[{"month":"06","intvolume":" 9","scopus_import":"1","oa_version":"Published Version","pmid":1,"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"}],"acknowledged_ssus":[{"_id":"Bio"}],"issue":"6","volume":9,"ec_funded":1,"file":[{"creator":"kschuh","file_size":1066773,"date_updated":"2020-07-14T12:47:34Z","file_name":"biomolecules-2019-Matous.pdf","date_created":"2019-07-08T15:46:32Z","relation":"main_file","access_level":"open_access","content_type":"application/pdf","checksum":"1ce1bd36038fe5381057a1bcc6760083","file_id":"6625"}],"language":[{"iso":"eng"}],"publication_status":"published","status":"public","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"_id":"6611","department":[{"_id":"JiFr"}],"file_date_updated":"2020-07-14T12:47:34Z","ddc":["580"],"date_updated":"2023-08-28T12:30:24Z","publisher":"MDPI","quality_controlled":"1","oa":1,"doi":"10.3390/biom9060222","date_published":"2019-06-07T00:00:00Z","date_created":"2019-07-07T21:59:21Z","day":"07","publication":"Biomolecules","isi":1,"has_accepted_license":"1","year":"2019","project":[{"grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"article_number":"222","title":"PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton","author":[{"first_name":"Matous","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","full_name":"Glanc, Matous","orcid":"0000-0003-0619-7783","last_name":"Glanc"},{"orcid":"0000-0002-9767-8699","full_name":"Fendrych, Matyas","last_name":"Fendrych","id":"43905548-F248-11E8-B48F-1D18A9856A87","first_name":"Matyas"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"article_processing_charge":"No","external_id":{"isi":["000475301500018"],"pmid":["31181636"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","citation":{"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.","short":"M. Glanc, M. Fendrych, J. Friml, Biomolecules 9 (2019).","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","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","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.","ista":"Glanc M, Fendrych M, Friml J. 2019. PIN2 polarity establishment in arabidopsis in the absence of an intact cytoskeleton. Biomolecules. 9(6), 222."}},{"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985"},{"call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants"},{"name":"International IST Postdoc Fellowship Programme","grant_number":"291734","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"article_number":"3480","title":"Evolution of fast root gravitropism in seed plants","author":[{"id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","first_name":"Yuzhou","orcid":"0000-0003-2627-6956","full_name":"Zhang, Yuzhou","last_name":"Zhang"},{"last_name":"Xiao","full_name":"Xiao, G","first_name":"G"},{"full_name":"Wang, X","last_name":"Wang","first_name":"X"},{"id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","first_name":"Xixi","last_name":"Zhang","full_name":"Zhang, Xixi","orcid":"0000-0001-7048-4627"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","last_name":"Friml","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596"}],"article_processing_charge":"No","external_id":{"pmid":["31375675"],"isi":["000478576500012"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","citation":{"ista":"Zhang Y, Xiao G, Wang X, Zhang X, Friml J. 2019. Evolution of fast root gravitropism in seed plants. Nature Communications. 10, 3480.","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.","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","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.","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."},"quality_controlled":"1","publisher":"Springer Nature","oa":1,"doi":"10.1038/s41467-019-11471-8","date_published":"2019-08-02T00:00:00Z","date_created":"2019-08-09T08:46:26Z","day":"02","publication":"Nature Communications","has_accepted_license":"1","isi":1,"year":"2019","status":"public","type":"journal_article","article_type":"original","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"_id":"6778","department":[{"_id":"JiFr"}],"file_date_updated":"2020-07-14T12:47:40Z","ddc":["580"],"date_updated":"2023-08-29T07:02:44Z","month":"08","intvolume":" 10","scopus_import":"1","oa_version":"Published Version","pmid":1,"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"}],"volume":10,"related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/when-plant-roots-learned-to-follow-gravity/"}]},"ec_funded":1,"file":[{"checksum":"d2c654fdb97f33078f606fe0c298bf6e","file_id":"6798","content_type":"application/pdf","relation":"main_file","access_level":"open_access","file_name":"2019_NatureComm_Zhang.pdf","date_created":"2019-08-12T07:09:20Z","file_size":6406141,"date_updated":"2020-07-14T12:47:40Z","creator":"dernst"}],"language":[{"iso":"eng"}],"publication_identifier":{"issn":["2041-1723"]},"publication_status":"published"},{"oa":1,"publisher":"ASPB","quality_controlled":"1","publication":"Plant Physiology","day":"01","year":"2019","isi":1,"date_created":"2019-04-30T15:24:22Z","date_published":"2019-06-01T00:00:00Z","doi":"10.1104/pp.18.01377","page":"757-766","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","citation":{"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.","short":"J. Bellstaedt, J. Trenner, R. Lippmann, Y. Poeschl, X. Zhang, J. Friml, M. Quint, C. Delker, Plant Physiology 180 (2019) 757–766.","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","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","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.","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.","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."},"title":"A mobile auxin signal connects temperature sensing in cotyledons with growth responses in hypocotyls","external_id":{"isi":["000470086100019"],"pmid":["31000634"]},"article_processing_charge":"No","author":[{"first_name":"Julia","last_name":"Bellstaedt","full_name":"Bellstaedt, Julia"},{"last_name":"Trenner","full_name":"Trenner, Jana","first_name":"Jana"},{"full_name":"Lippmann, Rebecca","last_name":"Lippmann","first_name":"Rebecca"},{"first_name":"Yvonne","last_name":"Poeschl","full_name":"Poeschl, Yvonne"},{"first_name":"Xixi","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","last_name":"Zhang","orcid":"0000-0001-7048-4627","full_name":"Zhang, Xixi"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"last_name":"Quint","full_name":"Quint, Marcel","first_name":"Marcel"},{"first_name":"Carolin","full_name":"Delker, Carolin","last_name":"Delker"}],"pmid":1,"oa_version":"Published Version","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."