[{"month":"01","publication_identifier":{"issn":["0960-9822"],"eissn":["1879-0445"]},"doi":"10.1016/j.cub.2023.11.067","acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"quality_controlled":"1","project":[{"_id":"260F1432-B435-11E9-9278-68D0E5697425","grant_number":"742573","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","call_identifier":"H2020"}],"file_date_updated":"2024-01-16T10:53:31Z","ec_funded":1,"author":[{"full_name":"Arslan, Feyza N","last_name":"Arslan","first_name":"Feyza N","orcid":"0000-0001-5809-9566","id":"49DA7910-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Edouard B","last_name":"Hannezo","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6005-1561","full_name":"Hannezo, Edouard B"},{"last_name":"Merrin","first_name":"Jack","orcid":"0000-0001-5145-4609","id":"4515C308-F248-11E8-B48F-1D18A9856A87","full_name":"Merrin, Jack"},{"full_name":"Loose, Martin","last_name":"Loose","first_name":"Martin","orcid":"0000-0001-7309-9724","id":"462D4284-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Heisenberg, Carl-Philipp J","orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","first_name":"Carl-Philipp J"}],"date_updated":"2024-01-17T08:20:40Z","date_created":"2024-01-14T23:00:56Z","volume":34,"year":"2024","acknowledgement":"We are grateful to Edwin Munro for their feedback and help with the single particle analysis. We thank members of the Heisenberg and Loose labs for their help and feedback on the manuscript, notably Xin Tong for making the PCS2-mCherry-AHPH plasmid. Finally, we thank the Aquatics and Imaging & Optics facilities of ISTA for their continuous support, especially Yann Cesbron for assistance with the laser cutter. This work was supported by an ERC\r\nAdvanced Grant (MECSPEC) to C.-P.H.","publication_status":"published","publisher":"Elsevier","department":[{"_id":"CaHe"},{"_id":"EdHa"},{"_id":"MaLo"},{"_id":"NanoFab"}],"day":"08","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","scopus_import":"1","date_published":"2024-01-08T00:00:00Z","publication":"Current Biology","citation":{"chicago":"Arslan, Feyza N, Edouard B Hannezo, Jack Merrin, Martin Loose, and Carl-Philipp J Heisenberg. “Adhesion-Induced Cortical Flows Pattern E-Cadherin-Mediated Cell Contacts.” Current Biology. Elsevier, 2024. https://doi.org/10.1016/j.cub.2023.11.067.","mla":"Arslan, Feyza N., et al. “Adhesion-Induced Cortical Flows Pattern E-Cadherin-Mediated Cell Contacts.” Current Biology, vol. 34, no. 1, Elsevier, 2024, p. 171–182.e8, doi:10.1016/j.cub.2023.11.067.","short":"F.N. Arslan, E.B. Hannezo, J. Merrin, M. Loose, C.-P.J. Heisenberg, Current Biology 34 (2024) 171–182.e8.","ista":"Arslan FN, Hannezo EB, Merrin J, Loose M, Heisenberg C-PJ. 2024. Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts. Current Biology. 34(1), 171–182.e8.","ieee":"F. N. Arslan, E. B. Hannezo, J. Merrin, M. Loose, and C.-P. J. Heisenberg, “Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts,” Current Biology, vol. 34, no. 1. Elsevier, p. 171–182.e8, 2024.","apa":"Arslan, F. N., Hannezo, E. B., Merrin, J., Loose, M., & Heisenberg, C.-P. J. (2024). Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2023.11.067","ama":"Arslan FN, Hannezo EB, Merrin J, Loose M, Heisenberg C-PJ. Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts. Current Biology. 2024;34(1):171-182.e8. doi:10.1016/j.cub.2023.11.067"},"article_type":"original","page":"171-182.e8","abstract":[{"text":"Metazoan development relies on the formation and remodeling of cell-cell contacts. Dynamic reorganization of adhesion receptors and the actomyosin cell cortex in space and time plays a central role in cell-cell contact formation and maturation. Nevertheless, how this process is mechanistically achieved when new contacts are formed remains unclear. Here, by building a biomimetic assay composed of progenitor cells adhering to supported lipid bilayers functionalized with E-cadherin ectodomains, we show that cortical F-actin flows, driven by the depletion of myosin-2 at the cell contact center, mediate the dynamic reorganization of adhesion receptors and cell cortex at the contact. E-cadherin-dependent downregulation of the small GTPase RhoA at the forming contact leads to both a depletion of myosin-2 and a decrease of F-actin at the contact center. At the contact rim, in contrast, myosin-2 becomes enriched by the retraction of bleb-like protrusions, resulting in a cortical tension gradient from the contact rim to its center. This tension gradient, in turn, triggers centrifugal F-actin flows, leading to further accumulation of F-actin at the