao","full_name":"Yao, B"},{"full_name":"Yu, S","last_name":"Yu","first_name":"S"},{"full_name":"Jiang, L","last_name":"Jiang","first_name":"L"},{"last_name":"Qian","first_name":"J","full_name":"Qian, J"},{"full_name":"Zhou, X","first_name":"X","last_name":"Zhou"},{"full_name":"Han, L","last_name":"Han","first_name":"L"},{"last_name":"Zhao","first_name":"S","full_name":"Zhao, S"},{"last_name":"Ma","first_name":"C","full_name":"Ma, C"},{"first_name":"Y","last_name":"Zhang","full_name":"Zhang, Y"},{"last_name":"Luo","first_name":"C","full_name":"Luo, C"},{"full_name":"Dong, Q","first_name":"Q","last_name":"Dong"},{"last_name":"Li","first_name":"S","full_name":"Li, S"},{"full_name":"Zhang, L","last_name":"Zhang","first_name":"L"},{"last_name":"Jiang","first_name":"X","full_name":"Jiang, X"},{"full_name":"Li, Y","first_name":"Y","last_name":"Li"},{"first_name":"H","last_name":"Luo","full_name":"Luo, H"},{"full_name":"Li, K","last_name":"Li","first_name":"K"},{"last_name":"Yang","first_name":"J","full_name":"Yang, J"},{"first_name":"Q","last_name":"Luo","full_name":"Luo, Q"},{"full_name":"Li, L","last_name":"Li","first_name":"L"},{"full_name":"Peng, S","first_name":"S","last_name":"Peng"},{"last_name":"Huang","first_name":"H","full_name":"Huang, H"},{"first_name":"Z","last_name":"Zuo","full_name":"Zuo, Z"},{"last_name":"Liu","first_name":"C","full_name":"Liu, C"},{"last_name":"Wang","first_name":"L","full_name":"Wang, L"},{"first_name":"C","last_name":"Li","full_name":"Li, C"},{"full_name":"He, X","first_name":"X","last_name":"He"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"full_name":"Du, Y","first_name":"Y","last_name":"Du"}],"date_updated":"2023-11-07T08:18:36Z","date_created":"2021-02-24T10:07:21Z","volume":44},{"publication_identifier":{"eissn":["1091-6490"]},"month":"12","doi":"10.1073/pnas.2113046118","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"LifeSc"},{"_id":"Bio"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000736417600043"],"pmid":["34907016"]},"project":[{"_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF"}],"quality_controlled":"1","isi":1,"file_date_updated":"2021-12-15T08:59:40Z","article_number":"e2113046118","related_material":{"link":[{"relation":"earlier_version","url":"https://doi.org/10.1101/2021.04.26.441441"}],"record":[{"id":"14510","relation":"dissertation_contains","status":"public"},{"status":"public","relation":"research_data","id":"14988"}]},"author":[{"last_name":"Johnson","first_name":"Alexander J","orcid":"0000-0002-2739-8843","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","full_name":"Johnson, Alexander J"},{"first_name":"Dana A","last_name":"Dahhan","full_name":"Dahhan, Dana A"},{"first_name":"Nataliia","last_name":"Gnyliukh","id":"390C1120-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2198-0509","full_name":"Gnyliukh, Nataliia"},{"full_name":"Kaufmann, Walter","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9735-5315","first_name":"Walter","last_name":"Kaufmann"},{"orcid":"0000-0002-9438-4783","id":"39C5A68A-F248-11E8-B48F-1D18A9856A87","last_name":"Zheden","first_name":"Vanessa","full_name":"Zheden, Vanessa"},{"full_name":"Costanzo, Tommaso","last_name":"Costanzo","first_name":"Tommaso","orcid":"0000-0001-9732-3815","id":"D93824F4-D9BA-11E9-BB12-F207E6697425"},{"last_name":"Mahou","first_name":"Pierre","full_name":"Mahou, Pierre"},{"full_name":"Hrtyan, Mónika","id":"45A71A74-F248-11E8-B48F-1D18A9856A87","last_name":"Hrtyan","first_name":"Mónika"},{"last_name":"Wang","first_name":"Jie","full_name":"Wang, Jie"},{"id":"2A67C376-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2862-8372","first_name":"Juan L","last_name":"Aguilera Servin","full_name":"Aguilera Servin, Juan L"},{"first_name":"Daniël","last_name":"van Damme","full_name":"van Damme, Daniël"},{"first_name":"Emmanuel","last_name":"Beaurepaire","full_name":"Beaurepaire, Emmanuel"},{"last_name":"Loose","first_name":"Martin","orcid":"0000-0001-7309-9724","id":"462D4284-F248-11E8-B48F-1D18A9856A87","full_name":"Loose, Martin"},{"first_name":"Sebastian Y","last_name":"Bednarek","full_name":"Bednarek, Sebastian Y"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"}],"volume":118,"date_updated":"2024-02-19T11:06:09Z","date_created":"2021-08-11T14:11:43Z","pmid":1,"year":"2021","acknowledgement":"We gratefully thank Julie Neveu and Dr. Amanda Barranco of the Grégory Vert laboratory for help preparing plants in France, Dr. Zuzana Gelova for help and advice with protoplast generation, Dr. Stéphane Vassilopoulos and Dr. Florian Schur for advice regarding EM tomography, Alejandro Marquiegui Alvaro for help with material generation, and Dr. Lukasz Kowalski for generously gifting us the mWasabi protein. This research was supported by the Scientific Service Units of Institute of Science and Technology Austria (IST Austria) through resources provided by the Electron Microscopy Facility, Lab Support Facility (particularly Dorota Jaworska), and the Bioimaging Facility. We acknowledge the Advanced Microscopy Facility of the Vienna BioCenter Core Facilities for use of the 3D SIM. For the mass spectrometry analysis of proteins, we acknowledge the University of Natural Resources and Life Sciences (BOKU) Core Facility Mass Spectrometry. This work was supported by the following funds: A.J. is supported by funding from the Austrian Science Fund I3630B25 to J.F. P.M. and E.B. are supported by Agence Nationale de la Recherche ANR-11-EQPX-0029 Morphoscope2 and ANR-10-INBS-04 France BioImaging. S.Y.B. is supported by the NSF No. 1121998 and 1614915. J.W. and D.V.D. are supported by the European Research Council Grant 682436 (to D.V.D.), a China Scholarship Council Grant 201508440249 (to J.W.), and by a Ghent University Special Research Co-funding Grant ST01511051 (to J.W.).","department":[{"_id":"JiFr"},{"_id":"MaLo"},{"_id":"EvBe"},{"_id":"EM-Fac"},{"_id":"NanoFab"}],"publisher":"National Academy of Sciences","publication_status":"published","article_processing_charge":"No","has_accepted_license":"1","day":"14","date_published":"2021-12-14T00:00:00Z","citation":{"ama":"Johnson AJ, Dahhan DA, Gnyliukh N, et al. The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis. Proceedings of the National Academy of Sciences. 2021;118(51). doi:10.1073/pnas.2113046118","apa":"Johnson, A. J., Dahhan, D. A., Gnyliukh, N., Kaufmann, W., Zheden, V., Costanzo, T., … Friml, J. (2021). The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis. Proceedings of the National Academy of Sciences. National Academy of Sciences. https://doi.org/10.1073/pnas.2113046118","ieee":"A. J. Johnson et al., “The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis,” Proceedings of the National Academy of Sciences, vol. 118, no. 51. National Academy of Sciences, 2021.","ista":"Johnson AJ, Dahhan DA, Gnyliukh N, Kaufmann W, Zheden V, Costanzo T, Mahou P, Hrtyan M, Wang J, Aguilera Servin JL, van Damme D, Beaurepaire E, Loose M, Bednarek SY, Friml J. 2021. The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis. Proceedings of the National Academy of Sciences. 118(51), e2113046118.","short":"A.J. Johnson, D.A. Dahhan, N. Gnyliukh, W. Kaufmann, V. Zheden, T. Costanzo, P. Mahou, M. Hrtyan, J. Wang, J.L. Aguilera Servin, D. van Damme, E. Beaurepaire, M. Loose, S.Y. Bednarek, J. Friml, Proceedings of the National Academy of Sciences 118 (2021).","mla":"Johnson, Alexander J., et al. “The TPLATE Complex Mediates Membrane Bending during Plant Clathrin-Mediated Endocytosis.” Proceedings of the National Academy of Sciences, vol. 118, no. 51, e2113046118, National Academy of Sciences, 2021, doi:10.1073/pnas.2113046118.","chicago":"Johnson, Alexander J, Dana A Dahhan, Nataliia Gnyliukh, Walter Kaufmann, Vanessa Zheden, Tommaso Costanzo, Pierre Mahou, et al. “The TPLATE Complex Mediates Membrane Bending during Plant Clathrin-Mediated Endocytosis.” Proceedings of the National Academy of Sciences. National Academy of Sciences, 2021. https://doi.org/10.1073/pnas.2113046118."},"publication":"Proceedings of the National Academy of Sciences","article_type":"original","issue":"51","abstract":[{"lang":"eng","text":"Clathrin-mediated endocytosis is the major route of entry of cargos into cells and thus underpins many physiological processes. During endocytosis, an area of flat membrane is remodeled by proteins to create a spherical vesicle against intracellular forces. The protein machinery which mediates this membrane bending in plants is unknown. However, it is known that plant endocytosis is actin independent, thus indicating that plants utilize a unique mechanism to mediate membrane bending against high-turgor pressure compared to other model systems. Here, we investigate the TPLATE complex, a plant-specific endocytosis protein complex. It has been thought to function as a classical adaptor functioning underneath the clathrin coat. However, by using biochemical and advanced live microscopy approaches, we found that TPLATE is peripherally associated with clathrin-coated vesicles and localizes at the rim of endocytosis events. As this localization is more fitting to the protein machinery involved in membrane bending during endocytosis, we examined cells in which the TPLATE complex was disrupted and found that the clathrin structures present as flat patches. This suggests a requirement of the TPLATE complex for membrane bending during plant clathrin–mediated endocytosis. Next, we used in vitro biophysical assays to confirm that the TPLATE complex possesses protein domains with intrinsic membrane remodeling activity. These results redefine the role of the TPLATE complex and implicate it as a key component of the evolutionarily distinct plant endocytosis mechanism, which mediates endocytic membrane bending against the high-turgor pressure in plant cells."}],"type":"journal_article","oa_version":"Published Version","file":[{"checksum":"8d01e72e22c4fb1584e72d8601947069","success":1,"date_created":"2021-12-15T08:59:40Z","date_updated":"2021-12-15T08:59:40Z","relation":"main_file","file_id":"10546","content_type":"application/pdf","file_size":2757340,"creator":"cchlebak","access_level":"open_access","file_name":"2021_PNAS_Johnson.pdf"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"9887","intvolume":" 118","title":"The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis","ddc":["580"],"status":"public"},{"day":"01","month":"12","article_processing_charge":"No","has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"citation":{"short":"A.J. Johnson, (2021).","mla":"Johnson, Alexander J. Raw Data from Johnson et Al, PNAS, 2021. Zenodo, 2021, doi:10.5281/ZENODO.5747100.","chicago":"Johnson, Alexander J. “Raw Data from Johnson et Al, PNAS, 2021.” Zenodo, 2021. https://doi.org/10.5281/ZENODO.5747100.","ama":"Johnson AJ. Raw data from Johnson et al, PNAS, 2021. 2021. doi:10.5281/ZENODO.5747100","ieee":"A. J. Johnson, “Raw data from Johnson et al, PNAS, 2021.” Zenodo, 2021.","apa":"Johnson, A. J. (2021). Raw data from Johnson et al, PNAS, 2021. Zenodo. https://doi.org/10.5281/ZENODO.5747100","ista":"Johnson AJ. 2021. Raw data from Johnson et al, PNAS, 2021, Zenodo, 10.5281/ZENODO.5747100."},"oa":1,"main_file_link":[{"url":"https://doi.org/10.5281/zenodo.5747100","open_access":"1"}],"date_published":"2021-12-01T00:00:00Z","doi":"10.5281/ZENODO.5747100","type":"research_data_reference","abstract":[{"text":"Raw data generated from the publication - The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis by Johnson et al., 2021 In PNAS","lang":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14988","year":"2021","title":"Raw data from Johnson et al, PNAS, 2021","ddc":["580"],"status":"public","publisher":"Zenodo","department":[{"_id":"JiFr"}],"author":[{"first_name":"Alexander J","last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","full_name":"Johnson, Alexander J"}],"related_material":{"record":[{"id":"9887","relation":"used_in_publication","status":"public"}]},"date_updated":"2024-02-19T11:06:09Z","date_created":"2024-02-14T14:13:48Z","oa_version":"Published Version"},{"article_processing_charge":"No","has_accepted_license":"1","day":"13","page":"168","citation":{"ama":"Hörmayer L. Wound healing in the Arabidopsis root meristem. 2021. doi:10.15479/at:ista:9992","ista":"Hörmayer L. 2021. Wound healing in the Arabidopsis root meristem. Institute of Science and Technology Austria.","ieee":"L. Hörmayer, “Wound healing in the Arabidopsis root meristem,” Institute of Science and Technology Austria, 2021.","apa":"Hörmayer, L. (2021). Wound healing in the Arabidopsis root meristem. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:9992","mla":"Hörmayer, Lukas. Wound Healing in the Arabidopsis Root Meristem. Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:9992.","short":"L. Hörmayer, Wound Healing in the Arabidopsis Root Meristem, Institute of Science and Technology Austria, 2021.","chicago":"Hörmayer, Lukas. “Wound Healing in the Arabidopsis Root Meristem.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:9992."},"date_published":"2021-09-13T00:00:00Z","alternative_title":["ISTA Thesis"],"type":"dissertation","abstract":[{"lang":"eng","text":"Blood – this is what animals use to heal wounds fast and efficient. Plants do not have blood circulation and their cells cannot move. However, plants have evolved remarkable capacities to regenerate tissues and organs preventing further damage. In my PhD research, I studied the wound healing in the Arabidopsis root. I used a UV laser to ablate single cells in the root tip and observed the consequent wound healing. Interestingly, the inner adjacent cells induced a\r\ndivision plane switch and subsequently adopted the cell type of the killed cell to replace it. We termed this form of wound healing “restorative divisions”. This initial observation triggered the questions of my PhD studies: How and why do cells orient their division planes, how do they feel the wound and why does this happen only in inner adjacent cells.\r\nFor answering these questions, I used a quite simple experimental setup: 5 day - old seedlings were stained with propidium iodide to visualize cell walls and dead cells; ablation was carried out using a special laser cutter and a confocal microscope. Adaptation of the novel vertical microscope system made it possible to observe wounds in real time. This revealed that restorative divisions occur at increased frequency compared to normal divisions. Additionally,\r\nthe major plant hormone auxin accumulates in wound adjacent cells and drives the expression of the wound-stress responsive transcription factor ERF115. Using this as a marker gene for wound responses, we found that an important part of wound signalling is the sensing of the collapse of the ablated cell. The collapse causes a radical pressure drop, which results in strong tissue deformations. These deformations manifest in an invasion of the now free spot specifically by the inner adjacent cells within seconds, probably because of higher pressure of the inner tissues. Long-term imaging revealed that those deformed cells continuously expand towards the wound hole and that this is crucial for the restorative division. These wound-expanding cells exhibit an abnormal, biphasic polarity of microtubule arrays\r\nbefore the division. Experiments inhibiting cell expansion suggest that it is the biphasic stretching that induces those MT arrays. Adapting the micromanipulator aspiration system from animal scientists at our institute confirmed the hypothesis that stretching influences microtubule stability. In conclusion, this shows that microtubules react to tissue deformation\r\nand this facilitates the observed division plane switch. This puts mechanical cues and tensions at the most prominent position for explaining the growth and wound healing properties of plants. Hence, it shines light onto the importance of understanding mechanical signal transduction. "}],"ddc":["575"],"status":"public","title":"Wound healing in the Arabidopsis root meristem","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"9992","file":[{"file_name":"Thesis_vupload.docx","embargo_to":"open_access","access_level":"closed","creator":"lhoermaye","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_size":25179004,"file_id":"9993","relation":"source_file","date_updated":"2021-09-15T22:30:26Z","date_created":"2021-09-09T07:29:48Z","checksum":"c763064adaa720e16066c1a4f9682bbb"},{"file_size":6246900,"content_type":"application/pdf","creator":"lhoermaye","access_level":"open_access","file_name":"Thesis_vfinal_pdfa.pdf","checksum":"53911b06e93d7cdbbf4c7f4c162fa70f","date_created":"2021-09-09T14:25:08Z","date_updated":"2021-09-15T22:30:26Z","relation":"main_file","embargo":"2021-09-09","file_id":"9996"}],"oa_version":"Published Version","publication_identifier":{"issn":["2663-337X"]},"month":"09","project":[{"grant_number":"P29988","_id":"262EF96E-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"RNA-directed DNA methylation in plant development"},{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"}],"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"oa":1,"language":[{"iso":"eng"}],"supervisor":[{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"degree_awarded":"PhD","doi":"10.15479/at:ista:9992","ec_funded":1,"file_date_updated":"2021-09-15T22:30:26Z","publisher":"Institute of Science and Technology Austria","department":[{"_id":"GradSch"},{"_id":"JiFr"}],"publication_status":"published","year":"2021","date_updated":"2023-09-07T13:38:33Z","date_created":"2021-09-09T07:37:20Z","related_material":{"record":[{"id":"6351","relation":"part_of_dissertation","status":"public"},{"id":"6943","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"8002"}]},"author":[{"full_name":"Hörmayer, Lukas","orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","last_name":"Hörmayer","first_name":"Lukas"}]},{"file":[{"relation":"main_file","file_id":"9110","date_created":"2021-02-11T12:28:29Z","date_updated":"2021-02-11T12:28:29Z","checksum":"dc55c900f3b061d6c2790b8813d759a3","success":1,"file_name":"2021_Embo_Otvos.pdf","access_level":"open_access","file_size":2358617,"content_type":"application/pdf","creator":"dernst"}],"oa_version":"Published Version","intvolume":" 40","title":"Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport","status":"public","ddc":["580"],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"9010","issue":"3","abstract":[{"text":"Availability of the essential macronutrient nitrogen in soil plays a critical role in plant growth, development, and impacts agricultural productivity. Plants have evolved different strategies for sensing and responding to heterogeneous nitrogen distribution. Modulation of root system architecture, including primary root growth and branching, is among the most essential plant adaptions to ensure adequate nitrogen acquisition. However, the immediate molecular pathways coordinating the adjustment of root growth in response to distinct nitrogen sources, such as nitrate or ammonium, are poorly understood. Here, we show that growth as manifested by cell division and elongation is synchronized by coordinated auxin flux between two adjacent outer tissue layers of the root. This coordination is achieved by nitrate‐dependent dephosphorylation of the PIN2 auxin efflux carrier at a previously uncharacterized phosphorylation site, leading to subsequent PIN2 lateralization and thereby regulating auxin flow between adjacent tissues. A dynamic computer model based on our experimental data successfully recapitulates experimental observations. Our study provides mechanistic insights broadening our understanding of root growth mechanisms in dynamic environments.","lang":"eng"}],"type":"journal_article","date_published":"2021-02-01T00:00:00Z","article_type":"original","citation":{"ama":"Ötvös K, Marconi M, Vega A, et al. Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport. EMBO Journal. 2021;40(3). doi:10.15252/embj.2020106862","ista":"Ötvös K, Marconi M, Vega A, O’Brien J, Johnson AJ, Abualia R, Antonielli L, Montesinos López JC, Zhang Y, Tan S, Cuesta C, Artner C, Bouguyon E, Gojon A, Friml J, Gutiérrez RA, Wabnik KT, Benková E. 2021. Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport. EMBO Journal. 40(3), e106862.","apa":"Ötvös, K., Marconi, M., Vega, A., O’Brien, J., Johnson, A. J., Abualia, R., … Benková, E. (2021). Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport. EMBO Journal. Embo Press. https://doi.org/10.15252/embj.2020106862","ieee":"K. Ötvös et al., “Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport,” EMBO Journal, vol. 40, no. 3. Embo Press, 2021.","mla":"Ötvös, Krisztina, et al. “Modulation of Plant Root Growth by Nitrogen Source-Defined Regulation of Polar Auxin Transport.” EMBO Journal, vol. 40, no. 3, e106862, Embo Press, 2021, doi:10.15252/embj.2020106862.","short":"K. Ötvös, M. Marconi, A. Vega, J. O’Brien, A.J. Johnson, R. Abualia, L. Antonielli, J.C. Montesinos López, Y. Zhang, S. Tan, C. Cuesta, C. Artner, E. Bouguyon, A. Gojon, J. Friml, R.A. Gutiérrez, K.T. Wabnik, E. Benková, EMBO Journal 40 (2021).","chicago":"Ötvös, Krisztina, Marco Marconi, Andrea Vega, Jose O’Brien, Alexander J Johnson, Rashed Abualia, Livio Antonielli, et al. “Modulation of Plant Root Growth by Nitrogen Source-Defined Regulation of Polar Auxin Transport.” EMBO Journal. Embo Press, 2021. https://doi.org/10.15252/embj.2020106862."},"publication":"EMBO Journal","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","day":"01","scopus_import":"1","volume":40,"date_updated":"2024-03-28T23:30:39Z","date_created":"2021-01-17T23:01:12Z","related_material":{"link":[{"url":"https://ist.ac.at/en/news/a-plants-way-to-its-favorite-food/","relation":"press_release","description":"News on IST Homepage"}],"record":[{"id":"10303","status":"public","relation":"dissertation_contains"}]},"author":[{"last_name":"Ötvös","first_name":"Krisztina","orcid":"0000-0002-5503-4983","id":"29B901B0-F248-11E8-B48F-1D18A9856A87","full_name":"Ötvös, Krisztina"},{"first_name":"Marco","last_name":"Marconi","full_name":"Marconi, Marco"},{"first_name":"Andrea","last_name":"Vega","full_name":"Vega, Andrea"},{"full_name":"O’Brien, Jose","last_name":"O’Brien","first_name":"Jose"},{"id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","first_name":"Alexander J","last_name":"Johnson","full_name":"Johnson, Alexander J"},{"full_name":"Abualia, Rashed","orcid":"0000-0002-9357-9415","id":"4827E134-F248-11E8-B48F-1D18A9856A87","last_name":"Abualia","first_name":"Rashed"},{"first_name":"Livio","last_name":"Antonielli","full_name":"Antonielli, Livio"},{"first_name":"Juan C","last_name":"Montesinos López","id":"310A8E3E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9179-6099","full_name":"Montesinos López, Juan C"},{"orcid":"0000-0003-2627-6956","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","last_name":"Zhang","first_name":"Yuzhou","full_name":"Zhang, Yuzhou"},{"full_name":"Tan, Shutang","first_name":"Shutang","last_name":"Tan","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285"},{"first_name":"Candela","last_name":"Cuesta","id":"33A3C818-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1923-2410","full_name":"Cuesta, Candela"},{"full_name":"Artner, Christina","first_name":"Christina","last_name":"Artner","id":"45DF286A-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Eleonore","last_name":"Bouguyon","full_name":"Bouguyon, Eleonore"},{"full_name":"Gojon, Alain","first_name":"Alain","last_name":"Gojon"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"full_name":"Gutiérrez, Rodrigo A.","first_name":"Rodrigo A.","last_name":"Gutiérrez"},{"full_name":"Wabnik, Krzysztof T","last_name":"Wabnik","first_name":"Krzysztof T","orcid":"0000-0001-7263-0560","id":"4DE369A4-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Benková, Eva","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","last_name":"Benková","first_name":"Eva"}],"publisher":"Embo Press","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"publication_status":"published","pmid":1,"acknowledgement":"We acknowledge Gergely Molnar for critical reading of the manuscript, Alexander Johnson for language editing and Yulija Salanenka for technical assistance. Work in the Benkova laboratory was supported by the Austrian Science Fund (FWF01_I1774S) to KO, RA and EB. Work in the Benkova laboratory was supported by the Austrian Science Fund (FWF01_I1774S) to KO, RA and EB and by the DOC Fellowship Programme of the AustrianAcademy of Sciences (25008) to C.A. Work in the Wabnik laboratory was supported by the Programa de Atraccion de Talento 2017 (Comunidad deMadrid, 2017-T1/BIO-5654 to K.W.), Severo Ochoa Programme for Centres of Excellence in R&D from the Agencia Estatal de Investigacion of Spain (grantSEV-2016-0672 (2017-2021) to K.W. via the CBGP) and Programa Estatal de Generacion del Conocimiento y Fortalecimiento Científico y Tecnologico del Sistema de I+D+I 2019 (PGC2018-093387-A-I00) from MICIU (to K.W.). M.M.was supported by a postdoctoral contract associated to SEV-2016-0672.We acknowledge the Bioimaging Facility in IST-Austria and the Advanced Microscopy Facility of the Vienna Bio Center Core Facilities, member of the Vienna Bio Center Austria, for use of the OMX v43D SIM microscope. AJ was supported by the Austrian Science Fund (FWF): I03630 to J.F","year":"2021","file_date_updated":"2021-02-11T12:28:29Z","article_number":"e106862","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"}],"doi":"10.15252/embj.2020106862","project":[{"name":"Hormone cross-talk drives nutrient dependent plant development","call_identifier":"FWF","grant_number":"I 1774-B16","_id":"2542D156-B435-11E9-9278-68D0E5697425"},{"name":"Hormonal regulation of plant adaptive responses to environmental signals","_id":"2685A872-B435-11E9-9278-68D0E5697425"},{"grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants"}],"isi":1,"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"pmid":[" 33399250"],"isi":["000604645600001"]},"publication_identifier":{"issn":["02614189"],"eissn":["14602075"]},"month":"02"},{"pmid":1,"acknowledgement":"We would like to acknowledge Bioimaging and Life Science Facilities at IST Austria for continuous support and also the Plant Sciences Core Facility of CEITEC Masaryk University for their support with obtaining a part of the scientific data. We gratefully acknowledge Lindy Abas for help with ABP1::GFP-ABP1 construct design. This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program [grant agreement no. 742985] and Austrian Science Fund (FWF) [I 3630-B25] to J.F.; DOC Fellowship of the Austrian Academy of Sciences to L.L.; the European Structural and Investment Funds, Operational Programme Research, Development and Education - Project „MSCAfellow@MUNI“ [CZ.02.2.69/0.0/0.0/17_050/0008496] to M.P.. This project was also supported by the Czech Science Foundation [GA 20-20860Y] to M.Z and MEYS CR [project no.CZ.02.1.01/0.0/0.0/16_019/0000738] to M. Č.","year":"2021","department":[{"_id":"JiFr"},{"_id":"Bio"}],"publisher":"Elsevier","publication_status":"published","related_material":{"record":[{"id":"11626","relation":"dissertation_contains","status":"public"},{"id":"10083","status":"public","relation":"dissertation_contains"}]},"author":[{"last_name":"Gelová","first_name":"Zuzana","orcid":"0000-0003-4783-1752","id":"0AE74790-0E0B-11E9-ABC7-1ACFE5697425","full_name":"Gelová, Zuzana"},{"first_name":"Michelle C","last_name":"Gallei","id":"35A03822-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1286-7368","full_name":"Gallei, Michelle C"},{"first_name":"Markéta","last_name":"Pernisová","full_name":"Pernisová, Markéta"},{"first_name":"Géraldine","last_name":"Brunoud","full_name":"Brunoud, Géraldine"},{"full_name":"Zhang, Xixi","orcid":"0000-0001-7048-4627","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","last_name":"Zhang","first_name":"Xixi"},{"id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","orcid":"0000-0003-0619-7783","first_name":"Matous","last_name":"Glanc","full_name":"Glanc, Matous"},{"id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X","first_name":"Lanxin","last_name":"Li","full_name":"Li, Lanxin"},{"full_name":"Michalko, Jaroslav","id":"483727CA-F248-11E8-B48F-1D18A9856A87","first_name":"Jaroslav","last_name":"Michalko"},{"full_name":"Pavlovicova, Zlata","first_name":"Zlata","last_name":"Pavlovicova"},{"last_name":"Verstraeten","first_name":"Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","full_name":"Verstraeten, Inge"},{"full_name":"Han, Huibin","id":"31435098-F248-11E8-B48F-1D18A9856A87","last_name":"Han","first_name":"Huibin"},{"full_name":"Hajny, Jakub","orcid":"0000-0003-2140-7195","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","last_name":"Hajny","first_name":"Jakub"},{"last_name":"Hauschild","first_name":"Robert","orcid":"0000-0001-9843-3522","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","full_name":"Hauschild, Robert"},{"full_name":"Čovanová, Milada","last_name":"Čovanová","first_name":"Milada"},{"first_name":"Marta","last_name":"Zwiewka","full_name":"Zwiewka, Marta"},{"full_name":"Hörmayer, Lukas","last_name":"Hörmayer","first_name":"Lukas","orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87"},{"id":"43905548-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9767-8699","first_name":"Matyas","last_name":"Fendrych","full_name":"Fendrych, Matyas"},{"last_name":"Xu","first_name":"Tongda","full_name":"Xu, Tongda"},{"first_name":"Teva","last_name":"Vernoux","full_name":"Vernoux, Teva"},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"volume":303,"date_created":"2020-12-09T14:48:28Z","date_updated":"2024-03-28T23:30:44Z","article_number":"110750","ec_funded":1,"file_date_updated":"2021-02-04T07:49:25Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["33487339"],"isi":["000614154500001"]},"oa":1,"project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"},{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"},{"grant_number":"25351","_id":"26B4D67E-B435-11E9-9278-68D0E5697425","name":"A Case Study of Plant Growth Regulation: Molecular Mechanism of Auxin-mediated Rapid Growth Inhibition in Arabidopsis Root"}],"isi":1,"quality_controlled":"1","doi":"10.1016/j.plantsci.2020.110750","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"publication_identifier":{"issn":["0168-9452"]},"month":"02","_id":"8931","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 303","status":"public","ddc":["580"],"title":"Developmental roles of auxin binding protein 1 in Arabidopsis thaliana","oa_version":"Published Version","file":[{"date_updated":"2021-02-04T07:49:25Z","date_created":"2021-02-04T07:49:25Z","success":1,"checksum":"a7f2562bdca62d67dfa88e271b62a629","file_id":"9083","relation":"main_file","creator":"dernst","content_type":"application/pdf","file_size":12563728,"file_name":"2021_PlantScience_Gelova.pdf","access_level":"open_access"}],"type":"journal_article","abstract":[{"text":"Auxin is a major plant growth regulator, but current models on auxin perception and signaling cannot explain the whole plethora of auxin effects, in particular those associated with rapid responses. A possible candidate for a component of additional auxin perception mechanisms is the AUXIN BINDING PROTEIN 1 (ABP1), whose function in planta remains unclear.\r\nHere we combined expression analysis with gain- and loss-of-function approaches to analyze the role of ABP1 in plant development. ABP1 shows a broad expression largely overlapping with, but not regulated by, transcriptional auxin response activity. Furthermore, ABP1 activity is not essential for the transcriptional auxin signaling. Genetic in planta analysis revealed that abp1 loss-of-function mutants show largely normal development with minor defects in bolting. On the other hand, ABP1 gain-of-function alleles show a broad range of growth and developmental defects, including root and hypocotyl growth and bending, lateral root and leaf development, bolting, as well as response to heat stress. At the cellular level, ABP1 gain-of-function leads to impaired auxin effect on PIN polar distribution and affects BFA-sensitive PIN intracellular aggregation.\r\nThe gain-of-function analysis suggests a broad, but still mechanistically unclear involvement of ABP1 in plant development, possibly masked in abp1 loss-of-function mutants by a functional redundancy.","lang":"eng"}],"citation":{"chicago":"Gelová, Zuzana, Michelle C Gallei, Markéta Pernisová, Géraldine Brunoud, Xixi Zhang, Matous Glanc, Lanxin Li, et al. “Developmental Roles of Auxin Binding Protein 1 in Arabidopsis Thaliana.” Plant Science. Elsevier, 2021. https://doi.org/10.1016/j.plantsci.2020.110750.","short":"Z. Gelová, M.C. Gallei, M. Pernisová, G. Brunoud, X. Zhang, M. Glanc, L. Li, J. Michalko, Z. Pavlovicova, I. Verstraeten, H. Han, J. Hajny, R. Hauschild, M. Čovanová, M. Zwiewka, L. Hörmayer, M. Fendrych, T. Xu, T. Vernoux, J. Friml, Plant Science 303 (2021).","mla":"Gelová, Zuzana, et al. “Developmental Roles of Auxin Binding Protein 1 in Arabidopsis Thaliana.” Plant Science, vol. 303, 110750, Elsevier, 2021, doi:10.1016/j.plantsci.2020.110750.","apa":"Gelová, Z., Gallei, M. C., Pernisová, M., Brunoud, G., Zhang, X., Glanc, M., … Friml, J. (2021). Developmental roles of auxin binding protein 1 in Arabidopsis thaliana. Plant Science. Elsevier. https://doi.org/10.1016/j.plantsci.2020.110750","ieee":"Z. Gelová et al., “Developmental roles of auxin binding protein 1 in Arabidopsis thaliana,” Plant Science, vol. 303. Elsevier, 2021.","ista":"Gelová Z, Gallei MC, Pernisová M, Brunoud G, Zhang X, Glanc M, Li L, Michalko J, Pavlovicova Z, Verstraeten I, Han H, Hajny J, Hauschild R, Čovanová M, Zwiewka M, Hörmayer L, Fendrych M, Xu T, Vernoux T, Friml J. 2021. Developmental roles of auxin binding protein 1 in Arabidopsis thaliana. Plant Science. 303, 110750.","ama":"Gelová Z, Gallei MC, Pernisová M, et al. Developmental roles of auxin binding protein 1 in Arabidopsis thaliana. Plant Science. 2021;303. doi:10.1016/j.plantsci.2020.110750"},"publication":"Plant Science","article_type":"original","date_published":"2021-02-01T00:00:00Z","scopus_import":"1","keyword":["Agronomy and Crop Science","Plant Science","Genetics","General Medicine"],"article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","day":"01"},{"intvolume":" 186","title":"Systematic analysis of specific and nonspecific auxin effects on endocytosis and trafficking","status":"public","ddc":["580"],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"9287","file":[{"date_created":"2021-11-11T15:07:51Z","date_updated":"2021-11-11T15:07:51Z","checksum":"532bb9469d3b665907f06df8c383eade","success":1,"relation":"main_file","file_id":"10273","file_size":2289127,"content_type":"application/pdf","creator":"cziletti","file_name":"2021_PlantPhysio_Narasimhan.pdf","access_level":"open_access"}],"oa_version":"Published Version","type":"journal_article","issue":"2","abstract":[{"text":"The phytohormone auxin and its directional transport through tissues are intensively studied. However, a mechanistic understanding of auxin-mediated feedback on endocytosis and polar distribution of PIN auxin transporters remains limited due to contradictory observations and interpretations. Here, we used state-of-the-art methods to reexamine the\r\nauxin effects on PIN endocytic trafficking. We used high auxin concentrations or longer treatments versus lower concentrations and shorter treatments of natural (IAA) and synthetic (NAA) auxins to distinguish between specific and nonspecific effects. Longer treatments of both auxins interfere with Brefeldin A-mediated intracellular PIN2 accumulation and also with general aggregation of endomembrane compartments. NAA treatment decreased the internalization of the endocytic tracer dye, FM4-64; however, NAA treatment also affected the number, distribution, and compartment identity of the early endosome/trans-Golgi network (EE/TGN), rendering the FM4-64 endocytic assays at high NAA concentrations unreliable. To circumvent these nonspecific effects of NAA and IAA affecting the endomembrane system, we opted for alternative approaches visualizing the endocytic events directly at the plasma membrane (PM). Using Total Internal Reflection Fluorescence (TIRF) microscopy, we saw no significant effects of IAA or NAA treatments on the incidence and dynamics of clathrin foci, implying that these treatments do not affect the overall endocytosis rate. However, both NAA and IAA at low concentrations rapidly and specifically promoted endocytosis of photo-converted PIN2 from the PM. These analyses identify a specific effect of NAA and IAA on PIN2 endocytosis, thus contributing to its\r\npolarity maintenance and furthermore illustrate that high auxin levels have nonspecific effects on trafficking and endomembrane compartments. ","lang":"eng"}],"page":"1122–1142","article_type":"original","citation":{"chicago":"Narasimhan, Madhumitha, Michelle C Gallei, Shutang Tan, Alexander J Johnson, Inge Verstraeten, Lanxin Li, Lesia Rodriguez Solovey, et al. “Systematic Analysis of Specific and Nonspecific Auxin Effects on Endocytosis and Trafficking.” Plant Physiology. Oxford University Press, 2021. https://doi.org/10.1093/plphys/kiab134.","mla":"Narasimhan, Madhumitha, et al. “Systematic Analysis of Specific and Nonspecific Auxin Effects on Endocytosis and Trafficking.” Plant Physiology, vol. 186, no. 2, Oxford University Press, 2021, pp. 1122–1142, doi:10.1093/plphys/kiab134.","short":"M. Narasimhan, M.C. Gallei, S. Tan, A.J. Johnson, I. Verstraeten, L. Li, L. Rodriguez Solovey, H. Han, E. Himschoot, R. Wang, S. Vanneste, J. Sánchez-Simarro, F. Aniento, M. Adamowski, J. Friml, Plant Physiology 186 (2021) 1122–1142.","ista":"Narasimhan M, Gallei MC, Tan S, Johnson AJ, Verstraeten I, Li L, Rodriguez Solovey L, Han H, Himschoot E, Wang R, Vanneste S, Sánchez-Simarro J, Aniento F, Adamowski M, Friml J. 2021. Systematic analysis of specific and nonspecific auxin effects on endocytosis and trafficking. Plant Physiology. 186(2), 1122–1142.","ieee":"M. Narasimhan et al., “Systematic analysis of specific and nonspecific auxin effects on endocytosis and trafficking,” Plant Physiology, vol. 186, no. 2. Oxford University Press, pp. 1122–1142, 2021.","apa":"Narasimhan, M., Gallei, M. C., Tan, S., Johnson, A. J., Verstraeten, I., Li, L., … Friml, J. (2021). Systematic analysis of specific and nonspecific auxin effects on endocytosis and trafficking. Plant Physiology. Oxford University Press. https://doi.org/10.1093/plphys/kiab134","ama":"Narasimhan M, Gallei MC, Tan S, et al. Systematic analysis of specific and nonspecific auxin effects on endocytosis and trafficking. Plant Physiology. 2021;186(2):1122–1142. doi:10.1093/plphys/kiab134"},"publication":"Plant Physiology","date_published":"2021-06-01T00:00:00Z","article_processing_charge":"Yes (in subscription journal)","has_accepted_license":"1","day":"01","department":[{"_id":"JiFr"}],"publisher":"Oxford University Press","publication_status":"published","pmid":1,"year":"2021","acknowledgement":"We thank Ivan Kulik for developing the Chip’n’Dale apparatus with Lanxin Li; the IST machine shop and the Bioimaging facility for their excellent support; Matouš Glanc and Matyáš Fendrych for their valuable discussions and help; Barbara Casillas-Perez for her help with statistics. This project has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (grant agreement No 742985). A.J. is supported by funding from the Austrian Science Fund (FWF): I3630B25 to J.F. ","volume":186,"date_created":"2021-03-26T12:08:38Z","date_updated":"2024-03-28T23:30:44Z","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"11626"},{"id":"10083","status":"public","relation":"dissertation_contains"}],"link":[{"relation":"erratum","url":"10.1093/plphys/kiab380"}]},"author":[{"last_name":"Narasimhan","first_name":"Madhumitha","orcid":"0000-0002-8600-0671","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","full_name":"Narasimhan, Madhumitha"},{"first_name":"Michelle C","last_name":"Gallei","id":"35A03822-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1286-7368","full_name":"Gallei, Michelle C"},{"full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","last_name":"Tan","first_name":"Shutang"},{"full_name":"Johnson, Alexander J","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","first_name":"Alexander J","last_name":"Johnson"},{"full_name":"Verstraeten, Inge","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7241-2328","first_name":"Inge","last_name":"Verstraeten"},{"first_name":"Lanxin","last_name":"Li","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X","full_name":"Li, Lanxin"},{"full_name":"Rodriguez Solovey, Lesia","orcid":"0000-0002-7244-7237","id":"3922B506-F248-11E8-B48F-1D18A9856A87","last_name":"Rodriguez Solovey","first_name":"Lesia"},{"full_name":"Han, Huibin","first_name":"Huibin","last_name":"Han","id":"31435098-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Himschoot, E","first_name":"E","last_name":"Himschoot"},{"full_name":"Wang, R","first_name":"R","last_name":"Wang"},{"last_name":"Vanneste","first_name":"S","full_name":"Vanneste, S"},{"first_name":"J","last_name":"Sánchez-Simarro","full_name":"Sánchez-Simarro, J"},{"last_name":"Aniento","first_name":"F","full_name":"Aniento, F"},{"last_name":"Adamowski","first_name":"Maciek","orcid":"0000-0001-6463-5257","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","full_name":"Adamowski, Maciek"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"}],"ec_funded":1,"file_date_updated":"2021-11-11T15:07:51Z","project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF"}],"isi":1,"quality_controlled":"1","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["33734402"],"isi":["000671555900031"]},"language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"Bio"}],"doi":"10.1093/plphys/kiab134","publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"month":"06"},{"month":"10","publication_identifier":{"issn":["2663-337X"]},"doi":"10.15479/at:ista:10083","degree_awarded":"PhD","supervisor":[{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"oa":1,"project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","name":"International IST Doctoral Program","call_identifier":"H2020"},{"name":"A Case Study of Plant Growth Regulation: Molecular Mechanism of Auxin-mediated Rapid Growth Inhibition in Arabidopsis Root","_id":"26B4D67E-B435-11E9-9278-68D0E5697425","grant_number":"25351"}],"file_date_updated":"2022-12-20T23:30:03Z","ec_funded":1,"author":[{"last_name":"Li","first_name":"Lanxin","full_name":"Li, Lanxin"}],"related_material":{"record":[{"id":"442","status":"public","relation":"part_of_dissertation"},{"status":"public","relation":"part_of_dissertation","id":"8931"},{"id":"9287","status":"public","relation":"part_of_dissertation"},{"id":"8283","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"8986"},{"id":"6627","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"10095"},{"relation":"part_of_dissertation","status":"public","id":"10015"}]},"date_updated":"2023-10-31T19:30:02Z","date_created":"2021-10-04T13:33:10Z","year":"2021","publication_status":"published","department":[{"_id":"GradSch"},{"_id":"JiFr"}],"publisher":"Institute of Science and Technology Austria","day":"06","has_accepted_license":"1","article_processing_charge":"No","date_published":"2021-10-06T00:00:00Z","citation":{"ista":"Li L. 2021. Rapid cell growth regulation in Arabidopsis. Institute of Science and Technology Austria.","ieee":"L. Li, “Rapid cell growth regulation in Arabidopsis,” Institute of Science and Technology Austria, 2021.","apa":"Li, L. (2021). Rapid cell growth regulation in Arabidopsis. Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:10083","ama":"Li L. Rapid cell growth regulation in Arabidopsis. 2021. doi:10.15479/at:ista:10083","chicago":"Li, Lanxin. “Rapid Cell Growth Regulation in Arabidopsis.” Institute of Science and Technology Austria, 2021. https://doi.org/10.15479/at:ista:10083.","mla":"Li, Lanxin. Rapid Cell Growth Regulation in Arabidopsis. Institute of Science and Technology Austria, 2021, doi:10.15479/at:ista:10083.","short":"L. Li, Rapid Cell Growth Regulation in Arabidopsis, Institute of Science and Technology Austria, 2021."},"abstract":[{"text":"Plant motions occur across a wide spectrum of timescales, ranging from seed dispersal through bursting (milliseconds) and stomatal opening (minutes) to long-term adaptation of gross architecture. Relatively fast motions include water-driven growth as exemplified by root cell expansion under abiotic/biotic stresses or during gravitropism. A showcase is a root growth inhibition in 30 seconds triggered by the phytohormone auxin. However, the cellular and molecular mechanisms are still largely unknown. This thesis covers the studies about this topic as follows. By taking advantage of microfluidics combined with live imaging, pharmaceutical tools, and transgenic lines, we examined the kinetics of and causal relationship among various auxininduced rapid cellular changes in root growth, apoplastic pH, cytosolic Ca2+, cortical microtubule (CMT) orientation, and vacuolar morphology. We revealed that CMT reorientation and vacuolar constriction are the consequence of growth itself instead of responding directly to auxin. In contrast, auxin induces apoplast alkalinization to rapidly inhibit root growth in 30 seconds. This auxin-triggered apoplast alkalinization results from rapid H+- influx that is contributed by Ca2+ inward channel CYCLIC NUCLEOTIDE-GATED CHANNEL 14 (CNGC14)-dependent Ca2+ signaling. To dissect which auxin signaling mediates the rapid apoplast alkalinization, we\r\ncombined microfluidics and genetic engineering to verify that TIR1/AFB receptors conduct a non-transcriptional regulation on Ca2+ and H+ -influx. This non-canonical pathway is mostly mediated by the cytosolic portion of TIR1/AFB. On the other hand, we uncovered, using biochemical and phospho-proteomic analysis, that auxin cell surface signaling component TRANSMEMBRANE KINASE 1 (TMK1) plays a negative role during auxin-trigger apoplast\r\nalkalinization and root growth inhibition through directly activating PM H+ -ATPases. Therefore, we discovered that PM H+ -ATPases counteract instead of mediate the auxintriggered rapid H+ -influx, and that TIR1/AFB and TMK1 regulate root growth antagonistically. This opposite effect of TIR1/AFB and TMK1 is consistent during auxin-induced hypocotyl elongation, leading us to explore the relation of two signaling pathways. Assisted with biochemistry and fluorescent imaging, we verified for the first time that TIR1/AFB and TMK1 can interact with each other. The ability of TIR1/AFB binding to membrane lipid provides a basis for the interaction of plasma membrane- and cytosol-localized proteins.