}],"intvolume":" 180","month":"06","main_file_link":[{"open_access":"1","url":"www.doi.org/10.1104/pp.18.01377"}],"scopus_import":"1","language":[{"iso":"eng"}],"publication_status":"published","publication_identifier":{"eissn":["1532-2548"],"issn":["0032-0889"]},"issue":"2","volume":180,"_id":"6366","status":"public","type":"journal_article","article_type":"original","date_updated":"2023-09-05T12:25:19Z","department":[{"_id":"JiFr"}]},{"ec_funded":1,"volume":568,"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/"}]},"language":[{"iso":"eng"}],"file":[{"file_size":4321328,"date_updated":"2020-11-13T07:37:41Z","creator":"dernst","file_name":"2019_Nature _Cao_accepted.pdf","date_created":"2020-11-13T07:37:41Z","content_type":"application/pdf","relation":"main_file","access_level":"open_access","success":1,"file_id":"8751","checksum":"6b84ab602a34382cf0340a37a1378c75"}],"publication_status":"published","publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"intvolume":" 568","month":"04","scopus_import":"1","pmid":1,"oa_version":"Submitted Version","abstract":[{"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.","lang":"eng"}],"file_date_updated":"2020-11-13T07:37:41Z","department":[{"_id":"JiFr"}],"ddc":["580"],"date_updated":"2023-09-05T14:58:41Z","status":"public","article_type":"original","type":"journal_article","_id":"6259","date_created":"2019-04-09T08:37:05Z","date_published":"2019-04-11T00:00:00Z","doi":"10.1038/s41586-019-1069-7","page":"240-243","publication":"Nature","day":"11","year":"2019","has_accepted_license":"1","isi":1,"oa":1,"quality_controlled":"1","publisher":"Springer Nature","title":"TMK1-mediated auxin signalling regulates differential growth of the apical hook","external_id":{"isi":["000464412700050"],"pmid":["30944466"]},"article_processing_charge":"No","author":[{"first_name":"Min","full_name":"Cao, Min","last_name":"Cao"},{"first_name":"Rong","full_name":"Chen, Rong","last_name":"Chen"},{"full_name":"Li, Pan","last_name":"Li","first_name":"Pan"},{"first_name":"Yongqiang","full_name":"Yu, Yongqiang","last_name":"Yu"},{"last_name":"Zheng","full_name":"Zheng, Rui","first_name":"Rui"},{"last_name":"Ge","full_name":"Ge, Danfeng","first_name":"Danfeng"},{"first_name":"Wei","last_name":"Zheng","full_name":"Zheng, Wei"},{"first_name":"Xuhui","full_name":"Wang, Xuhui","last_name":"Wang"},{"last_name":"Gu","full_name":"Gu, Yangtao","first_name":"Yangtao"},{"full_name":"Gelová, Zuzana","orcid":"0000-0003-4783-1752","last_name":"Gelová","first_name":"Zuzana","id":"0AE74790-0E0B-11E9-ABC7-1ACFE5697425"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml"},{"first_name":"Heng","full_name":"Zhang, Heng","last_name":"Zhang"},{"first_name":"Renyi","last_name":"Liu","full_name":"Liu, Renyi"},{"first_name":"Jun","last_name":"He","full_name":"He, Jun"},{"full_name":"Xu, Tongda","last_name":"Xu","first_name":"Tongda"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","citation":{"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.","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.","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.","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","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.","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."},"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}]},{"isi":1,"has_accepted_license":"1","year":"2019","day":"01","publication":"Nature Plants","page":"1114-1119","doi":"10.1038/s41477-019-0542-5","date_published":"2019-11-01T00:00:00Z","date_created":"2019-11-25T09:08:04Z","quality_controlled":"1","publisher":"Springer Nature","oa":1,"citation":{"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","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","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.","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.","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.","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.","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."},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","author":[{"last_name":"Skokan","full_name":"Skokan, Roman","first_name":"Roman"},{"last_name":"Medvecká","full_name":"Medvecká, Eva","first_name":"Eva"},{"first_name":"Tom","last_name":"Viaene","full_name":"Viaene, Tom"},{"last_name":"Vosolsobě","full_name":"Vosolsobě, Stanislav","first_name":"Stanislav"},{"last_name":"Zwiewka","full_name":"Zwiewka, Marta","first_name":"Marta"},{"last_name":"Müller","full_name":"Müller, Karel","first_name":"Karel"},{"last_name":"Skůpa","full_name":"Skůpa, Petr","first_name":"Petr"},{"first_name":"Michal","full_name":"Karady, Michal","last_name":"Karady"},{"full_name":"Zhang, Yuzhou","last_name":"Zhang","first_name":"Yuzhou"},{"full_name":"Janacek, Dorina P.","last_name":"Janacek","first_name":"Dorina P."},{"full_name":"Hammes, Ulrich Z.","last_name":"Hammes","first_name":"Ulrich Z."},{"first_name":"Karin","full_name":"Ljung, Karin","last_name":"Ljung"},{"first_name":"Tomasz","full_name":"Nodzyński, Tomasz","last_name":"Nodzyński"},{"full_name":"Petrášek, Jan","last_name":"Petrášek","first_name":"Jan"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml"}],"article_processing_charge":"No","external_id":{"pmid":["31712756"],"isi":["000496526100010"]},"title":"PIN-driven auxin transport emerged early in streptophyte evolution","project":[{"call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985"}],"publication_identifier":{"issn":["2055-0278"]},"publication_status":"published","file":[{"file_id":"8660","checksum":"94e0426856aad9a9bd0135d5436efbf1","success":1,"content_type":"application/pdf","access_level":"open_access","relation":"main_file","date_created":"2020-10-14T08:54:49Z","file_name":"2019_NaturePlants_Skokan_accepted.pdf","date_updated":"2020-10-14T08:54:49Z","file_size":1980851,"creator":"dernst"}],"language":[{"iso":"eng"}],"issue":"11","volume":5,"ec_funded":1,"abstract":[{"lang":"eng","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."}],"oa_version":"Submitted Version","pmid":1,"scopus_import":"1","month":"11","intvolume":" 5","date_updated":"2023-09-06T11:09:49Z","ddc":["580"],"file_date_updated":"2020-10-14T08:54:49Z","department":[{"_id":"JiFr"}],"_id":"7106","article_type":"original","type":"journal_article","status":"public"},{"date_created":"2019-12-02T12:30:48Z","date_published":"2019-12-01T00:00:00Z","doi":"10.1038/s41422-019-0254-4","page":"965-966","publication":"Cell Research","day":"01","year":"2019","isi":1,"oa":1,"publisher":"Springer Nature","quality_controlled":"1","title":"Defying gravity: a plant's quest for moisture","article_processing_charge":"No","external_id":{"pmid":["31745287"],"isi":["000500749600001"]},"author":[{"first_name":"Scott A","id":"2D99FE6A-F248-11E8-B48F-1D18A9856A87","last_name":"Sinclair","orcid":"0000-0002-4566-0593","full_name":"Sinclair, Scott A"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","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","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","short":"S.A. Sinclair, J. Friml, Cell Research 29 (2019) 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.","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.","ista":"Sinclair SA, Friml J. 2019. Defying gravity: a plant’s quest for moisture. Cell Research. 