contact rim and the progressive redistribution of E-cadherin from the contact center to the rim. Eventually, this combination of actomyosin downregulation and flows at the contact determines the characteristic molecular organization, with E-cadherin and F-actin accumulating at the contact rim, where they are needed to mechanically link the contractile cortices of the adhering cells.","lang":"eng"}],"issue":"1","type":"journal_article","oa_version":"Published Version","file":[{"date_created":"2024-01-16T10:53:31Z","date_updated":"2024-01-16T10:53:31Z","success":1,"checksum":"51220b76d72a614208f84bdbfbaf9b72","file_id":"14813","relation":"main_file","creator":"dernst","content_type":"application/pdf","file_size":5183861,"file_name":"2024_CurrentBiology_Arslan.pdf","access_level":"open_access"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"14795","ddc":["570"],"title":"Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts","status":"public","intvolume":" 34"},{"date_published":"2024-02-26T00:00:00Z","page":"902-909.e6","article_type":"original","citation":{"ama":"Csata E, Perez-Escudero A, Laury E, et al. Fungal infection alters collective nutritional intake of ant colonies. Current Biology. 2024;34(4):902-909.e6. doi:10.1016/j.cub.2024.01.017","ieee":"E. Csata et al., “Fungal infection alters collective nutritional intake of ant colonies,” Current Biology, vol. 34, no. 4. Elsevier, p. 902–909.e6, 2024.","apa":"Csata, E., Perez-Escudero, A., Laury, E., Leitner, H., Latil, G., Heinze, J., … Dussutour, A. (2024). Fungal infection alters collective nutritional intake of ant colonies. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2024.01.017","ista":"Csata E, Perez-Escudero A, Laury E, Leitner H, Latil G, Heinze J, Simpson S, Cremer S, Dussutour A. 2024. Fungal infection alters collective nutritional intake of ant colonies. Current Biology. 34(4), 902–909.e6.","short":"E. Csata, A. Perez-Escudero, E. Laury, H. Leitner, G. Latil, J. Heinze, S. Simpson, S. Cremer, A. Dussutour, Current Biology 34 (2024) 902–909.e6.","mla":"Csata, Eniko, et al. “Fungal Infection Alters Collective Nutritional Intake of Ant Colonies.” Current Biology, vol. 34, no. 4, Elsevier, 2024, p. 902–909.e6, doi:10.1016/j.cub.2024.01.017.","chicago":"Csata, Eniko, Alfonso Perez-Escudero, Emmanuel Laury, Hanna Leitner, Gerard Latil, Juerge Heinze, Stephen Simpson, Sylvia Cremer, and Audrey Dussutour. “Fungal Infection Alters Collective Nutritional Intake of Ant Colonies.” Current Biology. Elsevier, 2024. https://doi.org/10.1016/j.cub.2024.01.017."},"publication":"Current Biology","article_processing_charge":"No","day":"26","scopus_import":"1","oa_version":"Preprint","intvolume":" 34","status":"public","title":"Fungal infection alters collective nutritional intake of ant colonies","_id":"14479","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","issue":"4","abstract":[{"text":"In animals, parasitic infections impose significant fitness costs.1,2,3,4,5,6 Infected animals can alter their feeding behavior to resist infection,7,8,9,10,11,12 but parasites can manipulate animal foraging behavior to their own benefits.13,14,15,16 How nutrition influences host-parasite interactions is not well understood, as studies have mainly focused on the host and less on the parasite.9,12,17,18,19,20,21,22,23 We used the nutritional geometry framework24 to investigate the role of amino acids (AA) and carbohydrates (C) in a host-parasite system: the Argentine ant, Linepithema humile, and the entomopathogenic fungus, Metarhizium brunneum. First, using 18 diets varying in AA:C composition, we established that the fungus performed best on the high-amino-acid diet 1:4. Second, we found that the fungus reached this optimal diet when given various diet pairings, revealing its ability to cope with nutritional challenges. Third, we showed that the optimal fungal diet reduced the lifespan of healthy ants when compared with a high-carbohydrate diet but had no effect on infected ants. Fourth, we revealed that infected ant colonies, given a choice between the optimal fungal diet and a high-carbohydrate diet, chose the optimal fungal diet, whereas healthy colonies avoided it. Lastly, by disentangling fungal infection from host immune response, we demonstrated that infected ants foraged on the optimal fungal diet in response to immune activation and not as a result of parasite manipulation. Therefore, we revealed that infected ant colonies chose a diet that is costly for survival in the long term but beneficial in the short term—a form of collective