\r\nBesides, transgenic analysis combined with genetic engineering and biochemistry showed that vi\r\nthey do function in the same pathway. Particularly, auxin-induced TMK1 increase is TIR1/AFB dependent, suggesting TIR1/AFB regulation on TMK1. Conversely, TMK1 also regulates TIR1/AFB protein levels and thus auxin canonical signaling. To follow the study of rapid growth regulation, we analyzed another rapid growth regulator, signaling peptide RALF1. We showed that RALF1 also triggers a rapid and reversible growth inhibition caused by H + influx, highly resembling but not dependent on auxin. Besides, RALF1 promotes auxin biosynthesis by increasing expression of auxin biosynthesis enzyme YUCCAs and thus induces auxin signaling in ca. 1 hour, contributing to the sustained RALF1-triggered growth inhibition. These studies collectively contribute to understanding rapid regulation on plant cell\r\ngrowth, novel auxin signaling pathway as well as auxin-peptide crosstalk. ","lang":"eng"}],"type":"dissertation","alternative_title":["ISTA Thesis"],"file":[{"relation":"main_file","embargo":"2022-10-14","file_id":"10138","date_created":"2021-10-14T08:00:07Z","date_updated":"2022-12-20T23:30:03Z","checksum":"3b2f55b3b8ae05337a0dcc1cd8595b10","file_name":"0._IST_Austria_Thesis_Lanxin_Li_1014_pdftron.pdf","access_level":"open_access","file_size":8616142,"content_type":"application/pdf","creator":"cchlebak"},{"creator":"cchlebak","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_size":15058499,"file_name":"0._IST_Austria_Thesis_Lanxin_Li_1014.docx","embargo_to":"open_access","access_level":"closed","date_created":"2021-10-14T08:00:13Z","date_updated":"2022-12-20T23:30:03Z","checksum":"f23ed258ca894f6aabf58b0c128bf242","file_id":"10139","relation":"source_file"}],"oa_version":"Published Version","_id":"10083","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","title":"Rapid cell growth regulation in Arabidopsis","ddc":["575"]},{"date_created":"2021-09-14T11:36:20Z","date_updated":"2024-03-28T23:30:44Z","volume":10,"author":[{"first_name":"N","last_name":"Nikonorova","full_name":"Nikonorova, N"},{"full_name":"Murphy, E","last_name":"Murphy","first_name":"E"},{"first_name":"CF","last_name":"Fonseca de Lima","full_name":"Fonseca de Lima, CF"},{"first_name":"S","last_name":"Zhu","full_name":"Zhu, S"},{"first_name":"B","last_name":"van de Cotte","full_name":"van de Cotte, B"},{"full_name":"Vu, LD","last_name":"Vu","first_name":"LD"},{"first_name":"D","last_name":"Balcerowicz","full_name":"Balcerowicz, D"},{"id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X","first_name":"Lanxin","last_name":"Li","full_name":"Li, Lanxin"},{"full_name":"Kong, X","first_name":"X","last_name":"Kong"},{"full_name":"De Rop, G","first_name":"G","last_name":"De Rop"},{"full_name":"Beeckman, T","first_name":"T","last_name":"Beeckman"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"last_name":"Vissenberg","first_name":"K","full_name":"Vissenberg, K"},{"full_name":"Morris, PC","first_name":"PC","last_name":"Morris"},{"first_name":"Z","last_name":"Ding","full_name":"Ding, Z"},{"full_name":"De Smet, I","last_name":"De Smet","first_name":"I"}],"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"10083"}]},"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"MDPI","acknowledgement":"We thank the Nottingham Stock Centre for seeds, Frank Van Breusegem for the phb3 mutant, and Herman Höfte for the the1 mutant. Open Access Funding by the Austrian Science Fund (FWF).","year":"2021","pmid":1,"file_date_updated":"2021-09-16T09:07:06Z","ec_funded":1,"article_number":"1665 ","language":[{"iso":"eng"}],"doi":"10.3390/cells10071665","isi":1,"quality_controlled":"1","project":[{"grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program","call_identifier":"H2020"},{"_id":"3AC91DDA-15DF-11EA-824D-93A3E7B544D1","call_identifier":"FWF","name":"FWF Open Access Fund"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000676604700001"],"pmid":["34359847"]},"month":"07","publication_identifier":{"issn":["2073-4409"]},"file":[{"file_name":"2021_Cells_Nikonorova.pdf","access_level":"open_access","content_type":"application/pdf","file_size":2667848,"creator":"cchlebak","relation":"main_file","file_id":"10021","date_updated":"2021-09-16T09:07:06Z","date_created":"2021-09-16T09:07:06Z","checksum":"2a9f534b9c2200e72e2cde95afaf4eed","success":1}],"oa_version":"Published Version","status":"public","title":"The Arabidopsis root tip (phospho)proteomes at growth-promoting versus growth-repressing conditions reveal novel root growth regulators","ddc":["575"],"intvolume":" 10","_id":"10015","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","abstract":[{"lang":"eng","text":"Auxin plays a dual role in growth regulation and, depending on the tissue and concentration of the hormone, it can either promote or inhibit division and expansion processes in plants. Recent studies have revealed that, beyond transcriptional reprogramming, alternative auxincontrolled mechanisms regulate root growth. Here, we explored the impact of different concentrations of the synthetic auxin NAA that establish growth-promoting and -repressing conditions on the root tip proteome and phosphoproteome, generating a unique resource. From the phosphoproteome data, we pinpointed (novel) growth regulators, such as the RALF34-THE1 module. Our results, together with previously published studies, suggest that auxin, H+-ATPases, cell wall modifications and cell wall sensing receptor-like kinases are tightly embedded in a pathway regulating cell elongation. Furthermore, our study assigned a novel role to MKK2 as a regulator of primary root growth and a (potential) regulator of auxin biosynthesis and signalling, and suggests the importance of the MKK2\r\nThr31 phosphorylation site for growth regulation in the Arabidopsis root tip."}],"alternative_title":["Protein Phosphorylation and Cell Signaling in Plants"],"type":"journal_article","date_published":"2021-07-02T00:00:00Z","article_type":"original","publication":"Cells","citation":{"mla":"Nikonorova, N., et al. “The Arabidopsis Root Tip (Phospho)Proteomes at Growth-Promoting versus Growth-Repressing Conditions Reveal Novel Root Growth Regulators.” Cells, vol. 10, 1665, MDPI, 2021, doi:10.3390/cells10071665.","short":"N. Nikonorova, E. Murphy, C. Fonseca de Lima, S. Zhu, B. van de Cotte, L. Vu, D. Balcerowicz, L. Li, X. Kong, G. De Rop, T. Beeckman, J. Friml, K. Vissenberg, P. Morris, Z. Ding, I. De Smet, Cells 10 (2021).","chicago":"Nikonorova, N, E Murphy, CF Fonseca de Lima, S Zhu, B van de Cotte, LD Vu, D Balcerowicz, et al. “The Arabidopsis Root Tip (Phospho)Proteomes at Growth-Promoting versus Growth-Repressing Conditions Reveal Novel Root Growth Regulators.” Cells. MDPI, 2021. https://doi.org/10.3390/cells10071665.","ama":"Nikonorova N, Murphy E, Fonseca de Lima C, et al. The Arabidopsis root tip (phospho)proteomes at growth-promoting versus growth-repressing conditions reveal novel root growth regulators. Cells. 2021;10. doi:10.3390/cells10071665","ista":"Nikonorova N, Murphy E, Fonseca de Lima C, Zhu S, van de Cotte B, Vu L, Balcerowicz D, Li L, Kong X, De Rop G, Beeckman T, Friml J, Vissenberg K, Morris P, Ding Z, De Smet I. 2021. The Arabidopsis root tip (phospho)proteomes at growth-promoting versus growth-repressing conditions reveal novel root growth regulators. Cells. 10, 1665.","apa":"Nikonorova, N., Murphy, E., Fonseca de Lima, C., Zhu, S., van de Cotte, B., Vu, L., … De Smet, I. (2021). The Arabidopsis root tip (phospho)proteomes at growth-promoting versus growth-repressing conditions reveal novel root growth regulators. Cells. MDPI. https://doi.org/10.3390/cells10071665","ieee":"N. Nikonorova et al., “The Arabidopsis root tip (phospho)proteomes at growth-promoting versus growth-repressing conditions reveal novel root growth regulators,” Cells, vol. 10. MDPI, 2021."},"day":"02","article_processing_charge":"Yes","has_accepted_license":"1","keyword":["primary root","(phospho)proteomics","auxin","(receptor) kinase"]},{"abstract":[{"lang":"eng","text":"Growth regulation tailors plant development to its environment. A showcase is response to gravity, where shoots bend up and roots down1. This paradox is based on opposite effects of the phytohormone auxin, which promotes cell expansion in shoots, while inhibiting it in roots via a yet unknown cellular mechanism2. Here, by combining microfluidics, live imaging, genetic engineering and phospho-proteomics in Arabidopsis thaliana, we advance our understanding how auxin inhibits root growth. We show that auxin activates two distinct, antagonistically acting signalling pathways that converge on the rapid regulation of the apoplastic pH, a causative growth determinant. Cell surface-based TRANSMEMBRANE KINASE1 (TMK1) interacts with and mediates phosphorylation and activation of plasma membrane H+-ATPases for apoplast acidification, while intracellular canonical auxin signalling promotes net cellular H+-influx, causing apoplast alkalinisation. The simultaneous activation of these two counteracting mechanisms poises the root for a rapid, fine-tuned growth modulation while navigating complex soil environment."}],"type":"preprint","oa_version":"Preprint","status":"public","title":"Cell surface and intracellular auxin signalling for H+-fluxes in root growth","_id":"10095","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","day":"09","date_published":"2021-09-09T00:00:00Z","citation":{"chicago":"Li, Lanxin, Inge Verstraeten, Mark Roosjen, Koji Takahashi, Lesia Rodriguez Solovey, Jack Merrin, Jian Chen, et al. “Cell Surface and Intracellular Auxin Signalling for H+-Fluxes in Root Growth.” Research Square, n.d. https://doi.org/10.21203/rs.3.rs-266395/v3.","mla":"Li, Lanxin, et al. “Cell Surface and Intracellular Auxin Signalling for H+-Fluxes in Root Growth.” Research Square, 266395, doi:10.21203/rs.3.rs-266395/v3.","short":"L. Li, I. Verstraeten, M. Roosjen, K. Takahashi, L. Rodriguez Solovey, J. Merrin, J. Chen, L. Shabala, W. Smet, H. Ren, S. Vanneste, S. Shabala, B. De Rybel, D. Weijers, T. Kinoshita, W.M. Gray, J. Friml, Research Square (n.d.).","ista":"Li L, Verstraeten I, Roosjen M, Takahashi K, Rodriguez Solovey L, Merrin J, Chen J, Shabala L, Smet W, Ren H, Vanneste S, Shabala S, De Rybel B, Weijers D, Kinoshita T, Gray WM, Friml J. Cell surface and intracellular auxin signalling for H+-fluxes in root growth. Research Square, 266395.","apa":"Li, L., Verstraeten, I., Roosjen, M., Takahashi, K., Rodriguez Solovey, L., Merrin, J., … Friml, J. (n.d.). Cell surface and intracellular auxin signalling for H+-fluxes in root growth. Research Square. https://doi.org/10.21203/rs.3.rs-266395/v3","ieee":"L. Li et al., “Cell surface and intracellular auxin signalling for H+-fluxes in root growth,” Research Square. .","ama":"Li L, Verstraeten I, Roosjen M, et al. Cell surface and intracellular auxin signalling for H+-fluxes in root growth. Research Square. doi:10.21203/rs.3.rs-266395/v3"},"publication":"Research Square","ec_funded":1,"article_number":"266395","date_updated":"2024-03-28T23:30:44Z","date_created":"2021-10-06T08:56:22Z","related_material":{"record":[{"relation":"later_version","status":"public","id":"10223"},{"status":"public","relation":"dissertation_contains","id":"10083"}]},"author":[{"first_name":"Lanxin","last_name":"Li","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X","full_name":"Li, Lanxin"},{"full_name":"Verstraeten, Inge","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7241-2328","first_name":"Inge","last_name":"Verstraeten"},{"full_name":"Roosjen, Mark","last_name":"Roosjen","first_name":"Mark"},{"last_name":"Takahashi","first_name":"Koji","full_name":"Takahashi, Koji"},{"last_name":"Rodriguez Solovey","first_name":"Lesia","orcid":"0000-0002-7244-7237","id":"3922B506-F248-11E8-B48F-1D18A9856A87","full_name":"Rodriguez Solovey, Lesia"},{"last_name":"Merrin","first_name":"Jack","orcid":"0000-0001-5145-4609","id":"4515C308-F248-11E8-B48F-1D18A9856A87","full_name":"Merrin, Jack"},{"full_name":"Chen, Jian","first_name":"Jian","last_name":"Chen"},{"full_name":"Shabala, Lana","last_name":"Shabala","first_name":"Lana"},{"full_name":"Smet, Wouter","last_name":"Smet","first_name":"Wouter"},{"full_name":"Ren, Hong","last_name":"Ren","first_name":"Hong"},{"full_name":"Vanneste, Steffen","last_name":"Vanneste","first_name":"Steffen"},{"full_name":"Shabala, Sergey","last_name":"Shabala","first_name":"Sergey"},{"full_name":"De Rybel, Bert","last_name":"De Rybel","first_name":"Bert"},{"first_name":"Dolf","last_name":"Weijers","full_name":"Weijers, Dolf"},{"full_name":"Kinoshita, Toshinori","first_name":"Toshinori","last_name":"Kinoshita"},{"full_name":"Gray, William M.","last_name":"Gray","first_name":"William M."},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří"}],"department":[{"_id":"JiFr"},{"_id":"NanoFab"}],"publication_status":"accepted","acknowledgement":"We thank Nataliia Gnyliukh and Lukas Hörmayer for technical assistance and Nadine Paris for sharing PM-Cyto seeds. We gratefully acknowledge Life Science, Machine Shop and Bioimaging Facilities of IST Austria. This project has received funding from the European Research Council Advanced Grant (ETAP-742985) and the Austrian Science Fund (FWF) I 3630-B25 to J.F., the National Institutes of Health (GM067203) to W.M.G., the Netherlands Organization for Scientific Research (NWO; VIDI-864.13.001.), the Research Foundation-Flanders (FWO; Odysseus II G0D0515N) and a European Research Council Starting Grant (TORPEDO-714055) to W.S. and B.D.R., the VICI grant (865.14.001) from the Netherlands Organization for Scientific Research to M.R and D.W., the Australian Research Council and China National Distinguished Expert Project (WQ20174400441) to S.S., the MEXT/JSPS KAKENHI to K.T. (20K06685) and T.K. (20H05687 and 20H05910), the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 665385 and the DOC Fellowship of the Austrian Academy of Sciences to L.L., the China Scholarship Council to J.C.","year":"2021","publication_identifier":{"issn":["2693-5015"]},"month":"09","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"M-Shop"},{"_id":"Bio"}],"doi":"10.21203/rs.3.rs-266395/v3","project":[{"call_identifier":"H2020","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385"},{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"},{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630"},{"name":"A Case Study of Plant Growth Regulation: Molecular Mechanism of Auxin-mediated Rapid Growth Inhibition in Arabidopsis Root","_id":"26B4D67E-B435-11E9-9278-68D0E5697425","grant_number":"25351"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"main_file_link":[{"open_access":"1","url":"https://www.doi.org/10.21203/rs.3.rs-266395/v3"}]},{"article_processing_charge":"No","month":"02","day":"19","citation":{"short":"Z. Wei, S. Tan, T. Liu, Y. Wu, J.-G. Lei, Z. Chen, J. Friml, H.-W. Xue, K. Liao, BioRxiv (2020).","mla":"Wei, Zhuang, et al. “Plasmodesmata-like Intercellular Connections by Plant Remorin in Animal Cells.” BioRxiv, Cold Spring Harbor Laboratory, 2020, doi:10.1101/791137.","chicago":"Wei, Zhuang, Shutang Tan, Tao Liu, Yuan Wu, Ji-Gang Lei, ZhengJun Chen, Jiří Friml, Hong-Wei Xue, and Kan Liao. “Plasmodesmata-like Intercellular Connections by Plant Remorin in Animal Cells.” BioRxiv. Cold Spring Harbor Laboratory, 2020. https://doi.org/10.1101/791137.","ama":"Wei Z, Tan S, Liu T, et al. Plasmodesmata-like intercellular connections by plant remorin in animal cells. bioRxiv. 2020. doi:10.1101/791137","ieee":"Z. Wei et al., “Plasmodesmata-like intercellular connections by plant remorin in animal cells,” bioRxiv. Cold Spring Harbor Laboratory, 2020.","apa":"Wei, Z., Tan, S., Liu, T., Wu, Y., Lei, J.-G., Chen, Z., … Liao, K. (2020). Plasmodesmata-like intercellular connections by plant remorin in animal cells. bioRxiv. Cold Spring Harbor Laboratory. https://doi.org/10.1101/791137","ista":"Wei Z, Tan S, Liu T, Wu Y, Lei J-G, Chen Z, Friml J, Xue H-W, Liao K. 2020. Plasmodesmata-like intercellular connections by plant remorin in animal cells. bioRxiv, 10.1101/791137."},"oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/791137"}],"publication":"bioRxiv","page":"22","date_published":"2020-02-19T00:00:00Z","doi":"10.1101/791137","language":[{"iso":"eng"}],"type":"preprint","abstract":[{"lang":"eng","text":"Plasmodesmata (PD) are crucial structures for intercellular communication in multicellular plants with remorins being their crucial plant-specific structural and functional constituents. The PD biogenesis is an intriguing but poorly understood process. By expressing an Arabidopsis remorin protein in mammalian cells, we have reconstituted a PD-like filamentous structure, termed remorin filament (RF), connecting neighboring cells physically and physiologically. Notably, RFs are capable of transporting macromolecules intercellularly, in a way similar to plant PD. With further super-resolution microscopic analysis and biochemical characterization, we found that RFs are also composed of actin filaments, forming the core skeleton structure, aligned with the remorin protein. This unique heterologous filamentous structure might explain the molecular mechanism for remorin function as well as PD construction. Furthermore, remorin protein exhibits a specific distribution manner in the plasma membrane in mammalian cells, representing a lipid nanodomain, depending on its lipid modification status. Our studies not only provide crucial insights into the mechanism of PD biogenesis, but also uncovers unsuspected fundamental mechanistic and evolutionary links between intercellular communication systems of plants and animals."}],"_id":"7601","year":"2020","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publisher":"Cold Spring Harbor Laboratory","department":[{"_id":"JiFr"}],"status":"public","publication_status":"published","title":"Plasmodesmata-like intercellular connections by plant remorin in animal cells","author":[{"last_name":"Wei","first_name":"Zhuang","full_name":"Wei, Zhuang"},{"full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","last_name":"Tan","first_name":"Shutang"},{"full_name":"Liu, Tao","last_name":"Liu","first_name":"Tao"},{"full_name":"Wu, Yuan","last_name":"Wu","first_name":"Yuan"},{"full_name":"Lei, Ji-Gang","last_name":"Lei","first_name":"Ji-Gang"},{"full_name":"Chen, ZhengJun","first_name":"ZhengJun","last_name":"Chen"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"first_name":"Hong-Wei","last_name":"Xue","full_name":"Xue, Hong-Wei"},{"first_name":"Kan","last_name":"Liao","full_name":"Liao, Kan"}],"oa_version":"Preprint","date_updated":"2021-01-12T08:14:26Z","date_created":"2020-03-21T16:34:42Z"},{"month":"02","publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646x"]},"quality_controlled":"1","isi":1,"project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"},{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"},{"_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000489638800001"],"pmid":["31603260"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1111/nph.16203","file_date_updated":"2020-11-18T16:42:48Z","ec_funded":1,"publication_status":"published","publisher":"Wiley","department":[{"_id":"JiFr"}],"year":"2020","pmid":1,"date_created":"2019-11-12T11:41:32Z","date_updated":"2023-08-17T14:01:49Z","volume":225,"author":[{"full_name":"Zhang, Yuzhou","last_name":"Zhang","first_name":"Yuzhou","orcid":"0000-0003-2627-6956","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"scopus_import":"1","day":"01","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","article_type":"original","page":"1049-1052","publication":"New Phytologist","citation":{"ama":"Zhang Y, Friml J. Auxin guides roots to avoid obstacles during gravitropic growth. New Phytologist. 2020;225(3):1049-1052. doi:10.1111/nph.16203","ieee":"Y. Zhang and J. Friml, “Auxin guides roots to avoid obstacles during gravitropic growth,” New Phytologist, vol. 225, no. 3. Wiley, pp. 1049–1052, 2020.","apa":"Zhang, Y., & Friml, J. (2020). Auxin guides roots to avoid obstacles during gravitropic growth. New Phytologist. Wiley. https://doi.org/10.1111/nph.16203","ista":"Zhang Y, Friml J. 2020. Auxin guides roots to avoid obstacles during gravitropic growth. New Phytologist. 225(3), 1049–1052.","short":"Y. Zhang, J. Friml, New Phytologist 225 (2020) 1049–1052.","mla":"Zhang, Yuzhou, and Jiří Friml. “Auxin Guides Roots to Avoid Obstacles during Gravitropic Growth.” New Phytologist, vol. 225, no. 3, Wiley, 2020, pp. 1049–52, doi:10.1111/nph.16203.","chicago":"Zhang, Yuzhou, and Jiří Friml. “Auxin Guides Roots to Avoid Obstacles during Gravitropic Growth.” New Phytologist. Wiley, 2020. https://doi.org/10.1111/nph.16203."},"date_published":"2020-02-01T00:00:00Z","type":"journal_article","issue":"3","title":"Auxin guides roots to avoid obstacles during gravitropic growth","status":"public","ddc":["580"],"intvolume":" 225","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6997","file":[{"file_name":"2020_NewPhytologist_Zhang.pdf","access_level":"open_access","file_size":717345,"content_type":"application/pdf","creator":"dernst","relation":"main_file","file_id":"8772","date_created":"2020-11-18T16:42:48Z","date_updated":"2020-11-18T16:42:48Z","checksum":"cd42ffdb381fd52812b9583d4d407139","success":1}],"oa_version":"Published Version"},{"author":[{"full_name":"Li, Yang","first_name":"Yang","last_name":"Li"},{"last_name":"Wang","first_name":"Yaping","full_name":"Wang, Yaping"},{"full_name":"Tan, Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","first_name":"Shutang","last_name":"Tan"},{"full_name":"Li, Zhen","last_name":"Li","first_name":"Zhen"},{"full_name":"Yuan, Zhi","last_name":"Yuan","first_name":"Zhi"},{"full_name":"Glanc, Matous","orcid":"0000-0003-0619-7783","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","last_name":"Glanc","first_name":"Matous"},{"full_name":"Domjan, David","orcid":"0000-0003-2267-106X","id":"C684CD7A-257E-11EA-9B6F-D8588B4F947F","last_name":"Domjan","first_name":"David"},{"full_name":"Wang, Kai","last_name":"Wang","first_name":"Kai"},{"full_name":"Xuan, Wei","first_name":"Wei","last_name":"Xuan"},{"full_name":"Guo, Yan","last_name":"Guo","first_name":"Yan"},{"last_name":"Gong","first_name":"Zhizhong","full_name":"Gong, Zhizhong"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"full_name":"Zhang, Jing","first_name":"Jing","last_name":"Zhang"}],"volume":7,"date_created":"2019-12-22T23:00:43Z","date_updated":"2023-08-17T14:13:17Z","pmid":1,"year":"2020","publisher":"Wiley","department":[{"_id":"JiFr"}],"publication_status":"published","file_date_updated":"2020-07-14T12:47:53Z","article_number":"1901455","doi":"10.1002/advs.201901455","language":[{"iso":"eng"}],"external_id":{"pmid":["32042554"],"isi":["000501912800001"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"quality_controlled":"1","isi":1,"publication_identifier":{"eissn":["2198-3844"]},"month":"02","oa_version":"Published Version","file":[{"access_level":"open_access","file_name":"2020_AdvScience_Li.pdf","creator":"dernst","file_size":3586924,"content_type":"application/pdf","file_id":"7519","relation":"main_file","checksum":"016eeab5860860af038e2da95ffe75c3","date_created":"2020-02-24T14:29:54Z","date_updated":"2020-07-14T12:47:53Z"}],"_id":"7204","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 7","title":"Root growth adaptation is mediated by PYLs ABA receptor-PP2A protein phosphatase complex","status":"public","ddc":["580"],"issue":"3","abstract":[{"lang":"eng","text":"Plant root architecture dynamically adapts to various environmental conditions, such as salt‐containing soil. The phytohormone abscisic acid (ABA) is involved among others also in these developmental adaptations, but the underlying molecular mechanism remains elusive. Here, a novel branch of the ABA signaling pathway in Arabidopsis involving PYR/PYL/RCAR (abbreviated as PYLs) receptor‐protein phosphatase 2A (PP2A) complex that acts in parallel to the canonical PYLs‐protein phosphatase 2C (PP2C) mechanism is identified. The PYLs‐PP2A signaling modulates root gravitropism and lateral root formation through regulating phytohormone auxin transport. In optimal conditions, PYLs ABA receptor interacts with the catalytic subunits of PP2A, increasing their phosphatase activity and thus counteracting PINOID (PID) kinase‐mediated phosphorylation of PIN‐FORMED (PIN) auxin transporters. By contrast, in salt and osmotic stress conditions, ABA binds to PYLs, inhibiting the PP2A activity, which leads to increased PIN phosphorylation and consequently modulated directional auxin transport leading to adapted root architecture. This work reveals an adaptive mechanism that may flexibly adjust plant root growth to withstand saline and osmotic stresses. It occurs via the cross‐talk between the stress hormone ABA and the versatile developmental regulator auxin."}],"type":"journal_article","date_published":"2020-02-05T00:00:00Z","citation":{"chicago":"Li, Yang, Yaping Wang, Shutang Tan, Zhen Li, Zhi Yuan, Matous Glanc, David Domjan, et al. “Root Growth Adaptation Is Mediated by PYLs ABA Receptor-PP2A Protein Phosphatase Complex.” Advanced Science. Wiley, 2020. https://doi.org/10.1002/advs.201901455.","short":"Y. Li, Y. Wang, S. Tan, Z. Li, Z. Yuan, M. Glanc, D. Domjan, K. Wang, W. Xuan, Y. Guo, Z. Gong, J. Friml, J. Zhang, Advanced Science 7 (2020).","mla":"Li, Yang, et al. “Root Growth Adaptation Is Mediated by PYLs ABA Receptor-PP2A Protein Phosphatase Complex.” Advanced Science, vol. 7, no. 3, 1901455, Wiley, 2020, doi:10.1002/advs.201901455.","apa":"Li, Y., Wang, Y., Tan, S., Li, Z., Yuan, Z., Glanc, M., … Zhang, J. (2020). Root growth adaptation is mediated by PYLs ABA receptor-PP2A protein phosphatase complex. Advanced Science. Wiley. https://doi.org/10.1002/advs.201901455","ieee":"Y. Li et al., “Root growth adaptation is mediated by PYLs ABA receptor-PP2A protein phosphatase complex,” Advanced Science, vol. 7, no. 3. Wiley, 2020.","ista":"Li Y, Wang Y, Tan S, Li Z, Yuan Z, Glanc M, Domjan D, Wang K, Xuan W, Guo Y, Gong Z, Friml J, Zhang J. 2020. Root growth adaptation is mediated by PYLs ABA receptor-PP2A protein phosphatase complex. Advanced Science. 7(3), 1901455.","ama":"Li Y, Wang Y, Tan S, et al. Root growth adaptation is mediated by PYLs ABA receptor-PP2A protein phosphatase complex. Advanced Science. 2020;7(3). doi:10.1002/advs.201901455"},"publication":"Advanced Science","article_type":"original","article_processing_charge":"No","has_accepted_license":"1","day":"05","scopus_import":"1"},{"month":"02","publication_identifier":{"issn":["1369-5266"],"eissn":["1879-0356"]},"external_id":{"pmid":["31760231"],"isi":["000521120600007"]},"quality_controlled":"1","isi":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"}],"doi":"10.1016/j.pbi.2019.10.003","language":[{"iso":"eng"}],"ec_funded":1,"year":"2020","acknowledgement":"Research in J.F. laboratory is funded by the European Union's Horizon 2020 program (ERC grant agreement n° 742985); C.L. is supported by the Austrian Science Fund (FWF grant P 31493).","pmid":1,"publication_status":"published","publisher":"Elsevier","department":[{"_id":"JiFr"}],"author":[{"full_name":"Gallei, Michelle C","last_name":"Gallei","first_name":"Michelle C","orcid":"0000-0003-1286-7368","id":"35A03822-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Christian","last_name":"Luschnig","full_name":"Luschnig, Christian"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"11626"}]},"date_created":"2019-12-02T12:05:26Z","date_updated":"2023-08-17T14:07:22Z","volume":53,"scopus_import":"1","day":"01","article_processing_charge":"No","publication":"Current Opinion in Plant Biology","citation":{"chicago":"Gallei, Michelle C, Christian Luschnig, and Jiří Friml. “Auxin Signalling in Growth: Schrödinger’s Cat out of the Bag.” Current Opinion in Plant Biology. Elsevier, 2020. https://doi.org/10.1016/j.pbi.2019.10.003.","short":"M.C. Gallei, C. Luschnig, J. Friml, Current Opinion in Plant Biology 53 (2020) 43–49.","mla":"Gallei, Michelle C., et al. “Auxin Signalling in Growth: Schrödinger’s Cat out of the Bag.” Current Opinion in Plant Biology, vol. 53, no. 2, Elsevier, 2020, pp. 43–49, doi:10.1016/j.pbi.2019.10.003.","ieee":"M. C. Gallei, C. Luschnig, and J. Friml, “Auxin signalling in growth: Schrödinger’s cat out of the bag,” Current Opinion in Plant Biology, vol. 53, no. 2. Elsevier, pp. 43–49, 2020.","apa":"Gallei, M. C., Luschnig, C., & Friml, J. (2020). Auxin signalling in growth: Schrödinger’s cat out of the bag. Current Opinion in Plant Biology. Elsevier. https://doi.org/10.1016/j.pbi.2019.10.003","ista":"Gallei MC, Luschnig C, Friml J. 2020. Auxin signalling in growth: Schrödinger’s cat out of the bag. Current Opinion in Plant Biology. 53(2), 43–49.","ama":"Gallei MC, Luschnig C, Friml J. Auxin signalling in growth: Schrödinger’s cat out of the bag. Current Opinion in Plant Biology. 2020;53(2):43-49. doi:10.1016/j.pbi.2019.10.003"},"article_type":"original","page":"43-49","date_published":"2020-02-01T00:00:00Z","type":"journal_article","abstract":[{"text":"The phytohormone auxin acts as an amazingly versatile coordinator of plant growth and development. With its morphogen-like properties, auxin controls sites and timing of differentiation and/or growth responses both, in quantitative and qualitative terms. Specificity in the auxin response depends largely on distinct modes of signal transmission, by which individual cells perceive and convert auxin signals into a remarkable diversity of responses. The best understood, or so-called canonical mechanism of auxin perception ultimately results in variable adjustments of the cellular transcriptome, via a short, nuclear signal transduction pathway. Additional findings that accumulated over decades implied that an additional, presumably, cell surface-based auxin perception mechanism mediates very rapid cellular responses and decisively contributes to the cell's overall hormonal response. Recent investigations into both, nuclear and cell surface auxin signalling challenged this assumed partition of roles for different auxin signalling pathways and revealed an unexpected complexity in transcriptional and non-transcriptional cellular responses mediated by auxin.","lang":"eng"}],"issue":"2","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7142","status":"public","title":"Auxin signalling in growth: Schrödinger's cat out of the bag","intvolume":" 53","oa_version":"None"},{"abstract":[{"lang":"eng","text":"Root system architecture (RSA), governed by the phytohormone auxin, endows plants with an adaptive advantage in particular environments. Using geographically representative arabidopsis (Arabidopsis thaliana) accessions as a resource for GWA mapping, Waidmann et al. and Ogura et al. recently identified two novel components involved in modulating auxin-mediated RSA and conferring plant fitness in particular habitats."}],"issue":"2","type":"journal_article","oa_version":"None","title":"Adaptive growth: Shaping auxin-mediated root system architecture","status":"public","intvolume":" 25","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7219","day":"01","article_processing_charge":"No","scopus_import":"1","date_published":"2020-02-01T00:00:00Z","article_type":"original","page":"P121-123","publication":"Trends in Plant Science","citation":{"ista":"Xiao G, Zhang Y. 2020. Adaptive growth: Shaping auxin-mediated root system architecture. Trends in Plant Science. 25(2), P121-123.","ieee":"G. Xiao and Y. Zhang, “Adaptive growth: Shaping auxin-mediated root system architecture,” Trends in Plant Science, vol. 25, no. 2. Elsevier, pp. P121-123, 2020.","apa":"Xiao, G., & Zhang, Y. (2020). Adaptive growth: Shaping auxin-mediated root system architecture. Trends in Plant Science. Elsevier. https://doi.org/10.1016/j.tplants.2019.12.001","ama":"Xiao G, Zhang Y. Adaptive growth: Shaping auxin-mediated root system architecture. Trends in Plant Science. 2020;25(2):P121-123. doi:10.1016/j.tplants.2019.12.001","chicago":"Xiao, Guanghui, and Yuzhou Zhang. “Adaptive Growth: Shaping Auxin-Mediated Root System Architecture.” Trends in Plant Science. Elsevier, 2020. https://doi.org/10.1016/j.tplants.2019.12.001.","mla":"Xiao, Guanghui, and Yuzhou Zhang. “Adaptive Growth: Shaping Auxin-Mediated Root System Architecture.” Trends in Plant Science, vol. 25, no. 2, Elsevier, 2020, pp. P121-123, doi:10.1016/j.tplants.2019.12.001.","short":"G. Xiao, Y. Zhang, Trends in Plant Science 25 (2020) P121-123."},"date_updated":"2023-08-17T14:14:50Z","date_created":"2019-12-29T23:00:48Z","volume":25,"author":[{"last_name":"Xiao","first_name":"Guanghui","full_name":"Xiao, Guanghui"},{"orcid":"0000-0003-2627-6956","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","last_name":"Zhang","first_name":"Yuzhou","full_name":"Zhang, Yuzhou"}],"publication_status":"published","publisher":"Elsevier","department":[{"_id":"JiFr"}],"year":"2020","pmid":1,"month":"02","publication_identifier":{"issn":["13601385"]},"language":[{"iso":"eng"}],"doi":"10.1016/j.tplants.2019.12.001","isi":1,"quality_controlled":"1","external_id":{"pmid":["31843370"],"isi":["000508637500001"]}},{"publication_status":"published","publisher":"Elsevier","department":[{"_id":"JiFr"}],"year":"2020","date_updated":"2023-08-17T14:37:32Z","date_created":"2020-02-09T23:00:50Z","volume":293,"author":[{"full_name":"Mazur, Ewa","last_name":"Mazur","first_name":"Ewa"},{"full_name":"Gallei, Michelle C","id":"35A03822-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1286-7368","first_name":"Michelle C","last_name":"Gallei"},{"full_name":"Adamowski, Maciek","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6463-5257","first_name":"Maciek","last_name":"Adamowski"},{"last_name":"Han","first_name":"Huibin","id":"31435098-F248-11E8-B48F-1D18A9856A87","full_name":"Han, Huibin"},{"last_name":"Robert","first_name":"Hélène S.","full_name":"Robert, Hélène S."},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"11626"}]},"article_number":"110414","file_date_updated":"2020-07-14T12:47:59Z","ec_funded":1,"quality_controlled":"1","isi":1,"project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"}],"external_id":{"isi":["000520609800009"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1016/j.plantsci.2020.110414","month":"04","publication_identifier":{"eissn":["18732259"],"issn":["01689452"]},"title":"Clathrin-mediated trafficking and PIN trafficking are required for auxin canalization and vascular tissue formation in Arabidopsis","status":"public","ddc":["580"],"intvolume":" 293","_id":"7465","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Published Version","file":[{"relation":"main_file","file_id":"7471","date_updated":"2020-07-14T12:47:59Z","date_created":"2020-02-10T08:59:36Z","checksum":"f7f27c6a8fea985ceb9279be2204461c","file_name":"2020_PlantScience_Mazur.pdf","access_level":"open_access","content_type":"application/pdf","file_size":3499069,"creator":"dernst"}],"type":"journal_article","abstract":[{"text":"The flexible development of plants is characterized by a high capacity for post-embryonic organ formation and tissue regeneration, processes, which require tightly regulated intercellular communication and coordinated tissue (re-)polarization. The phytohormone auxin, the main driver for these processes, is able to establish polarized auxin transport channels, which are characterized by the expression and polar, subcellular localization of the PIN1 auxin transport proteins. These channels are demarcating the position of future vascular strands necessary for organ formation and tissue regeneration. Major progress has been made in the last years to understand how PINs can change their polarity in different contexts and thus guide auxin flow through the plant. However, it still remains elusive how auxin mediates the establishment of auxin conducting channels and the formation of vascular tissue and which cellular processes are involved. By the means of sophisticated regeneration experiments combined with local auxin applications in Arabidopsis thaliana inflorescence stems we show that (i) PIN subcellular dynamics, (ii) PIN internalization by clathrin-mediated trafficking and (iii) an intact actin cytoskeleton required for post-endocytic trafficking are indispensable for auxin channel formation, de novo vascular formation and vascular regeneration after wounding. These observations provide novel insights into cellular mechanism of coordinated tissue polarization during auxin canalization.","lang":"eng"}],"issue":"4","article_type":"original","publication":"Plant Science","citation":{"ama":"Mazur E, Gallei MC, Adamowski M, Han H, Robert HS, Friml J. Clathrin-mediated trafficking and PIN trafficking are required for auxin canalization and vascular tissue formation in Arabidopsis. Plant Science. 2020;293(4). doi:10.1016/j.plantsci.2020.110414","apa":"Mazur, E., Gallei, M. C., Adamowski, M., Han, H., Robert, H. S., & Friml, J. (2020). Clathrin-mediated trafficking and PIN trafficking are required for auxin canalization and vascular tissue formation in Arabidopsis. Plant Science. Elsevier. https://doi.org/10.1016/j.plantsci.2020.110414","ieee":"E. Mazur, M. C. Gallei, M. Adamowski, H. Han, H. S. Robert, and J. Friml, “Clathrin-mediated trafficking and PIN trafficking are required for auxin canalization and vascular tissue formation in Arabidopsis,” Plant Science, vol. 293, no. 4. Elsevier, 2020.","ista":"Mazur E, Gallei MC, Adamowski M, Han H, Robert HS, Friml J. 2020. Clathrin-mediated trafficking and PIN trafficking are required for auxin canalization and vascular tissue formation in Arabidopsis. Plant Science. 293(4), 110414.","short":"E. Mazur, M.C. Gallei, M. Adamowski, H. Han, H.S. Robert, J. Friml, Plant Science 293 (2020).","mla":"Mazur, Ewa, et al. “Clathrin-Mediated Trafficking and PIN Trafficking Are Required for Auxin Canalization and Vascular Tissue Formation in Arabidopsis.” Plant Science, vol. 293, no. 4, 110414, Elsevier, 2020, doi:10.1016/j.plantsci.2020.110414.","chicago":"Mazur, Ewa, Michelle C Gallei, Maciek Adamowski, Huibin Han, Hélène S. Robert, and Jiří Friml. “Clathrin-Mediated Trafficking and PIN Trafficking Are Required for Auxin Canalization and Vascular Tissue Formation in Arabidopsis.” Plant Science. Elsevier, 2020. https://doi.org/10.1016/j.plantsci.2020.110414."},"date_published":"2020-04-01T00:00:00Z","scopus_import":"1","day":"01","has_accepted_license":"1","article_processing_charge":"No"},{"article_number":"e52067","file_date_updated":"2020-07-14T12:47:59Z","ec_funded":1,"publication_status":"published","publisher":"eLife Sciences Publications","department":[{"_id":"JiFr"},{"_id":"GaTk"},{"_id":"EM-Fac"},{"_id":"SyCr"}],"year":"2020","pmid":1,"date_created":"2020-02-16T23:00:50Z","date_updated":"2023-08-18T06:33:07Z","volume":9,"author":[{"id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8600-0671","first_name":"Madhumitha","last_name":"Narasimhan","full_name":"Narasimhan, Madhumitha"},{"first_name":"Alexander J","last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","full_name":"Johnson, Alexander J"},{"last_name":"Prizak","first_name":"Roshan","id":"4456104E-F248-11E8-B48F-1D18A9856A87","full_name":"Prizak, Roshan"},{"full_name":"Kaufmann, Walter","orcid":"0000-0001-9735-5315","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","last_name":"Kaufmann","first_name":"Walter"},{"last_name":"Tan","first_name":"Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","full_name":"Tan, Shutang"},{"last_name":"Casillas Perez","first_name":"Barbara E","id":"351ED2AA-F248-11E8-B48F-1D18A9856A87","full_name":"Casillas Perez, Barbara E"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"}],"month":"01","publication_identifier":{"eissn":["2050-084X"]},"quality_controlled":"1","isi":1,"project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"},{"grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["31971511"],"isi":["000514104100001"]},"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"EM-Fac"}],"language":[{"iso":"eng"}],"doi":"10.7554/eLife.52067","type":"journal_article","abstract":[{"lang":"eng","text":"In plants, clathrin mediated endocytosis (CME) represents the major route for cargo internalisation from the cell surface. It has been assumed to operate in an evolutionary conserved manner as in yeast and animals. Here we report characterisation of ultrastructure, dynamics and mechanisms of plant CME as allowed by our advancement in electron microscopy and quantitative live imaging techniques. Arabidopsis CME appears to follow the constant curvature model and the bona fide CME population generates vesicles of a predominantly hexagonal-basket type; larger and with faster kinetics than in other models. Contrary to the existing paradigm, actin is dispensable for CME events at the plasma membrane but plays a unique role in collecting endocytic vesicles, sorting of internalised cargos and directional endosome movement that itself actively promote CME events. Internalized vesicles display a strongly delayed and sequential uncoating. These unique features highlight the independent evolution of the plant CME mechanism during the autonomous rise of multicellularity in eukaryotes."}],"ddc":["570","580"],"title":"Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants","status":"public","intvolume":" 9","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7490","file":[{"file_name":"2020_eLife_Narasimhan.pdf","access_level":"open_access","creator":"dernst","file_size":7247468,"content_type":"application/pdf","file_id":"7494","relation":"main_file","date_created":"2020-02-18T07:21:16Z","date_updated":"2020-07-14T12:47:59Z","checksum":"2052daa4be5019534f3a42f200a09f32"}],"oa_version":"Published Version","scopus_import":"1","day":"23","has_accepted_license":"1","article_processing_charge":"No","article_type":"original","publication":"eLife","citation":{"ieee":"M. Narasimhan et al., “Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants,” eLife, vol. 9. eLife Sciences Publications, 2020.","apa":"Narasimhan, M., Johnson, A. J., Prizak, R., Kaufmann, W., Tan, S., Casillas Perez, B. E., & Friml, J. (2020). Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.52067","ista":"Narasimhan M, Johnson AJ, Prizak R, Kaufmann W, Tan S, Casillas Perez BE, Friml J. 2020. Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. eLife. 9, e52067.","ama":"Narasimhan M, Johnson AJ, Prizak R, et al. Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. eLife. 2020;9. doi:10.7554/eLife.52067","chicago":"Narasimhan, Madhumitha, Alexander J Johnson, Roshan Prizak, Walter Kaufmann, Shutang Tan, Barbara E Casillas Perez, and Jiří Friml. “Evolutionarily Unique Mechanistic Framework of Clathrin-Mediated Endocytosis in Plants.” ELife. eLife Sciences Publications, 2020. https://doi.org/10.7554/eLife.52067.","short":"M. Narasimhan, A.J. Johnson, R. Prizak, W. Kaufmann, S. Tan, B.E. Casillas Perez, J. Friml, ELife 9 (2020).","mla":"Narasimhan, Madhumitha, et al. “Evolutionarily Unique Mechanistic Framework of Clathrin-Mediated Endocytosis in Plants.” ELife, vol. 9, e52067, eLife Sciences Publications, 2020, doi:10.7554/eLife.52067."