29, 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."},"volume":29,"language":[{"iso":"eng"}],"publication_status":"published","publication_identifier":{"issn":["1001-0602"],"eissn":["1748-7838"]},"intvolume":" 29","month":"12","main_file_link":[{"url":"https://doi.org/10.1038/s41422-019-0254-4","open_access":"1"}],"scopus_import":"1","oa_version":"Published Version","pmid":1,"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."}],"department":[{"_id":"JiFr"}],"date_updated":"2023-09-06T11:20:58Z","status":"public","type":"journal_article","article_type":"original","_id":"7143"},{"publication_status":"published","publication_identifier":{"eissn":["1664462X"]},"language":[{"iso":"eng"}],"file":[{"creator":"dernst","file_size":1532505,"date_updated":"2020-07-14T12:47:52Z","file_name":"2019_FrontiersPlant_Alcantara.pdf","date_created":"2019-12-16T07:58:43Z","relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_id":"7185","checksum":"995aa838aec2064d93550de82b40bbd1"}],"volume":10,"issue":"11","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."}],"pmid":1,"oa_version":"Published Version","scopus_import":"1","intvolume":" 10","month":"11","date_updated":"2023-09-06T14:33:46Z","ddc":["580"],"file_date_updated":"2020-07-14T12:47:52Z","department":[{"_id":"JiFr"}],"_id":"7182","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","article_type":"original","status":"public","year":"2019","isi":1,"has_accepted_license":"1","publication":"Frontiers in Plant Science","day":"14","date_created":"2019-12-15T23:00:43Z","doi":"10.3389/fpls.2019.01437","date_published":"2019-11-14T00:00:00Z","oa":1,"publisher":"Frontiers","quality_controlled":"1","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.","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.","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.","ieee":"A. Alcântara et al., “Systematic Y2H screening reveals extensive effector-complex formation,” Frontiers in Plant Science, vol. 10, no. 11. Frontiers, 2019.","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).","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","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"},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","external_id":{"pmid":["31803201"],"isi":["000499821700001"]},"article_processing_charge":"No","author":[{"full_name":"Alcântara, André","last_name":"Alcântara","first_name":"André"},{"last_name":"Bosch","full_name":"Bosch, Jason","first_name":"Jason"},{"first_name":"Fahimeh","full_name":"Nazari, Fahimeh","last_name":"Nazari"},{"full_name":"Hoffmann, Gesa","last_name":"Hoffmann","first_name":"Gesa"},{"full_name":"Gallei, Michelle C","orcid":"0000-0003-1286-7368","last_name":"Gallei","first_name":"Michelle C","id":"35A03822-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Uhse, Simon","last_name":"Uhse","first_name":"Simon"},{"first_name":"Martin A.","full_name":"Darino, Martin A.","last_name":"Darino"},{"first_name":"Toluwase","last_name":"Olukayode","full_name":"Olukayode, Toluwase"},{"last_name":"Reumann","full_name":"Reumann, Daniel","first_name":"Daniel"},{"last_name":"Baggaley","full_name":"Baggaley, Laura","first_name":"Laura"},{"first_name":"Armin","full_name":"Djamei, Armin","last_name":"Djamei"}],"title":"Systematic Y2H screening reveals extensive effector-complex formation","article_number":"1437"},{"status":"public","type":"journal_article","article_type":"original","_id":"6377","department":[{"_id":"JiFr"}],"date_updated":"2023-09-07T12:54:35Z","intvolume":" 15","month":"06","scopus_import":"1","oa_version":"None","abstract":[{"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.","lang":"eng"}],"volume":15,"issue":"6","related_material":{"record":[{"relation":"dissertation_contains","id":"7172","status":"public"}]},"language":[{"iso":"eng"}],"publication_status":"published","publication_identifier":{"issn":["15524450"],"eissn":["15524469"]},"title":"Disruption of endocytosis through chemical inhibition of clathrin heavy chain function","article_processing_charge":"No","external_id":{"isi":["000468195600018"]},"author":[{"first_name":"Wim","full_name":"Dejonghe, Wim","last_name":"Dejonghe"},{"first_name":"Isha","last_name":"Sharma","full_name":"Sharma, Isha"},{"full_name":"Denoo, Bram","last_name":"Denoo","first_name":"Bram"},{"first_name":"Steven","full_name":"De Munck, Steven","last_name":"De Munck"},{"full_name":"Lu, Qing","last_name":"Lu","first_name":"Qing"},{"first_name":"Kiril","full_name":"Mishev, Kiril","last_name":"Mishev"},{"last_name":"Bulut","full_name":"Bulut, Haydar","first_name":"Haydar"},{"full_name":"Mylle, Evelien","last_name":"Mylle","first_name":"Evelien"},{"first_name":"Riet","full_name":"De Rycke, Riet","last_name":"De Rycke"},{"first_name":"Mina K","id":"3407EB18-F248-11E8-B48F-1D18A9856A87","last_name":"Vasileva","full_name":"Vasileva, Mina K"},{"first_name":"Daniel V.","full_name":"Savatin, Daniel V.","last_name":"Savatin"},{"full_name":"Nerinckx, Wim","last_name":"Nerinckx","first_name":"Wim"},{"last_name":"Staes","full_name":"Staes, An","first_name":"An"},{"full_name":"Drozdzecki, Andrzej","last_name":"Drozdzecki","first_name":"Andrzej"},{"full_name":"Audenaert, Dominique","last_name":"Audenaert","first_name":"Dominique"},{"first_name":"Klaas","full_name":"Yperman, Klaas","last_name":"Yperman"},{"last_name":"Madder","full_name":"Madder, Annemieke","first_name":"Annemieke"},{"first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml"},{"last_name":"Van Damme","full_name":"Van Damme, Daniël","first_name":"Daniël"},{"last_name":"Gevaert","full_name":"Gevaert, Kris","first_name":"Kris"},{"first_name":"Volker","last_name":"Haucke","full_name":"Haucke, Volker"},{"full_name":"Savvides, Savvas N.","last_name":"Savvides","first_name":"Savvas N."},{"full_name":"Winne, Johan","last_name":"Winne","first_name":"Johan"},{"first_name":"Eugenia","full_name":"Russinova, Eugenia","last_name":"Russinova"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","citation":{"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.","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.","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","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.","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.","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."},"quality_controlled":"1","publisher":"Springer Nature","date_created":"2019-05-05T21:59:11Z","doi":"10.1038/s41589-019-0262-1","date_published":"2019-06-01T00:00:00Z","page":"641–649","publication":"Nature Chemical Biology","day":"01","year":"2019","isi":1},{"month":"12","alternative_title":["ISTA Thesis"],"oa_version":"Published Version","abstract":[{"lang":"eng","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."