self-medication.","lang":"eng"}],"type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1016/j.cub.2024.01.017","quality_controlled":"1","external_id":{"pmid":["38307022"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2023.10.26.564092"}],"oa":1,"publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"month":"02","volume":34,"date_updated":"2024-03-04T07:14:41Z","date_created":"2023-10-31T13:30:20Z","author":[{"first_name":"Eniko","last_name":"Csata","full_name":"Csata, Eniko"},{"first_name":"Alfonso","last_name":"Perez-Escudero","full_name":"Perez-Escudero, Alfonso"},{"first_name":"Emmanuel","last_name":"Laury","full_name":"Laury, Emmanuel"},{"first_name":"Hanna","last_name":"Leitner","id":"8fc5c6f6-5903-11ec-abad-c83f046253e7","full_name":"Leitner, Hanna"},{"last_name":"Latil","first_name":"Gerard","full_name":"Latil, Gerard"},{"first_name":"Juerge","last_name":"Heinze","full_name":"Heinze, Juerge"},{"last_name":"Simpson","first_name":"Stephen","full_name":"Simpson, Stephen"},{"full_name":"Cremer, Sylvia","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2193-3868","first_name":"Sylvia","last_name":"Cremer"},{"first_name":"Audrey","last_name":"Dussutour","full_name":"Dussutour, Audrey"}],"publisher":"Elsevier","department":[{"_id":"SyCr"}],"publication_status":"published","pmid":1,"acknowledgement":"We are sincerely grateful to the referees for their valuable comments and suggestions, which helped us to improve the paper. We are thankful to Jorgen Eilenberg and Nicolai V. Meyling for the fungal strain, to Simon Tragust, Abel Bernadou, and Brian Lazarro for insightful discussions, to Iago Sanmartín-Villar, Léa Briard, Céline Maitrel, and Nolwenn Rissen for their help with the experiments. Furthermore, we thank Anna V. Grasse for help with the immune gene expression analyses. We thank Sergio Ibarra for creating the graphical abstract. E.C. was supported by a Fyssen Foundation grant and the Alexander von Humboldt Foundation. A.D. was supported by the CNRS.","year":"2024"},{"type":"journal_article","issue":"11","abstract":[{"lang":"eng","text":"One hallmark of plant cells is their cell wall. They protect cells against the environment and high turgor and mediate morphogenesis through the dynamics of their mechanical and chemical properties. The walls are a complex polysaccharidic structure. Although their biochemical composition is well known, how the different components organize in the volume of the cell wall and interact with each other is not well understood and yet is key to the wall’s mechanical properties. To investigate the ultrastructure of the plant cell wall, we imaged the walls of onion (Allium cepa) bulbs in a near-native state via cryo-focused ion beam milling (cryo-FIB milling) and cryo-electron tomography (cryo-ET). This allowed the high-resolution visualization of cellulose fibers in situ. We reveal the coexistence of dense fiber fields bathed in a reticulated matrix we termed “meshing,” which is more abundant at the inner surface of the cell wall. The fibers adopted a regular bimodal angular distribution at all depths in the cell wall and bundled according to their orientation, creating layers within the cell wall. Concomitantly, employing homogalacturonan (HG)-specific enzymatic digestion, we observed changes in the meshing, suggesting that it is—at least in part—composed of HG pectins. We propose the following model for the construction of the abaxial epidermal primary cell wall: the cell deposits successive layers of cellulose fibers at −45° and +45° relative to the cell’s long axis and secretes the surrounding HG-rich meshing proximal to the plasma membrane, which then migrates to more distal regions of the cell wall."}],"_id":"11351","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","intvolume":" 32","status":"public","ddc":["570"],"title":"Cryo-electron tomography of the onion cell wall shows bimodally oriented cellulose fibers and reticulated homogalacturonan networks","oa_version":"Published Version","file":[{"checksum":"af3f24d97c016d844df237abef987639","success":1,"date_created":"2022-08-05T06:29:18Z","date_updated":"2022-08-05T06:29:18Z","relation":"main_file","file_id":"11730","content_type":"application/pdf","file_size":12827717,"creator":"dernst","access_level":"open_access","file_name":"2022_CurrentBiology_Nicolas.pdf"}],"scopus_import":"1","keyword":["General Agricultural and Biological Sciences","General Biochemistry","Genetics and Molecular Biology"],"has_accepted_license":"1","article_processing_charge":"No","day":"06","citation":{"short":"W.J. Nicolas, F. Fäßler, P. Dutka, F.K. Schur, G. Jensen, E. Meyerowitz, Current