},"date_published":"2020-01-23T00:00:00Z"},{"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Wiley","year":"2020","acknowledgement":"We thank Professor Jianqiang Wu (Kunming Institute of Botany, Chinese Academy of Sciences) for providing generous support with the IAA and JA measurements. We thank Professor Guohua Xu (Nanjing Agricultural University) for generously providing the Nipponbare rice expressing DR5::GUS. We thank Professor Muyuan Zhu (Zhejiang University) for generously providing a rice line expressing 35S::miR393b. We thank Professor Yinong Yang (Pennsylvania State University) for generously providing the rice line coi1-18. This work was supported by grants from the National Natural Science Foundation of China (31660501, 31460453, 31860064 and 31470382), the Major Special Program for Scientific Research, Education Department of Yunnan Province (ZD2015005), the Project sponsored by SRF for ROCS, SEM ([2013] 1792), the Major Science and Technique Programs in Yunnan Province (2016ZF001), the Key Projects of the Applied Basic Research Plan of Yunnan Province (2017FA018), the National Key R&D Program of China (2018YFD0201100) and the China Agriculture Research System (CARS-21).","pmid":1,"date_created":"2020-02-18T10:02:25Z","date_updated":"2023-08-18T06:44:16Z","volume":62,"author":[{"full_name":"Han, L","first_name":"L","last_name":"Han"},{"first_name":"X","last_name":"Zhou","full_name":"Zhou, X"},{"last_name":"Zhao","first_name":"Y","full_name":"Zhao, Y"},{"full_name":"Zhu, S","last_name":"Zhu","first_name":"S"},{"first_name":"L","last_name":"Wu","full_name":"Wu, L"},{"full_name":"He, Y","last_name":"He","first_name":"Y"},{"last_name":"Ping","first_name":"X","full_name":"Ping, X"},{"full_name":"Lu, X","last_name":"Lu","first_name":"X"},{"last_name":"Huang","first_name":"W","full_name":"Huang, W"},{"full_name":"Qian, J","first_name":"J","last_name":"Qian"},{"full_name":"Zhang, L","last_name":"Zhang","first_name":"L"},{"full_name":"Jiang, X","last_name":"Jiang","first_name":"X"},{"last_name":"Zhu","first_name":"D","full_name":"Zhu, D"},{"last_name":"Luo","first_name":"C","full_name":"Luo, C"},{"full_name":"Li, S","last_name":"Li","first_name":"S"},{"full_name":"Dong, Q","last_name":"Dong","first_name":"Q"},{"full_name":"Fu, Q","last_name":"Fu","first_name":"Q"},{"full_name":"Deng, K","first_name":"K","last_name":"Deng"},{"full_name":"Wang, X","first_name":"X","last_name":"Wang"},{"full_name":"Wang, L","last_name":"Wang","first_name":"L"},{"last_name":"Peng","first_name":"S","full_name":"Peng, S"},{"full_name":"Wu, J","first_name":"J","last_name":"Wu"},{"first_name":"W","last_name":"Li","full_name":"Li, W"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"full_name":"Zhu, Y","last_name":"Zhu","first_name":"Y"},{"last_name":"He","first_name":"X","full_name":"He, X"},{"full_name":"Du, Y","last_name":"Du","first_name":"Y"}],"month":"09","publication_identifier":{"issn":["1672-9072"],"eissn":["1744-7909"]},"quality_controlled":"1","isi":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1111/jipb.12905"}],"oa":1,"external_id":{"pmid":["31912615"],"isi":["000515803000001"]},"language":[{"iso":"eng"}],"doi":"10.1111/jipb.12905","type":"journal_article","abstract":[{"text":"Endophytic fungi can be beneficial to plant growth. However, the molecular mechanisms underlying colonization of Acremonium spp. remain unclear. In this study, a novel endophytic Acremonium strain was isolated from the buds of Panax notoginseng and named Acremonium sp. D212. The Acremonium sp. D212 could colonize the roots of P. notoginseng, enhance the resistance of P. notoginseng to root rot disease, and promote root growth and saponin biosynthesis in P. notoginseng. Acremonium sp. D212 could secrete indole‐3‐acetic acid (IAA) and jasmonic acid (JA), and inoculation with the fungus increased the endogenous levels of IAA and JA in P. notoginseng. Colonization of the Acremonium sp. D212 in the roots of the rice line Nipponbare was dependent on the concentration of methyl jasmonate (MeJA) (2 to 15 μM) and 1‐naphthalenacetic acid (NAA) (10 to 20 μM). Moreover, the roots of the JA signalling‐defective coi1‐18 mutant were colonized by Acremonium sp. D212 to a lesser degree than those of the wild‐type Nipponbare and miR393b‐overexpressing lines, and the colonization was rescued by MeJA but not by NAA. It suggests that the cross‐talk between JA signalling and the auxin biosynthetic pathway plays a crucial role in the colonization of Acremonium sp. D212 in host plants.","lang":"eng"}],"issue":"9","status":"public","title":"Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid","intvolume":" 62","_id":"7497","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Published Version","scopus_import":"1","day":"01","article_processing_charge":"No","article_type":"original","page":"1433-1451","publication":"Journal of Integrative Plant Biology","citation":{"chicago":"Han, L, X Zhou, Y Zhao, S Zhu, L Wu, Y He, X Ping, et al. “Colonization of Endophyte Acremonium Sp. D212 in Panax Notoginseng and Rice Mediated by Auxin and Jasmonic Acid.” Journal of Integrative Plant Biology. Wiley, 2020. https://doi.org/10.1111/jipb.12905.","mla":"Han, L., et al. “Colonization of Endophyte Acremonium Sp. D212 in Panax Notoginseng and Rice Mediated by Auxin and Jasmonic Acid.” Journal of Integrative Plant Biology, vol. 62, no. 9, Wiley, 2020, pp. 1433–51, doi:10.1111/jipb.12905.","short":"L. Han, X. Zhou, Y. Zhao, S. Zhu, L. Wu, Y. He, X. Ping, X. Lu, W. Huang, J. Qian, L. Zhang, X. Jiang, D. Zhu, C. Luo, S. Li, Q. Dong, Q. Fu, K. Deng, X. Wang, L. Wang, S. Peng, J. Wu, W. Li, J. Friml, Y. Zhu, X. He, Y. Du, Journal of Integrative Plant Biology 62 (2020) 1433–1451.","ista":"Han L, Zhou X, Zhao Y, Zhu S, Wu L, He Y, Ping X, Lu X, Huang W, Qian J, Zhang L, Jiang X, Zhu D, Luo C, Li S, Dong Q, Fu Q, Deng K, Wang X, Wang L, Peng S, Wu J, Li W, Friml J, Zhu Y, He X, Du Y. 2020. Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid. Journal of Integrative Plant Biology. 62(9), 1433–1451.","apa":"Han, L., Zhou, X., Zhao, Y., Zhu, S., Wu, L., He, Y., … Du, Y. (2020). Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid. Journal of Integrative Plant Biology. Wiley. https://doi.org/10.1111/jipb.12905","ieee":"L. Han et al., “Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid,” Journal of Integrative Plant Biology, vol. 62, no. 9. Wiley, pp. 1433–1451, 2020.","ama":"Han L, Zhou X, Zhao Y, et al. Colonization of endophyte Acremonium sp. D212 in Panax notoginseng and rice mediated by auxin and jasmonic acid. Journal of Integrative Plant Biology. 2020;62(9):1433-1451. doi:10.1111/jipb.12905"},"date_published":"2020-09-01T00:00:00Z"},{"oa_version":"None","status":"public","title":"In vitro shoot growth and adventitious rooting of Wikstroemia gemmata depends on light quality","intvolume":" 67","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7540","abstract":[{"text":" In vitro propagation of the ornamentally interesting species Wikstroemia gemmata is limited by the recalcitrance to form adventitious roots. In this article, two strategies to improve the rooting capacity of in vitro microcuttings are presented. Firstly, the effect of exogenous auxin was evaluated in both light and dark cultivated stem segments and also the sucrose-content of the medium was varied in order to determine better rooting conditions. Secondly, different spectral lights were evaluated and the effect on shoot growth and root induction demonstrated that the exact spectral composition of light is important for successful in vitro growth and development of Wikstroemia gemmata. We show that exogenous auxin cannot compensate for the poor rooting under unfavorable light conditions. Adapting the culture conditions is therefore paramount for successful industrial propagation of Wikstroemia gemmata. ","lang":"eng"}],"issue":"1-2","type":"journal_article","date_published":"2020-02-01T00:00:00Z","article_type":"original","page":"16-26","publication":"Israel Journal of Plant Sciences","citation":{"chicago":"Verstraeten, Inge, H. Buyle, S. Werbrouck, M.C. Van Labeke, and D. Geelen. “In Vitro Shoot Growth and Adventitious Rooting of Wikstroemia Gemmata Depends on Light Quality.” Israel Journal of Plant Sciences. Brill, 2020. https://doi.org/10.1163/22238980-20191110.","short":"I. Verstraeten, H. Buyle, S. Werbrouck, M.C. Van Labeke, D. Geelen, Israel Journal of Plant Sciences 67 (2020) 16–26.","mla":"Verstraeten, Inge, et al. “In Vitro Shoot Growth and Adventitious Rooting of Wikstroemia Gemmata Depends on Light Quality.” Israel Journal of Plant Sciences, vol. 67, no. 1–2, Brill, 2020, pp. 16–26, doi:10.1163/22238980-20191110.","ieee":"I. Verstraeten, H. Buyle, S. Werbrouck, M. C. Van Labeke, and D. Geelen, “In vitro shoot growth and adventitious rooting of Wikstroemia gemmata depends on light quality,” Israel Journal of Plant Sciences, vol. 67, no. 1–2. Brill, pp. 16–26, 2020.","apa":"Verstraeten, I., Buyle, H., Werbrouck, S., Van Labeke, M. C., & Geelen, D. (2020). In vitro shoot growth and adventitious rooting of Wikstroemia gemmata depends on light quality. Israel Journal of Plant Sciences. Brill. https://doi.org/10.1163/22238980-20191110","ista":"Verstraeten I, Buyle H, Werbrouck S, Van Labeke MC, Geelen D. 2020. In vitro shoot growth and adventitious rooting of Wikstroemia gemmata depends on light quality. Israel Journal of Plant Sciences. 67(1–2), 16–26.","ama":"Verstraeten I, Buyle H, Werbrouck S, Van Labeke MC, Geelen D. In vitro shoot growth and adventitious rooting of Wikstroemia gemmata depends on light quality. Israel Journal of Plant Sciences. 2020;67(1-2):16-26. doi:10.1163/22238980-20191110"},"day":"01","article_processing_charge":"No","scopus_import":"1","date_updated":"2023-08-18T06:45:15Z","date_created":"2020-02-28T09:18:01Z","volume":67,"author":[{"last_name":"Verstraeten","first_name":"Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","full_name":"Verstraeten, Inge"},{"first_name":"H.","last_name":"Buyle","full_name":"Buyle, H."},{"first_name":"S.","last_name":"Werbrouck","full_name":"Werbrouck, S."},{"first_name":"M.C.","last_name":"Van Labeke","full_name":"Van Labeke, M.C."},{"last_name":"Geelen","first_name":"D.","full_name":"Geelen, D."}],"publication_status":"published","publisher":"Brill","department":[{"_id":"JiFr"}],"year":"2020","language":[{"iso":"eng"}],"doi":"10.1163/22238980-20191110","quality_controlled":"1","isi":1,"external_id":{"isi":["000525343300004"]},"month":"02","publication_identifier":{"eissn":["2223-8980"],"issn":["0792-9978"]}},{"language":[{"iso":"eng"}],"doi":"10.3390/plants9030299","quality_controlled":"1","isi":1,"project":[{"name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000525315000035"],"pmid":["32121542"]},"oa":1,"month":"03","publication_identifier":{"eissn":["22237747"]},"date_created":"2020-03-15T23:00:52Z","date_updated":"2023-08-18T07:07:08Z","volume":9,"author":[{"first_name":"Taraka Ramji","last_name":"Moturu","full_name":"Moturu, Taraka Ramji"},{"last_name":"Sinha","first_name":"Sansrity","full_name":"Sinha, Sansrity"},{"first_name":"Hymavathi","last_name":"Salava","full_name":"Salava, Hymavathi"},{"first_name":"Sravankumar","last_name":"Thula","full_name":"Thula, Sravankumar"},{"last_name":"Nodzyński","first_name":"Tomasz","full_name":"Nodzyński, Tomasz"},{"first_name":"Radka Svobodová","last_name":"Vařeková","full_name":"Vařeková, Radka Svobodová"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"last_name":"Simon","first_name":"Sibu","orcid":"0000-0002-1998-6741","id":"4542EF9A-F248-11E8-B48F-1D18A9856A87","full_name":"Simon, Sibu"}],"publication_status":"published","publisher":"MDPI","department":[{"_id":"JiFr"}],"year":"2020","pmid":1,"file_date_updated":"2020-07-14T12:48:00Z","ec_funded":1,"article_number":"299","date_published":"2020-03-01T00:00:00Z","article_type":"original","publication":"Plants","citation":{"chicago":"Moturu, Taraka Ramji, Sansrity Sinha, Hymavathi Salava, Sravankumar Thula, Tomasz Nodzyński, Radka Svobodová Vařeková, Jiří Friml, and Sibu Simon. “Molecular Evolution and Diversification of Proteins Involved in MiRNA Maturation Pathway.” Plants. MDPI, 2020. https://doi.org/10.3390/plants9030299.","mla":"Moturu, Taraka Ramji, et al. “Molecular Evolution and Diversification of Proteins Involved in MiRNA Maturation Pathway.” Plants, vol. 9, no. 3, 299, MDPI, 2020, doi:10.3390/plants9030299.","short":"T.R. Moturu, S. Sinha, H. Salava, S. Thula, T. Nodzyński, R.S. Vařeková, J. Friml, S. Simon, Plants 9 (2020).","ista":"Moturu TR, Sinha S, Salava H, Thula S, Nodzyński T, Vařeková RS, Friml J, Simon S. 2020. Molecular evolution and diversification of proteins involved in miRNA maturation pathway. Plants. 9(3), 299.","apa":"Moturu, T. R., Sinha, S., Salava, H., Thula, S., Nodzyński, T., Vařeková, R. S., … Simon, S. (2020). Molecular evolution and diversification of proteins involved in miRNA maturation pathway. Plants. MDPI. https://doi.org/10.3390/plants9030299","ieee":"T. R. Moturu et al., “Molecular evolution and diversification of proteins involved in miRNA maturation pathway,” Plants, vol. 9, no. 3. MDPI, 2020.","ama":"Moturu TR, Sinha S, Salava H, et al. Molecular evolution and diversification of proteins involved in miRNA maturation pathway. Plants. 2020;9(3). doi:10.3390/plants9030299"},"day":"01","has_accepted_license":"1","article_processing_charge":"No","scopus_import":"1","oa_version":"Published Version","file":[{"date_created":"2020-03-23T13:37:00Z","date_updated":"2020-07-14T12:48:00Z","checksum":"6d5af3e17266a48996b4af4e67e88a85","relation":"main_file","file_id":"7614","file_size":2373484,"content_type":"application/pdf","creator":"dernst","file_name":"2020_Plants_Moturu.pdf","access_level":"open_access"}],"status":"public","title":"Molecular evolution and diversification of proteins involved in miRNA maturation pathway","ddc":["580"],"intvolume":" 9","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7582","abstract":[{"lang":"eng","text":"Small RNAs (smRNA, 19–25 nucleotides long), which are transcribed by RNA polymerase II, regulate the expression of genes involved in a multitude of processes in eukaryotes. miRNA biogenesis and the proteins involved in the biogenesis pathway differ across plant and animal lineages. The major proteins constituting the biogenesis pathway, namely, the Dicers (DCL/DCR) and Argonautes (AGOs), have been extensively studied. However, the accessory proteins (DAWDLE (DDL), SERRATE (SE), and TOUGH (TGH)) of the pathway that differs across the two lineages remain largely uncharacterized. We present the first detailed report on the molecular evolution and divergence of these proteins across eukaryotes. Although DDL is present in eukaryotes and prokaryotes, SE and TGH appear to be specific to eukaryotes. The addition/deletion of specific domains and/or domain-specific sequence divergence in the three proteins points to the observed functional divergence of these proteins across the two lineages, which correlates with the differences in miRNA length across the two lineages. Our data enhance the current understanding of the structure–function relationship of these proteins and reveals previous unexplored crucial residues in the three proteins that can be used as a basis for further functional characterization. The data presented here on the number of miRNAs in crown eukaryotic lineages are consistent with the notion of the expansion of the number of miRNA-coding genes in animal and plant lineages correlating with organismal complexity. Whether this difference in functionally correlates with the diversification (or presence/absence) of the three proteins studied here or the miRNA signaling in the plant and animal lineages is unclear. Based on our results of the three proteins studied here and previously available data concerning the evolution of miRNA genes in the plant and animal lineages, we believe that miRNAs probably evolved once in the ancestor to crown eukaryotes and have diversified independently in the eukaryotes."}],"issue":"3","type":"journal_article"},{"month":"05","publication_identifier":{"eissn":["20550278"]},"doi":"10.1038/s41477-020-0648-9","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"language":[{"iso":"eng"}],"oa":1,"external_id":{"isi":["000531787500006"],"pmid":["32393881"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/755504"}],"quality_controlled":"1","isi":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"name":"Long Term Fellowship","_id":"256FEF10-B435-11E9-9278-68D0E5697425","grant_number":"723-2015"}],"ec_funded":1,"author":[{"full_name":"Tan, Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","first_name":"Shutang","last_name":"Tan"},{"id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","orcid":"0000-0001-7048-4627","first_name":"Xixi","last_name":"Zhang","full_name":"Zhang, Xixi"},{"full_name":"Kong, Wei","first_name":"Wei","last_name":"Kong"},{"first_name":"Xiao-Li","last_name":"Yang","full_name":"Yang, Xiao-Li"},{"id":"34F1AF46-F248-11E8-B48F-1D18A9856A87","first_name":"Gergely","last_name":"Molnar","full_name":"Molnar, Gergely"},{"full_name":"Vondráková, Zuzana","last_name":"Vondráková","first_name":"Zuzana"},{"full_name":"Filepová, Roberta","first_name":"Roberta","last_name":"Filepová"},{"full_name":"Petrášek, Jan","first_name":"Jan","last_name":"Petrášek"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří"},{"first_name":"Hong-Wei","last_name":"Xue","full_name":"Xue, Hong-Wei"}],"related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1038/s41477-020-0719-y"}]},"date_updated":"2023-08-18T07:05:57Z","date_created":"2020-03-21T16:34:16Z","volume":6,"year":"2020","pmid":1,"publication_status":"published","publisher":"Springer Nature","department":[{"_id":"JiFr"}],"day":"01","article_processing_charge":"No","scopus_import":"1","date_published":"2020-05-01T00:00:00Z","publication":"Nature Plants","citation":{"chicago":"Tan, Shutang, Xixi Zhang, Wei Kong, Xiao-Li Yang, Gergely Molnar, Zuzana Vondráková, Roberta Filepová, Jan Petrášek, Jiří Friml, and Hong-Wei Xue. “The Lipid Code-Dependent Phosphoswitch PDK1–D6PK Activates PIN-Mediated Auxin Efflux in Arabidopsis.” Nature Plants. Springer Nature, 2020. https://doi.org/10.1038/s41477-020-0648-9.","mla":"Tan, Shutang, et al. “The Lipid Code-Dependent Phosphoswitch PDK1–D6PK Activates PIN-Mediated Auxin Efflux in Arabidopsis.” Nature Plants, vol. 6, Springer Nature, 2020, pp. 556–69, doi:10.1038/s41477-020-0648-9.","short":"S. Tan, X. Zhang, W. Kong, X.-L. Yang, G. Molnar, Z. Vondráková, R. Filepová, J. Petrášek, J. Friml, H.-W. Xue, Nature Plants 6 (2020) 556–569.","ista":"Tan S, Zhang X, Kong W, Yang X-L, Molnar G, Vondráková Z, Filepová R, Petrášek J, Friml J, Xue H-W. 2020. The lipid code-dependent phosphoswitch PDK1–D6PK activates PIN-mediated auxin efflux in Arabidopsis. Nature Plants. 6, 556–569.","ieee":"S. Tan et al., “The lipid code-dependent phosphoswitch PDK1–D6PK activates PIN-mediated auxin efflux in Arabidopsis,” Nature Plants, vol. 6. Springer Nature, pp. 556–569, 2020.","apa":"Tan, S., Zhang, X., Kong, W., Yang, X.-L., Molnar, G., Vondráková, Z., … Xue, H.-W. (2020). The lipid code-dependent phosphoswitch PDK1–D6PK activates PIN-mediated auxin efflux in Arabidopsis. Nature Plants. Springer Nature. https://doi.org/10.1038/s41477-020-0648-9","ama":"Tan S, Zhang X, Kong W, et al. The lipid code-dependent phosphoswitch PDK1–D6PK activates PIN-mediated auxin efflux in Arabidopsis. Nature Plants. 2020;6:556-569. doi:10.1038/s41477-020-0648-9"},"article_type":"original","page":"556-569","abstract":[{"lang":"eng","text":"Directional intercellular transport of the phytohormone auxin mediated by PIN FORMED (PIN) efflux carriers plays essential roles in both coordinating patterning processes and integrating multiple external cues by rapidly redirecting auxin fluxes. Multilevel regulations of PIN activity under internal and external cues are complicated; however, the underlying molecular mechanism remains elusive. Here we demonstrate that 3’-Phosphoinositide-Dependent Protein Kinase1 (PDK1), which is conserved in plants and mammals, functions as a molecular hub integrating the upstream lipid signalling and the downstream substrate activity through phosphorylation. Genetic analysis uncovers that loss-of-function Arabidopsis mutant pdk1.1 pdk1.2 exhibits a plethora of abnormalities in organogenesis and growth, due to the defective PIN-dependent auxin transport. Further cellular and biochemical analyses reveal that PDK1 phosphorylates D6 Protein Kinase to facilitate its activity towards PIN proteins. Our studies establish a lipid-dependent phosphorylation cascade connecting membrane composition-based cellular signalling with plant growth and patterning by regulating morphogenetic auxin fluxes."}],"type":"journal_article","oa_version":"Preprint","_id":"7600","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","title":"The lipid code-dependent phosphoswitch PDK1–D6PK activates PIN-mediated auxin efflux in Arabidopsis","intvolume":" 6"},{"quality_controlled":"1","isi":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["32179893"],"isi":["000553125400007"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1093/jxb/eraa138","month":"07","publication_identifier":{"issn":["0022-0957"],"eissn":["1460-2431"]},"publication_status":"published","publisher":"Oxford University Press","department":[{"_id":"JiFr"}],"year":"2020","pmid":1,"date_created":"2020-04-06T10:57:08Z","date_updated":"2023-08-18T10:27:52Z","volume":71,"author":[{"full_name":"Lee, E","last_name":"Lee","first_name":"E"},{"full_name":"Vila Nova Santana, B","first_name":"B","last_name":"Vila Nova Santana"},{"full_name":"Samuels, E","first_name":"E","last_name":"Samuels"},{"first_name":"F","last_name":"Benitez-Fuente","full_name":"Benitez-Fuente, F"},{"last_name":"Corsi","first_name":"E","full_name":"Corsi, E"},{"first_name":"MA","last_name":"Botella","full_name":"Botella, MA"},{"full_name":"Perez-Sancho, J","first_name":"J","last_name":"Perez-Sancho"},{"full_name":"Vanneste, S","first_name":"S","last_name":"Vanneste"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"full_name":"Macho, A","first_name":"A","last_name":"Macho"},{"full_name":"Alves Azevedo, A","last_name":"Alves Azevedo","first_name":"A"},{"first_name":"A","last_name":"Rosado","full_name":"Rosado, A"}],"file_date_updated":"2020-10-06T07:41:35Z","article_type":"original","page":"3986–3998","publication":"Journal of Experimental Botany","citation":{"apa":"Lee, E., Vila Nova Santana, B., Samuels, E., Benitez-Fuente, F., Corsi, E., Botella, M., … Rosado, A. (2020). Rare earth elements induce cytoskeleton-dependent and PI4P-associated rearrangement of SYT1/SYT5 ER-PM contact site complexes in Arabidopsis. Journal of Experimental Botany. Oxford University Press. https://doi.org/10.1093/jxb/eraa138","ieee":"E. Lee et al., “Rare earth elements induce cytoskeleton-dependent and PI4P-associated rearrangement of SYT1/SYT5 ER-PM contact site complexes in Arabidopsis,” Journal of Experimental Botany, vol. 71, no. 14. Oxford University Press, pp. 3986–3998, 2020.","ista":"Lee E, Vila Nova Santana B, Samuels E, Benitez-Fuente F, Corsi E, Botella M, Perez-Sancho J, Vanneste S, Friml J, Macho A, Alves Azevedo A, Rosado A. 2020. Rare earth elements induce cytoskeleton-dependent and PI4P-associated rearrangement of SYT1/SYT5 ER-PM contact site complexes in Arabidopsis. Journal of Experimental Botany. 71(14), 3986–3998.","ama":"Lee E, Vila Nova Santana B, Samuels E, et al. Rare earth elements induce cytoskeleton-dependent and PI4P-associated rearrangement of SYT1/SYT5 ER-PM contact site complexes in Arabidopsis. Journal of Experimental Botany. 2020;71(14):3986–3998. doi:10.1093/jxb/eraa138","chicago":"Lee, E, B Vila Nova Santana, E Samuels, F Benitez-Fuente, E Corsi, MA Botella, J Perez-Sancho, et al. “Rare Earth Elements Induce Cytoskeleton-Dependent and PI4P-Associated Rearrangement of SYT1/SYT5 ER-PM Contact Site Complexes in Arabidopsis.” Journal of Experimental Botany. Oxford University Press, 2020. https://doi.org/10.1093/jxb/eraa138.","short":"E. Lee, B. Vila Nova Santana, E. Samuels, F. Benitez-Fuente, E. Corsi, M. Botella, J. Perez-Sancho, S. Vanneste, J. Friml, A. Macho, A. Alves Azevedo, A. Rosado, Journal of Experimental Botany 71 (2020) 3986–3998.","mla":"Lee, E., et al. “Rare Earth Elements Induce Cytoskeleton-Dependent and PI4P-Associated Rearrangement of SYT1/SYT5 ER-PM Contact Site Complexes in Arabidopsis.” Journal of Experimental Botany, vol. 71, no. 14, Oxford University Press, 2020, pp. 3986–3998, doi:10.1093/jxb/eraa138."},"date_published":"2020-07-06T00:00:00Z","day":"06","has_accepted_license":"1","article_processing_charge":"No","ddc":["580"],"status":"public","title":"Rare earth elements induce cytoskeleton-dependent and PI4P-associated rearrangement of SYT1/SYT5 ER-PM contact site complexes in Arabidopsis","intvolume":" 71","_id":"7646","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"file_name":"2020_JourExperimBotany_Lee.pdf","access_level":"open_access","creator":"dernst","content_type":"application/pdf","file_size":1916031,"file_id":"8613","relation":"main_file","date_updated":"2020-10-06T07:41:35Z","date_created":"2020-10-06T07:41:35Z","success":1,"checksum":"b06aaaa93dc41896da805fe4b75cf3a1"}],"oa_version":"Published Version","type":"journal_article","abstract":[{"text":"In plant cells, environmental stressors promote changes in connectivity between the cortical ER and the PM. Although this process is tightly regulated in space and time, the molecular signals and structural components mediating these changes in inter-organelle communication are only starting to be characterized. In this report, we confirm the presence of a putative tethering complex containing the synaptotagmins 1 and 5 (SYT1 and SYT5) and the Ca2+ and lipid binding protein 1 (CLB1/SYT7). This complex is enriched at ER-PM contact sites (EPCS), have slow responses to changes in extracellular Ca2+, and display severe cytoskeleton-dependent rearrangements in response to the trivalent lanthanum (La3+) and gadolinium (Gd3+) rare earth elements (REEs). Although REEs are generally used as non-selective cation channel blockers at the PM, here we show that the slow internalization of REEs into the cytosol underlies the activation of the Ca2+/Calmodulin intracellular signaling, the accumulation of phosphatidylinositol-4-phosphate (PI4P) at the PM, and the cytoskeleton-dependent rearrangement of the SYT1/SYT5 EPCS complexes. We propose that the observed EPCS rearrangements act as a slow adaptive response to sustained stress conditions, and that this process involves the accumulation of stress-specific phosphoinositides species at the PM.","lang":"eng"}],"issue":"14"},{"type":"journal_article","issue":"6","abstract":[{"text":"The agricultural green revolution spectacularly enhanced crop yield and lodging resistance with modified DELLA-mediated gibberellin signaling. However, this was achieved at the expense of reduced nitrogen-use efficiency (NUE). Recently, Wu et al. revealed novel gibberellin signaling that provides a blueprint for improving tillering and NUE in Green Revolution varieties (GRVs). ","lang":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7686","intvolume":" 25","title":"Neo-gibberellin signaling: Guiding the next generation of the green revolution","status":"public","oa_version":"None","scopus_import":"1","article_processing_charge":"No","day":"01","citation":{"short":"H. Xue, Y. Zhang, G. Xiao, Trends in Plant Science 25 (2020) 520–522.","mla":"Xue, Huidan, et al. “Neo-Gibberellin Signaling: Guiding the next Generation of the Green Revolution.” Trends in Plant Science, vol. 25, no. 6, Elsevier, 2020, pp. 520–22, doi:10.1016/j.tplants.2020.04.001.","chicago":"Xue, Huidan, Yuzhou Zhang, and Guanghui Xiao. “Neo-Gibberellin Signaling: Guiding the next Generation of the Green Revolution.” Trends in Plant Science. Elsevier, 2020. https://doi.org/10.1016/j.tplants.2020.04.001.","ama":"Xue H, Zhang Y, Xiao G. Neo-gibberellin signaling: Guiding the next generation of the green revolution. Trends in Plant Science. 2020;25(6):520-522. doi:10.1016/j.tplants.2020.04.001","apa":"Xue, H., Zhang, Y., & Xiao, G. (2020). Neo-gibberellin signaling: Guiding the next generation of the green revolution. Trends in Plant Science. Elsevier. https://doi.org/10.1016/j.tplants.2020.04.001","ieee":"H. Xue, Y. Zhang, and G. Xiao, “Neo-gibberellin signaling: Guiding the next generation of the green revolution,” Trends in Plant Science, vol. 25, no. 6. Elsevier, pp. 520–522, 2020.","ista":"Xue H, Zhang Y, Xiao G. 2020. Neo-gibberellin signaling: Guiding the next generation of the green revolution. Trends in Plant Science. 25(6), 520–522."},"publication":"Trends in Plant Science","page":"520-522","article_type":"original","date_published":"2020-06-01T00:00:00Z","pmid":1,"year":"2020","publisher":"Elsevier","department":[{"_id":"JiFr"}],"publication_status":"published","author":[{"last_name":"Xue","first_name":"Huidan","full_name":"Xue, Huidan"},{"last_name":"Zhang","first_name":"Yuzhou","orcid":"0000-0003-2627-6956","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","full_name":"Zhang, Yuzhou"},{"full_name":"Xiao, Guanghui","first_name":"Guanghui","last_name":"Xiao"}],"volume":25,"date_updated":"2023-08-21T06:16:01Z","date_created":"2020-04-26T22:00:46Z","publication_identifier":{"issn":["1360-1385"]},"month":"06","external_id":{"isi":["000533518400003"],"pmid":["32407691"]},"isi":1,"quality_controlled":"1","doi":"10.1016/j.tplants.2020.04.001","language":[{"iso":"eng"}]},{"date_published":"2020-04-08T00:00:00Z","publication":"eLife","citation":{"ista":"Kuhn A, Ramans Harborough S, McLaughlin HM, Natarajan B, Verstraeten I, Friml J, Kepinski S, Østergaard L. 2020. Direct ETTIN-auxin interaction controls chromatin states in gynoecium development. eLife. 9, e51787.","apa":"Kuhn, A., Ramans Harborough, S., McLaughlin, H. M., Natarajan, B., Verstraeten, I., Friml, J., … Østergaard, L. (2020). Direct ETTIN-auxin interaction controls chromatin states in gynoecium development. ELife. eLife Sciences Publications. https://doi.org/10.7554/elife.51787","ieee":"A. Kuhn et al., “Direct ETTIN-auxin interaction controls chromatin states in gynoecium development,” eLife, vol. 9. eLife Sciences Publications, 2020.","ama":"Kuhn A, Ramans Harborough S, McLaughlin HM, et al. Direct ETTIN-auxin interaction controls chromatin states in gynoecium development. eLife. 2020;9. doi:10.7554/elife.51787","chicago":"Kuhn, André, Sigurd Ramans Harborough, Heather M McLaughlin, Bhavani Natarajan, Inge Verstraeten, Jiří Friml, Stefan Kepinski, and Lars Østergaard. “Direct ETTIN-Auxin Interaction Controls Chromatin States in Gynoecium Development.” ELife. eLife Sciences Publications, 2020. https://doi.org/10.7554/elife.51787.","mla":"Kuhn, André, et al. “Direct ETTIN-Auxin Interaction Controls Chromatin States in Gynoecium Development.” ELife, vol. 9, e51787, eLife Sciences Publications, 2020, doi:10.7554/elife.51787.","short":"A. Kuhn, S. Ramans Harborough, H.M. McLaughlin, B. Natarajan, I. Verstraeten, J. Friml, S. Kepinski, L. Østergaard, ELife 9 (2020)."},"article_type":"original","day":"08","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1","file":[{"creator":"dernst","content_type":"application/pdf","file_size":2893082,"file_name":"2020_eLife_Kuhn.pdf","access_level":"open_access","date_updated":"2020-07-14T12:48:03Z","date_created":"2020-05-04T09:06:43Z","checksum":"15d740de1a741fdcc6ec128c48eed017","file_id":"7794","relation":"main_file"}],"oa_version":"Published Version","_id":"7793","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Direct ETTIN-auxin interaction controls chromatin states in gynoecium development","status":"public","ddc":["580"],"intvolume":" 9","abstract":[{"text":"Hormonal signalling in animals often involves direct transcription factor-hormone interactions that modulate gene expression. In contrast, plant hormone signalling is most commonly based on de-repression via the degradation of transcriptional repressors. Recently, we uncovered a non-canonical signalling mechanism for the plant hormone auxin whereby auxin directly affects the activity of the atypical auxin response factor (ARF), ETTIN towards target genes without the requirement for protein degradation. Here we show that ETTIN directly binds auxin, leading to dissociation from co-repressor proteins of the TOPLESS/TOPLESS-RELATED family followed by histone acetylation and induction of gene expression. This mechanism is reminiscent of animal hormone signalling as it affects the activity towards regulation of target genes and provides the first example of a DNA-bound hormone receptor in plants. Whilst auxin affects canonical ARFs indirectly by facilitating degradation of Aux/IAA repressors, direct ETTIN-auxin interactions allow switching between repressive and de-repressive chromatin states in an instantly-reversible manner.","lang":"eng"}],"type":"journal_article","doi":"10.7554/elife.51787","language":[{"iso":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000527752200001"],"pmid":["32267233"]},"isi":1,"quality_controlled":"1","month":"04","publication_identifier":{"issn":["2050-084X"]},"author":[{"full_name":"Kuhn, André","last_name":"Kuhn","first_name":"André"},{"full_name":"Ramans Harborough, Sigurd","first_name":"Sigurd","last_name":"Ramans Harborough"},{"first_name":"Heather M","last_name":"McLaughlin","full_name":"McLaughlin, Heather M"},{"full_name":"Natarajan, Bhavani","last_name":"Natarajan","first_name":"Bhavani"},{"last_name":"Verstraeten","first_name":"Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","full_name":"Verstraeten, Inge"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"},{"last_name":"Kepinski","first_name":"Stefan","full_name":"Kepinski, Stefan"},{"first_name":"Lars","last_name":"Østergaard","full_name":"Østergaard, Lars"}],"date_created":"2020-05-04T08:50:47Z","date_updated":"2023-08-21T06:17:12Z","volume":9,"year":"2020","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"eLife Sciences Publications","file_date_updated":"2020-07-14T12:48:03Z","article_number":"e51787"},{"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"}],"isi":1,"quality_controlled":"1","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["32665554"],"isi":["000550062200004"]},"language":[{"iso":"eng"}],"doi":"10.1038/s41467-020-17252-y","publication_identifier":{"issn":["2041-1723"]},"month":"07","department":[{"_id":"JiFr"}],"publisher":"Springer Nature","publication_status":"published","pmid":1,"acknowledgement":"We are grateful to David Nelson for providing published materials and extremely helpful comments, and Elizabeth Dun and Christine Beveridge for helpful discussions. The research leading to these results has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation programme (742985). This work was also supported by the Beijing Municipal Natural Science Foundation (5192011), Beijing Outstanding University Discipline Program, the National Natural Science Foundation of China (31370309), CEITEC 2020 (LQ1601) project with financial contribution made by the Ministry of Education, Youth and Sports of the Czech Republic within special support paid from the National Program of Sustainability II funds, Australian Research Council (FT180100081), and China Postdoctoral Science Foundation (2019M660864).","year":"2020","volume":11,"date_created":"2020-07-21T08:58:07Z","date_updated":"2023-08-22T08:13:44Z","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"11626"}]},"author":[{"full_name":"Zhang, J","first_name":"J","last_name":"Zhang"},{"last_name":"Mazur","first_name":"E","full_name":"Mazur, E"},{"last_name":"Balla","first_name":"J","full_name":"Balla, J"},{"full_name":"Gallei, Michelle C","id":"35A03822-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1286-7368","first_name":"Michelle C","last_name":"Gallei"},{"full_name":"Kalousek, P","last_name":"Kalousek","first_name":"P"},{"full_name":"Medveďová, Z","last_name":"Medveďová","first_name":"Z"},{"last_name":"Li","first_name":"Y","full_name":"Li, Y"},{"last_name":"Wang","first_name":"Y","full_name":"Wang, Y"},{"full_name":"Prat, Tomas","id":"3DA3BFEE-F248-11E8-B48F-1D18A9856A87","first_name":"Tomas","last_name":"Prat"},{"full_name":"Vasileva, Mina K","id":"3407EB18-F248-11E8-B48F-1D18A9856A87","last_name":"Vasileva","first_name":"Mina K"},{"full_name":"Reinöhl, V","last_name":"Reinöhl","first_name":"V"},{"full_name":"Procházka, S","first_name":"S","last_name":"Procházka"},{"first_name":"R","last_name":"Halouzka","full_name":"Halouzka, R"},{"first_name":"P","last_name":"Tarkowski","full_name":"Tarkowski, P"},{"full_name":"Luschnig, C","last_name":"Luschnig","first_name":"C"},{"first_name":"PB","last_name":"Brewer","full_name":"Brewer, PB"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří"}],"ec_funded":1,"file_date_updated":"2020-07-22T08:32:55Z","page":"3508","article_type":"original","citation":{"mla":"Zhang, J., et al. “Strigolactones Inhibit Auxin Feedback on PIN-Dependent Auxin Transport Canalization.” Nature Communications, vol. 11, no. 1, Springer Nature, 2020, p. 3508, doi:10.1038/s41467-020-17252-y.","short":"J. Zhang, E. Mazur, J. Balla, M.C. Gallei, P. Kalousek, Z. Medveďová, Y. Li, Y. Wang, T. Prat, M.K. Vasileva, V. Reinöhl, S. Procházka, R. Halouzka, P. Tarkowski, C. Luschnig, P. Brewer, J. Friml, Nature Communications 11 (2020) 3508.","chicago":"Zhang, J, E Mazur, J Balla, Michelle C Gallei, P Kalousek, Z Medveďová, Y Li, et al. “Strigolactones Inhibit Auxin Feedback on PIN-Dependent Auxin Transport Canalization.” Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-17252-y.","ama":"Zhang J, Mazur E, Balla J, et al. Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization. Nature Communications. 2020;11(1):3508. doi:10.1038/s41467-020-17252-y","ista":"Zhang J, Mazur E, Balla J, Gallei MC, Kalousek P, Medveďová Z, Li Y, Wang Y, Prat T, Vasileva MK, Reinöhl V, Procházka S, Halouzka R, Tarkowski P, Luschnig C, Brewer P, Friml J. 2020. Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization. Nature Communications. 11(1), 3508.","ieee":"J. Zhang et al., “Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization,” Nature Communications, vol. 11, no. 1. Springer Nature, p. 3508, 2020.","apa":"Zhang, J., Mazur, E., Balla, J., Gallei, M. C., Kalousek, P., Medveďová, Z., … Friml, J. (2020). Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-020-17252-y"},"publication":"Nature Communications","date_published":"2020-07-14T00:00:00Z","scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"14","intvolume":" 11","ddc":["580"],"title":"Strigolactones inhibit auxin feedback on PIN-dependent auxin transport canalization","status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8138","oa_version":"Published Version","file":[{"file_size":1759490,"content_type":"application/pdf","creator":"dernst","access_level":"open_access","file_name":"2020_NatureComm_Zhang.pdf","success":1,"date_updated":"2020-07-22T08:32:55Z","date_created":"2020-07-22T08:32:55Z","relation":"main_file","file_id":"8148"}],"type":"journal_article","issue":"1","abstract":[{"text":"Directional transport of the phytohormone auxin is a versatile, plant-specific mechanism regulating many aspects of plant development. The recently identified plant hormones, strigolactones (SLs), are implicated in many plant traits; among others, they modify the phenotypic output of PIN-FORMED (PIN) auxin transporters for fine-tuning of growth and developmental responses. Here, we show in pea and Arabidopsis that SLs target processes dependent on the canalization of auxin flow, which involves auxin feedback on PIN subcellular distribution. D14 receptor- and MAX2 F-box-mediated SL signaling inhibits the formation of auxin-conducting channels after wounding or from artificial auxin sources, during vasculature de novo formation and regeneration. At the cellular level, SLs interfere with auxin effects on PIN polar targeting, constitutive PIN trafficking as well as clathrin-mediated endocytosis. Our results identify a non-transcriptional mechanism of SL action, uncoupling auxin feedback on PIN polarity and trafficking, thereby regulating vascular tissue formation and regeneration.","lang":"eng"}]},{"scopus_import":"1","day":"07","article_processing_charge":"No","article_type":"original","page":"1238-1240","publication":"Molecular Plant","citation":{"ama":"He P, Zhang Y, Xiao G. Origin of a subgenome and genome evolution of allotetraploid cotton species. Molecular Plant. 2020;13(9):1238-1240. doi:10.1016/j.molp.2020.07.006","ista":"He P, Zhang Y, Xiao G. 2020. Origin of a subgenome and genome evolution of allotetraploid cotton species. Molecular Plant. 13(9), 1238–1240.","ieee":"P. He, Y. Zhang, and G. Xiao, “Origin of a subgenome and genome evolution of allotetraploid cotton species,” Molecular Plant, vol. 13, no. 9. Elsevier, pp. 1238–1240, 2020.","apa":"He, P., Zhang, Y., & Xiao, G. (2020). Origin of a subgenome and genome evolution of allotetraploid cotton species. Molecular Plant. Elsevier. https://doi.org/10.1016/j.molp.2020.07.006","mla":"He, Peng, et al. “Origin of a Subgenome and Genome Evolution of Allotetraploid Cotton Species.” Molecular Plant, vol. 13, no. 9, Elsevier, 2020, pp. 1238–40, doi:10.1016/j.molp.2020.07.006.","short":"P. He, Y. Zhang, G. Xiao, Molecular Plant 13 (2020) 1238–1240.","chicago":"He, Peng, Yuzhou Zhang, and Guanghui Xiao. “Origin of a Subgenome and Genome Evolution of Allotetraploid Cotton Species.” Molecular Plant. Elsevier, 2020. https://doi.org/10.1016/j.molp.2020.07.006."},"date_published":"2020-09-07T00:00:00Z","type":"journal_article","issue":"9","status":"public","title":"Origin of a subgenome and genome evolution of allotetraploid cotton species","intvolume":" 13","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8271","oa_version":"None","month":"09","publication_identifier":{"issn":["16742052"],"eissn":["17529867"]},"quality_controlled":"1","isi":1,"external_id":{"pmid":["32688032"],"isi":["000566895400007"]},"language":[{"iso":"eng"}],"doi":"10.1016/j.molp.2020.07.006","publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Elsevier","acknowledgement":"We thank Dr. Gai Huang for his comments and help. We apologize to authors whose work could not be cited due to space limitation. No conflict of interest declared.","year":"2020","pmid":1,"date_updated":"2023-08-22T08:40:35Z","date_created":"2020-08-16T22:00:57Z","volume":13,"author":[{"last_name":"He","first_name":"Peng","full_name":"He, Peng"},{"first_name":"Yuzhou","last_name":"Zhang","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2627-6956","full_name":"Zhang, Yuzhou"},{"first_name":"Guanghui","last_name":"Xiao","full_name":"Xiao, Guanghui"}]},{"abstract":[{"text":"Cytokinins are mobile multifunctional plant hormones with roles in development and stress resilience. Although their Histidine Kinase receptors are substantially localised to the endoplasmic reticulum, cellular sites of cytokinin perception and importance of spatially heterogeneous cytokinin distribution continue to be debated. Here we show that cytokinin perception by plasma membrane receptors is an effective additional path for cytokinin response. Readout from a Two Component Signalling cytokinin-specific reporter (TCSn::GFP) closely matches intracellular cytokinin content in roots, yet we also find cytokinins in extracellular fluid, potentially enabling action at the cell surface. Cytokinins covalently linked to beads that could not pass the plasma membrane increased expression of both TCSn::GFP and Cytokinin Response Factors. Super-resolution microscopy of GFP-labelled receptors and diminished TCSn::GFP response to immobilised cytokinins in cytokinin receptor mutants, further indicate that receptors can function at the cell surface. We argue that dual intracellular and surface locations may augment flexibility of cytokinin responses.","lang":"eng"}],"type":"journal_article","file":[{"checksum":"5b96f39b598de7510cfefefb819b9a6d","success":1,"date_updated":"2020-12-10T12:23:56Z","date_created":"2020-12-10T12:23:56Z","relation":"main_file","file_id":"8936","content_type":"application/pdf","file_size":3526415,"creator":"dernst","access_level":"open_access","file_name":"2020_NatureComm_Antoniadi.pdf"}],"oa_version":"Published Version","status":"public","ddc":["580"],"title":"Cell-surface receptors enable perception of extracellular cytokinins","intvolume":" 11","_id":"8337","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","day":"27","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1","date_published":"2020-08-27T00:00:00Z","article_type":"original","publication":"Nature Communications","citation":{"chicago":"Antoniadi, Ioanna, Ondřej Novák, Zuzana Gelová, Alexander J Johnson, Ondřej Plíhal, Radim Simerský, Václav Mik, et al. “Cell-Surface Receptors Enable Perception of Extracellular Cytokinins.” Nature Communications. Springer Nature, 2020. https://doi.org/10.1038/s41467-020-17700-9.","short":"I. Antoniadi, O. Novák, Z. Gelová, A.J. Johnson, O. Plíhal, R. Simerský, V. Mik, T. Vain, E. Mateo-Bonmatí, M. Karady, M. Pernisová, L. Plačková, K. Opassathian, J. Hejátko, S. Robert, J. Friml, K. Doležal, K. Ljung, C. Turnbull, Nature Communications 11 (2020).","mla":"Antoniadi, Ioanna, et al. “Cell-Surface Receptors Enable Perception of Extracellular Cytokinins.” Nature Communications, vol. 11, 4284, Springer Nature, 2020, doi:10.1038/s41467-020-17700-9.","ieee":"I. Antoniadi et al., “Cell-surface receptors enable perception of extracellular cytokinins,” Nature Communications, vol. 11. Springer Nature, 2020.","apa":"Antoniadi, I., Novák, O., Gelová, Z., Johnson, A. J., Plíhal, O., Simerský, R., … Turnbull, C. (2020). Cell-surface receptors enable perception of extracellular cytokinins. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-020-17700-9","ista":"Antoniadi I, Novák O, Gelová Z, Johnson AJ, Plíhal O, Simerský R, Mik V, Vain T, Mateo-Bonmatí E, Karady M, Pernisová M, Plačková L, Opassathian K, Hejátko J, Robert S, Friml J, Doležal K, Ljung K, Turnbull C. 2020. Cell-surface receptors enable perception of extracellular cytokinins. Nature Communications. 11, 4284.","ama":"Antoniadi I, Novák O, Gelová Z, et al. Cell-surface receptors enable perception of extracellular cytokinins. Nature Communications. 