}],"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"related_material":{"record":[{"status":"public","id":"1346","relation":"part_of_dissertation"},{"status":"public","id":"6377","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"449"}]},"file":[{"access_level":"closed","relation":"source_file","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_id":"7175","checksum":"ef981c1a3b1d9da0edcbedcff4970d37","creator":"mvasilev","date_updated":"2020-07-14T12:47:51Z","file_size":20454014,"date_created":"2019-12-12T09:32:36Z","file_name":"Thesis_Mina_final_upload_7.docx"},{"creator":"mvasilev","file_size":11565025,"date_updated":"2020-07-14T12:47:51Z","file_name":"Thesis_Mina_final_upload_7.pdf","date_created":"2019-12-12T09:33:10Z","relation":"main_file","access_level":"open_access","content_type":"application/pdf","checksum":"3882c4585e46c9cfb486e4225cad54ab","file_id":"7176"}],"language":[{"iso":"eng"}],"publication_identifier":{"eissn":["2663-337X"]},"publication_status":"published","degree_awarded":"PhD","status":"public","type":"dissertation","_id":"7172","department":[{"_id":"JiFr"}],"file_date_updated":"2020-07-14T12:47:51Z","ddc":["570"],"supervisor":[{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml"}],"date_updated":"2023-09-19T10:39:33Z","publisher":"Institute of Science and Technology Austria","oa":1,"doi":"10.15479/AT:ISTA:7172","date_published":"2019-12-12T00:00:00Z","date_created":"2019-12-11T21:24:39Z","page":"192","day":"12","has_accepted_license":"1","year":"2019","title":"Molecular mechanisms of endomembrane trafficking in Arabidopsis thaliana","author":[{"full_name":"Vasileva, Mina K","last_name":"Vasileva","first_name":"Mina K","id":"3407EB18-F248-11E8-B48F-1D18A9856A87"}],"article_processing_charge":"No","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","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.","ista":"Vasileva MK. 2019. Molecular mechanisms of endomembrane trafficking in Arabidopsis thaliana. Institute of Science and Technology Austria.","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.","ama":"Vasileva MK. Molecular mechanisms of endomembrane trafficking in Arabidopsis thaliana. 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.","short":"M.K. Vasileva, Molecular Mechanisms of Endomembrane Trafficking in Arabidopsis Thaliana, Institute of Science and Technology Austria, 2019."}},{"month":"10","intvolume":" 116","scopus_import":"1","pmid":1,"oa_version":"Published Version","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"}],"volume":116,"related_material":{"link":[{"url":"https://doi.org/10.1073/pnas.2004738117","relation":"erratum"}]},"issue":"42","file":[{"date_created":"2019-11-13T08:22:28Z","file_name":"2019_PNAS_Huang.pdf","date_updated":"2020-07-14T12:47:46Z","file_size":3287466,"creator":"dernst","checksum":"258c666bc6253eab81961f61169eefae","file_id":"7012","content_type":"application/pdf","access_level":"open_access","relation":"main_file"}],"language":[{"iso":"eng"}],"publication_identifier":{"eissn":["1091-6490"],"issn":["0027-8424"]},"publication_status":"published","status":"public","article_type":"original","type":"journal_article","tmp":{"short":"CC BY-NC-ND (4.0)","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","image":"/images/cc_by_nc_nd.png"},"_id":"6999","department":[{"_id":"JiFr"}],"file_date_updated":"2020-07-14T12:47:46Z","ddc":["580"],"date_updated":"2023-10-17T12:32:37Z","publisher":"Proceedings of the National Academy of Sciences","quality_controlled":"1","oa":1,"date_published":"2019-10-15T00:00:00Z","doi":"10.1073/pnas.1911892116","date_created":"2019-11-12T11:42:05Z","page":"21274-21284","day":"15","publication":"Proceedings of the National Academy of Sciences of the United States of America","isi":1,"has_accepted_license":"1","year":"2019","title":"Salicylic acid-mediated plasmodesmal closure via Remorin-dependent lipid organization","author":[{"first_name":"D","full_name":"Huang, D","last_name":"Huang"},{"last_name":"Sun","full_name":"Sun, Y","first_name":"Y"},{"last_name":"Ma","full_name":"Ma, Z","first_name":"Z"},{"first_name":"M","last_name":"Ke","full_name":"Ke, M"},{"last_name":"Cui","full_name":"Cui, Y","first_name":"Y"},{"first_name":"Z","last_name":"Chen","full_name":"Chen, Z"},{"first_name":"C","last_name":"Chen","full_name":"Chen, C"},{"first_name":"C","last_name":"Ji","full_name":"Ji, C"},{"first_name":"TM","last_name":"Tran","full_name":"Tran, TM"},{"first_name":"L","last_name":"Yang","full_name":"Yang, L"},{"full_name":"Lam, SM","last_name":"Lam","first_name":"SM"},{"first_name":"Y","last_name":"Han","full_name":"Han, Y"},{"first_name":"G","full_name":"Shu, G","last_name":"Shu"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Y","full_name":"Miao, Y","last_name":"Miao"},{"first_name":"L","full_name":"Jiang, L","last_name":"Jiang"},{"first_name":"X","full_name":"Chen, X","last_name":"Chen"}],"article_processing_charge":"No","external_id":{"pmid":["31575745"],"isi":["000490183000068"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","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","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.","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.","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.","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.","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."}},{"related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"412"}]},"language":[{"iso":"eng"}],"file":[{"embargo":"2020-02-11","checksum":"c958f27dd752712886e7e2638b847a3c","file_id":"6270","relation":"main_file","access_level":"open_access","content_type":"video/x-msvideo","file_name":"Supplementary_movie_1.avi","date_created":"2019-04-09T14:35:18Z","creator":"dernst","file_size":5402078,"date_updated":"2021-02-11T23:30:15Z"},{"relation":"main_file","access_level":"open_access","content_type":"video/x-msvideo","embargo":"2020-02-11","file_id":"6271","checksum":"8786fdc29c62987c0aad3c866a4d3691","creator":"dernst","file_size":5927736,"date_updated":"2021-02-11T23:30:15Z","file_name":"3.7_supplementary_movie_10.avi","date_created":"2019-04-09T14:35:18Z"},{"date_created":"2019-04-09T14:35:18Z","file_name":"3.7_supplementary_movie_9.avi","date_updated":"2021-02-11T23:30:15Z","file_size":9570210,"creator":"dernst","file_id":"6272","checksum":"25f784c5159d6f4d966b2f9b371ebaf6","embargo":"2020-02-11","content_type":"video/x-msvideo","access_level":"open_access","relation":"main_file"},{"relation":"main_file","access_level":"open_access","content_type":"video/x-msvideo","embargo":"2020-02-11","checksum":"917069272a7a08d1f38224d5e12765d6","file_id":"6273