2020;11. doi:10.1038/s41467-020-17700-9"},"file_date_updated":"2020-12-10T12:23:56Z","ec_funded":1,"article_number":"4284","date_created":"2020-09-06T22:01:13Z","date_updated":"2023-08-22T09:10:32Z","volume":11,"author":[{"full_name":"Antoniadi, Ioanna","last_name":"Antoniadi","first_name":"Ioanna"},{"last_name":"Novák","first_name":"Ondřej","full_name":"Novák, Ondřej"},{"last_name":"Gelová","first_name":"Zuzana","orcid":"0000-0003-4783-1752","id":"0AE74790-0E0B-11E9-ABC7-1ACFE5697425","full_name":"Gelová, Zuzana"},{"first_name":"Alexander J","last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","full_name":"Johnson, Alexander J"},{"full_name":"Plíhal, Ondřej","last_name":"Plíhal","first_name":"Ondřej"},{"full_name":"Simerský, Radim","first_name":"Radim","last_name":"Simerský"},{"first_name":"Václav","last_name":"Mik","full_name":"Mik, Václav"},{"first_name":"Thomas","last_name":"Vain","full_name":"Vain, Thomas"},{"first_name":"Eduardo","last_name":"Mateo-Bonmatí","full_name":"Mateo-Bonmatí, Eduardo"},{"full_name":"Karady, Michal","first_name":"Michal","last_name":"Karady"},{"full_name":"Pernisová, Markéta","first_name":"Markéta","last_name":"Pernisová"},{"full_name":"Plačková, Lenka","last_name":"Plačková","first_name":"Lenka"},{"full_name":"Opassathian, Korawit","first_name":"Korawit","last_name":"Opassathian"},{"full_name":"Hejátko, Jan","first_name":"Jan","last_name":"Hejátko"},{"full_name":"Robert, Stéphanie","last_name":"Robert","first_name":"Stéphanie"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"full_name":"Doležal, Karel","last_name":"Doležal","first_name":"Karel"},{"full_name":"Ljung, Karin","last_name":"Ljung","first_name":"Karin"},{"first_name":"Colin","last_name":"Turnbull","full_name":"Turnbull, Colin"}],"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Springer Nature","year":"2020","acknowledgement":"We thank Bruno Müller and Aaron Rashotte for critical discussions and provision of plant lines used in this work, Roger Granbom and Tamara Hernández Verdeja (UPSC, Umeå, Sweden) for technical assistance and providing materials, Zuzana Pěkná and Karolina Wojewodová (CRH, Palacký University, Olomouc, Czech Republic) for help with cytokinin receptor binding assays, and David Zalabák (CRH, Palacký University, Olomouc, Czech Republic) for provision of vector pINIIIΔEH expressing CRE1/AHK4. The bioimaging facility of IST Austria, the Swedish Metabolomics Centre and the IST Austria Bio-Imaging facility are acknowledged for support. The work was funded by the European Molecular Biology Organization (EMBO ASTF 297-2013) (I.A.), Development—The Company of Biologists (DEVTF2012) (I.A.; C.T.), Plant Fellows (the International Post doc Fellowship Programme in Plant Sciences, 267423) (I.A.; K.L.), the Swedish Research Council (621-2014-4514) (K.L.), UPSC Berzelii Center for Forest Biotechnology (Vinnova 2012-01560), Kempestiftelserna (JCK-2711) (K.L.) and (JCK-1811) (E.-M.B., K.L.). The Ministry of Education, Youth and Sports of the Czech Republic via the European Regional Development Fund-Project “Plants as a tool for sustainable global development” (CZ.02.1.01/0.0/0.0/16_019/0000827) (O.N., O.P., R.S., V.M., L.P., K.D.) and project CEITEC 2020 (LQ1601) (M.P., J.H.) provided support, as did the Czech Science Foundation via projects GP14-30004P (M.P.) and 16-04184S (O.P., K.D., O.N.), Vetenskapsrådet and Vinnova (Verket för Innovationssystem) (T.V., S.R.), Knut och Alice Wallenbergs Stiftelse via “Shapesystem” grant number 2012.0050. A.J. was supported by the Austria Science Fund (FWF): I03630 to J.F. The research leading to these results received funding from European Union’s Horizon 2020 programme (ERC grant no. 742985) and FWO-FWF joint project G0E5718N to J.F.","month":"08","publication_identifier":{"eissn":["20411723"]},"acknowledged_ssus":[{"_id":"Bio"}],"language":[{"iso":"eng"}],"doi":"10.1038/s41467-020-17700-9","isi":1,"quality_controlled":"1","project":[{"name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630"},{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"}],"external_id":{"isi":["000567931000001"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1},{"main_file_link":[{"url":"https://europepmc.org/article/MED/33122378#free-full-text","open_access":"1"}],"oa":1,"external_id":{"pmid":["33122378"],"isi":["000583031800041"]},"quality_controlled":"1","isi":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"},{"grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants"},{"name":"Cell surface receptor complexes for PIN polarity and auxin-mediated development","_id":"2699E3D2-B435-11E9-9278-68D0E5697425","grant_number":"25239"}],"doi":"10.1126/science.aba3178","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"language":[{"iso":"eng"}],"month":"10","publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"acknowledgement":"We acknowledge M. Glanc and Y. Zhang for providing entryclones; Vienna Biocenter Core Facilities (VBCF) for recombinantprotein production and purification; Vienna Biocenter Massspectrometry Facility, Bioimaging, and Life Science Facilities at IST Austria and Proteomics Core Facility CEITEC for a great assistance.Funding:This project received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement 742985) and Austrian Science Fund (FWF): I 3630-B25 to J.F.and by grants from the Austrian Academy of Science through the Gregor Mendel Institute (Y.B.) and the Austrian Agency for International Cooperation in Education and Research (D.D.); the Netherlands Organization for Scientific Research (NWO; VIDI-864.13.001) (W.S.); the Research Foundation–Flanders (FWO;Odysseus II G0D0515N) and a European Research Council grant (ERC; StG TORPEDO; 714055) to B.D.R., B.Y., and E.M.; and the Hertha Firnberg Programme postdoctoral fellowship (T-947) from the FWF Austrian Science Fund to E.S.-L.; J.H. is the recipient of a DOC Fellowship of the Austrian Academy of Sciences at IST Austria.","year":"2020","pmid":1,"publication_status":"published","publisher":"American Association for the Advancement of Science","department":[{"_id":"JiFr"}],"author":[{"full_name":"Hajny, Jakub","first_name":"Jakub","last_name":"Hajny","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2140-7195"},{"full_name":"Prat, Tomas","first_name":"Tomas","last_name":"Prat","id":"3DA3BFEE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Rydza, N","first_name":"N","last_name":"Rydza"},{"full_name":"Rodriguez Solovey, Lesia","last_name":"Rodriguez Solovey","first_name":"Lesia","orcid":"0000-0002-7244-7237","id":"3922B506-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Shutang","last_name":"Tan","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","full_name":"Tan, Shutang"},{"full_name":"Verstraeten, Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","last_name":"Verstraeten","first_name":"Inge"},{"first_name":"David","last_name":"Domjan","id":"C684CD7A-257E-11EA-9B6F-D8588B4F947F","orcid":"0000-0003-2267-106X","full_name":"Domjan, David"},{"full_name":"Mazur, E","first_name":"E","last_name":"Mazur"},{"first_name":"E","last_name":"Smakowska-Luzan","full_name":"Smakowska-Luzan, E"},{"last_name":"Smet","first_name":"W","full_name":"Smet, W"},{"first_name":"E","last_name":"Mor","full_name":"Mor, E"},{"first_name":"J","last_name":"Nolf","full_name":"Nolf, J"},{"full_name":"Yang, B","last_name":"Yang","first_name":"B"},{"full_name":"Grunewald, W","last_name":"Grunewald","first_name":"W"},{"id":"34F1AF46-F248-11E8-B48F-1D18A9856A87","first_name":"Gergely","last_name":"Molnar","full_name":"Molnar, Gergely"},{"first_name":"Y","last_name":"Belkhadir","full_name":"Belkhadir, Y"},{"full_name":"De Rybel, B","first_name":"B","last_name":"De Rybel"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří"}],"related_material":{"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/molecular-compass-for-cell-orientation/"}]},"date_created":"2020-11-02T10:04:46Z","date_updated":"2023-09-05T12:02:35Z","volume":370,"ec_funded":1,"publication":"Science","citation":{"ama":"Hajny J, Prat T, Rydza N, et al. Receptor kinase module targets PIN-dependent auxin transport during canalization. Science. 2020;370(6516):550-557. doi:10.1126/science.aba3178","ista":"Hajny J, Prat T, Rydza N, Rodriguez Solovey L, Tan S, Verstraeten I, Domjan D, Mazur E, Smakowska-Luzan E, Smet W, Mor E, Nolf J, Yang B, Grunewald W, Molnar G, Belkhadir Y, De Rybel B, Friml J. 2020. Receptor kinase module targets PIN-dependent auxin transport during canalization. Science. 370(6516), 550–557.","apa":"Hajny, J., Prat, T., Rydza, N., Rodriguez Solovey, L., Tan, S., Verstraeten, I., … Friml, J. (2020). Receptor kinase module targets PIN-dependent auxin transport during canalization. Science. American Association for the Advancement of Science. https://doi.org/10.1126/science.aba3178","ieee":"J. Hajny et al., “Receptor kinase module targets PIN-dependent auxin transport during canalization,” Science, vol. 370, no. 6516. American Association for the Advancement of Science, pp. 550–557, 2020.","mla":"Hajny, Jakub, et al. “Receptor Kinase Module Targets PIN-Dependent Auxin Transport during Canalization.” Science, vol. 370, no. 6516, American Association for the Advancement of Science, 2020, pp. 550–57, doi:10.1126/science.aba3178.","short":"J. Hajny, T. Prat, N. Rydza, L. Rodriguez Solovey, S. Tan, I. Verstraeten, D. Domjan, E. Mazur, E. Smakowska-Luzan, W. Smet, E. Mor, J. Nolf, B. Yang, W. Grunewald, G. Molnar, Y. Belkhadir, B. De Rybel, J. Friml, Science 370 (2020) 550–557.","chicago":"Hajny, Jakub, Tomas Prat, N Rydza, Lesia Rodriguez Solovey, Shutang Tan, Inge Verstraeten, David Domjan, et al. “Receptor Kinase Module Targets PIN-Dependent Auxin Transport during Canalization.” Science. American Association for the Advancement of Science, 2020. https://doi.org/10.1126/science.aba3178."},"article_type":"original","page":"550-557","date_published":"2020-10-30T00:00:00Z","scopus_import":"1","day":"30","article_processing_charge":"No","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8721","title":"Receptor kinase module targets PIN-dependent auxin transport during canalization","status":"public","intvolume":" 370","oa_version":"Published Version","type":"journal_article","abstract":[{"lang":"eng","text":"Spontaneously arising channels that transport the phytohormone auxin provide positional cues for self-organizing aspects of plant development such as flexible vasculature regeneration or its patterning during leaf venation. The auxin canalization hypothesis proposes a feedback between auxin signaling and transport as the underlying mechanism, but molecular players await discovery. We identified part of the machinery that routes auxin transport. The auxin-regulated receptor CAMEL (Canalization-related Auxin-regulated Malectin-type RLK) together with CANAR (Canalization-related Receptor-like kinase) interact with and phosphorylate PIN auxin transporters. camel and canar mutants are impaired in PIN1 subcellular trafficking and auxin-mediated PIN polarization, which macroscopically manifests as defects in leaf venation and vasculature regeneration after wounding. The CAMEL-CANAR receptor complex is part of the auxin feedback that coordinates polarization of individual cells during auxin canalization."}],"issue":"6516"},{"publication_identifier":{"eissn":["1535-9484"]},"month":"08","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"pmid":["32404488"],"isi":["000561114000001"]},"quality_controlled":"1","isi":1,"doi":"10.1074/mcp.ra119.001826","language":[{"iso":"eng"}],"file_date_updated":"2021-05-05T10:10:14Z","pmid":1,"acknowledgement":"We thank Maria Njo, Sarah De Cokere, Marieke Mispelaere and Darren Wells, for practical assistance, Daniël Van Damme for assistance with image analysis, Marnik Vuylsteke for advice on statistics, Catherine Perrot-Rechenmann for useful discussions, Steffen Lau for critical reading oft he manuscript, and Philip Benfey, Gerd Jürgens, Philippe Nacry, Frederik Börnke, and Frans Tax for sharing materials.","year":"2020","publisher":"American Society for Biochemistry and Molecular Biology","department":[{"_id":"JiFr"}],"publication_status":"published","author":[{"full_name":"Smith, S","first_name":"S","last_name":"Smith"},{"full_name":"Zhu, S","last_name":"Zhu","first_name":"S"},{"first_name":"L","last_name":"Joos","full_name":"Joos, L"},{"last_name":"Roberts","first_name":"I","full_name":"Roberts, I"},{"first_name":"N","last_name":"Nikonorova","full_name":"Nikonorova, N"},{"full_name":"Vu, LD","last_name":"Vu","first_name":"LD"},{"full_name":"Stes, E","first_name":"E","last_name":"Stes"},{"full_name":"Cho, H","last_name":"Cho","first_name":"H"},{"full_name":"Larrieu, A","last_name":"Larrieu","first_name":"A"},{"full_name":"Xuan, W","last_name":"Xuan","first_name":"W"},{"last_name":"Goodall","first_name":"B","full_name":"Goodall, B"},{"full_name":"van de Cotte, B","first_name":"B","last_name":"van de Cotte"},{"full_name":"Waite, JM","last_name":"Waite","first_name":"JM"},{"full_name":"Rigal, A","first_name":"A","last_name":"Rigal"},{"last_name":"R Harborough","first_name":"SR","full_name":"R Harborough, SR"},{"full_name":"Persiau, G","first_name":"G","last_name":"Persiau"},{"last_name":"Vanneste","first_name":"S","full_name":"Vanneste, S"},{"full_name":"Kirschner, GK","last_name":"Kirschner","first_name":"GK"},{"full_name":"Vandermarliere, E","first_name":"E","last_name":"Vandermarliere"},{"last_name":"Martens","first_name":"L","full_name":"Martens, L"},{"last_name":"Stahl","first_name":"Y","full_name":"Stahl, Y"},{"full_name":"Audenaert, D","last_name":"Audenaert","first_name":"D"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"full_name":"Felix, G","first_name":"G","last_name":"Felix"},{"full_name":"Simon, R","last_name":"Simon","first_name":"R"},{"full_name":"Bennett, M","first_name":"M","last_name":"Bennett"},{"full_name":"Bishopp, A","first_name":"A","last_name":"Bishopp"},{"last_name":"De Jaeger","first_name":"G","full_name":"De Jaeger, G"},{"full_name":"Ljung, K","last_name":"Ljung","first_name":"K"},{"full_name":"Kepinski, S","first_name":"S","last_name":"Kepinski"},{"full_name":"Robert, S","first_name":"S","last_name":"Robert"},{"full_name":"Nemhauser, J","first_name":"J","last_name":"Nemhauser"},{"first_name":"I","last_name":"Hwang","full_name":"Hwang, I"},{"full_name":"Gevaert, K","first_name":"K","last_name":"Gevaert"},{"full_name":"Beeckman, T","last_name":"Beeckman","first_name":"T"},{"full_name":"De Smet, I","last_name":"De Smet","first_name":"I"}],"volume":19,"date_updated":"2023-09-05T12:17:46Z","date_created":"2020-06-08T10:10:53Z","scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"01","citation":{"mla":"Smith, S., et al. “The CEP5 Peptide Promotes Abiotic Stress Tolerance, as Revealed by Quantitative Proteomics, and Attenuates the AUX/IAA Equilibrium in Arabidopsis.” Molecular & Cellular Proteomics, vol. 19, no. 8, American Society for Biochemistry and Molecular Biology, 2020, pp. 1248–62, doi:10.1074/mcp.ra119.001826.","short":"S. Smith, S. Zhu, L. Joos, I. Roberts, N. Nikonorova, L. Vu, E. Stes, H. Cho, A. Larrieu, W. Xuan, B. Goodall, B. van de Cotte, J. Waite, A. Rigal, S. R Harborough, G. Persiau, S. Vanneste, G. Kirschner, E. Vandermarliere, L. Martens, Y. Stahl, D. Audenaert, J. Friml, G. Felix, R. Simon, M. Bennett, A. Bishopp, G. De Jaeger, K. Ljung, S. Kepinski, S. Robert, J. Nemhauser, I. Hwang, K. Gevaert, T. Beeckman, I. De Smet, Molecular & Cellular Proteomics 19 (2020) 1248–1262.","chicago":"Smith, S, S Zhu, L Joos, I Roberts, N Nikonorova, LD Vu, E Stes, et al. “The CEP5 Peptide Promotes Abiotic Stress Tolerance, as Revealed by Quantitative Proteomics, and Attenuates the AUX/IAA Equilibrium in Arabidopsis.” Molecular & Cellular Proteomics. American Society for Biochemistry and Molecular Biology, 2020. https://doi.org/10.1074/mcp.ra119.001826.","ama":"Smith S, Zhu S, Joos L, et al. The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis. Molecular & Cellular Proteomics. 2020;19(8):1248-1262. doi:10.1074/mcp.ra119.001826","ista":"Smith S, Zhu S, Joos L, Roberts I, Nikonorova N, Vu L, Stes E, Cho H, Larrieu A, Xuan W, Goodall B, van de Cotte B, Waite J, Rigal A, R Harborough S, Persiau G, Vanneste S, Kirschner G, Vandermarliere E, Martens L, Stahl Y, Audenaert D, Friml J, Felix G, Simon R, Bennett M, Bishopp A, De Jaeger G, Ljung K, Kepinski S, Robert S, Nemhauser J, Hwang I, Gevaert K, Beeckman T, De Smet I. 2020. The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis. Molecular & Cellular Proteomics. 19(8), 1248–1262.","ieee":"S. Smith et al., “The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis,” Molecular & Cellular Proteomics, vol. 19, no. 8. American Society for Biochemistry and Molecular Biology, pp. 1248–1262, 2020.","apa":"Smith, S., Zhu, S., Joos, L., Roberts, I., Nikonorova, N., Vu, L., … De Smet, I. (2020). The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis. Molecular & Cellular Proteomics. American Society for Biochemistry and Molecular Biology. https://doi.org/10.1074/mcp.ra119.001826"},"publication":"Molecular & Cellular Proteomics","page":"1248-1262","article_type":"original","date_published":"2020-08-01T00:00:00Z","type":"journal_article","issue":"8","abstract":[{"lang":"eng","text":"Peptides derived from non-functional precursors play important roles in various developmental processes, but also in (a)biotic stress signaling. Our (phospho)proteome-wide analyses of C-terminally encoded peptide 5 (CEP5)-mediated changes revealed an impact on abiotic stress-related processes. Drought has a dramatic impact on plant growth, development and reproduction, and the plant hormone auxin plays a role in drought responses. Our genetic, physiological, biochemical and pharmacological results demonstrated that CEP5-mediated signaling is relevant for osmotic and drought stress tolerance in Arabidopsis, and that CEP5 specifically counteracts auxin effects. Specifically, we found that CEP5 signaling stabilizes AUX/IAA transcriptional repressors, suggesting the existence of a novel peptide-dependent control mechanism that tunes auxin signaling. These observations align with the recently described role of AUX/IAAs in stress tolerance and provide a novel role for CEP5 in osmotic and drought stress tolerance."}],"_id":"7949","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":" 19","ddc":["580"],"status":"public","title":"The CEP5 peptide promotes abiotic stress tolerance, as revealed by quantitative proteomics, and attenuates the AUX/IAA equilibrium in Arabidopsis","oa_version":"Published Version","file":[{"success":1,"checksum":"3f3f37b4a1ba2cfd270fc7733dd89680","date_updated":"2021-05-05T10:10:14Z","date_created":"2021-05-05T10:10:14Z","file_id":"9373","relation":"main_file","creator":"kschuh","file_size":1632311,"content_type":"application/pdf","access_level":"open_access","file_name":"2020_MCP_Smith.pdf"}]},{"year":"2020","pmid":1,"publication_status":"published","publisher":"American Society of Plant Biologists","department":[{"_id":"JiFr"}],"author":[{"full_name":"Zhang, Xixi","first_name":"Xixi","last_name":"Zhang","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","orcid":"0000-0001-7048-4627"},{"id":"45F536D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6463-5257","first_name":"Maciek","last_name":"Adamowski","full_name":"Adamowski, Maciek"},{"full_name":"Marhavá, Petra","first_name":"Petra","last_name":"Marhavá","id":"44E59624-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Tan, Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","first_name":"Shutang","last_name":"Tan"},{"id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2627-6956","first_name":"Yuzhou","last_name":"Zhang","full_name":"Zhang, Yuzhou"},{"full_name":"Rodriguez Solovey, Lesia","first_name":"Lesia","last_name":"Rodriguez Solovey","id":"3922B506-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7244-7237"},{"last_name":"Zwiewka","first_name":"Marta","full_name":"Zwiewka, Marta"},{"full_name":"Pukyšová, Vendula","first_name":"Vendula","last_name":"Pukyšová"},{"full_name":"Sánchez, Adrià Sans","first_name":"Adrià Sans","last_name":"Sánchez"},{"full_name":"Raxwal, Vivek Kumar","last_name":"Raxwal","first_name":"Vivek Kumar"},{"full_name":"Hardtke, Christian S.","first_name":"Christian S.","last_name":"Hardtke"},{"first_name":"Tomasz","last_name":"Nodzynski","full_name":"Nodzynski, Tomasz"},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"date_updated":"2023-09-05T12:21:06Z","date_created":"2020-03-28T07:39:22Z","volume":32,"ec_funded":1,"oa":1,"external_id":{"pmid":["32193204"],"isi":["000545741500030"]},"main_file_link":[{"url":"https://doi.org/10.1105/tpc.19.00869","open_access":"1"}],"quality_controlled":"1","isi":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630"}],"doi":"10.1105/tpc.19.00869","acknowledged_ssus":[{"_id":"Bio"}],"language":[{"iso":"eng"}],"month":"05","publication_identifier":{"issn":["1040-4651"],"eissn":["1532-298X"]},"_id":"7619","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","title":"Arabidopsis flippases cooperate with ARF GTPase exchange factors to regulate the trafficking and polarity of PIN auxin transporters","intvolume":" 32","oa_version":"Published Version","type":"journal_article","abstract":[{"text":"Cell polarity is a fundamental feature of all multicellular organisms. In plants, prominent cell polarity markers are PIN auxin transporters crucial for plant development. To identify novel components involved in cell polarity establishment and maintenance, we carried out a forward genetic screening with PIN2:PIN1-HA;pin2 Arabidopsis plants, which ectopically express predominantly basally localized PIN1 in the root epidermal cells leading to agravitropic root growth. From the screen, we identified the regulator of PIN polarity 12 (repp12) mutation, which restored gravitropic root growth and caused PIN1-HA polarity switch from basal to apical side of root epidermal cells. Complementation experiments established the repp12 causative mutation as an amino acid substitution in Aminophospholipid ATPase3 (ALA3), a phospholipid flippase with predicted function in vesicle formation. ala3 T-DNA mutants show defects in many auxin-regulated processes, in asymmetric auxin distribution and in PIN trafficking. Analysis of quintuple and sextuple mutants confirmed a crucial role of ALA proteins in regulating plant development and in PIN trafficking and polarity. Genetic and physical interaction studies revealed that ALA3 functions together with GNOM and BIG3 ARF GEFs. Taken together, our results identified ALA3 flippase as an important interactor and regulator of ARF GEF functioning in PIN polarity, trafficking and auxin-mediated development.","lang":"eng"}],"issue":"5","publication":"The Plant Cell","citation":{"ama":"Zhang X, Adamowski M, Marhavá P, et al. Arabidopsis flippases cooperate with ARF GTPase exchange factors to regulate the trafficking and polarity of PIN auxin transporters. The Plant Cell. 2020;32(5):1644-1664. doi:10.1105/tpc.19.00869","ista":"Zhang X, Adamowski M, Marhavá P, Tan S, Zhang Y, Rodriguez Solovey L, Zwiewka M, Pukyšová V, Sánchez AS, Raxwal VK, Hardtke CS, Nodzynski T, Friml J. 2020. Arabidopsis flippases cooperate with ARF GTPase exchange factors to regulate the trafficking and polarity of PIN auxin transporters. The Plant Cell. 32(5), 1644–1664.","ieee":"X. Zhang et al., “Arabidopsis flippases cooperate with ARF GTPase exchange factors to regulate the trafficking and polarity of PIN auxin transporters,” The Plant Cell, vol. 32, no. 5. American Society of Plant Biologists, pp. 1644–1664, 2020.","apa":"Zhang, X., Adamowski, M., Marhavá, P., Tan, S., Zhang, Y., Rodriguez Solovey, L., … Friml, J. (2020). Arabidopsis flippases cooperate with ARF GTPase exchange factors to regulate the trafficking and polarity of PIN auxin transporters. The Plant Cell. American Society of Plant Biologists. https://doi.org/10.1105/tpc.19.00869","mla":"Zhang, Xixi, et al. “Arabidopsis Flippases Cooperate with ARF GTPase Exchange Factors to Regulate the Trafficking and Polarity of PIN Auxin Transporters.” The Plant Cell, vol. 32, no. 5, American Society of Plant Biologists, 2020, pp. 1644–64, doi:10.1105/tpc.19.00869.","short":"X. Zhang, M. Adamowski, P. Marhavá, S. Tan, Y. Zhang, L. Rodriguez Solovey, M. Zwiewka, V. Pukyšová, A.S. Sánchez, V.K. Raxwal, C.S. Hardtke, T. Nodzynski, J. Friml, The Plant Cell 32 (2020) 1644–1664.","chicago":"Zhang, Xixi, Maciek Adamowski, Petra Marhavá, Shutang Tan, Yuzhou Zhang, Lesia Rodriguez Solovey, Marta Zwiewka, et al. “Arabidopsis Flippases Cooperate with ARF GTPase Exchange Factors to Regulate the Trafficking and Polarity of PIN Auxin Transporters.” The Plant Cell. American Society of Plant Biologists, 2020. https://doi.org/10.1105/tpc.19.00869."},"article_type":"original","page":"1644-1664","date_published":"2020-05-01T00:00:00Z","scopus_import":"1","day":"01","article_processing_charge":"No"},{"ec_funded":1,"year":"2020","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"American Society of Plant Biologists","author":[{"full_name":"Liu, D","last_name":"Liu","first_name":"D"},{"first_name":"R","last_name":"Kumar","full_name":"Kumar, R"},{"full_name":"LAN, Claus","first_name":"Claus","last_name":"LAN"},{"full_name":"Johnson, Alexander J","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","first_name":"Alexander J","last_name":"Johnson"},{"full_name":"Siao, W","last_name":"Siao","first_name":"W"},{"last_name":"Vanhoutte","first_name":"I","full_name":"Vanhoutte, I"},{"first_name":"P","last_name":"Wang","full_name":"Wang, P"},{"full_name":"Bender, KW","first_name":"KW","last_name":"Bender"},{"full_name":"Yperman, K","first_name":"K","last_name":"Yperman"},{"first_name":"S","last_name":"Martins","full_name":"Martins, S"},{"full_name":"Zhao, X","first_name":"X","last_name":"Zhao"},{"last_name":"Vert","first_name":"G","full_name":"Vert, G"},{"first_name":"D","last_name":"Van Damme","full_name":"Van Damme, D"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"full_name":"Russinova, E","last_name":"Russinova","first_name":"E"}],"date_updated":"2023-09-05T12:21:32Z","date_created":"2020-10-05T12:45:16Z","volume":32,"month":"11","publication_identifier":{"issn":["1040-4651"],"eissn":["1532-298x"]},"external_id":{"isi":["000600226800021"],"pmid":["32958564"]},"oa":1,"main_file_link":[{"url":"https://europepmc.org/article/MED/32958564","open_access":"1"}],"isi":1,"quality_controlled":"1","project":[{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"},{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"}],"doi":"10.1105/tpc.20.00384","language":[{"iso":"eng"}],"type":"journal_article","abstract":[{"lang":"eng","text":"Clathrin-mediated endocytosis (CME) and its core endocytic machinery are evolutionarily conserved across all eukaryotes. In mammals, the heterotetrameric adaptor protein complex-2 (AP-2) sorts plasma membrane (PM) cargoes into vesicles through the recognition of motifs based on tyrosine or di-leucine in their cytoplasmic tails. However, in plants, very little is known on how PM proteins are sorted for CME and whether similar motifs are required. In Arabidopsis thaliana, the brassinosteroid (BR) receptor, BR INSENSITIVE1 (BRI1), undergoes endocytosis that depends on clathrin and AP-2. Here we demonstrate that BRI1 binds directly to the medium AP-2 subunit, AP2M. The cytoplasmic domain of BRI1 contains five putative canonical surface-exposed tyrosine-based endocytic motifs. The tyrosine-to-phenylalanine substitution in Y898KAI reduced BRI1 internalization without affecting its kinase activity. Consistently, plants carrying the BRI1Y898F mutation were hypersensitive to BRs. Our study demonstrates that AP-2-dependent internalization of PM proteins via the recognition of functional tyrosine motifs also operates in plants."}],"issue":"11","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8607","status":"public","title":"Endocytosis of BRASSINOSTEROID INSENSITIVE1 is partly driven by a canonical tyrosine-based Motif","intvolume":" 32","oa_version":"Published Version","scopus_import":"1","day":"01","article_processing_charge":"No","publication":"Plant Cell","citation":{"short":"D. Liu, R. Kumar, C. LAN, A.J. Johnson, W. Siao, I. Vanhoutte, P. Wang, K. Bender, K. Yperman, S. Martins, X. Zhao, G. Vert, D. Van Damme, J. Friml, E. Russinova, Plant Cell 32 (2020) 3598–3612.","mla":"Liu, D., et al. “Endocytosis of BRASSINOSTEROID INSENSITIVE1 Is Partly Driven by a Canonical Tyrosine-Based Motif.” Plant Cell, vol. 32, no. 11, American Society of Plant Biologists, 2020, pp. 3598–612, doi:10.1105/tpc.20.00384.","chicago":"Liu, D, R Kumar, Claus LAN, Alexander J Johnson, W Siao, I Vanhoutte, P Wang, et al. “Endocytosis of BRASSINOSTEROID INSENSITIVE1 Is Partly Driven by a Canonical Tyrosine-Based Motif.” Plant Cell. American Society of Plant Biologists, 2020. https://doi.org/10.1105/tpc.20.00384.","ama":"Liu D, Kumar R, LAN C, et al. Endocytosis of BRASSINOSTEROID INSENSITIVE1 is partly driven by a canonical tyrosine-based Motif. Plant Cell. 2020;32(11):3598-3612. doi:10.1105/tpc.20.00384","ieee":"D. Liu et al., “Endocytosis of BRASSINOSTEROID INSENSITIVE1 is partly driven by a canonical tyrosine-based Motif,” Plant Cell, vol. 32, no. 11. American Society of Plant Biologists, pp. 3598–3612, 2020.","apa":"Liu, D., Kumar, R., LAN, C., Johnson, A. J., Siao, W., Vanhoutte, I., … Russinova, E. (2020). Endocytosis of BRASSINOSTEROID INSENSITIVE1 is partly driven by a canonical tyrosine-based Motif. Plant Cell. American Society of Plant Biologists. https://doi.org/10.1105/tpc.20.00384","ista":"Liu D, Kumar R, LAN C, Johnson AJ, Siao W, Vanhoutte I, Wang P, Bender K, Yperman K, Martins S, Zhao X, Vert G, Van Damme D, Friml J, Russinova E. 2020. Endocytosis of BRASSINOSTEROID INSENSITIVE1 is partly driven by a canonical tyrosine-based Motif. Plant Cell. 32(11), 3598–3612."},"article_type":"original","page":"3598-3612","date_published":"2020-11-01T00:00:00Z"},{"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2020.02.13.948109"}],"external_id":{"isi":["000550682000018"],"pmid":["32321842"]},"oa":1,"quality_controlled":"1","isi":1,"project":[{"grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants"}],"doi":"10.1104/pp.20.00178","language":[{"iso":"eng"}],"month":"07","publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"year":"2020","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"American Society of Plant Biologists","author":[{"full_name":"Wang, J","first_name":"J","last_name":"Wang"},{"first_name":"E","last_name":"Mylle","full_name":"Mylle, E"},{"first_name":"Alexander J","last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","full_name":"Johnson, Alexander J"},{"first_name":"N","last_name":"Besbrugge","full_name":"Besbrugge, N"},{"first_name":"G","last_name":"De Jaeger","full_name":"De Jaeger, G"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"last_name":"Pleskot","first_name":"R","full_name":"Pleskot, R"},{"full_name":"van Damme, D","last_name":"van Damme","first_name":"D"}],"date_created":"2020-04-29T15:23:00Z","date_updated":"2023-09-05T12:20:02Z","volume":183,"publication":"Plant Physiology","citation":{"chicago":"Wang, J, E Mylle, Alexander J Johnson, N Besbrugge, G De Jaeger, Jiří Friml, R Pleskot, and D van Damme. “High Temporal Resolution Reveals Simultaneous Plasma Membrane Recruitment of TPLATE Complex Subunits.” Plant Physiology. American Society of Plant Biologists, 2020. https://doi.org/10.1104/pp.20.00178.","short":"J. Wang, E. Mylle, A.J. Johnson, N. Besbrugge, G. De Jaeger, J. Friml, R. Pleskot, D. van Damme, Plant Physiology 183 (2020) 986–997.","mla":"Wang, J., et al. “High Temporal Resolution Reveals Simultaneous Plasma Membrane Recruitment of TPLATE Complex Subunits.” Plant Physiology, vol. 183, no. 3, American Society of Plant Biologists, 2020, pp. 986–97, doi:10.1104/pp.20.00178.","ieee":"J. Wang et al., “High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits,” Plant Physiology, vol. 183, no. 3. American Society of Plant Biologists, pp. 986–997, 2020.","apa":"Wang, J., Mylle, E., Johnson, A. J., Besbrugge, N., De Jaeger, G., Friml, J., … van Damme, D. (2020). High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. Plant Physiology. American Society of Plant Biologists. https://doi.org/10.1104/pp.20.00178","ista":"Wang J, Mylle E, Johnson AJ, Besbrugge N, De Jaeger G, Friml J, Pleskot R, van Damme D. 2020. High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. Plant Physiology. 183(3), 986–997.","ama":"Wang J, Mylle E, Johnson AJ, et al. High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits. Plant Physiology. 2020;183(3):986-997. doi:10.1104/pp.20.00178"},"article_type":"original","page":"986-997","date_published":"2020-07-01T00:00:00Z","scopus_import":"1","day":"01","article_processing_charge":"No","_id":"7695","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","title":"High temporal resolution reveals simultaneous plasma membrane recruitment of TPLATE complex subunits","intvolume":" 183","oa_version":"Preprint","type":"journal_article","abstract":[{"lang":"eng","text":"The TPLATE complex (TPC) is a key endocytic adaptor protein complex in plants. TPC in Arabidopsis (Arabidopsis thaliana) contains six evolutionarily conserved subunits and two plant-specific subunits, AtEH1/Pan1 and AtEH2/Pan1, although cytoplasmic proteins are not associated with the hexameric subcomplex in the cytoplasm. To investigate the dynamic assembly of the octameric TPC at the plasma membrane (PM), we performed state-of-the-art dual-color live cell imaging at physiological and lowered temperatures. Lowering the temperature slowed down endocytosis, thereby enhancing the temporal resolution of the differential recruitment of endocytic components. Under both normal and lowered temperature conditions, the core TPC subunit TPLATE and the AtEH/Pan1 proteins exhibited simultaneous recruitment at the PM. These results, together with co-localization analysis of different TPC subunits, allow us to conclude that TPC in plant cells is not recruited to the PM sequentially but as an octameric complex."}],"issue":"3"},{"external_id":{"pmid":["32350870"],"isi":["000534092400001"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"},{"name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"isi":1,"quality_controlled":"1","doi":"10.1111/nph.16629","language":[{"iso":"eng"}],"publication_identifier":{"issn":["0028-646X"],"eissn":["1469-8137"]},"month":"09","pmid":1,"year":"2020","department":[{"_id":"JiFr"}],"publisher":"Wiley","publication_status":"published","author":[{"full_name":"Zhang, Yuzhou","last_name":"Zhang","first_name":"Yuzhou","orcid":"0000-0003-2627-6956","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87"},{"id":"AEFB2266-8ABF-11EA-AA39-812C3623CBE4","orcid":"0000-0003-1618-2737","first_name":"Corinna","last_name":"Hartinger","full_name":"Hartinger, Corinna"},{"first_name":"Xiaojuan","last_name":"Wang","full_name":"Wang, Xiaojuan"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"}],"volume":227,"date_created":"2020-04-30T08:43:29Z","date_updated":"2023-09-05T15:46:04Z","ec_funded":1,"file_date_updated":"2020-11-24T12:19:38Z","citation":{"ama":"Zhang Y, Hartinger C, Wang X, Friml J. Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. 2020;227(5):1406-1416. doi:10.1111/nph.16629","apa":"Zhang, Y., Hartinger, C., Wang, X., & Friml, J. (2020). Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. Wiley. https://doi.org/10.1111/nph.16629","ieee":"Y. Zhang, C. Hartinger, X. Wang, and J. Friml, “Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters,” New Phytologist, vol. 227, no. 5. Wiley, pp. 1406–1416, 2020.","ista":"Zhang Y, Hartinger C, Wang X, Friml J. 2020. Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. 227(5), 1406–1416.","short":"Y. Zhang, C. Hartinger, X. Wang, J. Friml, New Phytologist 227 (2020) 1406–1416.","mla":"Zhang, Yuzhou, et al. “Directional Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin Transporters.” New Phytologist, vol. 227, no. 5, Wiley, 2020, pp. 1406–16, doi:10.1111/nph.16629.","chicago":"Zhang, Yuzhou, Corinna Hartinger, Xiaojuan Wang, and Jiří Friml. “Directional Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin Transporters.” New Phytologist. Wiley, 2020. https://doi.org/10.1111/nph.16629."},"publication":"New Phytologist","page":"1406-1416","article_type":"original","date_published":"2020-09-01T00:00:00Z","scopus_import":"1","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","day":"01","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7697","intvolume":" 227","status":"public","title":"Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters","ddc":["580"],"file":[{"file_id":"8799","relation":"main_file","success":1,"checksum":"8e8150dbbba8cb65b72f81d1f0864b8b","date_updated":"2020-11-24T12:19:38Z","date_created":"2020-11-24T12:19:38Z","access_level":"open_access","file_name":"2020_09_NewPhytologist_Zhang.pdf","creator":"dernst","content_type":"application/pdf","file_size":3643395}],"oa_version":"Published Version","type":"journal_article","issue":"5","abstract":[{"lang":"eng","text":"* Morphogenesis and adaptive tropic growth in plants depend on gradients of the phytohormone auxin, mediated by the membrane‐based PIN‐FORMED (PIN) auxin transporters. PINs localize to a particular side of the plasma membrane (PM) or to the endoplasmic reticulum (ER) to directionally transport auxin and maintain intercellular and intracellular auxin homeostasis, respectively. However, the molecular cues that confer their diverse cellular localizations remain largely unknown.\r\n* In this study, we systematically swapped the domains between ER‐ and PM‐localized PIN proteins, as well as between apical and basal PM‐localized PINs from Arabidopsis thaliana , to shed light on why PIN family members with similar topological structures reside at different membrane compartments within cells.\r\n* Our results show that not only do the N‐ and C‐terminal transmembrane domains (TMDs) and central hydrophilic loop contribute to their differential subcellular localizations and cellular polarity, but that the pairwise‐matched N‐ and C‐terminal TMDs resulting from intramolecular domain–domain coevolution are also crucial for their divergent patterns of localization.\r\n* These findings illustrate the complexity of the evolutionary path of PIN proteins in acquiring their plethora of developmental functions and adaptive growth in plants."}]},{"author":[{"full_name":"Sinclair, Scott A","id":"2D99FE6A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4566-0593","first_name":"Scott A","last_name":"Sinclair"},{"full_name":"Gille, S.","last_name":"Gille","first_name":"S."},{"last_name":"Pauly","first_name":"M.","full_name":"Pauly, M."},{"first_name":"U.","last_name":"Krämer","full_name":"Krämer, U."}],"volume":15,"date_created":"2020-01-30T10:14:14Z","date_updated":"2023-09-06T15:23:04Z","pmid":1,"year":"2020","department":[{"_id":"JiFr"}],"publisher":"Informa UK Limited","publication_status":"published","article_number":"e1687185","doi":"10.1080/15592324.2019.1687185","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7012154","open_access":"1"}],"oa":1,"external_id":{"pmid":["31696770"],"isi":["000494907500001"]},"isi":1,"quality_controlled":"1","publication_identifier":{"issn":["1559-2324"]},"month":"01","oa_version":"Submitted Version","_id":"7417","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":" 15","title":"Regulation of acetylation of plant cell wall components is complex and responds to external stimuli","status":"public","issue":"1","abstract":[{"text":"Previously, we reported that the allelic de-etiolated by zinc (dez) and trichome birefringence (tbr) mutants exhibit photomorphogenic development in the dark, which is enhanced by high Zn. TRICHOME BIREFRINGENCE-LIKE proteins had been implicated in transferring acetyl groups to various hemicelluloses. Pectin O-acetylation levels were lower in dark-grown dez seedlings than in the wild type. We observed Zn-enhanced photomorphogenesis in the dark also in the reduced wall acetylation 2 (rwa2-3) mutant, which exhibits lowered O-acetylation levels of cell wall macromolecules including pectins and xyloglucans, supporting a role for cell wall macromolecule O-acetylation in the photomorphogenic phenotypes of rwa2-3 and dez. Application of very short oligogalacturonides (vsOGs) restored skotomorphogenesis in dark-grown dez and rwa2-3. Here we demonstrate that in dez, O-acetylation of non-pectin cell wall components, notably of xyloglucan, is enhanced. Our results highlight the complexity of cell wall homeostasis and indicate against an influence of xyloglucan O-acetylation on light-dependent seedling development.","lang":"eng"}],"type":"journal_article","date_published":"2020-01-01T00:00:00Z","citation":{"short":"S.A. Sinclair, S. Gille, M. Pauly, U. Krämer, Plant Signaling & Behavior 15 (2020).","mla":"Sinclair, Scott A., et al. “Regulation of Acetylation of Plant Cell Wall Components Is Complex and Responds to External Stimuli.” Plant Signaling & Behavior, vol. 15, no. 1, e1687185, Informa UK Limited, 2020, doi:10.1080/15592324.2019.1687185.","chicago":"Sinclair, Scott A, S. Gille, M. Pauly, and U. Krämer. “Regulation of Acetylation of Plant Cell Wall Components Is Complex and Responds to External Stimuli.” Plant Signaling & Behavior. Informa UK Limited, 2020. https://doi.org/10.1080/15592324.2019.1687185.","ama":"Sinclair SA, Gille S, Pauly M, Krämer U. Regulation of acetylation of plant cell wall components is complex and responds to external stimuli. Plant Signaling & Behavior. 2020;15(1). doi:10.1080/15592324.2019.1687185","ieee":"S. A. Sinclair, S. Gille, M. Pauly, and U. Krämer, “Regulation of acetylation of plant cell wall components is complex and responds to external stimuli,” Plant Signaling & Behavior, vol. 15, no. 1. Informa UK Limited, 2020.","apa":"Sinclair, S. A., Gille, S., Pauly, M., & Krämer, U. (2020). Regulation of acetylation of plant cell wall components is complex and responds to external stimuli. Plant Signaling & Behavior. Informa UK Limited. https://doi.org/10.1080/15592324.2019.1687185","ista":"Sinclair SA, Gille S, Pauly M, Krämer U. 2020. Regulation of acetylation of plant cell wall components is complex and responds to external stimuli. Plant Signaling & Behavior. 15(1), e1687185."},"publication":"Plant Signaling & Behavior","article_type":"original","article_processing_charge":"No","day":"01","scopus_import":"1"},{"degree_awarded":"PhD","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"supervisor":[{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"language":[{"iso":"eng"}],"doi":"10.15479/AT:ISTA:8589","oa":1,"month":"09","publication_identifier":{"issn":["2663-337X"]},"date_updated":"2023-09-07T13:13:05Z","date_created":"2020-09-30T14:50:51Z","author":[{"first_name":"Huibin","last_name":"Han","id":"31435098-F248-11E8-B48F-1D18A9856A87","full_name":"Han, Huibin"}],"related_material":{"record":[{"id":"7643","relation":"part_of_dissertation","status":"public"}]},"publication_status":"published","publisher":"Institute of Science and Technology Austria","department":[{"_id":"JiFr"}],"acknowledgement":"I also want to thank the China Scholarship Council for supporting my study during the year from 2015 to 2019. I also want to thank IST facilities – the Bioimaging facility, the media kitchen, the plant facility and all of the campus services, for their support.","year":"2020","file_date_updated":"2021-10-01T13:33:02Z","date_published":"2020-09-30T00:00:00Z","page":"164","citation":{"ama":"Han H. Novel insights into PIN polarity regulation during Arabidopsis development. 2020. doi:10.15479/AT:ISTA:8589","ista":"Han H. 2020. Novel insights into PIN polarity regulation during Arabidopsis development. Institute of Science and Technology Austria.","ieee":"H. Han, “Novel insights into PIN polarity regulation during Arabidopsis development,” Institute of Science and Technology Austria, 2020.","apa":"Han, H. (2020). Novel insights into PIN polarity regulation during Arabidopsis development. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8589","mla":"Han, Huibin. Novel Insights into PIN Polarity Regulation during Arabidopsis Development. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8589.","short":"H. Han, Novel Insights into PIN Polarity Regulation during Arabidopsis Development, Institute of Science and Technology Austria, 2020.","chicago":"Han, Huibin. “Novel Insights into PIN Polarity Regulation during Arabidopsis Development.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8589."},"day":"30","article_processing_charge":"No","has_accepted_license":"1","file":[{"file_name":"2020_Han_Thesis.docx","access_level":"closed","creator":"dernst","file_size":49198118,"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_id":"8590","relation":"source_file","date_created":"2020-09-30T14:50:20Z","date_updated":"2020-09-30T14:50:20Z","checksum":"c4bda1947d4c09c428ac9ce667b02327"},{"creator":"dernst","file_size":15513963,"content_type":"application/pdf","access_level":"open_access","file_name":"2020_Han_Thesis.pdf","checksum":"3f4f5d1718c2230adf30639ecaf8a00b","date_updated":"2021-10-01T13:33:02Z","date_created":"2020-09-30T14:49:59Z","file_id":"8591","relation":"main_file"}],"oa_version":"Published Version","ddc":["580"],"status":"public","title":"Novel insights into PIN polarity regulation during Arabidopsis development","_id":"8589","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","abstract":[{"lang":"eng","text":"The plant hormone auxin plays indispensable roles in plant growth and development. An essential level of regulation in auxin action is the directional auxin transport within cells. The establishment of auxin gradient in plant tissue has been attributed to local auxin biosynthesis and directional intercellular auxin transport, which both are controlled by various environmental and developmental signals. It is well established that asymmetric auxin distribution in cells is achieved by polarly localized PIN-FORMED (PIN) auxin efflux transporters. Despite the initial insights into cellular mechanisms of PIN polarization obtained from the last decades, the molecular mechanism and specific regulators mediating PIN polarization remains elusive. In this thesis, we aim to find novel players in PIN subcellular polarity regulation during Arabidopsis development. We first characterize the physiological effect of piperonylic acid (PA) on Arabidopsis hypocotyl gravitropic bending and PIN polarization. Secondly, we reveal the importance of SCFTIR1/AFB auxin signaling pathway in shoot gravitropism bending termination. In addition, we also explore the role of myosin XI complex, and actin cytoskeleton in auxin feedback regulation on PIN polarity. In Chapter 1, we give an overview of the current knowledge about PIN-mediated auxin fluxes in various plant tropic responses. In Chapter 2, we study the physiological effect of PA on shoot gravitropic bending. Our results show that PA treatment inhibits auxin-mediated PIN3 repolarization by interfering with PINOID and PIN3 phosphorylation status, ultimately leading to hyperbending hypocotyls. In Chapter 3, we provide evidence to show that the SCFTIR1/AFB nuclear auxin signaling pathway is crucial and required for auxin-mediated PIN3 repolarization and shoot gravitropic bending termination. In Chapter 4, we perform a phosphoproteomics approach and identify the motor protein Myosin XI and its binding protein, the MadB2 family, as an essential regulator of PIN polarity for auxin-canalization related developmental processes. In Chapter 5, we demonstrate the vital role of actin cytoskeleton in auxin feedback on PIN polarity by regulating PIN subcellular trafficking. Overall, the data presented in this PhD thesis brings novel insights into the PIN polar localization regulation that resulted in the (re)establishment of the polar auxin flow and gradient in response to environmental stimuli during plant development."}],"alternative_title":["ISTA Thesis"],"type":"dissertation"},{"oa_version":"Published Version","_id":"7643","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 183","status":"public","title":"SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism","issue":"5","type":"journal_article","date_published":"2020-05-08T00:00:00Z","citation":{"chicago":"Han, Huibin, Hana Rakusova, Inge Verstraeten, Yuzhou Zhang, and Jiří Friml. “SCF TIR1/AFB Auxin Signaling for Bending Termination during Shoot Gravitropism.” Plant Physiology. American Society of Plant Biologists, 2020. https://doi.org/10.1104/pp.20.00212.","mla":"Han, Huibin, et al. “SCF TIR1/AFB Auxin Signaling for Bending Termination during Shoot Gravitropism.” Plant Physiology, vol. 183, no. 5, American Society of Plant Biologists, 2020, pp. 37–40, doi:10.1104/pp.20.00212.","short":"H. Han, H. Rakusova, I. Verstraeten, Y. Zhang, J. Friml, Plant Physiology 183 (2020) 37–40.","ista":"Han H, Rakusova H, Verstraeten I, Zhang Y, Friml J. 2020. SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism. Plant Physiology. 183(5), 37–40.","ieee":"H. Han, H. Rakusova, I. Verstraeten, Y. Zhang, and J. Friml, “SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism,” Plant Physiology, vol. 183, no. 5. American Society of Plant Biologists, pp. 37–40, 2020.","apa":"Han, H., Rakusova, H., Verstraeten, I., Zhang, Y., & Friml, J. (2020). SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism. Plant Physiology. American Society of Plant Biologists. https://doi.org/10.1104/pp.20.00212","ama":"Han H, Rakusova H, Verstraeten I, Zhang Y, Friml J. SCF TIR1/AFB auxin signaling for bending termination during shoot gravitropism. Plant Physiology. 2020;183(5):37-40. doi:10.1104/pp.20.00212"},"publication":"Plant Physiology","page":"37-40","article_type":"letter_note","article_processing_charge":"No","day":"08","scopus_import":"1","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"8589"}]},"author":[{"full_name":"Han, Huibin","last_name":"Han","first_name":"Huibin","id":"31435098-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Rakusova, Hana","first_name":"Hana","last_name":"Rakusova","id":"4CAAA450-78D2-11EA-8E57-B40A396E08BA"},{"first_name":"Inge","last_name":"Verstraeten","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7241-2328","full_name":"Verstraeten, Inge"},{"full_name":"Zhang, Yuzhou","first_name":"Yuzhou","last_name":"Zhang","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2627-6956"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"}],"volume":183,"date_created":"2020-04-06T10:06:40Z","date_updated":"2023-09-07T13:13:04Z","pmid":1,"acknowledgement":"This work was supported by the European Research Council under the European Union’s Horizon 2020 research and innovation Programme (ERC grant agreement number 742985), and the Austrian Science Fund (FWF, grant number I 3630-B25) to JF. HH is supported by the China Scholarship Council (CSC scholarship). ","year":"2020","department":[{"_id":"JiFr"}],"publisher":"American Society of Plant Biologists","publication_status":"published","ec_funded":1,"doi":"10.1104/pp.20.00212","language":[{"iso":"eng"}],"external_id":{"pmid":["32107280"],"isi":["000536641800018"]},"main_file_link":[{"url":"https://doi.org/10.1104/pp.20.00212","open_access":"1"}],"oa":1,"project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630"}],"isi":1,"quality_controlled":"1","publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"month":"05"},{"oa_version":"Submitted Version","_id":"7416","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","title":"Generation of effective zinc-deficient agar-solidified media allows identification of root morphology changes in response to zinc limitation","intvolume":" 15","abstract":[{"lang":"eng","text":"Earlier, we demonstrated that transcript levels of METAL TOLERANCE PROTEIN2 (MTP2) and of HEAVY METAL ATPase2 (HMA2) increase strongly in roots of Arabidopsis upon prolonged zinc (Zn) deficiency and respond to shoot physiological Zn status, and not to the local Zn status in roots. This provided evidence for shoot-to-root communication in the acclimation of plants to Zn deficiency. Zn-deficient soils limit both the yield and quality of agricultural crops and can result in clinically relevant nutritional Zn deficiency in human populations. Implementing Zn deficiency during cultivation of the model plant Arabidopsis thaliana on agar-solidified media is difficult because trace element contaminations are present in almost all commercially available agars. Here, we demonstrate root morphological acclimations to Zn deficiency on agar-solidified medium following the effective removal of contaminants. These advancements allow reproducible phenotyping toward understanding fundamental plant responses to deficiencies of Zn and other essential trace elements."}],"issue":"1","type":"journal_article","date_published":"2020-01-01T00:00:00Z","publication":"Plant Signaling & Behavior","citation":{"mla":"Sinclair, Scott A., and U. Krämer. “Generation of Effective Zinc-Deficient Agar-Solidified Media Allows Identification of Root Morphology Changes in Response to Zinc Limitation.” Plant Signaling & Behavior, vol. 15, no. 1, 1687175, Taylor & Francis, 2020, doi:10.1080/15592324.2019.1687175.","short":"S.A. Sinclair, U. Krämer, Plant Signaling & Behavior 15 (2020).","chicago":"Sinclair, Scott A, and U. Krämer. “Generation of Effective Zinc-Deficient Agar-Solidified Media Allows Identification of Root Morphology Changes in Response to Zinc Limitation.” Plant Signaling & Behavior. Taylor & Francis, 2020. https://doi.org/10.1080/15592324.2019.1687175.","ama":"Sinclair SA, Krämer U. Generation of effective zinc-deficient agar-solidified media allows identification of root morphology changes in response to zinc limitation. Plant Signaling & Behavior. 2020;15(1). doi:10.1080/15592324.2019.1687175","ista":"Sinclair SA, Krämer U. 2020. Generation of effective zinc-deficient agar-solidified media allows identification of root morphology changes in response to zinc limitation. Plant Signaling & Behavior. 15(1), 1687175.","ieee":"S. A. Sinclair and U. Krämer, “Generation of effective zinc-deficient agar-solidified media allows identification of root morphology changes in response to zinc limitation,” Plant Signaling & Behavior, vol. 15, no. 1. Taylor & Francis, 2020.","apa":"Sinclair, S. A., & Krämer, U. (2020). Generation of effective zinc-deficient agar-solidified media allows identification of root morphology changes in response to zinc limitation. Plant Signaling & Behavior. Taylor & Francis. https://doi.org/10.1080/15592324.2019.1687175"},"article_type":"original","day":"01","article_processing_charge":"No","scopus_import":"1","author":[{"orcid":"0000-0002-4566-0593","id":"2D99FE6A-F248-11E8-B48F-1D18A9856A87","last_name":"Sinclair","first_name":"Scott A","full_name":"Sinclair, Scott A"},{"first_name":"U.","last_name":"Krämer","full_name":"Krämer, U."}],"date_created":"2020-01-30T10:12:04Z","date_updated":"2023-10-17T09:01:48Z","volume":15,"year":"2020","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Taylor & Francis","article_number":"1687175","doi":"10.1080/15592324.2019.1687175","language":[{"iso":"eng"}],"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7012054","open_access":"1"}],"external_id":{"pmid":["31696764"],"isi":["000494909300001"]},"oa":1,"quality_controlled":"1","isi":1,"month":"01","publication_identifier":{"issn":["1559-2324"]}},{"ec_funded":1,"file_date_updated":"2020-12-14T07:33:39Z","article_number":"108463","volume":33,"date_created":"2020-12-13T23:01:21Z","date_updated":"2023-11-16T13:03:31Z","related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/plants-on-aspirin/"}]},"author":[{"first_name":"Shutang","last_name":"Tan","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","full_name":"Tan, Shutang"},{"full_name":"Di Donato, Martin","last_name":"Di Donato","first_name":"Martin"},{"full_name":"Glanc, Matous","last_name":"Glanc","first_name":"Matous","orcid":"0000-0003-0619-7783","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2"},{"full_name":"Zhang, Xixi","last_name":"Zhang","first_name":"Xixi","orcid":"0000-0001-7048-4627","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A"},{"first_name":"Petr","last_name":"Klíma","full_name":"Klíma, Petr"},{"full_name":"Liu, Jie","first_name":"Jie","last_name":"Liu"},{"first_name":"Aurélien","last_name":"Bailly","full_name":"Bailly, Aurélien"},{"full_name":"Ferro, Noel","first_name":"Noel","last_name":"Ferro"},{"last_name":"Petrášek","first_name":"Jan","full_name":"Petrášek, Jan"},{"first_name":"Markus","last_name":"Geisler","full_name":"Geisler, Markus"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"}],"publisher":"Elsevier","department":[{"_id":"JiFr"}],"publication_status":"published","pmid":1,"acknowledgement":"We thank Drs. Sebastian Bednarek (University of Wisconsin-Madison), Niko Geldner (University of Lausanne), and Karin Schumacher (Heidelberg University) for kindly sharing published Arabidopsis lines; Dr. Satoshi Naramoto for the pPIN2::PIN2-GFP; pVHA-a1::VHA-a1-mRFP reporter; the staff at the Life Science Facility and Bioimaging Facility, Monika Hrtyan, and Dorota Jaworska at IST Austria for technical support; and Drs. Su Tang (Texas A&M University),\r\nMelinda Abas (BOKU), Eva Benkova´ (IST Austria), Christian Luschnig (BOKU), Bartel Vanholme (Gent University), and the Friml group for valuable discussions. The research leading to these findings was funded by the European Union’s Horizon 2020 program (ERC grant agreement no. 742985, to J.F.), the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement no.\r\n291734, the Swiss National Funds (31003A_165877, to M.G.), the Ministry of Education, Youth, and Sports of the Czech Republic (project no. CZ.02.1.01/0.0/0.0/16_019/0000738, EU Operational Programme ‘‘Research, development and education and Centre for Plant Experimental Biology’’), and the EU Operational Programme Prague - Competitiveness (project no. CZ.2.16/3.1.00/21519). S.T. was funded by a European Molecular Biology Organization (EMBO) long-term postdoctoral fellowship (ALTF 723-2015). X.Z. was partly supported by a PhD scholarship from the China Scholarship Council.","year":"2020","publication_identifier":{"eissn":["22111247"]},"month":"12","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"doi":"10.1016/j.celrep.2020.108463","project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"},{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"},{"name":"Long Term Fellowship","_id":"256FEF10-B435-11E9-9278-68D0E5697425","grant_number":"723-2015"}],"quality_controlled":"1","isi":1,"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000595658100018"],"pmid":["33264621"]},"issue":"9","abstract":[{"lang":"eng","text":"The widely used non-steroidal anti-inflammatory drugs (NSAIDs) are derivatives of the phytohormone salicylic acid (SA). SA is well known to regulate plant immunity and development, whereas there have been few reports focusing on the effects of NSAIDs in plants. Our studies here reveal that NSAIDs exhibit largely overlapping physiological activities to SA in the model plant Arabidopsis. NSAID treatments lead to shorter and agravitropic primary roots and inhibited lateral root organogenesis. Notably, in addition to the SA-like action, which in roots involves binding to the protein phosphatase 2A (PP2A), NSAIDs also exhibit PP2A-independent effects. Cell biological and biochemical analyses reveal that many NSAIDs bind directly to and inhibit the chaperone activity of TWISTED DWARF1, thereby regulating actin cytoskeleton dynamics and subsequent endosomal trafficking. Our findings uncover an unexpected bioactivity of human pharmaceuticals in plants and provide insights into the molecular mechanism underlying the cellular action of this class of anti-inflammatory compounds."}],"type":"journal_article","file":[{"success":1,"checksum":"ed18cba0fb48ed2e789381a54cc21904","date_updated":"2020-12-14T07:33:39Z","date_created":"2020-12-14T07:33:39Z","file_id":"8948","relation":"main_file","creator":"dernst","file_size":8056434,"content_type":"application/pdf","access_level":"open_access","file_name":"2020_CellReports_Tan.pdf"}],"oa_version":"Published Version","intvolume":" 33","status":"public","title":"Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development","ddc":["580"],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","_id":"8943","has_accepted_license":"1","article_processing_charge":"Yes","day":"01","scopus_import":"1","date_published":"2020-12-01T00:00:00Z","article_type":"original","citation":{"chicago":"Tan, Shutang, Martin Di Donato, Matous Glanc, Xixi Zhang, Petr Klíma, Jie Liu, Aurélien Bailly, et al. “Non-Steroidal Anti-Inflammatory Drugs Target TWISTED DWARF1-Regulated Actin Dynamics and Auxin Transport-Mediated Plant Development.” Cell Reports. Elsevier, 2020. https://doi.org/10.1016/j.celrep.2020.108463.","mla":"Tan, Shutang, et al. “Non-Steroidal Anti-Inflammatory Drugs Target TWISTED DWARF1-Regulated Actin Dynamics and Auxin Transport-Mediated Plant Development.” Cell Reports, vol. 33, no. 9, 108463, Elsevier, 2020, doi:10.1016/j.celrep.2020.108463.","short":"S. Tan, M. Di Donato, M. Glanc, X. Zhang, P. Klíma, J. Liu, A. Bailly, N. Ferro, J. Petrášek, M. Geisler, J. Friml, Cell Reports 33 (2020).","ista":"Tan S, Di Donato M, Glanc M, Zhang X, Klíma P, Liu J, Bailly A, Ferro N, Petrášek J, Geisler M, Friml J. 2020. Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development. Cell Reports. 33(9), 108463.","ieee":"S. Tan et al., “Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development,” Cell Reports, vol. 33, no. 9. Elsevier, 2020.","apa":"Tan, S., Di Donato, M., Glanc, M., Zhang, X., Klíma, P., Liu, J., … Friml, J. (2020). Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development. Cell Reports. Elsevier. https://doi.org/10.1016/j.celrep.2020.108463","ama":"Tan S, Di Donato M, Glanc M, et al. Non-steroidal anti-inflammatory drugs target TWISTED DWARF1-regulated actin dynamics and auxin transport-mediated plant development. Cell Reports. 2020;33(9). doi:10.1016/j.celrep.2020.108463"},"publication":"Cell Reports"},{"year":"2020","pmid":1,"publication_status":"published","publisher":"Proceedings of the National Academy of Sciences","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"author":[{"full_name":"Hörmayer, Lukas","orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","last_name":"Hörmayer","first_name":"Lukas"},{"full_name":"Montesinos López, Juan C","last_name":"Montesinos López","first_name":"Juan C","orcid":"0000-0001-9179-6099","id":"310A8E3E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Marhavá, Petra","id":"44E59624-F248-11E8-B48F-1D18A9856A87","last_name":"Marhavá","first_name":"Petra"},{"last_name":"Benková","first_name":"Eva","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Benková, Eva"},{"full_name":"Yoshida, Saiko","id":"2E46069C-F248-11E8-B48F-1D18A9856A87","first_name":"Saiko","last_name":"Yoshida"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"}],"related_material":{"link":[{"url":"https://ist.ac.at/en/news/how-wounded-plants-coordinate-their-healing/","relation":"press_release","description":"News on IST Homepage"}],"record":[{"id":"9992","status":"public","relation":"dissertation_contains"}]},"date_created":"2020-06-22T13:33:52Z","date_updated":"2024-03-28T23:30:10Z","volume":117,"article_number":"202003346","file_date_updated":"2020-07-14T12:48:07Z","ec_funded":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"external_id":{"pmid":["32541049"],"isi":["000565729700033"]},"oa":1,"isi":1,"quality_controlled":"1","project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"name":"RNA-directed DNA methylation in plant development","call_identifier":"FWF","_id":"262EF96E-B435-11E9-9278-68D0E5697425","grant_number":"P29988"}],"doi":"10.1073/pnas.2003346117","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"language":[{"iso":"eng"}],"month":"06","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"_id":"8002","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots","ddc":["580"],"status":"public","intvolume":" 117","file":[{"file_size":2407102,"content_type":"application/pdf","creator":"dernst","access_level":"open_access","file_name":"2020_PNAS_Hoermayer.pdf","checksum":"908b09437680181de9990915f2113aca","date_updated":"2020-07-14T12:48:07Z","date_created":"2020-06-23T11:30:53Z","relation":"main_file","file_id":"8009"}],"oa_version":"None","type":"journal_article","abstract":[{"lang":"eng","text":"Wound healing in plant tissues, consisting of rigid cell wall-encapsulated cells, represents a considerable challenge and occurs through largely unknown mechanisms distinct from those in animals. Owing to their inability to migrate, plant cells rely on targeted cell division and expansion to regenerate wounds. Strict coordination of these wound-induced responses is essential to ensure efficient, spatially restricted wound healing. Single-cell tracking by live imaging allowed us to gain mechanistic insight into the wound perception and coordination of wound responses after laser-based wounding in Arabidopsis root. We revealed a crucial contribution of the collapse of damaged cells in wound perception and detected an auxin increase specific to cells immediately adjacent to the wound. This localized auxin increase balances wound-induced cell expansion and restorative division rates in a dose-dependent manner, leading to tumorous overproliferation when the canonical TIR1 auxin signaling is disrupted. Auxin and wound-induced turgor pressure changes together also spatially define the activation of key components of regeneration, such as the transcription regulator ERF115. Our observations suggest that the wound signaling involves the sensing of collapse of damaged cells and a local auxin signaling activation to coordinate the downstream transcriptional responses in the immediate wound vicinity."}],"issue":"26","publication":"Proceedings of the National Academy of Sciences","citation":{"chicago":"Hörmayer, Lukas, Juan C Montesinos López, Petra Marhavá, Eva Benková, Saiko Yoshida, and Jiří Friml. “Wounding-Induced Changes in Cellular Pressure and Localized Auxin Signalling Spatially Coordinate Restorative Divisions in Roots.” Proceedings of the National Academy of Sciences. Proceedings of the National Academy of Sciences, 2020. https://doi.org/10.1073/pnas.2003346117.","short":"L. Hörmayer, J.C. Montesinos López, P. Marhavá, E. Benková, S. Yoshida, J. Friml, Proceedings of the National Academy of Sciences 117 (2020).","mla":"Hörmayer, Lukas, et al. “Wounding-Induced Changes in Cellular Pressure and Localized Auxin Signalling Spatially Coordinate Restorative Divisions in Roots.” Proceedings of the National Academy of Sciences, vol. 117, no. 26, 202003346, Proceedings of the National Academy of Sciences, 2020, doi:10.1073/pnas.2003346117.","apa":"Hörmayer, L., Montesinos López, J. C., Marhavá, P., Benková, E., Yoshida, S., & Friml, J. (2020). Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots. Proceedings of the National Academy of Sciences. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.2003346117","ieee":"L. Hörmayer, J. C. Montesinos López, P. Marhavá, E. Benková, S. Yoshida, and J. Friml, “Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots,” Proceedings of the National Academy of Sciences, vol. 117, no. 26. Proceedings of the National Academy of Sciences, 2020.","ista":"Hörmayer L, Montesinos López JC, Marhavá P, Benková E, Yoshida S, Friml J. 2020. Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots. Proceedings of the National Academy of Sciences. 117(26), 202003346.","ama":"Hörmayer L, Montesinos López JC, Marhavá P, Benková E, Yoshida S, Friml J. Wounding-induced changes in cellular pressure and localized auxin signalling spatially coordinate restorative divisions in roots. Proceedings of the National Academy of Sciences. 2020;117(26). doi:10.1073/pnas.2003346117"},"article_type":"original","date_published":"2020-06-30T00:00:00Z","scopus_import":"1","day":"30","has_accepted_license":"1","article_processing_charge":"No"},{"abstract":[{"lang":"eng","text":"Plants, like other multicellular organisms, survive through a delicate balance between growth and defense against pathogens. Salicylic acid (SA) is a major defense signal in plants, and the perception mechanism as well as downstream signaling activating the immune response are known. Here, we identify a parallel SA signaling that mediates growth attenuation. SA directly binds to A subunits of protein phosphatase 2A (PP2A), inhibiting activity of this complex. Among PP2A targets, the PIN2 auxin transporter is hyperphosphorylated in response to SA, leading to changed activity of this important growth regulator. Accordingly, auxin transport and auxin-mediated root development, including growth, gravitropic response, and lateral root organogenesis, are inhibited. This study reveals how SA, besides activating immunity, concomitantly attenuates growth through crosstalk with the auxin distribution network. Further analysis of this dual role of SA and characterization of additional SA-regulated PP2A targets will provide further insights into mechanisms maintaining a balance between growth and defense."}],"issue":"3","type":"journal_article","oa_version":"Published Version","file":[{"file_size":5360135,"content_type":"application/pdf","creator":"dernst","access_level":"open_access","file_name":"2020_CurrentBiology_Tan.pdf","checksum":"16f7d51fe28f91c21e4896a2028df40b","success":1,"date_updated":"2020-09-22T09:51:28Z","date_created":"2020-09-22T09:51:28Z","relation":"main_file","file_id":"8555"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7427","title":"Salicylic acid targets protein phosphatase 2A to attenuate growth in plants","ddc":["580"],"status":"public","intvolume":" 30","day":"03","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1","date_published":"2020-02-03T00:00:00Z","publication":"Current Biology","citation":{"chicago":"Tan, Shutang, Melinda F Abas, Inge Verstraeten, Matous Glanc, Gergely Molnar, Jakub Hajny, Pavel Lasák, et al. “Salicylic Acid Targets Protein Phosphatase 2A to Attenuate Growth in Plants.” Current Biology. Cell Press, 2020. https://doi.org/10.1016/j.cub.2019.11.058.","mla":"Tan, Shutang, et al. “Salicylic Acid Targets Protein Phosphatase 2A to Attenuate Growth in Plants.” Current Biology, vol. 30, no. 3, Cell Press, 2020, p. 381–395.e8, doi:10.1016/j.cub.2019.11.058.","short":"S. Tan, M.F. Abas, I. Verstraeten, M. Glanc, G. Molnar, J. Hajny, P. Lasák, I. Petřík, E. Russinova, J. Petrášek, O. Novák, J. Pospíšil, J. Friml, Current Biology 30 (2020) 381–395.e8.","ista":"Tan S, Abas MF, Verstraeten I, Glanc M, Molnar G, Hajny J, Lasák P, Petřík I, Russinova E, Petrášek J, Novák O, Pospíšil J, Friml J. 2020. Salicylic acid targets protein phosphatase 2A to attenuate growth in plants. Current Biology. 30(3), 381–395.e8.","ieee":"S. Tan et al., “Salicylic acid targets protein phosphatase 2A to attenuate growth in plants,” Current Biology, vol. 30, no. 3. Cell Press, p. 381–395.e8, 2020.","apa":"Tan, S., Abas, M. F., Verstraeten, I., Glanc, M., Molnar, G., Hajny, J., … Friml, J. (2020). Salicylic acid targets protein phosphatase 2A to attenuate growth in plants. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2019.11.058","ama":"Tan S, Abas MF, Verstraeten I, et al. Salicylic acid targets protein phosphatase 2A to attenuate growth in plants. Current Biology. 2020;30(3):381-395.e8. doi:10.1016/j.cub.2019.11.058"},"article_type":"original","page":"381-395.e8","file_date_updated":"2020-09-22T09:51:28Z","ec_funded":1,"author":[{"full_name":"Tan, Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","first_name":"Shutang","last_name":"Tan"},{"last_name":"Abas","first_name":"Melinda F","id":"3CFB3B1C-F248-11E8-B48F-1D18A9856A87","full_name":"Abas, Melinda F"},{"first_name":"Inge","last_name":"Verstraeten","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7241-2328","full_name":"Verstraeten, Inge"},{"full_name":"Glanc, Matous","first_name":"Matous","last_name":"Glanc","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","orcid":"0000-0003-0619-7783"},{"id":"34F1AF46-F248-11E8-B48F-1D18A9856A87","first_name":"Gergely","last_name":"Molnar","full_name":"Molnar, Gergely"},{"first_name":"Jakub","last_name":"Hajny","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2140-7195","full_name":"Hajny, Jakub"},{"last_name":"Lasák","first_name":"Pavel","full_name":"Lasák, Pavel"},{"first_name":"Ivan","last_name":"Petřík","full_name":"Petřík, Ivan"},{"full_name":"Russinova, Eugenia","last_name":"Russinova","first_name":"Eugenia"},{"first_name":"Jan","last_name":"Petrášek","full_name":"Petrášek, Jan"},{"full_name":"Novák, Ondřej","first_name":"Ondřej","last_name":"Novák"},{"first_name":"Jiří","last_name":"Pospíšil","full_name":"Pospíšil, Jiří"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"related_material":{"record":[{"id":"8822","relation":"dissertation_contains","status":"public"}]},"date_updated":"2024-03-28T23:30:38Z","date_created":"2020-02-02T23:01:00Z","volume":30,"acknowledgement":"We thank Shigeyuki Betsuyaku (University of Tsukuba), Alison Delong (Brown University), Xinnian Dong (Duke University), Dolf Weijers (Wageningen University), Yuelin Zhang (UBC), and Martine Pastuglia (Institut Jean-Pierre Bourgin) for sharing published materials; Jana Riederer for help with cantharidin physiological analysis; David Domjan for help with cloning pET28a-PIN2HL; Qing Lu for help with DARTS; Hana Kozubı´kova´ for technical support on SA derivative synthesis; Zuzana Vondra´ kova´ for technical support with tobacco cells; Lucia Strader (Washington University), Bert De Rybel (Ghent University), Bartel Vanholme (Ghent University), and Lukas Mach (BOKU) for helpful discussions; and bioimaging and life science facilities of IST Austria for continuous support. We gratefully acknowledge the Nottingham Arabidopsis Stock Center (NASC) for providing T-DNA insertional mutants. The DSC and SPR instruments were provided by the EQ-BOKU VIBT GmbH and the BOKU Core Facility for Biomolecular and Cellular Analysis, with help of Irene Schaffner. The research leading to these results has received funding from the European Union’s Horizon 2020 program (ERC grant agreement no. 742985 to J.F.) and the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant agreement no. 291734. S.T. was supported by a European Molecular Biology Organization (EMBO) long-term postdoctoral fellowship (ALTF 723-2015). O.N. was supported by the Ministry of Education, Youth and Sports of the Czech Republic (European Regional Development Fund-Project ‘‘Centre for Experimental Plant Biology’’ no. CZ.02.1.01/0.0/0.0/16_019/0000738). J. Pospısil was supported by European Regional Development Fund Project ‘‘Centre for Experimental Plant Biology’’\r\n(no. CZ.02.1.01/0.0/0.0/16_019/0000738). J. Petrasek was supported by EU Operational Programme Prague-Competitiveness (no. CZ.2.16/3.1.00/21519). ","year":"2020","pmid":1,"publication_status":"published","publisher":"Cell Press","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"month":"02","publication_identifier":{"issn":["09609822"]},"doi":"10.1016/j.cub.2019.11.058","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"language":[{"iso":"eng"}],"external_id":{"isi":["000511287900018"],"pmid":["31956021"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"quality_controlled":"1","isi":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"},{"grant_number":"723-2015","_id":"256FEF10-B435-11E9-9278-68D0E5697425","name":"Long Term Fellowship"}]},{"title":"Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in arabidopsis","ddc":["580"],"status":"public","intvolume":" 226","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7500","file":[{"creator":"dernst","file_size":2106888,"content_type":"application/pdf","access_level":"open_access","file_name":"2020_NewPhytologist_Mazur.pdf","success":1,"checksum":"17de728b0205979feb95ce663ba918c2","date_updated":"2020-11-20T09:32:10Z","date_created":"2020-11-20T09:32:10Z","file_id":"8781","relation":"main_file"}],"oa_version":"Published Version","type":"journal_article","abstract":[{"text":"Plant survival depends on vascular tissues, which originate in a self‐organizing manner as strands of cells co‐directionally transporting the plant hormone auxin. The latter phenomenon (also known as auxin canalization) is classically hypothesized to be regulated by auxin itself via the effect of this hormone on the polarity of its own intercellular transport. Correlative observations supported this concept, but molecular insights remain limited.\r\nIn the current study, we established an experimental system based on the model Arabidopsis thaliana, which exhibits auxin transport channels and formation of vasculature strands in response to local auxin application.\r\nOur methodology permits the genetic analysis of auxin canalization under controllable experimental conditions. By utilizing this opportunity, we confirmed the dependence of auxin canalization on a PIN‐dependent auxin transport and nuclear, TIR1/AFB‐mediated auxin signaling. We also show that leaf venation and auxin‐mediated PIN repolarization in the root require TIR1/AFB signaling.\r\nFurther studies based on this experimental system are likely to yield better understanding of the mechanisms underlying auxin transport polarization in other developmental contexts.","lang":"eng"}],"issue":"5","article_type":"original","page":"1375-1383","publication":"New Phytologist","citation":{"ista":"Mazur E, Kulik I, Hajny J, Friml J. 2020. Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in arabidopsis. New Phytologist. 226(5), 1375–1383.","ieee":"E. Mazur, I. Kulik, J. Hajny, and J. Friml, “Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in arabidopsis,” New Phytologist, vol. 226, no. 5. Wiley, pp. 1375–1383, 2020.","apa":"Mazur, E., Kulik, I., Hajny, J., & Friml, J. (2020). Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in arabidopsis. New Phytologist. Wiley. https://doi.org/10.1111/nph.16446","ama":"Mazur E, Kulik I, Hajny J, Friml J. Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in arabidopsis. New Phytologist. 2020;226(5):1375-1383. doi:10.1111/nph.16446","chicago":"Mazur, E, Ivan Kulik, Jakub Hajny, and Jiří Friml. “Auxin Canalization and Vascular Tissue Formation by TIR1/AFB-Mediated Auxin Signaling in Arabidopsis.” New Phytologist. Wiley, 2020. https://doi.org/10.1111/nph.16446.","mla":"Mazur, E., et al. “Auxin Canalization and Vascular Tissue Formation by TIR1/AFB-Mediated Auxin Signaling in Arabidopsis.” New Phytologist, vol. 226, no. 5, Wiley, 2020, pp. 1375–83, doi:10.1111/nph.16446.","short":"E. Mazur, I. Kulik, J. Hajny, J. Friml, New Phytologist 226 (2020) 1375–1383."},"date_published":"2020-06-01T00:00:00Z","day":"01","article_processing_charge":"No","has_accepted_license":"1","publication_status":"published","publisher":"Wiley","department":[{"_id":"JiFr"}],"year":"2020","acknowledgement":"We thank Mark Estelle, José M. Alonso and the Arabidopsis Stock Centre for providing seeds. We acknowledge the core facility CELLIM of CEITEC supported by the MEYS CR (LM2015062 Czech‐BioImaging) and Plant Sciences Core Facility of CEITEC Masaryk University for help in generating essential data. This project received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (grant agreement no. 742985) and the Czech Science Foundation GAČR (GA13‐40637S and GA18‐26981S) to JF. JH is the recipient of a DOC Fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology. The authors declare no competing interests.","pmid":1,"date_created":"2020-02-18T10:03:47Z","date_updated":"2024-03-28T23:30:38Z","volume":226,"author":[{"first_name":"E","last_name":"Mazur","full_name":"Mazur, E"},{"full_name":"Kulik, Ivan","id":"F0AB3FCE-02D1-11E9-BD0E-99399A5D3DEB","last_name":"Kulik","first_name":"Ivan"},{"full_name":"Hajny, Jakub","first_name":"Jakub","last_name":"Hajny","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2140-7195"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří"}],"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"8822"}]},"file_date_updated":"2020-11-20T09:32:10Z","ec_funded":1,"quality_controlled":"1","isi":1,"project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"},{"grant_number":"25239","_id":"2699E3D2-B435-11E9-9278-68D0E5697425","name":"Cell surface receptor complexes for PIN polarity and auxin-mediated development"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["31971254"],"isi":["000514939700001"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1111/nph.16446","month":"06","publication_identifier":{"issn":["0028-646x"],"eissn":["1469-8137"]}},{"month":"12","publication_identifier":{"issn":["2663-337X"]},"oa":1,"degree_awarded":"PhD","supervisor":[{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"language":[{"iso":"eng"}],"doi":"10.15479/AT:ISTA:8822","file_date_updated":"2021-12-08T23:30:03Z","publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Institute of Science and Technology Austria","year":"2020","date_updated":"2023-09-19T10:39:33Z","date_created":"2020-12-01T12:38:18Z","author":[{"full_name":"Hajny, Jakub","first_name":"Jakub","last_name":"Hajny","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2140-7195"}],"related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"7427"},{"id":"6260","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"7500"},{"id":"191","status":"public","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"449"}]},"day":"01","article_processing_charge":"No","has_accepted_license":"1","page":"249","citation":{"chicago":"Hajny, Jakub. “Identification and Characterization of the Molecular Machinery of Auxin-Dependent Canalization during Vasculature Formation and Regeneration.” Institute of Science and Technology Austria, 2020. https://doi.org/10.15479/AT:ISTA:8822.","mla":"Hajny, Jakub. Identification and Characterization of the Molecular Machinery of Auxin-Dependent Canalization during Vasculature Formation and Regeneration. Institute of Science and Technology Austria, 2020, doi:10.15479/AT:ISTA:8822.","short":"J. Hajny, Identification and Characterization of the Molecular Machinery of Auxin-Dependent Canalization during Vasculature Formation and Regeneration, Institute of Science and Technology Austria, 2020.","ista":"Hajny J. 2020. Identification and characterization of the molecular machinery of auxin-dependent canalization during vasculature formation and regeneration. Institute of Science and Technology Austria.","apa":"Hajny, J. (2020). Identification and characterization of the molecular machinery of auxin-dependent canalization during vasculature formation and regeneration. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:8822","ieee":"J. Hajny, “Identification and characterization of the molecular machinery of auxin-dependent canalization during vasculature formation and regeneration,” Institute of Science and Technology Austria, 2020.","ama":"Hajny J. Identification and characterization of the molecular machinery of auxin-dependent canalization during vasculature formation and regeneration. 2020. doi:10.15479/AT:ISTA:8822"},"date_published":"2020-12-01T00:00:00Z","alternative_title":["ISTA Thesis"],"type":"dissertation","abstract":[{"text":"Self-organization is a hallmark of plant development manifested e.g. by intricate leaf vein patterns, flexible formation of vasculature during organogenesis or its regeneration following wounding. Spontaneously arising channels transporting the phytohormone auxin, created by coordinated polar localizations of PIN-FORMED 1 (PIN1) auxin exporter, provide positional cues for these as well as other plant patterning processes. To find regulators acting downstream of auxin and the TIR1/AFB auxin signaling pathway essential for PIN1 coordinated polarization during auxin canalization, we performed microarray experiments. Besides the known components of general PIN polarity maintenance, such as PID and PIP5K kinases, we identified and characterized a new regulator of auxin canalization, the transcription factor WRKY DNA-BINDING PROTEIN 23 (WRKY23).\r\nNext, we designed a subsequent microarray experiment to further uncover other molecular players, downstream of auxin-TIR1/AFB-WRKY23 involved in the regulation of auxin-mediated PIN repolarization. We identified a novel and crucial part of the molecular machinery underlying auxin canalization. The auxin-regulated malectin-type receptor-like kinase CAMEL and the associated leucine-rich repeat receptor-like kinase CANAR target and directly phosphorylate PIN auxin transporters. camel and canar mutants are impaired in PIN1 subcellular trafficking and auxin-mediated repolarization leading to defects in auxin transport, ultimately to leaf venation and vasculature regeneration defects. Our results describe the CAMEL-CANAR receptor complex, which is required for auxin feed-back on its own transport and thus for coordinated tissue polarization during auxin canalization.","lang":"eng"}],"title":"Identification and characterization of the molecular machinery of auxin-dependent canalization during vasculature formation and regeneration","ddc":["580"],"status":"public","_id":"8822","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"file_id":"8919","relation":"source_file","date_updated":"2021-07-16T22:30:03Z","date_created":"2020-12-04T07:27:52Z","checksum":"210a9675af5e4c78b0b56d920ac82866","file_name":"Jakub Hajný IST Austria final_JH.docx","embargo_to":"open_access","access_level":"closed","creator":"jhajny","file_size":91279806,"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document"},{"content_type":"application/pdf","file_size":68707697,"creator":"jhajny","file_name":"Jakub Hajný IST Austria final_JH-merged without Science.pdf","access_level":"open_access","date_created":"2020-12-09T15:04:41Z","date_updated":"2021-12-08T23:30:03Z","checksum":"1781385b4aa73eba89cc76c6172f71d2","relation":"main_file","file_id":"8933","embargo":"2021-12-07"}],"oa_version":"Published Version"},{"month":"12","publication_identifier":{"eissn":["2375-2548"]},"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)"},"external_id":{"isi":["000599903600014"],"pmid":["33310852"]},"oa":1,"isi":1,"quality_controlled":"1","project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"},{"grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF"},{"grant_number":"25351","_id":"26B4D67E-B435-11E9-9278-68D0E5697425","name":"A Case Study of Plant Growth Regulation: Molecular Mechanism of Auxin-mediated Rapid Growth Inhibition in Arabidopsis Root"}],"doi":"10.1126/sciadv.abc8895","language":[{"iso":"eng"}],"article_number":"eabc8895","file_date_updated":"2021-01-07T12:44:33Z","ec_funded":1,"license":"https://creativecommons.org/licenses/by-nc/4.0/","year":"2020","acknowledgement":"We thank C.Löhne (Botanic Gardens, University of Bonn) for providing us with A. trichopoda. We would like to thank T.Han, A.Mally (IST, Austria), and C.Hartinger (University of Oxford) for constructive comment and careful reading. Funding: The research leading to these results has received funding from the European Union’s Horizon 2020 Research and Innovation Programme (ERC grant agreement number 742985), Austrian Science Fund (FWF, grant number I 3630-B25), DOC Fellowship of the Austrian Academy of Sciences, and IST Fellow program. ","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"AAAS","author":[{"id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2627-6956","first_name":"Yuzhou","last_name":"Zhang","full_name":"Zhang, Yuzhou"},{"full_name":"Rodriguez Solovey, Lesia","first_name":"Lesia","last_name":"Rodriguez Solovey","id":"3922B506-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7244-7237"},{"full_name":"Li, Lanxin","first_name":"Lanxin","last_name":"Li","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X"},{"orcid":"0000-0001-7048-4627","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","last_name":"Zhang","first_name":"Xixi","full_name":"Zhang, Xixi"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří"}],"related_material":{"record":[{"id":"10083","relation":"dissertation_contains","status":"public"}]},"date_updated":"2024-03-28T23:30:44Z","date_created":"2021-01-03T23:01:23Z","volume":6,"scopus_import":"1","day":"11","has_accepted_license":"1","article_processing_charge":"No","publication":"Science Advances","citation":{"ista":"Zhang Y, Rodriguez Solovey L, Li L, Zhang X, Friml J. 2020. Functional innovations of PIN auxin transporters mark crucial evolutionary transitions during rise of flowering plants. Science Advances. 6(50), eabc8895.","ieee":"Y. Zhang, L. Rodriguez Solovey, L. Li, X. Zhang, and J. Friml, “Functional innovations of PIN auxin transporters mark crucial evolutionary transitions during rise of flowering plants,” Science Advances, vol. 6, no. 50. AAAS, 2020.","apa":"Zhang, Y., Rodriguez Solovey, L., Li, L., Zhang, X., & Friml, J. (2020). Functional innovations of PIN auxin transporters mark crucial evolutionary transitions during rise of flowering plants. Science Advances. AAAS. https://doi.org/10.1126/sciadv.abc8895","ama":"Zhang Y, Rodriguez Solovey L, Li L, Zhang X, Friml J. Functional innovations of PIN auxin transporters mark crucial evolutionary transitions during rise of flowering plants. Science Advances. 2020;6(50). doi:10.1126/sciadv.abc8895","chicago":"Zhang, Yuzhou, Lesia Rodriguez Solovey, Lanxin Li, Xixi Zhang, and Jiří Friml. “Functional Innovations of PIN Auxin Transporters Mark Crucial Evolutionary Transitions during Rise of Flowering Plants.” Science Advances. AAAS, 2020. https://doi.org/10.1126/sciadv.abc8895.","mla":"Zhang, Yuzhou, et al. “Functional Innovations of PIN Auxin Transporters Mark Crucial Evolutionary Transitions during Rise of Flowering Plants.” Science Advances, vol. 6, no. 50, eabc8895, AAAS, 2020, doi:10.1126/sciadv.abc8895.","short":"Y. Zhang, L. Rodriguez Solovey, L. Li, X. Zhang, J. Friml, Science Advances 6 (2020)."