","creator":"dernst","file_size":2827360,"date_updated":"2021-02-11T23:30:15Z","file_name":"3.7_supplementary_movie_8.avi","date_created":"2019-04-09T14:35:18Z"},{"date_created":"2019-04-09T14:35:18Z","file_name":"3.7_supplementary_movie_7.avi","creator":"dernst","date_updated":"2021-02-11T23:30:15Z","file_size":5771410,"file_id":"6274","checksum":"81e74f5ca0ad70050504f18192236dc0","embargo":"2020-02-11","access_level":"open_access","relation":"main_file","content_type":"video/x-msvideo"},{"content_type":"video/x-msvideo","access_level":"open_access","relation":"main_file","file_id":"6275","checksum":"47eb37b27a2930252713924307ea8c6f","embargo":"2020-02-11","date_updated":"2021-02-11T23:30:15Z","file_size":1113486,"creator":"dernst","date_created":"2019-04-09T14:35:18Z","file_name":"3.7_supplementary_movie_6.avi"},{"access_level":"open_access","relation":"main_file","content_type":"video/x-msvideo","file_id":"6276","checksum":"f68f66721041ce84e331959c9a5779c3","embargo":"2020-02-11","creator":"dernst","date_updated":"2021-02-11T23:30:15Z","file_size":1057232,"date_created":"2019-04-09T14:35:18Z","file_name":"3.7_supplementary_movie_5.avi"},{"creator":"dernst","date_updated":"2021-02-11T23:30:15Z","file_size":127472916,"date_created":"2019-04-09T14:35:23Z","file_name":"3.7_supplementary_movie_3.avi","access_level":"open_access","relation":"main_file","content_type":"video/x-msvideo","checksum":"67c01cefab51b363c5e214fe4cd671f3","file_id":"6277","embargo":"2020-02-11"},{"content_type":"video/x-msvideo","relation":"main_file","access_level":"open_access","embargo":"2020-02-11","checksum":"e5a397edbee05b8821e2b19b3c1a9260","file_id":"6278","file_size":3181238,"date_updated":"2021-02-11T23:30:15Z","creator":"dernst","file_name":"3.7_supplementary_movie_4.avi","date_created":"2019-04-09T14:35:19Z"},{"file_id":"6279","checksum":"32d92b2a9277f956fdb0b42351d07c0b","embargo":"2020-02-11","content_type":"video/x-msvideo","access_level":"open_access","relation":"main_file","date_created":"2019-04-09T14:35:19Z","file_name":"3.7_supplementary_movie_2.avi","date_updated":"2021-02-11T23:30:15Z","file_size":5970952,"creator":"dernst"},{"relation":"main_file","access_level":"open_access","content_type":"video/x-msvideo","embargo":"2020-02-11","checksum":"efe7001f5d9a8c61e631e12d5f324ade","file_id":"6280","creator":"dernst","file_size":39835236,"date_updated":"2021-02-11T23:30:15Z","file_name":"3.7_Supplementary_movie_1.avi","date_created":"2019-04-09T14:35:21Z"},{"date_updated":"2021-02-11T23:30:15Z","file_size":3696740,"creator":"dernst","date_created":"2019-04-09T14:35:21Z","file_name":"2.5_Suppl_Movie_4_AP2A1_TagRFP.avi","content_type":"video/x-msvideo","access_level":"open_access","relation":"main_file","checksum":"eeb0a5603c6449c5f34eacd5ff0b3a16","file_id":"6281","embargo":"2020-02-11"},{"access_level":"open_access","relation":"main_file","content_type":"video/x-msvideo","checksum":"8e7c00ef6223bf0e177deb168338af13","file_id":"6282","embargo":"2020-02-11","creator":"dernst","date_updated":"2021-02-11T23:30:15Z","file_size":6741232,"date_created":"2019-04-09T14:35:21Z","file_name":"2.5_Suppl_Movie_3_TPLATE_GFP.avi"},{"checksum":"3636006a7cb709a7543d6581e359b28d","file_id":"6283","embargo":"2020-02-11","content_type":"video/x-msvideo","access_level":"open_access","relation":"main_file","date_created":"2019-04-09T14:35:22Z","file_name":"2.5_Suppl_Movie_2_CLC_GFP.avi","date_updated":"2021-02-11T23:30:15Z","file_size":2445946,"creator":"dernst"},{"date_created":"2019-04-09T14:35:22Z","file_name":"2.5_Suppl_Movie_1_CLC_GFPxAxl1_mcherry.avi","date_updated":"2021-02-11T23:30:15Z","file_size":58594,"creator":"dern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Thesis"],"oa_version":"Published Version","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"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"}],"department":[{"_id":"JiFr"}],"file_date_updated":"2021-02-11T23:30:15Z","ddc":["575"],"date_updated":"2023-09-08T11:43:03Z","supervisor":[{"last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"dissertation","_id":"6269","date_created":"2019-04-09T14:37:06Z","date_published":"2019-02-04T00:00:00Z","doi":"10.15479/at:ista:th1075","page":"138","day":"04","year":"2019","has_accepted_license":"1","oa":1,"publisher":"Institute of Science and Technology Austria","title":"Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants ","article_processing_charge":"No","author":[{"full_name":"Narasimhan, Madhumitha","orcid":"0000-0002-8600-0671","last_name":"Narasimhan","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","first_name":"Madhumitha"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","citation":{"ista":"Narasimhan M. 2019. Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants . Institute of Science and Technology Austria.","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.","ieee":"M. Narasimhan, “Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants ,” Institute of Science and Technology Austria, 2019.","short":"M. Narasimhan, Clathrin-Mediated Endocytosis, Post-Endocytic Trafficking and Their Regulatory Controls in Plants , Institute of Science and Technology Austria, 2019.","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","ama":"Narasimhan M. Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants . 2019. doi: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."}},{"volume":177,"issue":"4","related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/specialized-plant-cells-regain-stem-cell-features-to-heal-wounds/"}],"record":[{"relation":"dissertation_contains","status":"public","id":"9992"}]},"ec_funded":1,"file":[{"date_updated":"2020-07-14T12:47:28Z","file_size":10272032,"creator":"dernst","date_created":"2019-05-13T06:12:45Z","file_name":"2019_Cell_Marhava.pdf","content_type":"application/pdf","access_level":"open_access","relation":"main_file","file_id":"6411","checksum":"4ceba04a96a74f5092ec3ce2c579a0c7"}],"language":[{"iso":"eng"}],"publication_identifier":{"issn":["00928674"],"eissn":["10974172"]},"publication_status":"published","month":"05","intvolume":" 177","scopus_import":"1","oa_version":"Published Version","pmid":1,"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."