},"article_type":"original","date_published":"2020-12-11T00:00:00Z","type":"journal_article","abstract":[{"text":"Flowering plants display the highest diversity among plant species and have notably shaped terrestrial landscapes. Nonetheless, the evolutionary origin of their unprecedented morphological complexity remains largely an enigma. Here, we show that the coevolution of cis-regulatory and coding regions of PIN-FORMED (PIN) auxin transporters confined their expression to certain cell types and directed their subcellular localization to particular cell sides, which together enabled dynamic auxin gradients across tissues critical to the complex architecture of flowering plants. Extensive intraspecies and interspecies genetic complementation experiments with PINs from green alga up to flowering plant lineages showed that PIN genes underwent three subsequent, critical evolutionary innovations and thus acquired a triple function to regulate the development of three essential components of the flowering plant Arabidopsis: shoot/root, inflorescence, and floral organ. Our work highlights the critical role of functional innovations within the PIN gene family as essential prerequisites for the origin of flowering plants.","lang":"eng"}],"issue":"50","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8986","status":"public","title":"Functional innovations of PIN auxin transporters mark crucial evolutionary transitions during rise of flowering plants","ddc":["580"],"intvolume":" 6","oa_version":"Published Version","file":[{"file_id":"8994","relation":"main_file","date_updated":"2021-01-07T12:44:33Z","date_created":"2021-01-07T12:44:33Z","success":1,"checksum":"5ac2500b191c08ef6dab5327f40ff663","file_name":"2020_ScienceAdvances_Zhang.pdf","access_level":"open_access","creator":"dernst","file_size":10578145,"content_type":"application/pdf"}]},{"article_number":"5272","file_date_updated":"2020-08-25T09:53:50Z","year":"2020","acknowledgement":"We would like to thank the reviewers for their helpful comments on the original manuscript. ","pmid":1,"publication_status":"published","publisher":"MDPI","department":[{"_id":"JiFr"}],"author":[{"full_name":"Chen, Huihuang","last_name":"Chen","first_name":"Huihuang"},{"full_name":"Lai, Linyi","last_name":"Lai","first_name":"Linyi"},{"full_name":"Li, Lanxin","orcid":"0000-0002-5607-272X","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","last_name":"Li","first_name":"Lanxin"},{"full_name":"Liu, Liping","last_name":"Liu","first_name":"Liping"},{"full_name":"Jakada, Bello Hassan","last_name":"Jakada","first_name":"Bello Hassan"},{"first_name":"Youmei","last_name":"Huang","full_name":"Huang, Youmei"},{"last_name":"He","first_name":"Qing","full_name":"He, Qing"},{"last_name":"Chai","first_name":"Mengnan","full_name":"Chai, Mengnan"},{"last_name":"Niu","first_name":"Xiaoping","full_name":"Niu, Xiaoping"},{"last_name":"Qin","first_name":"Yuan","full_name":"Qin, Yuan"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"10083"}]},"date_updated":"2024-03-28T23:30:44Z","date_created":"2020-08-24T06:24:03Z","volume":21,"month":"08","publication_identifier":{"issn":["16616596"],"eissn":["14220067"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"isi":["000565090300001"],"pmid":["32785037"]},"isi":1,"quality_controlled":"1","doi":"10.3390/ijms21165727","language":[{"iso":"eng"}],"type":"journal_article","abstract":[{"text":"Drought and salt stress are the main environmental cues affecting the survival, development, distribution, and yield of crops worldwide. MYB transcription factors play a crucial role in plants’ biological processes, but the function of pineapple MYB genes is still obscure. In this study, one of the pineapple MYB transcription factors, AcoMYB4, was isolated and characterized. The results showed that AcoMYB4 is localized in the cell nucleus, and its expression is induced by low temperature, drought, salt stress, and hormonal stimulation, especially by abscisic acid (ABA). Overexpression of AcoMYB4 in rice and Arabidopsis enhanced plant sensitivity to osmotic stress; it led to an increase in the number stomata on leaf surfaces and lower germination rate under salt and drought stress. Furthermore, in AcoMYB4 OE lines, the membrane oxidation index, free proline, and soluble sugar contents were decreased. In contrast, electrolyte leakage and malondialdehyde (MDA) content increased significantly due to membrane injury, indicating higher sensitivity to drought and salinity stresses. Besides the above, both the expression level and activities of several antioxidant enzymes were decreased, indicating lower antioxidant activity in AcoMYB4 transgenic plants. Moreover, under osmotic stress, overexpression of AcoMYB4 inhibited ABA biosynthesis through a decrease in the transcription of genes responsible for ABA synthesis (ABA1 and ABA2) and ABA signal transduction factor ABI5. These results suggest that AcoMYB4 negatively regulates osmotic stress by attenuating cellular ABA biosynthesis and signal transduction pathways. ","lang":"eng"}],"issue":"16","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"8283","title":"AcoMYB4, an Ananas comosus L. MYB transcription factor, functions in osmotic stress through negative regulation of ABA signaling","ddc":["570"],"status":"public","intvolume":" 21","oa_version":"Published Version","file":[{"creator":"cziletti","file_size":5718755,"content_type":"application/pdf","file_name":"2020_IntMolecSciences_Chen.pdf","access_level":"open_access","date_created":"2020-08-25T09:53:50Z","date_updated":"2020-08-25T09:53:50Z","success":1,"checksum":"03b039244e6ae80580385fd9f577e2b2","file_id":"8292","relation":"main_file"}],"scopus_import":"1","day":"10","article_processing_charge":"No","has_accepted_license":"1","publication":"International Journal of Molecular Sciences","citation":{"chicago":"Chen, Huihuang, Linyi Lai, Lanxin Li, Liping Liu, Bello Hassan Jakada, Youmei Huang, Qing He, Mengnan Chai, Xiaoping Niu, and Yuan Qin. “AcoMYB4, an Ananas Comosus L. MYB Transcription Factor, Functions in Osmotic Stress through Negative Regulation of ABA Signaling.” International Journal of Molecular Sciences. MDPI, 2020. https://doi.org/10.3390/ijms21165727.","mla":"Chen, Huihuang, et al. “AcoMYB4, an Ananas Comosus L. MYB Transcription Factor, Functions in Osmotic Stress through Negative Regulation of ABA Signaling.” International Journal of Molecular Sciences, vol. 21, no. 16, 5272, MDPI, 2020, doi:10.3390/ijms21165727.","short":"H. Chen, L. Lai, L. Li, L. Liu, B.H. Jakada, Y. Huang, Q. He, M. Chai, X. Niu, Y. Qin, International Journal of Molecular Sciences 21 (2020).","ista":"Chen H, Lai L, Li L, Liu L, Jakada BH, Huang Y, He Q, Chai M, Niu X, Qin Y. 2020. AcoMYB4, an Ananas comosus L. MYB transcription factor, functions in osmotic stress through negative regulation of ABA signaling. International Journal of Molecular Sciences. 21(16), 5272.","ieee":"H. Chen et al., “AcoMYB4, an Ananas comosus L. MYB transcription factor, functions in osmotic stress through negative regulation of ABA signaling,” International Journal of Molecular Sciences, vol. 21, no. 16. MDPI, 2020.","apa":"Chen, H., Lai, L., Li, L., Liu, L., Jakada, B. H., Huang, Y., … Qin, Y. (2020). AcoMYB4, an Ananas comosus L. MYB transcription factor, functions in osmotic stress through negative regulation of ABA signaling. International Journal of Molecular Sciences. MDPI. https://doi.org/10.3390/ijms21165727","ama":"Chen H, Lai L, Li L, et al. AcoMYB4, an Ananas comosus L. MYB transcription factor, functions in osmotic stress through negative regulation of ABA signaling. International Journal of Molecular Sciences. 2020;21(16). doi:10.3390/ijms21165727"},"article_type":"original","date_published":"2020-08-10T00:00:00Z"},{"doi":"10.1242/jcs.248062","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"Bio"}],"language":[{"iso":"eng"}],"oa":1,"external_id":{"pmid":["32616560"],"isi":["000561047900021"]},"quality_controlled":"1","isi":1,"project":[{"name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"},{"call_identifier":"H2020","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385"}],"month":"08","publication_identifier":{"issn":["0021-9533"],"eissn":["1477-9137"]},"author":[{"first_name":"Alexander J","last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","full_name":"Johnson, Alexander J"},{"first_name":"Nataliia","last_name":"Gnyliukh","id":"390C1120-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2198-0509","full_name":"Gnyliukh, Nataliia"},{"full_name":"Kaufmann, Walter","last_name":"Kaufmann","first_name":"Walter","orcid":"0000-0001-9735-5315","id":"3F99E422-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Narasimhan, Madhumitha","orcid":"0000-0002-8600-0671","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","last_name":"Narasimhan","first_name":"Madhumitha"},{"last_name":"Vert","first_name":"G","full_name":"Vert, G"},{"first_name":"SY","last_name":"Bednarek","full_name":"Bednarek, SY"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"}],"related_material":{"record":[{"id":"14510","status":"public","relation":"dissertation_contains"}]},"date_created":"2020-07-21T08:58:19Z","date_updated":"2023-12-01T13:51:07Z","volume":133,"year":"2020","acknowledgement":"This paper is dedicated to the memory of Christien Merrifield. He pioneered quantitative\r\nimaging approaches in mammalian CME and his mentorship inspired the development of all\r\nthe analysis methods presented here. His joy in research, pure scientific curiosity and\r\nmicroscopy excellence remain a constant inspiration. We thank Daniel Van Damme for gifting\r\nus the CLC2-GFP x TPLATE-TagRFP plants used in this manuscript. We further thank the\r\nScientific Service Units at IST Austria; specifically, the Electron Microscopy Facility for\r\ntechnical assistance (in particular Vanessa Zheden) and the BioImaging Facility BioImaging\r\nFacility for access to equipment. ","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"},{"_id":"EM-Fac"}],"publisher":"The Company of Biologists","file_date_updated":"2021-08-08T22:30:03Z","ec_funded":1,"article_number":"jcs248062","date_published":"2020-08-06T00:00:00Z","publication":"Journal of Cell Science","citation":{"apa":"Johnson, A. J., Gnyliukh, N., Kaufmann, W., Narasimhan, M., Vert, G., Bednarek, S., & Friml, J. (2020). Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis. Journal of Cell Science. The Company of Biologists. https://doi.org/10.1242/jcs.248062","ieee":"A. J. Johnson et al., “Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis,” Journal of Cell Science, vol. 133, no. 15. The Company of Biologists, 2020.","ista":"Johnson AJ, Gnyliukh N, Kaufmann W, Narasimhan M, Vert G, Bednarek S, Friml J. 2020. Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis. Journal of Cell Science. 133(15), jcs248062.","ama":"Johnson AJ, Gnyliukh N, Kaufmann W, et al. Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis. Journal of Cell Science. 2020;133(15). doi:10.1242/jcs.248062","chicago":"Johnson, Alexander J, Nataliia Gnyliukh, Walter Kaufmann, Madhumitha Narasimhan, G Vert, SY Bednarek, and Jiří Friml. “Experimental Toolbox for Quantitative Evaluation of Clathrin-Mediated Endocytosis in the Plant Model Arabidopsis.” Journal of Cell Science. The Company of Biologists, 2020. https://doi.org/10.1242/jcs.248062.","short":"A.J. Johnson, N. Gnyliukh, W. Kaufmann, M. Narasimhan, G. Vert, S. Bednarek, J. Friml, Journal of Cell Science 133 (2020).","mla":"Johnson, Alexander J., et al. “Experimental Toolbox for Quantitative Evaluation of Clathrin-Mediated Endocytosis in the Plant Model Arabidopsis.” Journal of Cell Science, vol. 133, no. 15, jcs248062, The Company of Biologists, 2020, doi:10.1242/jcs.248062."},"article_type":"original","day":"06","has_accepted_license":"1","article_processing_charge":"No","scopus_import":"1","oa_version":"Published Version","file":[{"file_name":"2020 - Johnson - JSC - plant CME toolbox.pdf","access_level":"open_access","creator":"ajohnson","file_size":15150403,"content_type":"application/pdf","file_id":"8815","embargo":"2021-08-07","relation":"main_file","date_created":"2020-11-26T17:12:51Z","date_updated":"2021-08-08T22:30:03Z","checksum":"2d11f79a0b4e0a380fb002b933da331a"}],"_id":"8139","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","ddc":["575"],"title":"Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis","status":"public","intvolume":" 133","abstract":[{"text":"Clathrin-mediated endocytosis (CME) is a crucial cellular process implicated in many aspects of plant growth, development, intra- and inter-cellular signaling, nutrient uptake and pathogen defense. Despite these significant roles, little is known about the precise molecular details of how it functions in planta. In order to facilitate the direct quantitative study of plant CME, here we review current routinely used methods and present refined, standardized quantitative imaging protocols which allow the detailed characterization of CME at multiple scales in plant tissues. These include: (i) an efficient electron microscopy protocol for the imaging of Arabidopsis CME vesicles in situ, thus providing a method for the detailed characterization of the ultra-structure of clathrin-coated vesicles; (ii) a detailed protocol and analysis for quantitative live-cell fluorescence microscopy to precisely examine the temporal interplay of endocytosis components during single CME events; (iii) a semi-automated analysis to allow the quantitative characterization of global internalization of cargos in whole plant tissues; and (iv) an overview and validation of useful genetic and pharmacological tools to interrogate the molecular mechanisms and function of CME in intact plant samples.","lang":"eng"}],"issue":"15","type":"journal_article"},{"month":"01","doi":"10.1073/pnas.1818099116","language":[{"iso":"eng"}],"external_id":{"isi":["000456336100050"],"pmid":["30610176"]},"main_file_link":[{"url":"https://doi.org/10.1073/pnas.1818099116","open_access":"1"}],"oa":1,"quality_controlled":"1","isi":1,"author":[{"full_name":"Lee, Eunkyoung","first_name":"Eunkyoung","last_name":"Lee"},{"first_name":"Steffen","last_name":"Vanneste","full_name":"Vanneste, Steffen"},{"first_name":"Jessica","last_name":"Pérez-Sancho","full_name":"Pérez-Sancho, Jessica"},{"full_name":"Benitez-Fuente, Francisco","last_name":"Benitez-Fuente","first_name":"Francisco"},{"full_name":"Strelau, Matthew","first_name":"Matthew","last_name":"Strelau"},{"last_name":"Macho","first_name":"Alberto P.","full_name":"Macho, Alberto P."},{"full_name":"Botella, Miguel A.","last_name":"Botella","first_name":"Miguel A."},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"full_name":"Rosado, Abel","last_name":"Rosado","first_name":"Abel"}],"volume":116,"date_updated":"2023-08-24T14:31:09Z","date_created":"2019-02-03T22:59:14Z","pmid":1,"year":"2019","department":[{"_id":"JiFr"}],"publisher":"National Academy of Sciences","publication_status":"published","article_processing_charge":"No","day":"22","scopus_import":"1","date_published":"2019-01-22T00:00:00Z","citation":{"chicago":"Lee, Eunkyoung, Steffen Vanneste, Jessica Pérez-Sancho, Francisco Benitez-Fuente, Matthew Strelau, Alberto P. Macho, Miguel A. Botella, Jiří Friml, and Abel Rosado. “Ionic Stress Enhances ER–PM Connectivity via Phosphoinositide-Associated SYT1 Contact Site Expansion in Arabidopsis.” Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences, 2019. https://doi.org/10.1073/pnas.1818099116.","short":"E. Lee, S. Vanneste, J. Pérez-Sancho, F. Benitez-Fuente, M. Strelau, A.P. Macho, M.A. Botella, J. Friml, A. Rosado, Proceedings of the National Academy of Sciences of the United States of America 116 (2019) 1420–1429.","mla":"Lee, Eunkyoung, et al. “Ionic Stress Enhances ER–PM Connectivity via Phosphoinositide-Associated SYT1 Contact Site Expansion in Arabidopsis.” Proceedings of the National Academy of Sciences of the United States of America, vol. 116, no. 4, National Academy of Sciences, 2019, pp. 1420–29, doi:10.1073/pnas.1818099116.","ieee":"E. Lee et al., “Ionic stress enhances ER–PM connectivity via phosphoinositide-associated SYT1 contact site expansion in Arabidopsis,” Proceedings of the National Academy of Sciences of the United States of America, vol. 116, no. 4. National Academy of Sciences, pp. 1420–1429, 2019.","apa":"Lee, E., Vanneste, S., Pérez-Sancho, J., Benitez-Fuente, F., Strelau, M., Macho, A. P., … Rosado, A. (2019). Ionic stress enhances ER–PM connectivity via phosphoinositide-associated SYT1 contact site expansion in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences. https://doi.org/10.1073/pnas.1818099116","ista":"Lee E, Vanneste S, Pérez-Sancho J, Benitez-Fuente F, Strelau M, Macho AP, Botella MA, Friml J, Rosado A. 2019. Ionic stress enhances ER–PM connectivity via phosphoinositide-associated SYT1 contact site expansion in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America. 116(4), 1420–1429.","ama":"Lee E, Vanneste S, Pérez-Sancho J, et al. Ionic stress enhances ER–PM connectivity via phosphoinositide-associated SYT1 contact site expansion in Arabidopsis. Proceedings of the National Academy of Sciences of the United States of America. 2019;116(4):1420-1429. doi:10.1073/pnas.1818099116"},"publication":"Proceedings of the National Academy of Sciences of the United States of America","page":"1420-1429","article_type":"original","issue":"4","abstract":[{"text":"The interorganelle communication mediated by membrane contact sites (MCSs) is an evolutionary hallmark of eukaryotic cells. MCS connections enable the nonvesicular exchange of information between organelles and allow them to coordinate responses to changing cellular environments. In plants, the importance of MCS components in the responses to environmental stress has been widely established, but the molecular mechanisms regulating interorganelle connectivity during stress still remain opaque. In this report, we use the model plant Arabidopsis thaliana to show that ionic stress increases endoplasmic reticulum (ER)–plasma membrane (PM) connectivity by promoting the cortical expansion of synaptotagmin 1 (SYT1)-enriched ER–PM contact sites (S-EPCSs). We define differential roles for the cortical cytoskeleton in the regulation of S-EPCS dynamics and ER–PM connectivity, and we identify the accumulation of phosphatidylinositol 4,5-bisphosphate [PI(4,5)P2] at the PM as a molecular signal associated with the ER–PM connectivity changes. Our study highlights the functional conservation of EPCS components and PM phosphoinositides as modulators of ER–PM connectivity in eukaryotes, and uncovers unique aspects of the spatiotemporal regulation of ER–PM connectivity in plants.","lang":"eng"}],"type":"journal_article","oa_version":"Published Version","_id":"5908","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 116","status":"public","title":"Ionic stress enhances ER–PM connectivity via phosphoinositide-associated SYT1 contact site expansion in Arabidopsis"},{"oa":1,"main_file_link":[{"open_access":"1","url":"https://www.biorxiv.org/content/10.1101/479113v1.abstract"}],"external_id":{"isi":["000460479600014"]},"quality_controlled":"1","isi":1,"project":[{"_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7"}],"doi":"10.1038/s41477-019-0363-6","language":[{"iso":"eng"}],"month":"02","year":"2019","publication_status":"published","publisher":"Springer Nature","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"author":[{"full_name":"Yoshida, Saiko","first_name":"Saiko","last_name":"Yoshida","id":"2E46069C-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Van Der Schuren, Alja","last_name":"Van Der Schuren","first_name":"Alja"},{"first_name":"Maritza","last_name":"Van Dop","full_name":"Van Dop, Maritza"},{"last_name":"Van Galen","first_name":"Luc","full_name":"Van Galen, Luc"},{"last_name":"Saiga","first_name":"Shunsuke","full_name":"Saiga, Shunsuke"},{"full_name":"Adibi, Milad","first_name":"Milad","last_name":"Adibi"},{"full_name":"Möller, Barbara","first_name":"Barbara","last_name":"Möller"},{"last_name":"Ten Hove","first_name":"Colette A.","full_name":"Ten Hove, Colette A."},{"last_name":"Marhavy","first_name":"Peter","orcid":"0000-0001-5227-5741","id":"3F45B078-F248-11E8-B48F-1D18A9856A87","full_name":"Marhavy, Peter"},{"first_name":"Richard","last_name":"Smith","full_name":"Smith, Richard"},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Weijers, Dolf","first_name":"Dolf","last_name":"Weijers"}],"date_created":"2019-02-17T22:59:21Z","date_updated":"2023-08-24T14:46:47Z","volume":5,"ec_funded":1,"publication":"Nature Plants","citation":{"chicago":"Yoshida, Saiko, Alja Van Der Schuren, Maritza Van Dop, Luc Van Galen, Shunsuke Saiga, Milad Adibi, Barbara Möller, et al. “A SOSEKI-Based Coordinate System Interprets Global Polarity Cues in Arabidopsis.” Nature Plants. Springer Nature, 2019. https://doi.org/10.1038/s41477-019-0363-6.","mla":"Yoshida, Saiko, et al. “A SOSEKI-Based Coordinate System Interprets Global Polarity Cues in Arabidopsis.” Nature Plants, vol. 5, no. 2, Springer Nature, 2019, pp. 160–66, doi:10.1038/s41477-019-0363-6.","short":"S. Yoshida, A. Van Der Schuren, M. Van Dop, L. Van Galen, S. Saiga, M. Adibi, B. Möller, C.A. Ten Hove, P. Marhavý, R. Smith, J. Friml, D. Weijers, Nature Plants 5 (2019) 160–166.","ista":"Yoshida S, Van Der Schuren A, Van Dop M, Van Galen L, Saiga S, Adibi M, Möller B, Ten Hove CA, Marhavý P, Smith R, Friml J, Weijers D. 2019. A SOSEKI-based coordinate system interprets global polarity cues in arabidopsis. Nature Plants. 5(2), 160–166.","ieee":"S. Yoshida et al., “A SOSEKI-based coordinate system interprets global polarity cues in arabidopsis,” Nature Plants, vol. 5, no. 2. Springer Nature, pp. 160–166, 2019.","apa":"Yoshida, S., Van Der Schuren, A., Van Dop, M., Van Galen, L., Saiga, S., Adibi, M., … Weijers, D. (2019). A SOSEKI-based coordinate system interprets global polarity cues in arabidopsis. Nature Plants. Springer Nature. https://doi.org/10.1038/s41477-019-0363-6","ama":"Yoshida S, Van Der Schuren A, Van Dop M, et al. A SOSEKI-based coordinate system interprets global polarity cues in arabidopsis. Nature Plants. 2019;5(2):160-166. doi:10.1038/s41477-019-0363-6"},"page":"160-166","date_published":"2019-02-08T00:00:00Z","scopus_import":"1","day":"08","article_processing_charge":"No","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6023","title":"A SOSEKI-based coordinate system interprets global polarity cues in arabidopsis","status":"public","intvolume":" 5","oa_version":"Submitted Version","type":"journal_article","abstract":[{"text":"Multicellular development requires coordinated cell polarization relative to body axes, and translation to oriented cell division 1–3 . In plants, it is unknown how cell polarities are connected to organismal axes and translated to division. Here, we identify Arabidopsis SOSEKI proteins that integrate apical–basal and radial organismal axes to localize to polar cell edges. Localization does not depend on tissue context, requires cell wall integrity and is defined by a transferrable, protein-specific motif. A Domain of Unknown Function in SOSEKI proteins resembles the DIX oligomerization domain in the animal Dishevelled polarity regulator. The DIX-like domain self-interacts and is required for edge localization and for influencing division orientation, together with a second domain that defines the polar membrane domain. Our work shows that SOSEKI proteins locally interpret global polarity cues and can influence cell division orientation. Furthermore, this work reveals that, despite fundamental differences, cell polarity mechanisms in plants and animals converge on a similar protein domain.","lang":"eng"}],"issue":"2"},{"article_processing_charge":"No","day":"01","scopus_import":"1","date_published":"2019-02-01T00:00:00Z","page":"255-273","citation":{"chicago":"Zwiewka, Marta, Agnieszka Bielach, Prashanth Tamizhselvan, Sharmila Madhavan, Eman Elrefaay Ryad, Shutang Tan, Mónika Hrtyan, et al. “Root Adaptation to H2O2-Induced Oxidative Stress by ARF-GEF BEN1- and Cytoskeleton-Mediated PIN2 Trafficking.” Plant and Cell Physiology. Oxford University Press, 2019. https://doi.org/10.1093/pcp/pcz001.","mla":"Zwiewka, Marta, et al. “Root Adaptation to H2O2-Induced Oxidative Stress by ARF-GEF BEN1- and Cytoskeleton-Mediated PIN2 Trafficking.” Plant and Cell Physiology, vol. 60, no. 2, Oxford University Press, 2019, pp. 255–73, doi:10.1093/pcp/pcz001.","short":"M. Zwiewka, A. Bielach, P. Tamizhselvan, S. Madhavan, E.E. Ryad, S. Tan, M. Hrtyan, P. Dobrev, R. Vanková, J. Friml, V.B. Tognetti, Plant and Cell Physiology 60 (2019) 255–273.","ista":"Zwiewka M, Bielach A, Tamizhselvan P, Madhavan S, Ryad EE, Tan S, Hrtyan M, Dobrev P, Vanková R, Friml J, Tognetti VB. 2019. Root adaptation to H2O2-induced oxidative stress by ARF-GEF BEN1- and cytoskeleton-mediated PIN2 trafficking. Plant and Cell Physiology. 60(2), 255–273.","ieee":"M. Zwiewka et al., “Root adaptation to H2O2-induced oxidative stress by ARF-GEF BEN1- and cytoskeleton-mediated PIN2 trafficking,” Plant and Cell Physiology, vol. 60, no. 2. Oxford University Press, pp. 255–273, 2019.","apa":"Zwiewka, M., Bielach, A., Tamizhselvan, P., Madhavan, S., Ryad, E. E., Tan, S., … Tognetti, V. B. (2019). Root adaptation to H2O2-induced oxidative stress by ARF-GEF BEN1- and cytoskeleton-mediated PIN2 trafficking. Plant and Cell Physiology. Oxford University Press. https://doi.org/10.1093/pcp/pcz001","ama":"Zwiewka M, Bielach A, Tamizhselvan P, et al. Root adaptation to H2O2-induced oxidative stress by ARF-GEF BEN1- and cytoskeleton-mediated PIN2 trafficking. Plant and Cell Physiology. 2019;60(2):255-273. doi:10.1093/pcp/pcz001"},"publication":"Plant and Cell Physiology","issue":"2","abstract":[{"text":"Abiotic stress poses constant challenges for plant survival and is a serious problem for global agricultural productivity. On a molecular level, stress conditions result in elevation of reactive oxygen species (ROS) production causing oxidative stress associated with oxidation of proteins and nucleic acids as well as impairment of membrane functions. Adaptation of root growth to ROS accumulation is facilitated through modification of auxin and cytokinin hormone homeostasis. Here, we report that in Arabidopsis root meristem, ROS-induced changes of auxin levels correspond to decreased abundance of PIN auxin efflux carriers at the plasma membrane (PM). Specifically, increase in H2O2 levels affects PIN2 endocytic recycling. We show that the PIN2 intracellular trafficking during adaptation to oxidative stress requires the function of the ADP-ribosylation factor (ARF)-guanine-nucleotide exchange factor (GEF) BEN1, an actin-associated regulator of the trafficking from the PM to early endosomes and, presumably, indirectly, trafficking to the vacuoles. We propose that H2O2 levels affect the actin dynamics thus modulating ARF-GEF-dependent trafficking of PIN2. This mechanism provides a way how root growth acclimates to stress and adapts to a changing environment.","lang":"eng"}],"type":"journal_article","oa_version":"None","intvolume":" 60","title":"Root adaptation to H2O2-induced oxidative stress by ARF-GEF BEN1- and cytoskeleton-mediated PIN2 trafficking","status":"public","_id":"6104","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_identifier":{"eissn":["1471-9053"],"issn":["0032-0781"]},"month":"02","language":[{"iso":"eng"}],"doi":"10.1093/pcp/pcz001","quality_controlled":"1","isi":1,"external_id":{"pmid":["30668780"],"isi":["000459634300002"]},"volume":60,"date_created":"2019-03-17T22:59:14Z","date_updated":"2023-08-25T08:05:28Z","author":[{"first_name":"Marta","last_name":"Zwiewka","full_name":"Zwiewka, Marta"},{"last_name":"Bielach","first_name":"Agnieszka","full_name":"Bielach, Agnieszka"},{"full_name":"Tamizhselvan, Prashanth","first_name":"Prashanth","last_name":"Tamizhselvan"},{"full_name":"Madhavan, Sharmila","last_name":"Madhavan","first_name":"Sharmila"},{"first_name":"Eman Elrefaay","last_name":"Ryad","full_name":"Ryad, Eman Elrefaay"},{"id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","first_name":"Shutang","last_name":"Tan","full_name":"Tan, Shutang"},{"full_name":"Hrtyan, Mónika","id":"45A71A74-F248-11E8-B48F-1D18A9856A87","last_name":"Hrtyan","first_name":"Mónika"},{"first_name":"Petre","last_name":"Dobrev","full_name":"Dobrev, Petre"},{"full_name":"Vanková, Radomira","first_name":"Radomira","last_name":"Vanková"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"last_name":"Tognetti","first_name":"Vanesa B.","full_name":"Tognetti, Vanesa B."}],"publisher":"Oxford University Press","department":[{"_id":"JiFr"}],"publication_status":"published","pmid":1,"year":"2019"},{"day":"01","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","scopus_import":"1","date_published":"2019-06-01T00:00:00Z","publication":"The Plant Journal","citation":{"ama":"Rakusová H, Han H, Valošek P, Friml J. Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls. The Plant Journal. 2019;98(6):1048-1059. doi:10.1111/tpj.14301","apa":"Rakusová, H., Han, H., Valošek, P., & Friml, J. (2019). Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls. The Plant Journal. Wiley. https://doi.org/10.1111/tpj.14301","ieee":"H. Rakusová, H. Han, P. Valošek, and J. Friml, “Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls,” The Plant Journal, vol. 98, no. 6. Wiley, pp. 1048–1059, 2019.","ista":"Rakusová H, Han H, Valošek P, Friml J. 2019. Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls. The Plant Journal. 98(6), 1048–1059.","short":"H. Rakusová, H. Han, P. Valošek, J. Friml, The Plant Journal 98 (2019) 1048–1059.","mla":"Rakusová, Hana, et al. “Genetic Screen for Factors Mediating PIN Polarization in Gravistimulated Arabidopsis Thaliana Hypocotyls.” The Plant Journal, vol. 98, no. 6, Wiley, 2019, pp. 1048–59, doi:10.1111/tpj.14301.","chicago":"Rakusová, Hana, Huibin Han, Petr Valošek, and Jiří Friml. “Genetic Screen for Factors Mediating PIN Polarization in Gravistimulated Arabidopsis Thaliana Hypocotyls.” The Plant Journal. Wiley, 2019. https://doi.org/10.1111/tpj.14301."},"article_type":"original","page":"1048-1059","abstract":[{"lang":"eng","text":"Gravitropism is an adaptive response that orients plant growth parallel to the gravity vector. Asymmetric\r\ndistribution of the phytohormone auxin is a necessary prerequisite to the tropic bending both in roots and\r\nshoots. During hypocotyl gravitropic response, the PIN3 auxin transporter polarizes within gravity-sensing\r\ncells to redirect intercellular auxin fluxes. First gravity-induced PIN3 polarization to the bottom cell mem-\r\nbranes leads to the auxin accumulation at the lower side of the organ, initiating bending and, later, auxin\r\nfeedback-mediated repolarization restores symmetric auxin distribution to terminate bending. Here, we per-\r\nformed a forward genetic screen to identify regulators of both PIN3 polarization events during gravitropic\r\nresponse. We searched for mutants with defective PIN3 polarizations based on easy-to-score morphological\r\noutputs of decreased or increased gravity-induced hypocotyl bending. We identified the number of\r\nhypocotyl reduced bending (hrb) and hypocotyl hyperbending (hhb) mutants, revealing that reduced bending corre-\r\nlated typically with defective gravity-induced PIN3 relocation whereas all analyzed hhb mutants showed\r\ndefects in the second, auxin-mediated PIN3 relocation. Next-generation sequencing-aided mutation map-\r\nping identified several candidate genes, including SCARECROW and ACTIN2, revealing roles of endodermis\r\nspecification and actin cytoskeleton in the respective gravity- and auxin-induced PIN polarization events.\r\nThe hypocotyl gravitropism screen thus promises to provide novel insights into mechanisms underlying cell\r\npolarity and plant adaptive development."}],"issue":"6","type":"journal_article","file":[{"content_type":"application/pdf","file_size":1383100,"creator":"dernst","file_name":"2019_PlantJournal_Rakusov.pdf","access_level":"open_access","date_updated":"2020-07-14T12:47:25Z","date_created":"2019-04-15T09:38:43Z","checksum":"ad3b5e270b67ba2a45f894ce3be27920","relation":"main_file","file_id":"6304"}],"oa_version":"Published Version","_id":"6262","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls","ddc":["580"],"status":"public","intvolume":" 98","month":"06","publication_identifier":{"issn":["0960-7412"],"eissn":["1365-313x"]},"doi":"10.1111/tpj.14301","language":[{"iso":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["30821050"],"isi":["000473644100008"]},"quality_controlled":"1","isi":1,"project":[{"name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300"}],"file_date_updated":"2020-07-14T12:47:25Z","ec_funded":1,"author":[{"full_name":"Rakusová, Hana","first_name":"Hana","last_name":"Rakusová"},{"id":"31435098-F248-11E8-B48F-1D18A9856A87","first_name":"Huibin","last_name":"Han","full_name":"Han, Huibin"},{"full_name":"Valošek, Petr","last_name":"Valošek","first_name":"Petr","id":"3CDB6F94-F248-11E8-B48F-1D18A9856A87"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří"}],"date_created":"2019-04-09T08:46:44Z","date_updated":"2023-08-25T10:11:03Z","volume":98,"year":"2019","pmid":1,"publication_status":"published","publisher":"Wiley","department":[{"_id":"JiFr"}]},{"quality_controlled":"1","isi":1,"oa":1,"external_id":{"pmid":["30787134"],"isi":["000466860800010"]},"main_file_link":[{"url":"https://doi.org/10.1104/pp.18.01305","open_access":"1"}],"language":[{"iso":"eng"}],"doi":"10.1104/pp.18.01305","publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"month":"05","publisher":"ASPB","department":[{"_id":"JiFr"}],"publication_status":"published","pmid":1,"year":"2019","volume":180,"date_created":"2019-04-09T08:46:17Z","date_updated":"2023-08-25T10:10:23Z","author":[{"full_name":"Wang, Y","first_name":"Y","last_name":"Wang"},{"last_name":"Gong","first_name":"Z","full_name":"Gong, Z"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"},{"full_name":"Zhang, J","first_name":"J","last_name":"Zhang"}],"page":"22-25","article_type":"letter_note","citation":{"ista":"Wang Y, Gong Z, Friml J, Zhang J. 2019. Nitrate modulates the differentiation of root distal stem cells. Plant Physiology. 180(1), 22–25.","ieee":"Y. Wang, Z. Gong, J. Friml, and J. Zhang, “Nitrate modulates the differentiation of root distal stem cells,” Plant Physiology, vol. 180, no. 1. ASPB, pp. 22–25, 2019.","apa":"Wang, Y., Gong, Z., Friml, J., & Zhang, J. (2019). Nitrate modulates the differentiation of root distal stem cells. Plant Physiology. ASPB. https://doi.org/10.1104/pp.18.01305","ama":"Wang Y, Gong Z, Friml J, Zhang J. Nitrate modulates the differentiation of root distal stem cells. Plant Physiology. 2019;180(1):22-25. doi:10.1104/pp.18.01305","chicago":"Wang, Y, Z Gong, Jiří Friml, and J Zhang. “Nitrate Modulates the Differentiation of Root Distal Stem Cells.” Plant Physiology. ASPB, 2019. https://doi.org/10.1104/pp.18.01305.","mla":"Wang, Y., et al. “Nitrate Modulates the Differentiation of Root Distal Stem Cells.” Plant Physiology, vol. 180, no. 1, ASPB, 2019, pp. 22–25, doi:10.1104/pp.18.01305.","short":"Y. Wang, Z. Gong, J. Friml, J. Zhang, Plant Physiology 180 (2019) 22–25."},"publication":"Plant Physiology","date_published":"2019-05-01T00:00:00Z","scopus_import":"1","article_processing_charge":"No","day":"01","intvolume":" 180","title":"Nitrate modulates the differentiation of root distal stem cells","status":"public","_id":"6261","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Published Version","type":"journal_article","issue":"1","abstract":[{"lang":"eng","text":"Nitrate regulation of root stem cell activity is auxin-dependent."}]},{"day":"01","has_accepted_license":"1","article_processing_charge":"No","scopus_import":"1","date_published":"2019-10-01T00:00:00Z","article_type":"original","page":"761-774","publication":"New Phytologist","citation":{"ama":"Zhang Y, He P, Ma X, et al. Auxin-mediated statolith production for root gravitropism. New Phytologist. 2019;224(2):761-774. doi:10.1111/nph.15932","apa":"Zhang, Y., He, P., Ma, X., Yang, Z., Pang, C., Yu, J., … Xiao, G. (2019). Auxin-mediated statolith production for root gravitropism. New Phytologist. Wiley. https://doi.org/10.1111/nph.15932","ieee":"Y. Zhang et al., “Auxin-mediated statolith production for root gravitropism,” New Phytologist, vol. 224, no. 2. Wiley, pp. 761–774, 2019.","ista":"Zhang Y, He P, Ma X, Yang Z, Pang C, Yu J, Wang G, Friml J, Xiao G. 2019. Auxin-mediated statolith production for root gravitropism. New Phytologist. 224(2), 761–774.","short":"Y. Zhang, P. He, X. Ma, Z. Yang, C. Pang, J. Yu, G. Wang, J. Friml, G. Xiao, New Phytologist 224 (2019) 761–774.","mla":"Zhang, Yuzhou, et al. “Auxin-Mediated Statolith Production for Root Gravitropism.” New Phytologist, vol. 224, no. 2, Wiley, 2019, pp. 761–74, doi:10.1111/nph.15932.","chicago":"Zhang, Yuzhou, P He, X Ma, Z Yang, C Pang, J Yu, G Wang, Jiří Friml, and G Xiao. “Auxin-Mediated Statolith Production for Root Gravitropism.” New Phytologist. Wiley, 2019. https://doi.org/10.1111/nph.15932."},"abstract":[{"text":"Root gravitropism is one of the most important processes allowing plant adaptation to the land environment. Auxin plays a central role in mediating root gravitropism, but how auxin contributes to gravitational perception and the subsequent response is still unclear.\r\n\r\nHere, we showed that the local auxin maximum/gradient within the root apex, which is generated by the PIN directional auxin transporters, regulates the expression of three key starch granule synthesis genes, SS4, PGM and ADG1, which in turn influence the accumulation of starch granules that serve as a statolith perceiving gravity.\r\n\r\nMoreover, using the cvxIAA‐ccvTIR1 system, we also showed that TIR1‐mediated auxin signaling is required for starch granule formation and gravitropic response within root tips. In addition, axr3 mutants showed reduced auxin‐mediated starch granule accumulation and disruption of gravitropism within the root apex.\r\n\r\nOur results indicate that auxin‐mediated statolith production relies on the TIR1/AFB‐AXR3‐mediated auxin signaling pathway. In summary, we propose a dual role for auxin in gravitropism: the regulation of both gravity perception and response.","lang":"eng"}],"issue":"2","type":"journal_article","oa_version":"Submitted Version","file":[{"file_id":"8661","relation":"main_file","date_updated":"2020-10-14T08:59:33Z","date_created":"2020-10-14T08:59:33Z","success":1,"checksum":"6488243334538f5c39099a701cbf76b9","file_name":"2019_NewPhytologist_Zhang_accepted.pdf","access_level":"open_access","creator":"dernst","content_type":"application/pdf","file_size":1099061}],"ddc":["580"],"title":"Auxin-mediated statolith production for root gravitropism","status":"public","intvolume":" 224","_id":"6504","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","month":"10","publication_identifier":{"issn":["0028-646x"],"eissn":["1469-8137"]},"language":[{"iso":"eng"}],"doi":"10.1111/nph.15932","quality_controlled":"1","isi":1,"external_id":{"isi":["000487184200024"],"pmid":["31111487"]},"oa":1,"file_date_updated":"2020-10-14T08:59:33Z","date_updated":"2023-08-28T08:40:13Z","date_created":"2019-05-28T14:33:26Z","volume":224,"author":[{"full_name":"Zhang, Yuzhou","first_name":"Yuzhou","last_name":"Zhang","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2627-6956"},{"first_name":"P","last_name":"He","full_name":"He, P"},{"last_name":"Ma","first_name":"X","full_name":"Ma, X"},{"full_name":"Yang, Z","first_name":"Z","last_name":"Yang"},{"full_name":"Pang, C","first_name":"C","last_name":"Pang"},{"last_name":"Yu","first_name":"J","full_name":"Yu, J"},{"full_name":"Wang, G","first_name":"G","last_name":"Wang"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml"},{"first_name":"G","last_name":"Xiao","full_name":"Xiao, G"}],"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Wiley","year":"2019","pmid":1},{"type":"journal_article","issue":"6","abstract":[{"text":"Cell polarity is crucial for the coordinated development of all multicellular organisms. In plants, this is exemplified by the PIN-FORMED (PIN) efflux carriers of the phytohormone auxin: The polar subcellular localization of the PINs is instructive to the directional intercellular auxin transport, and thus to a plethora of auxin-regulated growth and developmental processes. Despite its importance, the regulation of PIN polar subcellular localization remains poorly understood. Here, we have employed advanced live-cell imaging techniques to study the roles of microtubules and actin microfilaments in the establishment of apical polar localization of PIN2 in the epidermis of the Arabidopsis root meristem. We report that apical PIN2 polarity requires neither intact actin microfilaments nor microtubules, suggesting that the primary spatial cue for polar PIN distribution is likely independent of cytoskeleton-guided endomembrane trafficking.","lang":"eng"}],"_id":"6611","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 9","title":"PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton","status":"public","ddc":["580"],"file":[{"file_id":"6625","relation":"main_file","date_updated":"2020-07-14T12:47:34Z","date_created":"2019-07-08T15:46:32Z","checksum":"1ce1bd36038fe5381057a1bcc6760083","file_name":"biomolecules-2019-Matous.pdf","access_level":"open_access","creator":"kschuh","content_type":"application/pdf","file_size":1066773}],"oa_version":"Published Version","scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","day":"07","citation":{"short":"M. Glanc, M. Fendrych, J. Friml, Biomolecules 9 (2019).","mla":"Glanc, Matous, et al. “PIN2 Polarity Establishment in Arabidopsis in the Absence of an Intact Cytoskeleton.” Biomolecules, vol. 9, no. 6, 222, MDPI, 2019, doi:10.3390/biom9060222.","chicago":"Glanc, Matous, Matyas Fendrych, and Jiří Friml. “PIN2 Polarity Establishment in Arabidopsis in the Absence of an Intact Cytoskeleton.” Biomolecules. MDPI, 2019. https://doi.org/10.3390/biom9060222.","ama":"Glanc M, Fendrych M, Friml J. PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton. Biomolecules. 2019;9(6). doi:10.3390/biom9060222","ieee":"M. Glanc, M. Fendrych, and J. Friml, “PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton,” Biomolecules, vol. 9, no. 6. MDPI, 2019.","apa":"Glanc, M., Fendrych, M., & Friml, J. (2019). PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton. Biomolecules. MDPI. https://doi.org/10.3390/biom9060222","ista":"Glanc M, Fendrych M, Friml J. 2019. PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton. Biomolecules. 9(6), 222."},"publication":"Biomolecules","date_published":"2019-06-07T00:00:00Z","article_number":"222","ec_funded":1,"file_date_updated":"2020-07-14T12:47:34Z","pmid":1,"year":"2019","publisher":"MDPI","department":[{"_id":"JiFr"}],"publication_status":"published","author":[{"full_name":"Glanc, Matous","first_name":"Matous","last_name":"Glanc","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","orcid":"0000-0003-0619-7783"},{"id":"43905548-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9767-8699","first_name":"Matyas","last_name":"Fendrych","full_name":"Fendrych, Matyas"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří"}],"volume":9,"date_created":"2019-07-07T21:59:21Z","date_updated":"2023-08-28T12:30:24Z","month":"06","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["31181636"],"isi":["000475301500018"]},"project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"}],"quality_controlled":"1","isi":1,"doi":"10.3390/biom9060222","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"}]},{"oa_version":"Published Version","file":[{"file_name":"2019_NatureComm_Zhang.pdf","access_level":"open_access","creator":"dernst","file_size":6406141,"content_type":"application/pdf","file_id":"6798","relation":"main_file","date_created":"2019-08-12T07:09:20Z","date_updated":"2020-07-14T12:47:40Z","checksum":"d2c654fdb97f33078f606fe0c298bf6e"}],"intvolume":" 10","title":"Evolution of fast root gravitropism in seed plants","status":"public","ddc":["580"],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6778","abstract":[{"text":"An important adaptation during colonization of land by plants is gravitropic growth of roots, which enabled roots to reach water and nutrients, and firmly anchor plants in the ground. Here we provide insights into the evolution of an efficient root gravitropic mechanism in the seed plants. Architectural innovation, with gravity perception constrained in the root tips\r\nalong with a shootward transport route for the phytohormone auxin, appeared only upon the emergence of seed plants. Interspecies complementation and protein domain swapping revealed functional innovations within the PIN family of auxin transporters leading to the evolution of gravitropism-specific PINs. The unique apical/shootward subcellular localization of PIN proteins is the major evolutionary innovation that connected the anatomically separated sites of gravity perception and growth response via the mobile auxin signal. We conclude that the crucial anatomical and functional components emerged hand-in-hand to facilitate the evolution of fast gravitropic response, which is one of the major adaptations of seed plants to dry land.","lang":"eng"}],"type":"journal_article","date_published":"2019-08-02T00:00:00Z","article_type":"original","citation":{"ama":"Zhang Y, Xiao G, Wang X, Zhang X, Friml J. Evolution of fast root gravitropism in seed plants. Nature Communications. 2019;10. doi:10.1038/s41467-019-11471-8","ieee":"Y. Zhang, G. Xiao, X. Wang, X. Zhang, and J. Friml, “Evolution of fast root gravitropism in seed plants,” Nature Communications, vol. 10. Springer Nature, 2019.","apa":"Zhang, Y., Xiao, G., Wang, X., Zhang, X., & Friml, J. (2019). Evolution of fast root gravitropism in seed plants. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-019-11471-8","ista":"Zhang Y, Xiao G, Wang X, Zhang X, Friml J. 2019. Evolution of fast root gravitropism in seed plants. Nature Communications. 10, 3480.","short":"Y. Zhang, G. Xiao, X. Wang, X. Zhang, J. Friml, Nature Communications 10 (2019).","mla":"Zhang, Yuzhou, et al. “Evolution of Fast Root Gravitropism in Seed Plants.” Nature Communications, vol. 10, 3480, Springer Nature, 2019, doi:10.1038/s41467-019-11471-8.","chicago":"Zhang, Yuzhou, G Xiao, X Wang, Xixi Zhang, and Jiří Friml. “Evolution of Fast Root Gravitropism in Seed Plants.” Nature Communications. Springer Nature, 2019. https://doi.org/10.1038/s41467-019-11471-8."},"publication":"Nature Communications","has_accepted_license":"1","article_processing_charge":"No","day":"02","scopus_import":"1","volume":10,"date_created":"2019-08-09T08:46:26Z","date_updated":"2023-08-29T07:02:44Z","related_material":{"link":[{"url":"https://ist.ac.at/en/news/when-plant-roots-learned-to-follow-gravity/","description":"News on IST Homepage","relation":"press_release"}]},"author":[{"full_name":"Zhang, Yuzhou","orcid":"0000-0003-2627-6956","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","last_name":"Zhang","first_name":"Yuzhou"},{"first_name":"G","last_name":"Xiao","full_name":"Xiao, G"},{"last_name":"Wang","first_name":"X","full_name":"Wang, X"},{"first_name":"Xixi","last_name":"Zhang","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","orcid":"0000-0001-7048-4627","full_name":"Zhang, Xixi"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"publisher":"Springer Nature","department":[{"_id":"JiFr"}],"publication_status":"published","pmid":1,"year":"2019","ec_funded":1,"file_date_updated":"2020-07-14T12:47:40Z","article_number":"3480","language":[{"iso":"eng"}],"doi":"10.1038/s41467-019-11471-8","project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"},{"grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF"},{"name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"isi":1,"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"pmid":["31375675"],"isi":["000478576500012"]},"publication_identifier":{"issn":["2041-1723"]},"month":"08"},{"month":"06","publication_identifier":{"eissn":["1532-2548"],"issn":["0032-0889"]},"oa":1,"external_id":{"isi":["000470086100019"],"pmid":["31000634"]},"main_file_link":[{"url":"www.doi.org/10.1104/pp.18.01377","open_access":"1"}],"isi":1,"quality_controlled":"1","doi":"10.1104/pp.18.01377","language":[{"iso":"eng"}],"year":"2019","pmid":1,"publication_status":"published","publisher":"ASPB","department":[{"_id":"JiFr"}],"author":[{"full_name":"Bellstaedt, Julia","first_name":"Julia","last_name":"Bellstaedt"},{"full_name":"Trenner, Jana","last_name":"Trenner","first_name":"Jana"},{"first_name":"Rebecca","last_name":"Lippmann","full_name":"Lippmann, Rebecca"},{"first_name":"Yvonne","last_name":"Poeschl","full_name":"Poeschl, Yvonne"},{"id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","orcid":"0000-0001-7048-4627","first_name":"Xixi","last_name":"Zhang","full_name":"Zhang, Xixi"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"full_name":"Quint, Marcel","last_name":"Quint","first_name":"Marcel"},{"full_name":"Delker, Carolin","first_name":"Carolin","last_name":"Delker"}],"date_created":"2019-04-30T15:24:22Z","date_updated":"2023-09-05T12:25:19Z","volume":180,"scopus_import":"1","day":"01","article_processing_charge":"No","publication":"Plant Physiology","citation":{"ama":"Bellstaedt J, Trenner J, Lippmann R, et al. A mobile auxin signal connects temperature sensing in cotyledons with growth responses in hypocotyls. Plant Physiology. 