}],"acknowledged_ssus":[{"_id":"Bio"}],"department":[{"_id":"JiFr"},{"_id":"EvBe"}],"file_date_updated":"2020-07-14T12:47:28Z","ddc":["570"],"date_updated":"2024-03-27T23:30:10Z","status":"public","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"_id":"6351","doi":"10.1016/j.cell.2019.04.015","date_published":"2019-05-02T00:00:00Z","date_created":"2019-04-28T21:59:14Z","page":"957-969.e13","day":"02","publication":"Cell","has_accepted_license":"1","isi":1,"year":"2019","publisher":"Elsevier","quality_controlled":"1","oa":1,"title":"Re-activation of stem cell pathways for pattern restoration in plant wound healing","author":[{"id":"44E59624-F248-11E8-B48F-1D18A9856A87","first_name":"Petra","full_name":"Marhavá, Petra","last_name":"Marhavá"},{"full_name":"Hörmayer, Lukas","orcid":"0000-0001-8295-2926","last_name":"Hörmayer","first_name":"Lukas","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87"},{"id":"2E46069C-F248-11E8-B48F-1D18A9856A87","first_name":"Saiko","last_name":"Yoshida","full_name":"Yoshida, Saiko"},{"first_name":"Peter","id":"3F45B078-F248-11E8-B48F-1D18A9856A87","full_name":"Marhavy, Peter","orcid":"0000-0001-5227-5741","last_name":"Marhavy"},{"full_name":"Benková, Eva","orcid":"0000-0002-8510-9739","last_name":"Benková","first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml"}],"external_id":{"pmid":["31051107"],"isi":["000466843000015"]},"article_processing_charge":"No","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","citation":{"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.","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.","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","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","short":"P. Marhavá, L. Hörmayer, S. Yoshida, P. Marhavý, E. Benková, J. Friml, Cell 177 (2019) 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.","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."},"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985"}]},{"scopus_import":"1","intvolume":" 52","month":"12","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"}],"oa_version":"Published Version","pmid":1,"ec_funded":1,"related_material":{"record":[{"status":"public","id":"9992","relation":"dissertation_contains"}]},"volume":52,"publication_status":"published","publication_identifier":{"issn":["1369-5266"]},"language":[{"iso":"eng"}],"file":[{"file_name":"2019_CurrentOpinionPlant_Hoermayer.pdf","date_created":"2019-10-14T14:48:21Z","file_size":1659288,"date_updated":"2020-07-14T12:47:45Z","creator":"dernst","checksum":"d6fd68a6e965f1efe3f0bf2d2070a616","file_id":"6946","content_type":"application/pdf","relation":"main_file","access_level":"open_access"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"article_type":"original","type":"journal_article","status":"public","_id":"6943","department":[{"_id":"JiFr"}],"file_date_updated":"2020-07-14T12:47:45Z","date_updated":"2024-03-27T23:30:11Z","ddc":["580"],"oa":1,"quality_controlled":"1","publisher":"Elsevier","page":"124-130","date_created":"2019-10-14T07:00:24Z","doi":"10.1016/j.pbi.2019.08.006","date_published":"2019-12-01T00:00:00Z","year":"2019","has_accepted_license":"1","isi":1,"publication":"Current Opinion in Plant Biology","day":"01","project":[{"grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425"}],"article_processing_charge":"No","external_id":{"pmid":["31585333"],"isi":["000502890600017"]},"author":[{"orcid":"0000-0001-8295-2926","full_name":"Hörmayer, Lukas","last_name":"Hörmayer","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","first_name":"Lukas"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří"}],"title":"Targeted cell ablation-based insights into wound healing and restorative patterning","citation":{"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.","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.","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.","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.","short":"L. Hörmayer, J. Friml, Current Opinion in Plant Biology 52 (2019) 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","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"},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8"},{"project":[{"call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}],"external_id":{"isi":["000470086100045"],"pmid":["30936248"]},"article_processing_charge":"No","author":[{"first_name":"A","full_name":"Oochi, A","last_name":"Oochi"},{"id":"4800CC20-F248-11E8-B48F-1D18A9856A87","first_name":"Jakub","last_name":"Hajny","full_name":"Hajny, Jakub","orcid":"0000-0003-2140-7195"},{"first_name":"K","last_name":"Fukui","full_name":"Fukui, K"},{"first_name":"Y","last_name":"Nakao","full_name":"Nakao, Y"},{"orcid":"0000-0003-1286-7368","full_name":"Gallei, Michelle C","last_name":"Gallei","id":"35A03822-F248-11E8-B48F-1D18A9856A87","first_name":"Michelle C"},{"first_name":"M","full_name":"Quareshy, M","last_name":"Quareshy"},{"last_name":"Takahashi","full_name":"Takahashi, K","first_name":"K"},{"first_name":"T","last_name":"Kinoshita","full_name":"Kinoshita, T"},{"full_name":"Harborough, SR","last_name":"Harborough","first_name":"SR"},{"last_name":"Kepinski","full_name":"Kepinski, S","first_name":"S"},{"full_name":"Kasahara, H","last_name":"Kasahara","first_name":"H"},{"first_name":"RM","full_name":"Napier, RM","last_name":"Napier"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří"},{"full_name":"Hayashi, KI","last_name":"Hayashi","first_name":"KI"}],"title":"Pinstatic acid promotes auxin transport by inhibiting PIN internalization","citation":{"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","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","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.","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.","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.","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.","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."},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","oa":1,"publisher":"ASPB","quality_controlled":"1","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.).","page":"1152-1165","date_created":"2019-04-09T08:38:20Z","doi":"10.1104/pp.19.00201","date_published":"2019-06-01T00:00:00Z","year":"2019","isi":1,"publication":"Plant Physiology","day":"01","article_type":"original","type":"journal_article","status":"public","_id":"6260","department":[{"_id":"JiFr"}],"date_updated":"2024-03-27T23:30:37Z","main_file_link":[{"url":"https://doi.org/10.1104/pp.19.00201","open_access":"1"}],"scopus_import":"1","intvolume":" 180","month":"06","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"}],"pmid":1,"oa_version":"Published Version","ec_funded":1,"issue":"2","volume":180,"related_material":{"record":[{"id":"11626","status":"public","relation":"dissertation_contains"},{"relation":"dissertation_contains","id":"8822","status":"public"}]},"publication_status":"published","publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"language":[{"iso":"eng"}]},{"external_id":{"isi":["000477041100221"],"pmid":["31284661"]},"article_processing_charge":"Yes","author":[{"full_name":"Adamowski, Maciek","orcid":"0000-0001-6463-5257","last_name":"Adamowski","first_name":"Maciek","id":"45F536D2-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Li","orcid":"0000-0002-5607-272X","full_name":"Li, Lanxin","first_name":"Lanxin","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří"}],"title":"Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling","citation":{"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","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","short":"M. Adamowski, L. Li, J. Friml, International Journal of Molecular Sciences 20 (2019).","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.","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.","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.","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."},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","project":[{"grant_number":"282300","name":"Polarity and subcellular dynamics in plants","_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"},{"grant_number":"665385","name":"International IST Doctoral Program","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"},{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"article_number":"3337","date_created":"2019-07-11T12:00:32Z","doi":"10.3390/ijms20133337","date_published":"2019-07-07T00:00:00Z","year":"2019","has_accepted_license":"1","isi":1,"publication":"International Journal of Molecular Sciences","day":"07","oa":1,"quality_controlled":"1","publisher":"MDPI","file_date_updated":"2020-07-14T12:47:34Z","department":[{"_id":"JiFr"}],"date_updated":"2024-03-27T23:30:43Z","ddc":["580"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","article_type":"original","status":"public","_id":"6627","ec_funded":1,"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"10083"}]},"issue":"13","volume":20,"publication_status":"published","publication_identifier":{"eissn":["1422-0067"]},"language":[{"iso":"eng"}],"file":[{"file_size":3330291,"date_updated":"2020-07-14T12:47:34Z","creator":"dernst","file_name":"2019_JournalMolecularScience_Adamowski.pdf","date_created":"2019-07-17T06:17:15Z","content_type":"application/pdf","relation":"main_file","access_level":"open_access","checksum":"dd9d1cbb933a72ceb666c9667890ac51","file_id":"6645"}],"scopus_import":"1","intvolume":" 20","month":"07","abstract":[{"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.","lang":"eng"}],"pmid":1,"oa_version":"Published Version"},{"volume":1761,"publication_status":"published","publication_identifier":{"issn":["1064-3745"]},"language":[{"iso":"eng"}],"scopus_import":"1","alternative_title":["MIMB"],"intvolume":" 1761","month":"03","abstract":[{"lang":"eng","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."}],"oa_version":"None","pmid":1,"department":[{"_id":"JiFr"}],"date_updated":"2021-01-12T07:54:21Z","type":"book_chapter","status":"public","_id":"408","page":"95 - 102","date_created":"2018-12-11T11:46:18Z","date_published":"2018-03-01T00:00:00Z","doi":"10.1007/978-1-4939-7747-5_7","year":"2018","publication":"Root Development ","day":"01","quality_controlled":"1","publisher":"Springer Nature","article_processing_charge":"No","external_id":{"pmid":["29525951"]},"author":[{"first_name":"Hoang","last_name":"Trinh","full_name":"Trinh, Hoang"},{"id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","first_name":"Inge","last_name":"Verstraeten","orcid":"0000-0001-7241-2328","full_name":"Verstraeten, Inge"},{"first_name":"Danny","last_name":"Geelen","full_name":"Geelen, Danny"}],"publist_id":"7421","title":"In vitro assay for induction of adventitious rooting on intact arabidopsis hypocotyls","citation":{"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.","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","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.","short":"H. Trinh, I. Verstraeten, D. Geelen, in:, Root Development , Springer Nature, 2018, pp. 95–102.","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.","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."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"page":"131 - 143","volume":1761,"doi":"10.1007/978-1-4939-7747-5_10","date_published":"2018-03-11T00:00:00Z","date_created":"2018-12-11T11:46:20Z","year":"2018","publication_status":"published","day":"11","language":[{"iso":"eng"}],"publication":"Root Development. Methods and Protocols","alternative_title":["Methods in Molecular Biology"],"publisher":"Springer","scopus_import":1,"quality_controlled":"1","month":"03","intvolume":" 1761","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"}],"oa_version":"None","publist_id":"7418","author":[{"full_name":"Karampelias, Michael","last_name":"Karampelias","first_name":"Michael"},{"full_name":"Tejos, Ricardo","last_name":"Tejos","first_name":"Ricardo"},{"last_name":"Friml","full_name":"Friml, Jirí","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí"},{"first_name":"Steffen","last_name":"Vanneste","full_name":"Vanneste, Steffen"}],"editor":[{"full_name":"Ristova, Daniela","last_name":"Ristova","first_name":"Daniela"},{"last_name":"Barbez","full_name":"Barbez, Elke","first_name":"Elke"}],"title":"Optimized whole mount in situ immunolocalization for Arabidopsis thaliana root meristems and lateral root primordia","department":[{"_id":"JiFr"}],"citation":{"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.","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.","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","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","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.","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.","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."},"date_updated":"2021-01-12T07:54:34Z","user_id":"4435EBFC-F248-11E8-B48F-1D18A9856A87","type":"book_chapter","status":"public","_id":"411","series_title":"MIMB"},{"volume":115,"issue":"26","ec_funded":1,"language":[{"iso":"eng"}],"publication_status":"published","month":"06","intvolume":" 115","scopus_import":"1","main_file_link":[{"open_access":"1","url":"http://eprints.nottingham.ac.uk/52388/"}],"oa_version":"None","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."}],"department":[{"_id":"JiFr"}],"date_updated":"2023-09-08T13:24:40Z","status":"public","type":"journal_article","_id":"203","doi":"10.1073/pnas.1806565115","date_published":"2018-06-26T00:00:00Z","date_created":"2018-12-11T11:45:11Z","page":"6864-6869","day":"26","publication":"PNAS","isi":1,"year":"2018","publisher":"National Academy of Sciences","quality_controlled":"1","oa":1,"title":"Auxin methylation is required for differential growth in Arabidopsis","author":[{"last_name":"Abbas","full_name":"Abbas, Mohamad","id":"47E8FC1C-F248-11E8-B48F-1D18A9856A87","first_name":"Mohamad"},{"last_name":"Hernández","full_name":"Hernández, García J","first_name":"García J"},{"last_name":"Pollmann","full_name":"Pollmann, Stephan","first_name":"Stephan"},{"first_name":"Sophia L","last_name":"Samodelov","full_name":"Samodelov, Sophia L"},{"full_name":"Kolb, Martina","last_name":"Kolb","first_name":"Martina"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí"},{"last_name":"Hammes","full_name":"Hammes, Ulrich Z","first_name":"Ulrich Z"},{"first_name":"Matias D","last_name":"Zurbriggen","full_name":"Zurbriggen, Matias D"},{"first_name":"Miguel","last_name":"Blázquez","full_name":"Blázquez, Miguel"},{"full_name":"Alabadí, David","last_name":"Alabadí","first_name":"David"}],"publist_id":"7710","article_processing_charge":"No","external_id":{"isi":["000436245000096"]},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","citation":{"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.","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.","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.","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.","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","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","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."