2019;180(2):757-766. doi:10.1104/pp.18.01377","ieee":"J. Bellstaedt et al., “A mobile auxin signal connects temperature sensing in cotyledons with growth responses in hypocotyls,” Plant Physiology, vol. 180, no. 2. ASPB, pp. 757–766, 2019.","apa":"Bellstaedt, J., Trenner, J., Lippmann, R., Poeschl, Y., Zhang, X., Friml, J., … Delker, C. (2019). A mobile auxin signal connects temperature sensing in cotyledons with growth responses in hypocotyls. Plant Physiology. ASPB. https://doi.org/10.1104/pp.18.01377","ista":"Bellstaedt J, Trenner J, Lippmann R, Poeschl Y, Zhang X, Friml J, Quint M, Delker C. 2019. A mobile auxin signal connects temperature sensing in cotyledons with growth responses in hypocotyls. Plant Physiology. 180(2), 757–766.","short":"J. Bellstaedt, J. Trenner, R. Lippmann, Y. Poeschl, X. Zhang, J. Friml, M. Quint, C. Delker, Plant Physiology 180 (2019) 757–766.","mla":"Bellstaedt, Julia, et al. “A Mobile Auxin Signal Connects Temperature Sensing in Cotyledons with Growth Responses in Hypocotyls.” Plant Physiology, vol. 180, no. 2, ASPB, 2019, pp. 757–66, doi:10.1104/pp.18.01377.","chicago":"Bellstaedt, Julia, Jana Trenner, Rebecca Lippmann, Yvonne Poeschl, Xixi Zhang, Jiří Friml, Marcel Quint, and Carolin Delker. “A Mobile Auxin Signal Connects Temperature Sensing in Cotyledons with Growth Responses in Hypocotyls.” Plant Physiology. ASPB, 2019. https://doi.org/10.1104/pp.18.01377."},"article_type":"original","page":"757-766","date_published":"2019-06-01T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"Plants have a remarkable capacity to adjust their growth and development to elevated ambient temperatures. Increased elongation growth of roots, hypocotyls and petioles in warm temperatures are hallmarks of seedling thermomorphogenesis. In the last decade, significant progress has been made to identify the molecular signaling components regulating these growth responses. Increased ambient temperature utilizes diverse components of the light sensing and signal transduction network to trigger growth adjustments. However, it remains unknown whether temperature sensing and responses are universal processes that occur uniformly in all plant organs. Alternatively, temperature sensing may be confined to specific tissues or organs, which would require a systemic signal that mediates responses in distal parts of the plant. Here we show that Arabidopsis (Arabidopsis thaliana) seedlings show organ-specific transcriptome responses to elevated temperatures, and that thermomorphogenesis involves both autonomous and organ-interdependent temperature sensing and signaling. Seedling roots can sense and respond to temperature in a shoot-independent manner, whereas shoot temperature responses require both local and systemic processes. The induction of cell elongation in hypocotyls requires temperature sensing in cotyledons, followed by generation of a mobile auxin signal. Subsequently, auxin travels to the hypocotyl where it triggers local brassinosteroid-induced cell elongation in seedling stems, which depends upon a distinct, permissive temperature sensor in the hypocotyl."}],"issue":"2","_id":"6366","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","title":"A mobile auxin signal connects temperature sensing in cotyledons with growth responses in hypocotyls","intvolume":" 180","oa_version":"Published Version"},{"file_date_updated":"2020-11-13T07:37:41Z","ec_funded":1,"author":[{"first_name":"Min","last_name":"Cao","full_name":"Cao, Min"},{"last_name":"Chen","first_name":"Rong","full_name":"Chen, Rong"},{"last_name":"Li","first_name":"Pan","full_name":"Li, Pan"},{"full_name":"Yu, Yongqiang","last_name":"Yu","first_name":"Yongqiang"},{"full_name":"Zheng, Rui","first_name":"Rui","last_name":"Zheng"},{"last_name":"Ge","first_name":"Danfeng","full_name":"Ge, Danfeng"},{"last_name":"Zheng","first_name":"Wei","full_name":"Zheng, Wei"},{"full_name":"Wang, Xuhui","last_name":"Wang","first_name":"Xuhui"},{"full_name":"Gu, Yangtao","first_name":"Yangtao","last_name":"Gu"},{"full_name":"Gelová, Zuzana","id":"0AE74790-0E0B-11E9-ABC7-1ACFE5697425","orcid":"0000-0003-4783-1752","first_name":"Zuzana","last_name":"Gelová"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"full_name":"Zhang, Heng","last_name":"Zhang","first_name":"Heng"},{"first_name":"Renyi","last_name":"Liu","full_name":"Liu, Renyi"},{"last_name":"He","first_name":"Jun","full_name":"He, Jun"},{"full_name":"Xu, Tongda","first_name":"Tongda","last_name":"Xu"}],"related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/newly-discovered-mechanism-of-plant-hormone-auxin-acts-the-opposite-way/"}]},"date_updated":"2023-09-05T14:58:41Z","date_created":"2019-04-09T08:37:05Z","volume":568,"year":"2019","pmid":1,"publication_status":"published","publisher":"Springer Nature","department":[{"_id":"JiFr"}],"month":"04","publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"doi":"10.1038/s41586-019-1069-7","language":[{"iso":"eng"}],"oa":1,"external_id":{"isi":["000464412700050"],"pmid":["30944466"]},"quality_controlled":"1","isi":1,"project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"}],"abstract":[{"lang":"eng","text":"The plant hormone auxin has crucial roles in almost all aspects of plant growth and development. Concentrations of auxin vary across different tissues, mediating distinct developmental outcomes and contributing to the functional diversity of auxin. However, the mechanisms that underlie these activities are poorly understood. Here we identify an auxin signalling mechanism, which acts in parallel to the canonical auxin pathway based on the transport inhibitor response1 (TIR1) and other auxin receptor F-box (AFB) family proteins (TIR1/AFB receptors)1,2, that translates levels of cellular auxin to mediate differential growth during apical-hook development. This signalling mechanism operates at the concave side of the apical hook, and involves auxin-mediated C-terminal cleavage of transmembrane kinase 1 (TMK1). The cytosolic and nucleus-translocated C terminus of TMK1 specifically interacts with and phosphorylates two non-canonical transcriptional repressors of the auxin or indole-3-acetic acid (Aux/IAA) family (IAA32 and IAA34), thereby regulating ARF transcription factors. In contrast to the degradation of Aux/IAA transcriptional repressors in the canonical pathway, the newly identified mechanism stabilizes the non-canonical IAA32 and IAA34 transcriptional repressors to regulate gene expression and ultimately inhibit growth. The auxin–TMK1 signalling pathway originates at the cell surface, is triggered by high levels of auxin and shares a partially overlapping set of transcription factors with the TIR1/AFB signalling pathway. This allows distinct interpretations of different concentrations of cellular auxin, and thus enables this versatile signalling molecule to mediate complex developmental outcomes."}],"type":"journal_article","file":[{"success":1,"checksum":"6b84ab602a34382cf0340a37a1378c75","date_created":"2020-11-13T07:37:41Z","date_updated":"2020-11-13T07:37:41Z","file_id":"8751","relation":"main_file","creator":"dernst","content_type":"application/pdf","file_size":4321328,"access_level":"open_access","file_name":"2019_Nature _Cao_accepted.pdf"}],"oa_version":"Submitted Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"6259","title":"TMK1-mediated auxin signalling regulates differential growth of the apical hook","ddc":["580"],"status":"public","intvolume":" 568","day":"11","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1","date_published":"2019-04-11T00:00:00Z","publication":"Nature","citation":{"short":"M. Cao, R. Chen, P. Li, Y. Yu, R. Zheng, D. Ge, W. Zheng, X. Wang, Y. Gu, Z. Gelová, J. Friml, H. Zhang, R. Liu, J. He, T. Xu, Nature 568 (2019) 240–243.","mla":"Cao, Min, et al. “TMK1-Mediated Auxin Signalling Regulates Differential Growth of the Apical Hook.” Nature, vol. 568, Springer Nature, 2019, pp. 240–43, doi:10.1038/s41586-019-1069-7.","chicago":"Cao, Min, Rong Chen, Pan Li, Yongqiang Yu, Rui Zheng, Danfeng Ge, Wei Zheng, et al. “TMK1-Mediated Auxin Signalling Regulates Differential Growth of the Apical Hook.” Nature. Springer Nature, 2019. https://doi.org/10.1038/s41586-019-1069-7.","ama":"Cao M, Chen R, Li P, et al. TMK1-mediated auxin signalling regulates differential growth of the apical hook. Nature. 2019;568:240-243. doi:10.1038/s41586-019-1069-7","apa":"Cao, M., Chen, R., Li, P., Yu, Y., Zheng, R., Ge, D., … Xu, T. (2019). TMK1-mediated auxin signalling regulates differential growth of the apical hook. Nature. Springer Nature. https://doi.org/10.1038/s41586-019-1069-7","ieee":"M. Cao et al., “TMK1-mediated auxin signalling regulates differential growth of the apical hook,” Nature, vol. 568. Springer Nature, pp. 240–243, 2019.","ista":"Cao M, Chen R, Li P, Yu Y, Zheng R, Ge D, Zheng W, Wang X, Gu Y, Gelová Z, Friml J, Zhang H, Liu R, He J, Xu T. 2019. TMK1-mediated auxin signalling regulates differential growth of the apical hook. Nature. 568, 240–243."},"article_type":"original","page":"240-243"},{"type":"journal_article","issue":"11","abstract":[{"text":"PIN-FORMED (PIN) transporters mediate directional, intercellular movement of the phytohormone auxin in land plants. To elucidate the evolutionary origins of this developmentally crucial mechanism, we analysed the single PIN homologue of a simple green alga Klebsormidium flaccidum. KfPIN functions as a plasma membrane-localized auxin exporter in land plants and heterologous models. While its role in algae remains unclear, PIN-driven auxin export is probably an ancient and conserved trait within streptophytes.","lang":"eng"}],"intvolume":" 5","status":"public","title":"PIN-driven auxin transport emerged early in streptophyte evolution","ddc":["580"],"_id":"7106","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"creator":"dernst","content_type":"application/pdf","file_size":1980851,"file_name":"2019_NaturePlants_Skokan_accepted.pdf","access_level":"open_access","date_updated":"2020-10-14T08:54:49Z","date_created":"2020-10-14T08:54:49Z","success":1,"checksum":"94e0426856aad9a9bd0135d5436efbf1","file_id":"8660","relation":"main_file"}],"oa_version":"Submitted Version","scopus_import":"1","has_accepted_license":"1","article_processing_charge":"No","day":"01","page":"1114-1119","article_type":"original","citation":{"mla":"Skokan, Roman, et al. “PIN-Driven Auxin Transport Emerged Early in Streptophyte Evolution.” Nature Plants, vol. 5, no. 11, Springer Nature, 2019, pp. 1114–19, doi:10.1038/s41477-019-0542-5.","short":"R. Skokan, E. Medvecká, T. Viaene, S. Vosolsobě, M. Zwiewka, K. Müller, P. Skůpa, M. Karady, Y. Zhang, D.P. Janacek, U.Z. Hammes, K. Ljung, T. Nodzyński, J. Petrášek, J. Friml, Nature Plants 5 (2019) 1114–1119.","chicago":"Skokan, Roman, Eva Medvecká, Tom Viaene, Stanislav Vosolsobě, Marta Zwiewka, Karel Müller, Petr Skůpa, et al. “PIN-Driven Auxin Transport Emerged Early in Streptophyte Evolution.” Nature Plants. Springer Nature, 2019. https://doi.org/10.1038/s41477-019-0542-5.","ama":"Skokan R, Medvecká E, Viaene T, et al. PIN-driven auxin transport emerged early in streptophyte evolution. Nature Plants. 2019;5(11):1114-1119. doi:10.1038/s41477-019-0542-5","ista":"Skokan R, Medvecká E, Viaene T, Vosolsobě S, Zwiewka M, Müller K, Skůpa P, Karady M, Zhang Y, Janacek DP, Hammes UZ, Ljung K, Nodzyński T, Petrášek J, Friml J. 2019. PIN-driven auxin transport emerged early in streptophyte evolution. Nature Plants. 5(11), 1114–1119.","ieee":"R. Skokan et al., “PIN-driven auxin transport emerged early in streptophyte evolution,” Nature Plants, vol. 5, no. 11. Springer Nature, pp. 1114–1119, 2019.","apa":"Skokan, R., Medvecká, E., Viaene, T., Vosolsobě, S., Zwiewka, M., Müller, K., … Friml, J. (2019). PIN-driven auxin transport emerged early in streptophyte evolution. Nature Plants. Springer Nature. https://doi.org/10.1038/s41477-019-0542-5"},"publication":"Nature Plants","date_published":"2019-11-01T00:00:00Z","ec_funded":1,"file_date_updated":"2020-10-14T08:54:49Z","department":[{"_id":"JiFr"}],"publisher":"Springer Nature","publication_status":"published","pmid":1,"year":"2019","volume":5,"date_updated":"2023-09-06T11:09:49Z","date_created":"2019-11-25T09:08:04Z","author":[{"last_name":"Skokan","first_name":"Roman","full_name":"Skokan, Roman"},{"full_name":"Medvecká, Eva","last_name":"Medvecká","first_name":"Eva"},{"first_name":"Tom","last_name":"Viaene","full_name":"Viaene, Tom"},{"first_name":"Stanislav","last_name":"Vosolsobě","full_name":"Vosolsobě, Stanislav"},{"first_name":"Marta","last_name":"Zwiewka","full_name":"Zwiewka, Marta"},{"first_name":"Karel","last_name":"Müller","full_name":"Müller, Karel"},{"full_name":"Skůpa, Petr","first_name":"Petr","last_name":"Skůpa"},{"full_name":"Karady, Michal","first_name":"Michal","last_name":"Karady"},{"full_name":"Zhang, Yuzhou","last_name":"Zhang","first_name":"Yuzhou"},{"full_name":"Janacek, Dorina P.","first_name":"Dorina P.","last_name":"Janacek"},{"last_name":"Hammes","first_name":"Ulrich Z.","full_name":"Hammes, Ulrich Z."},{"first_name":"Karin","last_name":"Ljung","full_name":"Ljung, Karin"},{"last_name":"Nodzyński","first_name":"Tomasz","full_name":"Nodzyński, Tomasz"},{"last_name":"Petrášek","first_name":"Jan","full_name":"Petrášek, Jan"},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"publication_identifier":{"issn":["2055-0278"]},"month":"11","project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}],"isi":1,"quality_controlled":"1","external_id":{"pmid":["31712756"],"isi":["000496526100010"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1038/s41477-019-0542-5"},{"day":"01","article_processing_charge":"No","scopus_import":"1","date_published":"2019-12-01T00:00:00Z","article_type":"original","page":"965-966","publication":"Cell Research","citation":{"ama":"Sinclair SA, Friml J. Defying gravity: a plant’s quest for moisture. Cell Research. 2019;29:965-966. doi:10.1038/s41422-019-0254-4","ista":"Sinclair SA, Friml J. 2019. Defying gravity: a plant’s quest for moisture. Cell Research. 29, 965–966.","ieee":"S. A. Sinclair and J. Friml, “Defying gravity: a plant’s quest for moisture,” Cell Research, vol. 29. Springer Nature, pp. 965–966, 2019.","apa":"Sinclair, S. A., & Friml, J. (2019). Defying gravity: a plant’s quest for moisture. Cell Research. Springer Nature. https://doi.org/10.1038/s41422-019-0254-4","mla":"Sinclair, Scott A., and Jiří Friml. “Defying Gravity: A Plant’s Quest for Moisture.” Cell Research, vol. 29, Springer Nature, 2019, pp. 965–66, doi:10.1038/s41422-019-0254-4.","short":"S.A. Sinclair, J. Friml, Cell Research 29 (2019) 965–966.","chicago":"Sinclair, Scott A, and Jiří Friml. “Defying Gravity: A Plant’s Quest for Moisture.” Cell Research. Springer Nature, 2019. https://doi.org/10.1038/s41422-019-0254-4."},"abstract":[{"lang":"eng","text":"Roots grow downwards parallel to the gravity vector, to anchor a plant in soil and acquire water and nutrients, using a gravitropic mechanism dependent on the asymmetric distribution of the phytohormone auxin. Recently, Chang et al. demonstrate that asymmetric distribution of another phytohormone, cytokinin, directs root growth towards higher water content."}],"type":"journal_article","oa_version":"Published Version","title":"Defying gravity: a plant's quest for moisture","status":"public","intvolume":" 29","_id":"7143","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","month":"12","publication_identifier":{"issn":["1001-0602"],"eissn":["1748-7838"]},"language":[{"iso":"eng"}],"doi":"10.1038/s41422-019-0254-4","isi":1,"quality_controlled":"1","oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1038/s41422-019-0254-4"}],"external_id":{"isi":["000500749600001"],"pmid":["31745287"]},"date_created":"2019-12-02T12:30:48Z","date_updated":"2023-09-06T11:20:58Z","volume":29,"author":[{"first_name":"Scott A","last_name":"Sinclair","id":"2D99FE6A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4566-0593","full_name":"Sinclair, Scott A"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"}],"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Springer Nature","year":"2019","pmid":1},{"month":"11","publication_identifier":{"eissn":["1664462X"]},"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["31803201"],"isi":["000499821700001"]},"isi":1,"quality_controlled":"1","doi":"10.3389/fpls.2019.01437","language":[{"iso":"eng"}],"article_number":"1437","file_date_updated":"2020-07-14T12:47:52Z","year":"2019","pmid":1,"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Frontiers","author":[{"first_name":"André","last_name":"Alcântara","full_name":"Alcântara, André"},{"full_name":"Bosch, Jason","first_name":"Jason","last_name":"Bosch"},{"full_name":"Nazari, Fahimeh","first_name":"Fahimeh","last_name":"Nazari"},{"first_name":"Gesa","last_name":"Hoffmann","full_name":"Hoffmann, Gesa"},{"first_name":"Michelle C","last_name":"Gallei","id":"35A03822-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1286-7368","full_name":"Gallei, Michelle C"},{"first_name":"Simon","last_name":"Uhse","full_name":"Uhse, Simon"},{"full_name":"Darino, Martin A.","first_name":"Martin A.","last_name":"Darino"},{"last_name":"Olukayode","first_name":"Toluwase","full_name":"Olukayode, Toluwase"},{"full_name":"Reumann, Daniel","last_name":"Reumann","first_name":"Daniel"},{"full_name":"Baggaley, Laura","first_name":"Laura","last_name":"Baggaley"},{"last_name":"Djamei","first_name":"Armin","full_name":"Djamei, Armin"}],"date_updated":"2023-09-06T14:33:46Z","date_created":"2019-12-15T23:00:43Z","volume":10,"scopus_import":"1","day":"14","article_processing_charge":"No","has_accepted_license":"1","publication":"Frontiers in Plant Science","citation":{"chicago":"Alcântara, André, Jason Bosch, Fahimeh Nazari, Gesa Hoffmann, Michelle C Gallei, Simon Uhse, Martin A. Darino, et al. “Systematic Y2H Screening Reveals Extensive Effector-Complex Formation.” Frontiers in Plant Science. Frontiers, 2019. https://doi.org/10.3389/fpls.2019.01437.","short":"A. Alcântara, J. Bosch, F. Nazari, G. Hoffmann, M.C. Gallei, S. Uhse, M.A. Darino, T. Olukayode, D. Reumann, L. Baggaley, A. Djamei, Frontiers in Plant Science 10 (2019).","mla":"Alcântara, André, et al. “Systematic Y2H Screening Reveals Extensive Effector-Complex Formation.” Frontiers in Plant Science, vol. 10, no. 11, 1437, Frontiers, 2019, doi:10.3389/fpls.2019.01437.","apa":"Alcântara, A., Bosch, J., Nazari, F., Hoffmann, G., Gallei, M. C., Uhse, S., … Djamei, A. (2019). Systematic Y2H screening reveals extensive effector-complex formation. Frontiers in Plant Science. Frontiers. https://doi.org/10.3389/fpls.2019.01437","ieee":"A. Alcântara et al., “Systematic Y2H screening reveals extensive effector-complex formation,” Frontiers in Plant Science, vol. 10, no. 11. Frontiers, 2019.","ista":"Alcântara A, Bosch J, Nazari F, Hoffmann G, Gallei MC, Uhse S, Darino MA, Olukayode T, Reumann D, Baggaley L, Djamei A. 2019. Systematic Y2H screening reveals extensive effector-complex formation. Frontiers in Plant Science. 10(11), 1437.","ama":"Alcântara A, Bosch J, Nazari F, et al. Systematic Y2H screening reveals extensive effector-complex formation. Frontiers in Plant Science. 2019;10(11). doi:10.3389/fpls.2019.01437"},"article_type":"original","date_published":"2019-11-14T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"During infection pathogens secrete small molecules, termed effectors, to manipulate and control the interaction with their specific hosts. Both the pathogen and the plant are under high selective pressure to rapidly adapt and co-evolve in what is usually referred to as molecular arms race. Components of the host’s immune system form a network that processes information about molecules with a foreign origin and damage-associated signals, integrating them with developmental and abiotic cues to adapt the plant’s responses. Both in the case of nucleotide-binding leucine-rich repeat receptors and leucine-rich repeat receptor kinases interaction networks have been extensively characterized. However, little is known on whether pathogenic effectors form complexes to overcome plant immunity and promote disease. Ustilago maydis, a biotrophic fungal pathogen that infects maize plants, produces effectors that target hubs in the immune network of the host cell. Here we assess the capability of U. maydis effector candidates to interact with each other, which may play a crucial role during the infection process. Using a systematic yeast-two-hybrid approach and based on a preliminary pooled screen, we selected 63 putative effectors for one-on-one matings with a library of nearly 300 effector candidates. We found that 126 of these effector candidates interacted either with themselves or other predicted effectors. Although the functional relevance of the observed interactions remains elusive, we propose that the observed abundance in complex formation between effectors adds an additional level of complexity to effector research and should be taken into consideration when studying effector evolution and function. Based on this fundamental finding, we suggest various scenarios which could evolutionarily drive the formation and stabilization of an effector interactome."}],"issue":"11","_id":"7182","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Systematic Y2H screening reveals extensive effector-complex formation","ddc":["580"],"status":"public","intvolume":" 10","file":[{"relation":"main_file","file_id":"7185","checksum":"995aa838aec2064d93550de82b40bbd1","date_created":"2019-12-16T07:58:43Z","date_updated":"2020-07-14T12:47:52Z","access_level":"open_access","file_name":"2019_FrontiersPlant_Alcantara.pdf","file_size":1532505,"content_type":"application/pdf","creator":"dernst"}],"oa_version":"Published Version"},{"oa_version":"None","status":"public","title":"Disruption of endocytosis through chemical inhibition of clathrin heavy chain function","intvolume":" 15","_id":"6377","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","abstract":[{"lang":"eng","text":"Clathrin-mediated endocytosis (CME) is a highly conserved and essential cellular process in eukaryotic cells, but its dynamic and vital nature makes it challenging to study using classical genetics tools. In contrast, although small molecules can acutely and reversibly perturb CME, the few chemical CME inhibitors that have been applied to plants are either ineffective or show undesirable side effects. Here, we identify the previously described endosidin9 (ES9) as an inhibitor of clathrin heavy chain (CHC) function in both Arabidopsis and human cells through affinity-based target isolation, in vitro binding studies and X-ray crystallography. Moreover, we present a chemically improved ES9 analog, ES9-17, which lacks the undesirable side effects of ES9 while retaining the ability to target CHC. ES9 and ES9-17 have expanded the chemical toolbox used to probe CHC function, and present chemical scaffolds for further design of more specific and potent CHC inhibitors across different systems."}],"issue":"6","type":"journal_article","date_published":"2019-06-01T00:00:00Z","article_type":"original","page":"641–649","publication":"Nature Chemical Biology","citation":{"chicago":"Dejonghe, Wim, Isha Sharma, Bram Denoo, Steven De Munck, Qing Lu, Kiril Mishev, Haydar Bulut, et al. “Disruption of Endocytosis through Chemical Inhibition of Clathrin Heavy Chain Function.” Nature Chemical Biology. Springer Nature, 2019. https://doi.org/10.1038/s41589-019-0262-1.","mla":"Dejonghe, Wim, et al. “Disruption of Endocytosis through Chemical Inhibition of Clathrin Heavy Chain Function.” Nature Chemical Biology, vol. 15, no. 6, Springer Nature, 2019, pp. 641–649, doi:10.1038/s41589-019-0262-1.","short":"W. Dejonghe, I. Sharma, B. Denoo, S. De Munck, Q. Lu, K. Mishev, H. Bulut, E. Mylle, R. De Rycke, M.K. Vasileva, D.V. Savatin, W. Nerinckx, A. Staes, A. Drozdzecki, D. Audenaert, K. Yperman, A. Madder, J. Friml, D. Van Damme, K. Gevaert, V. Haucke, S.N. Savvides, J. Winne, E. Russinova, Nature Chemical Biology 15 (2019) 641–649.","ista":"Dejonghe W, Sharma I, Denoo B, De Munck S, Lu Q, Mishev K, Bulut H, Mylle E, De Rycke R, Vasileva MK, Savatin DV, Nerinckx W, Staes A, Drozdzecki A, Audenaert D, Yperman K, Madder A, Friml J, Van Damme D, Gevaert K, Haucke V, Savvides SN, Winne J, Russinova E. 2019. Disruption of endocytosis through chemical inhibition of clathrin heavy chain function. Nature Chemical Biology. 15(6), 641–649.","ieee":"W. Dejonghe et al., “Disruption of endocytosis through chemical inhibition of clathrin heavy chain function,” Nature Chemical Biology, vol. 15, no. 6. Springer Nature, pp. 641–649, 2019.","apa":"Dejonghe, W., Sharma, I., Denoo, B., De Munck, S., Lu, Q., Mishev, K., … Russinova, E. (2019). Disruption of endocytosis through chemical inhibition of clathrin heavy chain function. Nature Chemical Biology. Springer Nature. https://doi.org/10.1038/s41589-019-0262-1","ama":"Dejonghe W, Sharma I, Denoo B, et al. Disruption of endocytosis through chemical inhibition of clathrin heavy chain function. Nature Chemical Biology. 2019;15(6):641–649. doi:10.1038/s41589-019-0262-1"},"day":"01","article_processing_charge":"No","scopus_import":"1","date_updated":"2023-09-07T12:54:35Z","date_created":"2019-05-05T21:59:11Z","volume":15,"author":[{"first_name":"Wim","last_name":"Dejonghe","full_name":"Dejonghe, Wim"},{"full_name":"Sharma, Isha","last_name":"Sharma","first_name":"Isha"},{"last_name":"Denoo","first_name":"Bram","full_name":"Denoo, Bram"},{"first_name":"Steven","last_name":"De Munck","full_name":"De Munck, Steven"},{"first_name":"Qing","last_name":"Lu","full_name":"Lu, Qing"},{"full_name":"Mishev, Kiril","first_name":"Kiril","last_name":"Mishev"},{"first_name":"Haydar","last_name":"Bulut","full_name":"Bulut, Haydar"},{"full_name":"Mylle, Evelien","last_name":"Mylle","first_name":"Evelien"},{"full_name":"De Rycke, Riet","first_name":"Riet","last_name":"De Rycke"},{"full_name":"Vasileva, Mina K","last_name":"Vasileva","first_name":"Mina K","id":"3407EB18-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Savatin, Daniel V.","last_name":"Savatin","first_name":"Daniel V."},{"full_name":"Nerinckx, Wim","first_name":"Wim","last_name":"Nerinckx"},{"full_name":"Staes, An","first_name":"An","last_name":"Staes"},{"full_name":"Drozdzecki, Andrzej","last_name":"Drozdzecki","first_name":"Andrzej"},{"last_name":"Audenaert","first_name":"Dominique","full_name":"Audenaert, Dominique"},{"last_name":"Yperman","first_name":"Klaas","full_name":"Yperman, Klaas"},{"last_name":"Madder","first_name":"Annemieke","full_name":"Madder, Annemieke"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří"},{"first_name":"Daniël","last_name":"Van Damme","full_name":"Van Damme, Daniël"},{"first_name":"Kris","last_name":"Gevaert","full_name":"Gevaert, Kris"},{"first_name":"Volker","last_name":"Haucke","full_name":"Haucke, Volker"},{"full_name":"Savvides, Savvas N.","first_name":"Savvas N.","last_name":"Savvides"},{"full_name":"Winne, Johan","first_name":"Johan","last_name":"Winne"},{"first_name":"Eugenia","last_name":"Russinova","full_name":"Russinova, Eugenia"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"7172"}]},"publication_status":"published","publisher":"Springer Nature","department":[{"_id":"JiFr"}],"year":"2019","language":[{"iso":"eng"}],"doi":"10.1038/s41589-019-0262-1","quality_controlled":"1","isi":1,"external_id":{"isi":["000468195600018"]},"month":"06","publication_identifier":{"eissn":["15524469"],"issn":["15524450"]}},{"language":[{"iso":"eng"}],"supervisor":[{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"}],"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"degree_awarded":"PhD","doi":"10.15479/AT:ISTA:7172","oa":1,"publication_identifier":{"eissn":["2663-337X"]},"month":"12","date_updated":"2023-09-19T10:39:33Z","date_created":"2019-12-11T21:24:39Z","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"1346"},{"id":"6377","status":"public","relation":"part_of_dissertation"},{"id":"449","relation":"part_of_dissertation","status":"public"}]},"author":[{"full_name":"Vasileva, Mina K","id":"3407EB18-F248-11E8-B48F-1D18A9856A87","last_name":"Vasileva","first_name":"Mina K"}],"department":[{"_id":"JiFr"}],"publisher":"Institute of Science and Technology Austria","publication_status":"published","year":"2019","file_date_updated":"2020-07-14T12:47:51Z","date_published":"2019-12-12T00:00:00Z","page":"192","citation":{"chicago":"Vasileva, Mina K. “Molecular Mechanisms of Endomembrane Trafficking in Arabidopsis Thaliana.” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/AT:ISTA:7172.","short":"M.K. Vasileva, Molecular Mechanisms of Endomembrane Trafficking in Arabidopsis Thaliana, Institute of Science and Technology Austria, 2019.","mla":"Vasileva, Mina K. Molecular Mechanisms of Endomembrane Trafficking in Arabidopsis Thaliana. Institute of Science and Technology Austria, 2019, doi:10.15479/AT:ISTA:7172.","apa":"Vasileva, M. K. (2019). Molecular mechanisms of endomembrane trafficking in Arabidopsis thaliana. Institute of Science and Technology Austria. https://doi.org/10.15479/AT:ISTA:7172","ieee":"M. K. Vasileva, “Molecular mechanisms of endomembrane trafficking in Arabidopsis thaliana,” Institute of Science and Technology Austria, 2019.","ista":"Vasileva MK. 2019. Molecular mechanisms of endomembrane trafficking in Arabidopsis thaliana. Institute of Science and Technology Austria.","ama":"Vasileva MK. Molecular mechanisms of endomembrane trafficking in Arabidopsis thaliana. 2019. doi:10.15479/AT:ISTA:7172"},"article_processing_charge":"No","has_accepted_license":"1","day":"12","oa_version":"Published Version","file":[{"access_level":"closed","file_name":"Thesis_Mina_final_upload_7.docx","file_size":20454014,"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","creator":"mvasilev","relation":"source_file","file_id":"7175","checksum":"ef981c1a3b1d9da0edcbedcff4970d37","date_created":"2019-12-12T09:32:36Z","date_updated":"2020-07-14T12:47:51Z"},{"file_id":"7176","relation":"main_file","date_created":"2019-12-12T09:33:10Z","date_updated":"2020-07-14T12:47:51Z","checksum":"3882c4585e46c9cfb486e4225cad54ab","file_name":"Thesis_Mina_final_upload_7.pdf","access_level":"open_access","creator":"mvasilev","content_type":"application/pdf","file_size":11565025}],"title":"Molecular mechanisms of endomembrane trafficking in Arabidopsis thaliana","status":"public","ddc":["570"],"_id":"7172","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","abstract":[{"text":"The development and growth of Arabidopsis thaliana is regulated by a combination of genetic programing and also by the environmental influences. An important role in these processes play the phytohormones and among them, auxin is crucial as it controls many important functions. It is transported through the whole plant body by creating local and temporal concentration maxima and minima, which have an impact on the cell status, tissue and organ identity. Auxin has the property to undergo a directional and finely regulated cell-to-cell transport, which is enabled by the transport proteins, localized on the plasma membrane. An important role in this process have the PIN auxin efflux proteins, which have an asymmetric/polar subcellular localization and determine the directionality of the auxin transport. During the last years, there were significant advances in understanding how the trafficking molecular machineries function, including studies on molecular interactions, function, subcellular localization and intracellular distribution. However, there is still a lack of detailed characterization on the steps of endocytosis, exocytosis, endocytic recycling and degradation. Due to this fact, I focused on the identification of novel trafficking factors and better characterization of the intracellular trafficking pathways. My PhD thesis consists of an introductory chapter, three experimental chapters, a chapter containing general discussion, conclusions and perspectives and also an appendix chapter with published collaborative papers.\r\nThe first chapter is separated in two different parts: I start by a general introduction to auxin biology and then I introduce the trafficking pathways in the model plant Arabidopsis thaliana. Then, I explain also the phosphorylation-signals for polar targeting and also the roles of the phytohormone strigolactone.\r\nThe second chapter includes the characterization of bar1/sacsin mutant, which was identified in a forward genetic screen for novel trafficking components in Arabidopsis thaliana, where by the implementation of an EMS-treated pPIN1::PIN1-GFP marker line and by using the established inhibitor of ARF-GEFs, Brefeldin A (BFA) as a tool to study trafficking processes, we identified a novel factor, which is mediating the adaptation of the plant cell to ARF-GEF inhibition. The mutation is in a previously uncharacterized gene, encoding a very big protein that we, based on its homologies, called SACSIN with domains suggesting roles as a molecular chaperon or as a component of the ubiquitin-proteasome system. Our physiology and imaging studies revealed that SACSIN is a crucial plant cell component of the adaptation to the ARF-GEF inhibition.\r\nThe third chapter includes six subchapters, where I focus on the role of the phytohormone strigolactone, which interferes with auxin feedback on PIN internalization. Strigolactone moderates the polar auxin transport by increasing the internalization of the PIN auxin efflux carriers, which reduces the canalization related growth responses. In addition, I also studied the role of phosphorylation in the strigolactone regulation of auxin feedback on PIN internalization. In this chapter I also present my results on the MAX2-dependence of strigolactone-mediated root growth inhibition and I also share my results on the auxin metabolomics profiling after application of GR24.\r\nIn the fourth chapter I studied the effect of two small molecules ES-9 and ES9-17, which were identified from a collection of small molecules with the property to impair the clathrin-mediated endocytosis.\r\nIn the fifth chapter, I discuss all my observations and experimental findings and suggest alternative hypothesis to interpret my results.\r\nIn the appendix there are three collaborative published projects. In the first, I participated in the characterization of the role of ES9 as a small molecule, which is inhibitor of clathrin- mediated endocytosis in different model organisms. In the second paper, I contributed to the characterization of another small molecule ES9-17, which is a non-protonophoric analog of ES9 and also impairs the clathrin-mediated endocytosis not only in plant cells, but also in mammalian HeLa cells. Last but not least, I also attach another paper, where I tried to establish the grafting method as a technique in our lab to study canalization related processes.","lang":"eng"}],"alternative_title":["ISTA Thesis"],"type":"dissertation"},{"article_processing_charge":"No","has_accepted_license":"1","day":"15","scopus_import":"1","date_published":"2019-10-15T00:00:00Z","page":"21274-21284","article_type":"original","citation":{"ama":"Huang D, Sun Y, Ma Z, et al. Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization. Proceedings of the National Academy of Sciences of the United States of America. 2019;116(42):21274-21284. doi:10.1073/pnas.1911892116","apa":"Huang, D., Sun, Y., Ma, Z., Ke, M., Cui, Y., Chen, Z., … Chen, X. (2019). Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization. Proceedings of the National Academy of Sciences of the United States of America. Proceedings of the National Academy of Sciences. https://doi.org/10.1073/pnas.1911892116","ieee":"D. Huang et al., “Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization,” Proceedings of the National Academy of Sciences of the United States of America, vol. 116, no. 42. Proceedings of the National Academy of Sciences, pp. 21274–21284, 2019.","ista":"Huang D, Sun Y, Ma Z, Ke M, Cui Y, Chen Z, Chen C, Ji C, Tran T, Yang L, Lam S, Han Y, Shu G, Friml J, Miao Y, Jiang L, Chen X. 2019. Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization. Proceedings of the National Academy of Sciences of the United States of America. 116(42), 21274–21284.","short":"D. Huang, Y. Sun, Z. Ma, M. Ke, Y. Cui, Z. Chen, C. Chen, C. Ji, T. Tran, L. Yang, S. Lam, Y. Han, G. Shu, J. Friml, Y. Miao, L. Jiang, X. Chen, Proceedings of the National Academy of Sciences of the United States of America 116 (2019) 21274–21284.","mla":"Huang, D., et al. “Salicylic Acid-Mediated Plasmodesmal Closure via Remorin-Dependent Lipid Organization.” Proceedings of the National Academy of Sciences of the United States of America, vol. 116, no. 42, Proceedings of the National Academy of Sciences, 2019, pp. 21274–84, doi:10.1073/pnas.1911892116.","chicago":"Huang, D, Y Sun, Z Ma, M Ke, Y Cui, Z Chen, C Chen, et al. “Salicylic Acid-Mediated Plasmodesmal Closure via Remorin-Dependent Lipid Organization.” Proceedings of the National Academy of Sciences of the United States of America. Proceedings of the National Academy of Sciences, 2019. https://doi.org/10.1073/pnas.1911892116."},"publication":"Proceedings of the National Academy of Sciences of the United States of America","issue":"42","abstract":[{"text":"Plasmodesmata (PD) are plant-specific membrane-lined channels that create cytoplasmic and membrane continuities between adjacent cells, thereby facilitating cell–cell communication and virus movement. Plant cells have evolved diverse mechanisms to regulate PD plasticity in response to numerous environmental stimuli. In particular, during defense against plant pathogens, the defense hormone, salicylic acid (SA), plays a crucial role in the regulation of PD permeability in a callose-dependent manner. Here, we uncover a mechanism by which plants restrict the spreading of virus and PD cargoes using SA signaling by increasing lipid order and closure of PD. We showed that exogenous SA application triggered the compartmentalization of lipid raft nanodomains through a modulation of the lipid raft-regulatory protein, Remorin (REM). Genetic studies, superresolution imaging, and transmission electron microscopy observation together demonstrated that Arabidopsis REM1.2 and REM1.3 are crucial for plasma membrane nanodomain assembly to control PD aperture and functionality. In addition, we also found that a 14-3-3 epsilon protein modulates REM clustering and membrane nanodomain compartmentalization through its direct interaction with REM proteins. This study unveils a molecular mechanism by which the key plant defense hormone, SA, triggers membrane lipid nanodomain reorganization, thereby regulating PD closure to impede virus spreading.","lang":"eng"}],"type":"journal_article","oa_version":"Published Version","file":[{"relation":"main_file","file_id":"7012","date_updated":"2020-07-14T12:47:46Z","date_created":"2019-11-13T08:22:28Z","checksum":"258c666bc6253eab81961f61169eefae","file_name":"2019_PNAS_Huang.pdf","access_level":"open_access","file_size":3287466,"content_type":"application/pdf","creator":"dernst"}],"intvolume":" 116","status":"public","title":"Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization","ddc":["580"],"_id":"6999","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"month":"10","language":[{"iso":"eng"}],"doi":"10.1073/pnas.1911892116","isi":1,"quality_controlled":"1","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"oa":1,"external_id":{"pmid":["31575745"],"isi":["000490183000068"]},"file_date_updated":"2020-07-14T12:47:46Z","volume":116,"date_updated":"2023-10-17T12:32:37Z","date_created":"2019-11-12T11:42:05Z","related_material":{"link":[{"url":"https://doi.org/10.1073/pnas.2004738117","relation":"erratum"}]},"author":[{"full_name":"Huang, D","last_name":"Huang","first_name":"D"},{"full_name":"Sun, Y","last_name":"Sun","first_name":"Y"},{"last_name":"Ma","first_name":"Z","full_name":"Ma, Z"},{"full_name":"Ke, M","last_name":"Ke","first_name":"M"},{"last_name":"Cui","first_name":"Y","full_name":"Cui, Y"},{"full_name":"Chen, Z","first_name":"Z","last_name":"Chen"},{"full_name":"Chen, C","last_name":"Chen","first_name":"C"},{"full_name":"Ji, C","first_name":"C","last_name":"Ji"},{"first_name":"TM","last_name":"Tran","full_name":"Tran, TM"},{"last_name":"Yang","first_name":"L","full_name":"Yang, L"},{"full_name":"Lam, SM","first_name":"SM","last_name":"Lam"},{"last_name":"Han","first_name":"Y","full_name":"Han, Y"},{"full_name":"Shu, G","last_name":"Shu","first_name":"G"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"full_name":"Miao, Y","last_name":"Miao","first_name":"Y"},{"last_name":"Jiang","first_name":"L","full_name":"Jiang, L"},{"first_name":"X","last_name":"Chen","full_name":"Chen, X"}],"department":[{"_id":"JiFr"}],"publisher":"Proceedings of the National Academy of 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Version","ddc":["575"],"status":"public","title":"Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants ","_id":"6269","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","abstract":[{"text":"Clathrin-Mediated Endocytosis (CME) is an aspect of cellular trafficking that is constantly regulated for mediating developmental and physiological responses. The main aim of my thesis is to decipher the basic mechanisms of CME and post-endocytic trafficking in the whole multicellular organ systems of Arabidopsis. The first chapter of my thesis describes the search for new components involved in CME. Tandem affinity purification was conducted using CLC and its interacting partners were identified. Amongst the identified proteins were the Auxilin-likes1 and 2 (Axl1/2), putative uncoating factors, for which we made a full functional analysis. Over-expression of Axl1/2 causes extreme modifications in the dynamics of the machinery proteins and inhibition of endocytosis altogether. However the loss of function of the axl1/2 did not present any cellular or physiological phenotype, meaning Auxilin-likes do not form the major uncoating machinery. The second chapter of my thesis describes the establishment/utilisation of techniques to capture the dynamicity and the complexity of CME and post-endocytic trafficking. We have studied the development of endocytic pits at the PM – specifically, the mode of membrane remodeling during pit development and the role of actin in it, given plant cells possess high turgor pressure. Utilizing the improved z-resolution of TIRF and VAEM techniques, we captured the time-lapse of the endocytic events at the plasma membrane; and using particle detection software, we quantitatively analysed all the endocytic trajectories in an unbiased way to obtain the endocytic rate of the system. This together with the direct analysis of cargo internalisation from the PM provided an estimate on the endocytic potential of the cell. We also developed a methodology for ultrastructural analysis of different populations of Clathrin-Coated Structures (CCSs) in both PM and endomembranes in unroofed protoplasts. Structural analysis, together with the intensity profile of CCSs at the PM show that the mode of CCP development at the PM follows ‘Constant curvature model’; meaning that clathrin polymerisation energy is a major contributing factor of membrane remodeling. In addition, other analyses clearly show that actin is not required for membrane remodeling during invagination or any other step of CCP development, despite the prevalent high turgor pressure. However, actin is essential in orchestrating the post-endocytic trafficking of CCVs facilitating the EE formation. We also observed that the uncoating process post-endocytosis is not immediate; an alternative mechanism of uncoating – Sequential multi-step process – functions in the cell. Finally we also looked at one of the important physiological stimuli modulating the process – hormone, auxin. auxin has been known to influence CME before. We have made a detailed study on the concentration-time based effect of auxin on the machinery proteins, CCP development, and the specificity of cargoes endocytosed. To this end, we saw no general effect of auxin on CME at earlier time points. However, very low concentration of IAA, such as 50nM, accelerates endocytosis of specifically PIN2 through CME. Such a tight regulatory control with high specificity to PIN2 could be essential in modulating its polarity. ","lang":"eng"}],"alternative_title":["ISTA Thesis"],"type":"dissertation","date_published":"2019-02-04T00:00:00Z","page":"138","citation":{"ista":"Narasimhan M. 2019. Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants . Institute of Science and Technology Austria.","apa":"Narasimhan, M. (2019). Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants . Institute of Science and Technology Austria. https://doi.org/10.15479/at:ista:th1075","ieee":"M. Narasimhan, “Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants ,” Institute of Science and Technology Austria, 2019.","ama":"Narasimhan M. Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants . 2019. doi:10.15479/at:ista:th1075","chicago":"Narasimhan, Madhumitha. “Clathrin-Mediated Endocytosis, Post-Endocytic Trafficking and Their Regulatory Controls in Plants .” Institute of Science and Technology Austria, 2019. https://doi.org/10.15479/at:ista:th1075.","mla":"Narasimhan, Madhumitha. Clathrin-Mediated Endocytosis, Post-Endocytic Trafficking and Their Regulatory Controls in Plants . Institute of Science and Technology Austria, 2019, doi:10.15479/at:ista:th1075.","short":"M. Narasimhan, Clathrin-Mediated Endocytosis, Post-Endocytic Trafficking and Their Regulatory Controls in Plants , Institute of Science and Technology Austria, 2019."},"day":"04","has_accepted_license":"1","article_processing_charge":"No","date_created":"2019-04-09T14:37:06Z","date_updated":"2023-09-08T11:43:03Z","author":[{"first_name":"Madhumitha","last_name":"Narasimhan","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8600-0671","full_name":"Narasimhan, Madhumitha"}],"related_material":{"record":[{"id":"412","relation":"part_of_dissertation","status":"public"}]},"publication_status":"published","publisher":"Institute of Science and Technology Austria","department":[{"_id":"JiFr"}],"year":"2019","file_date_updated":"2021-02-11T23:30:15Z","supervisor":[{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"}],"degree_awarded":"PhD","language":[{"iso":"eng"}],"doi":"10.15479/at:ista:th1075","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"month":"02","publication_identifier":{"issn":["2663-337X"]}},{"citation":{"mla":"Marhavá, Petra, et al. “Re-Activation of Stem Cell Pathways for Pattern Restoration in Plant Wound Healing.” Cell, vol. 177, no. 4, Elsevier, 2019, p. 957–969.e13, doi:10.1016/j.cell.2019.04.015.","short":"P. Marhavá, L. Hörmayer, S. Yoshida, P. Marhavý, E. Benková, J. Friml, Cell 177 (2019) 957–969.e13.","chicago":"Marhavá, Petra, Lukas Hörmayer, Saiko Yoshida, Peter Marhavý, Eva Benková, and Jiří Friml. “Re-Activation of Stem Cell Pathways for Pattern Restoration in Plant Wound Healing.” Cell. Elsevier, 2019. https://doi.org/10.1016/j.cell.2019.04.015.","ama":"Marhavá P, Hörmayer L, Yoshida S, Marhavý P, Benková E, Friml J. Re-activation of stem cell pathways for pattern restoration in plant wound healing. Cell. 2019;177(4):957-969.e13. doi:10.1016/j.cell.2019.04.015","ista":"Marhavá P, Hörmayer L, Yoshida S, Marhavý P, Benková E, Friml J. 2019. Re-activation of stem cell pathways for pattern restoration in plant wound healing. Cell. 177(4), 957–969.e13.","ieee":"P. Marhavá, L. Hörmayer, S. Yoshida, P. Marhavý, E. Benková, and J. Friml, “Re-activation of stem cell pathways for pattern restoration in plant wound healing,” Cell, vol. 177, no. 4. Elsevier, p. 957–969.e13, 2019.","apa":"Marhavá, P., Hörmayer, L., Yoshida, S., Marhavý, P., Benková, E., & Friml, J. (2019). Re-activation of stem cell pathways for pattern restoration in plant wound healing. Cell. Elsevier. https://doi.org/10.1016/j.cell.2019.04.015"},"publication":"Cell","page":"957-969.e13","date_published":"2019-05-02T00:00:00Z","scopus_import":"1","article_processing_charge":"No","has_accepted_license":"1","day":"02","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6351","intvolume":" 177","status":"public","title":"Re-activation of stem cell pathways for pattern restoration in plant wound healing","ddc":["570"],"file":[{"relation":"main_file","file_id":"6411","checksum":"4ceba04a96a74f5092ec3ce2c579a0c7","date_updated":"2020-07-14T12:47:28Z","date_created":"2019-05-13T06:12:45Z","access_level":"open_access","file_name":"2019_Cell_Marhava.pdf","file_size":10272032,"content_type":"application/pdf","creator":"dernst"}],"oa_version":"Published Version","type":"journal_article","issue":"4","abstract":[{"lang":"eng","text":"A process of restorative patterning in plant roots correctly replaces eliminated cells to heal local injuries despite the absence of cell migration, which underpins wound healing in animals. \r\n\r\nPatterning in plants relies on oriented cell divisions and acquisition of specific cell identities. Plants regularly endure wounds caused by abiotic or biotic environmental stimuli and have developed extraordinary abilities to restore their tissues after injuries. Here, we provide insight into a mechanism of restorative patterning that repairs tissues after wounding. Laser-assisted elimination of different cells in Arabidopsis root combined with live-imaging tracking during vertical growth allowed analysis of the regeneration processes in vivo. Specifically, the cells adjacent to the inner side of the injury re-activated their stem cell transcriptional programs. They accelerated their progression through cell cycle, coordinately changed the cell division orientation, and ultimately acquired de novo the correct cell fates to replace missing cells. These observations highlight existence of unknown intercellular positional signaling and demonstrate the capability of specified cells to re-acquire stem cell programs as a crucial part of the plant-specific mechanism of wound healing."}],"oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"pmid":["31051107"],"isi":["000466843000015"]},"project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"}],"isi":1,"quality_controlled":"1","doi":"10.1016/j.cell.2019.04.015","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"}],"publication_identifier":{"eissn":["10974172"],"issn":["00928674"]},"month":"05","pmid":1,"year":"2019","publisher":"Elsevier","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"publication_status":"published","related_material":{"record":[{"id":"9992","relation":"dissertation_contains","status":"public"}],"link":[{"url":"https://ist.ac.at/en/news/specialized-plant-cells-regain-stem-cell-features-to-heal-wounds/","relation":"press_release","description":"News on IST Homepage"}]},"author":[{"id":"44E59624-F248-11E8-B48F-1D18A9856A87","last_name":"Marhavá","first_name":"Petra","full_name":"Marhavá, Petra"},{"id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8295-2926","first_name":"Lukas","last_name":"Hörmayer","full_name":"Hörmayer, Lukas"},{"full_name":"Yoshida, Saiko","id":"2E46069C-F248-11E8-B48F-1D18A9856A87","last_name":"Yoshida","first_name":"Saiko"},{"last_name":"Marhavy","first_name":"Peter","orcid":"0000-0001-5227-5741","id":"3F45B078-F248-11E8-B48F-1D18A9856A87","full_name":"Marhavy, Peter"},{"full_name":"Benková, Eva","last_name":"Benková","first_name":"Eva","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"}],"volume":177,"date_created":"2019-04-28T21:59:14Z","date_updated":"2024-03-28T23:30:10Z","ec_funded":1,"file_date_updated":"2020-07-14T12:47:28Z"},{"article_type":"original","page":"124-130","publication":"Current Opinion in Plant Biology","citation":{"apa":"Hörmayer, L., & Friml, J. (2019). Targeted cell ablation-based insights into wound healing and restorative patterning. Current Opinion in Plant Biology. Elsevier. https://doi.org/10.1016/j.pbi.2019.08.006","ieee":"L. Hörmayer and J. Friml, “Targeted cell ablation-based insights into wound healing and restorative patterning,” Current Opinion in Plant Biology, vol. 52. Elsevier, pp. 124–130, 2019.","ista":"Hörmayer L, Friml J. 2019. Targeted cell ablation-based insights into wound healing and restorative patterning. Current Opinion in Plant Biology. 52, 124–130.","ama":"Hörmayer L, Friml J. Targeted cell ablation-based insights into wound healing and restorative patterning. Current Opinion in Plant Biology. 2019;52:124-130. doi:10.1016/j.pbi.2019.08.006","chicago":"Hörmayer, Lukas, and Jiří Friml. “Targeted Cell Ablation-Based Insights into Wound Healing and Restorative Patterning.” Current Opinion in Plant Biology. Elsevier, 2019. https://doi.org/10.1016/j.pbi.2019.08.006.","short":"L. Hörmayer, J. Friml, Current Opinion in Plant Biology 52 (2019) 124–130.","mla":"Hörmayer, Lukas, and Jiří Friml. “Targeted Cell Ablation-Based Insights into Wound Healing and Restorative Patterning.” Current Opinion in Plant Biology, vol. 52, Elsevier, 2019, pp. 124–30, doi:10.1016/j.pbi.2019.08.006."},"date_published":"2019-12-01T00:00:00Z","scopus_import":"1","day":"01","article_processing_charge":"No","has_accepted_license":"1","title":"Targeted cell ablation-based insights into wound healing and restorative patterning","ddc":["580"],"status":"public","intvolume":" 52","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6943","oa_version":"Published Version","file":[{"file_id":"6946","relation":"main_file","checksum":"d6fd68a6e965f1efe3f0bf2d2070a616","date_created":"2019-10-14T14:48:21Z","date_updated":"2020-07-14T12:47:45Z","access_level":"open_access","file_name":"2019_CurrentOpinionPlant_Hoermayer.pdf","creator":"dernst","content_type":"application/pdf","file_size":1659288}],"type":"journal_article","abstract":[{"text":"Plants as sessile organisms are constantly under attack by herbivores, rough environmental situations, or mechanical pressure. These challenges often lead to the induction of wounds or destruction of already specified and developed tissues. Additionally, wounding makes plants vulnerable to invasion by pathogens, which is why wound signalling often triggers specific defence responses. To stay competitive or, eventually, survive under these circumstances, plants need to regenerate efficiently, which in rigid, tissue migration-incompatible plant tissues requires post-embryonic patterning and organogenesis. Now, several studies used laser-assisted single cell ablation in the Arabidopsis root tip as a minimal wounding proxy. Here, we discuss their findings and put them into context of a broader spectrum of wound signalling, pathogen responses and tissue as well as organ regeneration.","lang":"eng"}],"quality_controlled":"1","isi":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000502890600017"],"pmid":["31585333"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1016/j.pbi.2019.08.006","month":"12","publication_identifier":{"issn":["1369-5266"]},"publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"Elsevier","year":"2019","pmid":1,"date_created":"2019-10-14T07:00:24Z","date_updated":"2024-03-28T23:30:10Z","volume":52,"author":[{"full_name":"Hörmayer, Lukas","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8295-2926","first_name":"Lukas","last_name":"Hörmayer"},{"first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"}],"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"9992"}]},"file_date_updated":"2020-07-14T12:47:45Z","ec_funded":1},{"issue":"2","abstract":[{"text":"Polar auxin transport plays a pivotal role in plant growth and development. PIN auxin efflux carriers regulate directional auxin movement by establishing local auxin maxima, minima, and gradients that drive multiple developmental processes and responses to environmental signals. Auxin has been proposed to modulate its own transport by regulating subcellular PIN trafficking via processes such as clathrin-mediated PIN endocytosis and constitutive recycling. Here, we further investigated the mechanisms by which auxin affects PIN trafficking by screening auxin analogs and identified pinstatic acid (PISA) as a positive modulator of polar auxin transport in Arabidopsis thaliana. PISA had an auxin-like effect on hypocotyl elongation and adventitious root formation via positive regulation of auxin transport. PISA did not activate SCFTIR1/AFB signaling and yet induced PIN accumulation at the cell surface by inhibiting PIN internalization from the plasma membrane. This work demonstrates PISA to be a promising chemical tool to dissect the regulatory mechanisms behind subcellular PIN trafficking and auxin transport.","lang":"eng"}],"type":"journal_article","oa_version":"Published Version","intvolume":" 180","status":"public","title":"Pinstatic acid promotes auxin transport by inhibiting PIN internalization","_id":"6260","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","article_processing_charge":"No","day":"01","scopus_import":"1","date_published":"2019-06-01T00:00:00Z","page":"1152-1165","article_type":"original","citation":{"chicago":"Oochi, A, Jakub Hajny, K Fukui, Y Nakao, Michelle C Gallei, M Quareshy, K Takahashi, et al. “Pinstatic Acid Promotes Auxin Transport by Inhibiting PIN Internalization.” Plant Physiology. ASPB, 2019. https://doi.org/10.1104/pp.19.00201.","short":"A. Oochi, J. Hajny, K. Fukui, Y. Nakao, M.C. Gallei, M. Quareshy, K. Takahashi, T. Kinoshita, S. Harborough, S. Kepinski, H. Kasahara, R. Napier, J. Friml, K. Hayashi, Plant Physiology 180 (2019) 1152–1165.","mla":"Oochi, A., et al. “Pinstatic Acid Promotes Auxin Transport by Inhibiting PIN Internalization.” Plant Physiology, vol. 180, no. 2, ASPB, 2019, pp. 1152–65, doi:10.1104/pp.19.00201.","ieee":"A. Oochi et al., “Pinstatic acid promotes auxin transport by inhibiting PIN internalization,” Plant Physiology, vol. 180, no. 2. ASPB, pp. 1152–1165, 2019.","apa":"Oochi, A., Hajny, J., Fukui, K., Nakao, Y., Gallei, M. C., Quareshy, M., … Hayashi, K. (2019). Pinstatic acid promotes auxin transport by inhibiting PIN internalization. Plant Physiology. ASPB. https://doi.org/10.1104/pp.19.00201","ista":"Oochi A, Hajny J, Fukui K, Nakao Y, Gallei MC, Quareshy M, Takahashi K, Kinoshita T, Harborough S, Kepinski S, Kasahara H, Napier R, Friml J, Hayashi K. 2019. Pinstatic acid promotes auxin transport by inhibiting PIN internalization. Plant Physiology. 180(2), 1152–1165.","ama":"Oochi A, Hajny J, Fukui K, et al. Pinstatic acid promotes auxin transport by inhibiting PIN internalization. Plant Physiology. 2019;180(2):1152-1165. doi:10.1104/pp.19.00201"},"publication":"Plant Physiology","ec_funded":1,"volume":180,"date_created":"2019-04-09T08:38:20Z","date_updated":"2024-03-28T23:30:38Z","related_material":{"record":[{"id":"11626","status":"public","relation":"dissertation_contains"},{"id":"8822","status":"public","relation":"dissertation_contains"}]},"author":[{"first_name":"A","last_name":"Oochi","full_name":"Oochi, A"},{"full_name":"Hajny, Jakub","first_name":"Jakub","last_name":"Hajny","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2140-7195"},{"full_name":"Fukui, K","first_name":"K","last_name":"Fukui"},{"first_name":"Y","last_name":"Nakao","full_name":"Nakao, Y"},{"first_name":"Michelle C","last_name":"Gallei","id":"35A03822-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1286-7368","full_name":"Gallei, Michelle C"},{"last_name":"Quareshy","first_name":"M","full_name":"Quareshy, M"},{"last_name":"Takahashi","first_name":"K","full_name":"Takahashi, K"},{"full_name":"Kinoshita, T","last_name":"Kinoshita","first_name":"T"},{"first_name":"SR","last_name":"Harborough","full_name":"Harborough, SR"},{"full_name":"Kepinski, S","first_name":"S","last_name":"Kepinski"},{"first_name":"H","last_name":"Kasahara","full_name":"Kasahara, H"},{"first_name":"RM","last_name":"Napier","full_name":"Napier, RM"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"full_name":"Hayashi, KI","first_name":"KI","last_name":"Hayashi"}],"department":[{"_id":"JiFr"}],"publisher":"ASPB","publication_status":"published","pmid":1,"year":"2019","acknowledgement":"We thank Dr. H. Fukaki (University of Kobe), Dr. R. Offringa (Leiden University), Dr. Jianwei Pan (Zhejiang Normal University), and Dr. M. Estelle (University of California at San Diego) for providing mutants and transgenic line seeds.\r\nThis work was supported by the Ministry of Education, Culture, Sports, Science, and Technology (Grant-in-Aid for Scientific Research no. JP25114518 to K.H.), the Biotechnology and Biological Sciences Research Council (award no. BB/L009366/1 to R.N. and S.K.), and the European Union’s Horizon2020 program (European Research Council grant agreement no. 742985 to J.F.).","publication_identifier":{"eissn":["1532-2548"],"issn":["0032-0889"]},"month":"06","language":[{"iso":"eng"}],"doi":"10.1104/pp.19.00201","project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"}],"quality_controlled":"1","isi":1,"main_file_link":[{"url":"https://doi.org/10.1104/pp.19.00201","open_access":"1"}],"external_id":{"pmid":["30936248"],"isi":["000470086100045"]},"oa":1},{"publication_identifier":{"eissn":["1422-0067"]},"month":"07","doi":"10.3390/ijms20133337","language":[{"iso":"eng"}],"external_id":{"isi":["000477041100221"],"pmid":["31284661"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300","call_identifier":"FP7","name":"Polarity and subcellular dynamics in plants"},{"call_identifier":"H2020","name":"International IST Doctoral Program","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"},{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"isi":1,"quality_controlled":"1","ec_funded":1,"file_date_updated":"2020-07-14T12:47:34Z","article_number":"3337","related_material":{"record":[{"id":"10083","status":"public","relation":"dissertation_contains"}]},"author":[{"full_name":"Adamowski, Maciek","first_name":"Maciek","last_name":"Adamowski","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6463-5257"},{"first_name":"Lanxin","last_name":"Li","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X","full_name":"Li, Lanxin"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří"}],"volume":20,"date_created":"2019-07-11T12:00:32Z","date_updated":"2024-03-28T23:30:44Z","pmid":1,"year":"2019","publisher":"MDPI","department":[{"_id":"JiFr"}],"publication_status":"published","article_processing_charge":"Yes","has_accepted_license":"1","day":"07","scopus_import":"1","date_published":"2019-07-07T00:00:00Z","citation":{"ista":"Adamowski M, Li L, Friml J. 2019. Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling. International Journal of Molecular Sciences. 20(13), 3337.","apa":"Adamowski, M., Li, L., & Friml, J. (2019). Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling. International Journal of Molecular Sciences. MDPI. https://doi.org/10.3390/ijms20133337","ieee":"M. Adamowski, L. Li, and J. Friml, “Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling,” International Journal of Molecular Sciences, vol. 20, no. 13. MDPI, 2019.","ama":"Adamowski M, Li L, Friml J. Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling. International Journal of Molecular Sciences. 2019;20(13). doi:10.3390/ijms20133337","chicago":"Adamowski, Maciek, Lanxin Li, and Jiří Friml. “Reorientation of Cortical Microtubule Arrays in the Hypocotyl of Arabidopsis Thaliana Is Induced by the Cell Growth Process and Independent of Auxin Signaling.” International Journal of Molecular Sciences. MDPI, 2019. https://doi.org/10.3390/ijms20133337.","mla":"Adamowski, Maciek, et al. “Reorientation of Cortical Microtubule Arrays in the Hypocotyl of Arabidopsis Thaliana Is Induced by the Cell Growth Process and Independent of Auxin Signaling.” International Journal of Molecular Sciences, vol. 20, no. 13, 3337, MDPI, 2019, doi:10.3390/ijms20133337.","short":"M. Adamowski, L. Li, J. Friml, International Journal of Molecular Sciences 20 (2019)."},"publication":"International Journal of Molecular Sciences","article_type":"original","issue":"13","abstract":[{"lang":"eng","text":"Cortical microtubule arrays in elongating epidermal cells in both the root and stem of plants have the propensity of dynamic reorientations that are correlated with the activation or inhibition of growth. Factors regulating plant growth, among them the hormone auxin, have been recognized as regulators of microtubule array orientations. Some previous work in the field has aimed at elucidating the causal relationship between cell growth, the signaling of auxin or other growth-regulating factors, and microtubule array reorientations, with various conclusions. Here, we revisit this problem of causality with a comprehensive set of experiments in Arabidopsis thaliana, using the now available pharmacological and genetic tools. We use isolated, auxin-depleted hypocotyls, an experimental system allowing for full control of both growth and auxin signaling. We demonstrate that reorientation of microtubules is not directly triggered by an auxin signal during growth activation. Instead, reorientation is triggered by the activation of the growth process itself and is auxin-independent in its nature. We discuss these findings in the context of previous relevant work, including that on the mechanical regulation of microtubule array orientation."}],"type":"journal_article","file":[{"creator":"dernst","file_size":3330291,"content_type":"application/pdf","file_name":"2019_JournalMolecularScience_Adamowski.pdf","access_level":"open_access","date_created":"2019-07-17T06:17:15Z","date_updated":"2020-07-14T12:47:34Z","checksum":"dd9d1cbb933a72ceb666c9667890ac51","file_id":"6645","relation":"main_file"}],"oa_version":"Published Version","_id":"6627","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 20","status":"public","ddc":["580"],"title":"Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling"},{"publist_id":"7421","volume":1761,"date_created":"2018-12-11T11:46:18Z","date_updated":"2021-01-12T07:54:21Z","author":[{"full_name":"Trinh, Hoang","first_name":"Hoang","last_name":"Trinh"},{"full_name":"Verstraeten, Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","last_name":"Verstraeten","first_name":"Inge"},{"full_name":"Geelen, Danny","first_name":"Danny","last_name":"Geelen"}],"department":[{"_id":"JiFr"}],"publisher":"Springer Nature","publication_status":"published","pmid":1,"year":"2018","publication_identifier":{"issn":["1064-3745"]},"month":"03","language":[{"iso":"eng"}],"doi":"10.1007/978-1-4939-7747-5_7","quality_controlled":"1","external_id":{"pmid":["29525951"]},"abstract":[{"text":"Adventitious roots (AR) are de novo formed roots that emerge from any part of the plant or from callus in tissue culture, except root tissue. The plant tissue origin and the method by which they are induced determine the physiological properties of emerged ARs. Hence, a standard method encompassing all types of AR does not exist. Here we describe a method for the induction and analysis of AR that emerge from the etiolated hypocotyl of dicot plants. The hypocotyl is formed during embryogenesis and shows a determined developmental pattern which usually does not involve AR formation. However, the hypocotyl shows propensity to form de novo roots under specific circumstances such as removal of the root system, high humidity or flooding, or during de-etiolation. The hypocotyl AR emerge from a pericycle-like cell layer surrounding the vascular tissue of the central cylinder, which is reminiscent to the developmental program of lateral roots. Here we propose an easy protocol for in vitro hypocotyl AR induction from etiolated Arabidopsis seedlings.","lang":"eng"}],"alternative_title":["MIMB"],"type":"book_chapter","oa_version":"None","intvolume":" 1761","status":"public","title":"In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"408","article_processing_charge":"No","day":"01","scopus_import":"1","date_published":"2018-03-01T00:00:00Z","page":"95 - 102","citation":{"chicago":"Trinh, Hoang, Inge Verstraeten, and Danny Geelen. “In Vitro Assay for Induction of Adventitious Rooting on Intact Arabidopsis Hypocotyls.” In Root Development , 1761:95–102. Springer Nature, 2018. https://doi.org/10.1007/978-1-4939-7747-5_7.","mla":"Trinh, Hoang, et al. “In Vitro Assay for Induction of Adventitious Rooting on Intact Arabidopsis Hypocotyls.” Root Development , vol. 1761, Springer Nature, 2018, pp. 95–102, doi:10.1007/978-1-4939-7747-5_7.","short":"H. Trinh, I. Verstraeten, D. Geelen, in:, Root Development , Springer Nature, 2018, pp. 95–102.","ista":"Trinh H, Verstraeten I, Geelen D. 2018.In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls. In: Root Development . MIMB, vol. 1761, 95–102.","ieee":"H. Trinh, I. Verstraeten, and D. Geelen, “In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls,” in Root Development , vol. 1761, Springer Nature, 2018, pp. 95–102.","apa":"Trinh, H., Verstraeten, I., & Geelen, D. (2018). In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls. In Root Development (Vol. 1761, pp. 95–102). Springer Nature. https://doi.org/10.1007/978-1-4939-7747-5_7","ama":"Trinh H, Verstraeten I, Geelen D. In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls. In: Root Development . Vol 1761. Springer Nature; 2018:95-102. doi:10.1007/978-1-4939-7747-5_7"},"publication":"Root Development "},{"scopus_import":1,"series_title":"MIMB","day":"11","month":"03","publication":"Root Development. Methods and Protocols","citation":{"ama":"Karampelias M, Tejos R, Friml J, Vanneste S. Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia. In: Ristova D, Barbez E, eds. Root Development. Methods and Protocols. Vol 1761. MIMB. Springer; 2018:131-143. doi:10.1007/978-1-4939-7747-5_10","ista":"Karampelias M, Tejos R, Friml J, Vanneste S. 2018.Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia. In: Root Development. Methods and Protocols. Methods in Molecular Biology, vol. 1761, 131–143.","apa":"Karampelias, M., Tejos, R., Friml, J., & Vanneste, S. (2018). Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia. In D. Ristova & E. Barbez (Eds.), Root Development. Methods and Protocols (Vol. 1761, pp. 131–143). Springer. https://doi.org/10.1007/978-1-4939-7747-5_10","ieee":"M. Karampelias, R. Tejos, J. Friml, and S. Vanneste, “Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia,” in Root Development. Methods and Protocols, vol. 1761, D. Ristova and E. Barbez, Eds. Springer, 2018, pp. 131–143.","mla":"Karampelias, Michael, et al. “Optimized Whole Mount in Situ Immunolocalization for Arabidopsis Thaliana Root Meristems and Lateral Root Primordia.” Root Development. Methods and Protocols, edited by Daniela Ristova and Elke Barbez, vol. 1761, Springer, 2018, pp. 131–43, doi:10.1007/978-1-4939-7747-5_10.","short":"M. Karampelias, R. Tejos, J. Friml, S. Vanneste, in:, D. Ristova, E. Barbez (Eds.), Root Development. Methods and Protocols, Springer, 2018, pp. 131–143.","chicago":"Karampelias, Michael, Ricardo Tejos, Jiří Friml, and Steffen Vanneste. “Optimized Whole Mount in Situ Immunolocalization for Arabidopsis Thaliana Root Meristems and Lateral Root Primordia.” In Root Development. Methods and Protocols, edited by Daniela Ristova and Elke Barbez, 1761:131–43. MIMB. Springer, 2018. https://doi.org/10.1007/978-1-4939-7747-5_10."},"quality_controlled":"1","page":"131 - 143","date_published":"2018-03-11T00:00:00Z","doi":"10.1007/978-1-4939-7747-5_10","language":[{"iso":"eng"}],"type":"book_chapter","alternative_title":["Methods in Molecular Biology"],"abstract":[{"text":"Immunolocalization is a valuable tool for cell biology research that allows to rapidly determine the localization and expression levels of endogenous proteins. In plants, whole-mount in situ immunolocalization remains a challenging method, especially in tissues protected by waxy layers and complex cell wall carbohydrates. Here, we present a robust method for whole-mount in situ immunolocalization in primary root meristems and lateral root primordia in Arabidopsis thaliana. For good epitope preservation, fixation is done in an alkaline paraformaldehyde/glutaraldehyde mixture. This fixative is suitable for detecting a wide range of proteins, including integral transmembrane proteins and proteins peripherally attached to the plasma membrane. From initiation until emergence from the primary root, lateral root primordia are surrounded by several layers of differentiated tissues with a complex cell wall composition that interferes with the efficient penetration of all buffers. Therefore, immunolocalization in early lateral root primordia requires a modified method, including a strong solvent treatment for removal of hydrophobic barriers and a specific cocktail of cell wall-degrading enzymes. The presented method allows for easy, reliable, and high-quality in situ detection of the subcellular localization of endogenous proteins in primary and lateral root meristems without the need of time-consuming crosses or making translational fusions to fluorescent proteins.","lang":"eng"}],"publist_id":"7418","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","_id":"411","year":"2018","publication_status":"published","title":"Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia","status":"public","department":[{"_id":"JiFr"}],"publisher":"Springer","editor":[{"full_name":"Ristova, Daniela","last_name":"Ristova","first_name":"Daniela"},{"first_name":"Elke","last_name":"Barbez","full_name":"Barbez, Elke"}],"intvolume":" 1761","author":[{"full_name":"Karampelias, Michael","last_name":"Karampelias","first_name":"Michael"},{"first_name":"Ricardo","last_name":"Tejos","full_name":"Tejos, Ricardo"},{"full_name":"Friml, Jirí","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jirí"},{"full_name":"Vanneste, Steffen","first_name":"Steffen","last_name":"Vanneste"}],"date_updated":"2021-01-12T07:54:34Z","date_created":"2018-12-11T11:46:20Z","oa_version":"None","volume":1761},{"oa_version":"None","intvolume":" 115","status":"public","title":"Auxin methylation is required for differential growth in Arabidopsis","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"203","issue":"26","abstract":[{"lang":"eng","text":"Asymmetric auxin distribution is instrumental for the differential growth that causes organ bending on tropic stimuli and curvatures during plant development. Local differences in auxin concentrations are achieved mainly by polarized cellular distribution of PIN auxin transporters, but whether other mechanisms involving auxin homeostasis are also relevant for the formation of auxin gradients is not clear. Here we show that auxin methylation is required for asymmetric auxin distribution across the hypocotyl, particularly during its response to gravity. We found that loss-of-function mutants in Arabidopsis IAA CARBOXYL METHYLTRANSFERASE1 (IAMT1) prematurely unfold the apical hook, and that their hypocotyls are impaired in gravitropic reorientation. This defect is linked to an auxin-dependent increase in PIN gene expression, leading to an increased polar auxin transport and lack of asymmetric distribution of PIN3 in the iamt1 mutant. Gravitropic reorientation in the iamt1 mutant could be restored with either endodermis-specific expression of IAMT1 or partial inhibition of polar auxin transport, which also results in normal PIN gene expression levels. We propose that IAA methylation is necessary in gravity-sensing cells to restrict polar auxin transport within the range of auxin levels that allow for differential responses."}],"type":"journal_article","date_published":"2018-06-26T00:00:00Z","page":"6864-6869","citation":{"ama":"Abbas M, Hernández GJ, Pollmann S, et al. Auxin methylation is required for differential growth in Arabidopsis. PNAS. 2018;115(26):6864-6869. doi:10.1073/pnas.1806565115","ieee":"M. Abbas et al., “Auxin methylation is required for differential growth in Arabidopsis,” PNAS, vol. 115, no. 26. National Academy of Sciences, pp. 6864–6869, 2018.","apa":"Abbas, M., Hernández, G. J., Pollmann, S., Samodelov, S. L., Kolb, M., Friml, J., … Alabadí, D. (2018). Auxin methylation is required for differential growth in Arabidopsis. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1806565115","ista":"Abbas M, Hernández GJ, Pollmann S, Samodelov SL, Kolb M, Friml J, Hammes UZ, Zurbriggen MD, Blázquez M, Alabadí D. 2018. Auxin methylation is required for differential growth in Arabidopsis. PNAS. 115(26), 6864–6869.","short":"M. Abbas, G.J. Hernández, S. Pollmann, S.L. Samodelov, M. Kolb, J. Friml, U.Z. Hammes, M.D. Zurbriggen, M. Blázquez, D. Alabadí, PNAS 115 (2018) 6864–6869.","mla":"Abbas, Mohamad, et al. “Auxin Methylation Is Required for Differential Growth in Arabidopsis.” PNAS, vol. 115, no. 26, National Academy of Sciences, 2018, pp. 6864–69, doi:10.1073/pnas.1806565115.","chicago":"Abbas, Mohamad, García J Hernández, Stephan Pollmann, Sophia L Samodelov, Martina Kolb, Jiří Friml, Ulrich Z Hammes, Matias D Zurbriggen, Miguel Blázquez, and David Alabadí. “Auxin Methylation Is Required for Differential Growth in Arabidopsis.” PNAS. National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1806565115."},"publication":"PNAS","article_processing_charge":"No","day":"26","scopus_import":"1","volume":115,"date_updated":"2023-09-08T13:24:40Z","date_created":"2018-12-11T11:45:11Z","author":[{"first_name":"Mohamad","last_name":"Abbas","id":"47E8FC1C-F248-11E8-B48F-1D18A9856A87","full_name":"Abbas, Mohamad"},{"last_name":"Hernández","first_name":"García J","full_name":"Hernández, García J"},{"last_name":"Pollmann","first_name":"Stephan","full_name":"Pollmann, Stephan"},{"full_name":"Samodelov, Sophia L","first_name":"Sophia L","last_name":"Samodelov"},{"last_name":"Kolb","first_name":"Martina","full_name":"Kolb, Martina"},{"full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jirí","last_name":"Friml"},{"last_name":"Hammes","first_name":"Ulrich Z","full_name":"Hammes, Ulrich Z"},{"first_name":"Matias D","last_name":"Zurbriggen","full_name":"Zurbriggen, Matias D"},{"last_name":"Blázquez","first_name":"Miguel","full_name":"Blázquez, Miguel"},{"first_name":"David","last_name":"Alabadí","full_name":"Alabadí, David"}],"publisher":"National Academy of Sciences","department":[{"_id":"JiFr"}],"publication_status":"published","year":"2018","publist_id":"7710","ec_funded":1,"language":[{"iso":"eng"}],"doi":"10.1073/pnas.1806565115","project":[{"name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300"}],"quality_controlled":"1","isi":1,"oa":1,"external_id":{"isi":["000436245000096"]},"main_file_link":[{"open_access":"1","url":"http://eprints.nottingham.ac.uk/52388/"}],"month":"06"},{"oa_version":"Published Version","date_created":"2019-01-13T22:59:11Z","date_updated":"2023-09-11T12:43:31Z","author":[{"first_name":"Luosha","last_name":"Zhang","full_name":"Zhang, Luosha"},{"full_name":"Shi, Xiong","first_name":"Xiong","last_name":"Shi"},{"full_name":"Zhang, Yutao","first_name":"Yutao","last_name":"Zhang"},{"first_name":"Jiajing","last_name":"Wang","full_name":"Wang, Jiajing"},{"last_name":"Yang","first_name":"Jingwei","full_name":"Yang, Jingwei"},{"full_name":"Ishida, Takashi","first_name":"Takashi","last_name":"Ishida"},{"full_name":"Jiang, Wenqian","last_name":"Jiang","first_name":"Wenqian"},{"first_name":"Xiangyu","last_name":"Han","full_name":"Han, Xiangyu"},{"full_name":"Kang, Jingke","last_name":"Kang","first_name":"Jingke"},{"full_name":"Wang, Xuening","first_name":"Xuening","last_name":"Wang"},{"full_name":"Pan, Lixia","first_name":"Lixia","last_name":"Pan"},{"first_name":"Shuo","last_name":"Lv","full_name":"Lv, Shuo"},{"first_name":"Bing","last_name":"Cao","full_name":"Cao, Bing"},{"last_name":"Zhang","first_name":"Yonghong","full_name":"Zhang, Yonghong"},{"last_name":"Wu","first_name":"Jinbin","full_name":"Wu, Jinbin"},{"id":"31435098-F248-11E8-B48F-1D18A9856A87","last_name":"Han","first_name":"Huibin","full_name":"Han, Huibin"},{"last_name":"Hu","first_name":"Zhubing","full_name":"Hu, Zhubing"},{"first_name":"Langjun","last_name":"Cui","full_name":"Cui, Langjun"},{"last_name":"Sawa","first_name":"Shinichiro","full_name":"Sawa, Shinichiro"},{"full_name":"He, Junmin","first_name":"Junmin","last_name":"He"},{"full_name":"Wang, Guodong","last_name":"Wang","first_name":"Guodong"}],"publisher":"Wiley","department":[{"_id":"JiFr"}],"title":"CLE9 peptide-induced stomatal closure is mediated by abscisic acid, hydrogen peroxide, and nitric oxide in arabidopsis thaliana","status":"public","publication_status":"epub_ahead","pmid":1,"_id":"5830","year":"2018","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","abstract":[{"text":"CLE peptides have been implicated in various developmental processes of plants and mediate their responses to environmental stimuli. However, the biological relevance of most CLE genes remains to be functionally characterized. Here, we report that CLE9, which is expressed in stomata, acts as an essential regulator in the induction of stomatal closure. Exogenous application of CLE9 peptides or overexpression of CLE9 effectively led to stomatal closure and enhanced drought tolerance, whereas CLE9 loss-of-function mutants were sensitivity to drought stress. CLE9-induced stomatal closure was impaired in abscisic acid (ABA)-deficient mutants, indicating that ABA is required for CLE9-medaited guard cell signalling. We further deciphered that two guard cell ABA-signalling components, OST1 and SLAC1, were responsible for CLE9-induced stomatal closure. MPK3 and MPK6 were activated by the CLE9 peptide, and CLE9 peptides failed to close stomata in mpk3 and mpk6 mutants. In addition, CLE9 peptides stimulated the induction of hydrogen peroxide (H2O2) and nitric oxide (NO) synthesis associated with stomatal closure, which was abolished in the NADPH oxidase-deficient mutants or nitric reductase mutants, respectively. Collectively, our results reveal a novel ABA-dependent function of CLE9 in the regulation of stomatal apertures, thereby suggesting a potential role of CLE9 in the stress acclimatization of plants.","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"date_published":"2018-10-31T00:00:00Z","doi":"10.1111/pce.13475","quality_controlled":"1","isi":1,"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pubmed/30378140"}],"external_id":{"isi":["000459014800021"],"pmid":["30378140"]},"citation":{"short":"L. Zhang, X. Shi, Y. Zhang, J. Wang, J. Yang, T. Ishida, W. Jiang, X. Han, J. Kang, X. Wang, L. Pan, S. Lv, B. Cao, Y. Zhang, J. Wu, H. Han, Z. Hu, L. Cui, S. Sawa, J. He, G. Wang, Plant Cell and Environment (2018).","mla":"Zhang, Luosha, et al. “CLE9 Peptide-Induced Stomatal Closure Is Mediated by Abscisic Acid, Hydrogen Peroxide, and Nitric Oxide in Arabidopsis Thaliana.” Plant Cell and Environment, Wiley, 2018, doi:10.1111/pce.13475.","chicago":"Zhang, Luosha, Xiong Shi, Yutao Zhang, Jiajing Wang, Jingwei Yang, Takashi Ishida, Wenqian Jiang, et al. “CLE9 Peptide-Induced Stomatal Closure Is Mediated by Abscisic Acid, Hydrogen Peroxide, and Nitric Oxide in Arabidopsis Thaliana.” Plant Cell and Environment. Wiley, 2018. https://doi.org/10.1111/pce.13475.","ama":"Zhang L, Shi X, Zhang Y, et al. CLE9 peptide-induced stomatal closure is mediated by abscisic acid, hydrogen peroxide, and nitric oxide in arabidopsis thaliana. Plant Cell and Environment. 2018. doi:10.1111/pce.13475","ieee":"L. Zhang et al., “CLE9 peptide-induced stomatal closure is mediated by abscisic acid, hydrogen peroxide, and nitric oxide in arabidopsis thaliana,” Plant Cell and Environment. Wiley, 2018.","apa":"Zhang, L., Shi, X., Zhang, Y., Wang, J., Yang, J., Ishida, T., … Wang, G. (2018). CLE9 peptide-induced stomatal closure is mediated by abscisic acid, hydrogen peroxide, and nitric oxide in arabidopsis thaliana. Plant Cell and Environment. Wiley. https://doi.org/10.1111/pce.13475","ista":"Zhang L, Shi X, Zhang Y, Wang J, Yang J, Ishida T, Jiang W, Han X, Kang J, Wang X, Pan L, Lv S, Cao B, Zhang Y, Wu J, Han H, Hu Z, Cui L, Sawa S, He J, Wang G. 2018. CLE9 peptide-induced stomatal closure is mediated by abscisic acid, hydrogen peroxide, and nitric oxide in arabidopsis thaliana. Plant Cell and Environment."},"oa":1,"publication":"Plant Cell and Environment","article_processing_charge":"No","publication_identifier":{"issn":["01407791"]},"month":"10","day":"31","scopus_import":"1"},{"month":"04","doi":"10.1073/pnas.1721760115","language":[{"iso":"eng"}],"oa":1,"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png"},"external_id":{"isi":["000429012500073"]},"quality_controlled":"1","isi":1,"project":[{"grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7"}],"file_date_updated":"2020-07-14T12:46:26Z","publist_id":"7395","ec_funded":1,"author":[{"id":"46DAAE7E-F248-11E8-B48F-1D18A9856A87","first_name":"Yuliya","last_name":"Salanenka","full_name":"Salanenka, Yuliya"},{"full_name":"Verstraeten, Inge","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7241-2328","first_name":"Inge","last_name":"Verstraeten"},{"full_name":"Löfke, Christian","first_name":"Christian","last_name":"Löfke"},{"id":"7DAAEDA4-02D0-11E9-B11A-A5A4D7DFFFD0","first_name":"Kaori","last_name":"Tabata","full_name":"Tabata, Kaori"},{"full_name":"Naramoto, Satoshi","last_name":"Naramoto","first_name":"Satoshi"},{"orcid":"0000-0003-0619-7783","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","last_name":"Glanc","first_name":"Matous","full_name":"Glanc, Matous"},{"full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jirí","last_name":"Friml"}],"date_updated":"2023-09-11T14:06:34Z","date_created":"2018-12-11T11:46:25Z","volume":115,"acknowledgement":"We gratefully acknowledge M. Blázquez (Instituto de Biología Molecular y Celular de Plantas), M. Fendrych, C. Cuesta Moliner (Institute of Science and Technology Austria), M. Vanstraelen, M. Nowack (Center for Plant Systems Biology, Ghent), C. Luschnig (Universitat fur Bodenkultur Wien, Vienna), S. Simon (Central European Institute of Technology, Brno), C. Sommerville (Carnegie Institution for Science), and Y. Gu (Penn State University) for making available the materials used in this study;\r\n...funding from the European Research Council (ERC) under the European Union’s Seventh Framework Programme (FP7/2007-2013)/ERC Grant Agreement 282300.\r\nCC BY NC ND","year":"2018","publication_status":"published","department":[{"_id":"JiFr"}],"publisher":"National Academy of Sciences","day":"03","article_processing_charge":"No","has_accepted_license":"1","scopus_import":"1","date_published":"2018-04-03T00:00:00Z","publication":"PNAS","citation":{"short":"Y. Salanenka, I. Verstraeten, C. Löfke, K. Tabata, S. Naramoto, M. Glanc, J. Friml, PNAS 115 (2018) 3716–3721.","mla":"Salanenka, Yuliya, et al. “Gibberellin DELLA Signaling Targets the Retromer Complex to Redirect Protein Trafficking to the Plasma Membrane.” PNAS, vol. 115, no. 14, National Academy of Sciences, 2018, pp. 3716–21, doi:10.1073/pnas.1721760115.","chicago":"Salanenka, Yuliya, Inge Verstraeten, Christian Löfke, Kaori Tabata, Satoshi Naramoto, Matous Glanc, and Jiří Friml. “Gibberellin DELLA Signaling Targets the Retromer Complex to Redirect Protein Trafficking to the Plasma Membrane.” PNAS. National Academy of Sciences, 2018. https://doi.org/10.1073/pnas.1721760115.","ama":"Salanenka Y, Verstraeten I, Löfke C, et al. Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane. PNAS. 2018;115(14):3716-3721. doi:10.1073/pnas.1721760115","ieee":"Y. Salanenka et al., “Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane,” PNAS, vol. 115, no. 14. National Academy of Sciences, pp. 3716–3721, 2018.","apa":"Salanenka, Y., Verstraeten, I., Löfke, C., Tabata, K., Naramoto, S., Glanc, M., & Friml, J. (2018). Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1721760115","ista":"Salanenka Y, Verstraeten I, Löfke C, Tabata K, Naramoto S, Glanc M, Friml J. 2018. Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane. PNAS. 115(14), 3716–3721."},"page":" 3716 - 3721","abstract":[{"lang":"eng","text":"The plant hormone gibberellic acid (GA) is a crucial regulator of growth and development. The main paradigm of GA signaling puts forward transcriptional regulation via the degradation of DELLA transcriptional repressors. GA has also been shown to regulate tropic responses by modulation of the plasma membrane incidence of PIN auxin transporters by an unclear mechanism. Here we uncovered the cellular and molecular mechanisms by which GA redirects protein trafficking and thus regulates cell surface functionality. Photoconvertible reporters revealed that GA balances the protein traffic between the vacuole degradation route and recycling back to the cell surface. Low GA levels promote vacuolar delivery and degradation of multiple cargos, including PIN proteins, whereas high GA levels promote their recycling to the plasma membrane. This GA effect requires components of the retromer complex, such as Sorting Nexin 1 (SNX1) and its interacting, microtubule (MT)-associated protein, the Cytoplasmic Linker-Associated Protein (CLASP1). Accordingly, GA regulates the subcellular distribution of SNX1 and CLASP1, and the intact MT cytoskeleton is essential for the GA effect on trafficking. This GA cellular action occurs through DELLA proteins that regulate the MT and retromer presumably via their interaction partners Prefoldins (PFDs). Our study identified a branching of the GA signaling pathway at the level of DELLA proteins, which, in parallel to regulating transcription, also target by a nontranscriptional mechanism the retromer complex acting at the intersection of the degradation and recycling trafficking routes. By this mechanism, GA can redirect receptors and transporters to the cell surface, thus coregulating multiple processes, including PIN-dependent auxin fluxes during tropic responses."}],"issue":"14","type":"journal_article","file":[{"creator":"dernst","content_type":"application/pdf","file_size":1924101,"access_level":"open_access","file_name":"2018_PNAS_Salanenka.pdf","checksum":"1fcf7223fb8f99559cfa80bd6f24ce44","date_created":"2018-12-17T12:30:14Z","date_updated":"2020-07-14T12:46:26Z","file_id":"5700","relation":"main_file"}],"oa_version":"Published Version","_id":"428","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","ddc":["580"],"status":"public","title":"Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane","intvolume":" 115"}]