},"project":[{"name":"Polarity and subcellular dynamics in plants","grant_number":"282300","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425"}]},{"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_updated":"2023-09-11T12:43:31Z","citation":{"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.","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.","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.","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","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","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).","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."},"department":[{"_id":"JiFr"}],"title":"CLE9 peptide-induced stomatal closure is mediated by abscisic acid, hydrogen peroxide, and nitric oxide in arabidopsis thaliana","author":[{"first_name":"Luosha","full_name":"Zhang, Luosha","last_name":"Zhang"},{"first_name":"Xiong","last_name":"Shi","full_name":"Shi, Xiong"},{"first_name":"Yutao","last_name":"Zhang","full_name":"Zhang, Yutao"},{"full_name":"Wang, Jiajing","last_name":"Wang","first_name":"Jiajing"},{"last_name":"Yang","full_name":"Yang, Jingwei","first_name":"Jingwei"},{"full_name":"Ishida, Takashi","last_name":"Ishida","first_name":"Takashi"},{"last_name":"Jiang","full_name":"Jiang, Wenqian","first_name":"Wenqian"},{"first_name":"Xiangyu","full_name":"Han, Xiangyu","last_name":"Han"},{"last_name":"Kang","full_name":"Kang, Jingke","first_name":"Jingke"},{"full_name":"Wang, Xuening","last_name":"Wang","first_name":"Xuening"},{"full_name":"Pan, Lixia","last_name":"Pan","first_name":"Lixia"},{"first_name":"Shuo","full_name":"Lv, Shuo","last_name":"Lv"},{"full_name":"Cao, Bing","last_name":"Cao","first_name":"Bing"},{"first_name":"Yonghong","last_name":"Zhang","full_name":"Zhang, Yonghong"},{"last_name":"Wu","full_name":"Wu, Jinbin","first_name":"Jinbin"},{"full_name":"Han, Huibin","last_name":"Han","first_name":"Huibin","id":"31435098-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hu, Zhubing","last_name":"Hu","first_name":"Zhubing"},{"full_name":"Cui, Langjun","last_name":"Cui","first_name":"Langjun"},{"full_name":"Sawa, Shinichiro","last_name":"Sawa","first_name":"Shinichiro"},{"full_name":"He, Junmin","last_name":"He","first_name":"Junmin"},{"first_name":"Guodong","full_name":"Wang, Guodong","last_name":"Wang"}],"external_id":{"isi":["000459014800021"],"pmid":["30378140"]},"article_processing_charge":"No","_id":"5830","status":"public","type":"journal_article","day":"31","language":[{"iso":"eng"}],"publication":"Plant Cell and Environment","publication_identifier":{"issn":["01407791"]},"isi":1,"publication_status":"epub_ahead","year":"2018","doi":"10.1111/pce.13475","date_published":"2018-10-31T00:00:00Z","date_created":"2019-01-13T22:59:11Z","oa_version":"Published Version","pmid":1,"abstract":[{"lang":"eng","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."}],"month":"10","quality_controlled":"1","scopus_import":"1","publisher":"Wiley","oa":1,"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pubmed/30378140","open_access":"1"}]},{"publication_status":"published","file":[{"content_type":"application/pdf","access_level":"open_access","relation":"main_file","checksum":"1fcf7223fb8f99559cfa80bd6f24ce44","file_id":"5700","date_updated":"2020-07-14T12:46:26Z","file_size":1924101,"creator":"dernst","date_created":"2018-12-17T12:30:14Z","file_name":"2018_PNAS_Salanenka.pdf"}],"language":[{"iso":"eng"}],"volume":115,"issue":"14","ec_funded":1,"abstract":[{"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.","lang":"eng"}],"oa_version":"Published Version","scopus_import":"1","month":"04","intvolume":" 115","date_updated":"2023-09-11T14:06:34Z","ddc":["580"],"department":[{"_id":"JiFr"}],"file_date_updated":"2020-07-14T12:46:26Z","_id":"428","type":"journal_article","tmp":{"short":"CC BY-NC-ND (4.0)","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","image":"/images/cc_by_nc_nd.png"},"status":"public","isi":1,"has_accepted_license":"1","year":"2018","day":"03","publication":"PNAS","page":" 3716 - 3721","doi":"10.1073/pnas.1721760115","date_published":"2018-04-03T00:00:00Z","date_created":"2018-12-11T11:46:25Z","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","publisher":"National Academy of Sciences","quality_controlled":"1","oa":1,"citation":{"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.","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.","short":"Y. Salanenka, I. Verstraeten, C. Löfke, K. Tabata, S. Naramoto, M. Glanc, J. Friml, PNAS 115 (2018) 3716–3721.","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.","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","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","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."},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","author":[{"last_name":"Salanenka","full_name":"Salanenka, Yuliya","id":"46DAAE7E-F248-11E8-B48F-1D18A9856A87","first_name":"Yuliya"},{"last_name":"Verstraeten","orcid":"0000-0001-7241-2328","full_name":"Verstraeten, Inge","first_name":"Inge","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Christian","full_name":"Löfke, Christian","last_name":"Löfke"},{"full_name":"Tabata, Kaori","last_name":"Tabata","id":"7DAAEDA4-02D0-11E9-B11A-A5A4D7DFFFD0","first_name":"Kaori"},{"first_name":"Satoshi","last_name":"Naramoto","full_name":"Naramoto, Satoshi"},{"last_name":"Glanc","orcid":"0000-0003-0619-7783","full_name":"Glanc, Matous","first_name":"Matous","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2"},{"last_name":"Friml","full_name":"Friml, Jirí","orcid":"0000-0002-8302-7596","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"publist_id":"7395","article_processing_charge":"No","external_id":{"isi":["000429012500073"]},"title":"Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane","project":[{"grant_number":"282300","name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425"}]}]