Biology 32 (2022) P2375-2389.","mla":"Nicolas, William J., et al. “Cryo-Electron Tomography of the Onion Cell Wall Shows Bimodally Oriented Cellulose Fibers and Reticulated Homogalacturonan Networks.” Current Biology, vol. 32, no. 11, Elsevier, 2022, pp. P2375-2389, doi:10.1016/j.cub.2022.04.024.","chicago":"Nicolas, William J., Florian Fäßler, Przemysław Dutka, Florian KM Schur, Grant Jensen, and Elliot Meyerowitz. “Cryo-Electron Tomography of the Onion Cell Wall Shows Bimodally Oriented Cellulose Fibers and Reticulated Homogalacturonan Networks.” Current Biology. Elsevier, 2022. https://doi.org/10.1016/j.cub.2022.04.024.","ama":"Nicolas WJ, Fäßler F, Dutka P, Schur FK, Jensen G, Meyerowitz E. Cryo-electron tomography of the onion cell wall shows bimodally oriented cellulose fibers and reticulated homogalacturonan networks. Current Biology. 2022;32(11):P2375-2389. doi:10.1016/j.cub.2022.04.024","ieee":"W. J. Nicolas, F. Fäßler, P. Dutka, F. K. Schur, G. Jensen, and E. Meyerowitz, “Cryo-electron tomography of the onion cell wall shows bimodally oriented cellulose fibers and reticulated homogalacturonan networks,” Current Biology, vol. 32, no. 11. Elsevier, pp. P2375-2389, 2022.","apa":"Nicolas, W. J., Fäßler, F., Dutka, P., Schur, F. K., Jensen, G., & Meyerowitz, E. (2022). Cryo-electron tomography of the onion cell wall shows bimodally oriented cellulose fibers and reticulated homogalacturonan networks. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2022.04.024","ista":"Nicolas WJ, Fäßler F, Dutka P, Schur FK, Jensen G, Meyerowitz E. 2022. Cryo-electron tomography of the onion cell wall shows bimodally oriented cellulose fibers and reticulated homogalacturonan networks. Current Biology. 32(11), P2375-2389."},"publication":"Current Biology","page":"P2375-2389","article_type":"original","date_published":"2022-06-06T00:00:00Z","file_date_updated":"2022-08-05T06:29:18Z","pmid":1,"year":"2022","acknowledgement":"This work was supported by the Howard Hughes Medical Institute (HHMI) and grant R35 GM122588 to G.J. and the Austrian Science Fund (FWF) P33367 to F.K.M.S. We thank Noé Cochetel for his guidance and great help in data analysis, discovery, and representation with the R software. We thank Hans-Ulrich Endress for graciously providing us with the purified citrus pectin and Jozef Mravec for generating and providing the COS488 probe. Cryo-EM work was done in the Beckman Institute Resource Center for Transmission Electron Microscopy at Caltech. This article is subject to HHMI’s Open Access to Publications policy. HHMI lab heads have previously granted a nonexclusive CC BY 4.0 license to the public and a sublicensable license to HHMI in their research articles. Pursuant to those licenses, the author accepted manuscript of this article can be made freely available under a CC BY 4.0 license immediately upon publication.","department":[{"_id":"FlSc"}],"publisher":"Elsevier","publication_status":"published","author":[{"last_name":"Nicolas","first_name":"William J.","full_name":"Nicolas, William J."},{"full_name":"Fäßler, Florian","first_name":"Florian","last_name":"Fäßler","id":"404F5528-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7149-769X"},{"first_name":"Przemysław","last_name":"Dutka","full_name":"Dutka, Przemysław"},{"full_name":"Schur, Florian KM","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4790-8078","first_name":"Florian KM","last_name":"Schur"},{"last_name":"Jensen","first_name":"Grant","full_name":"Jensen, Grant"},{"last_name":"Meyerowitz","first_name":"Elliot","full_name":"Meyerowitz, Elliot"}],"volume":32,"date_created":"2022-05-04T06:22:06Z","date_updated":"2023-08-03T07:05:36Z","publication_identifier":{"issn":["0960-9822"]},"month":"06","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000822399200019"],"pmid":["35508170"]},"oa":1,"project":[{"grant_number":"P33367","_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A","name":"Structure and isoform diversity of the Arp2/3 complex"}],"isi":1,"quality_controlled":"1","doi":"10.1016/j.cub.2022.04.024","language":[{"iso":"eng"}]},{"year":"2021","acknowledgement":"We are grateful to Silvia Prettin, Ina Schleicher, and Petra Hagendorff for expert technical assistance; David Dettbarn for animal keeping and breeding; and Lothar Gröbe and Maria Höxter for cell sorting. We also thank Werner Tegge for peptides and Giorgio Scita for antibodies. This work was supported, in part, by the Deutsche Forschungsgemeinschaft (DFG), Priority Programm SPP1150 (to T.E.B.S., K.R., and M. Sixt), and by DFG grant GRK2223/1 (to K.R.). T.E.B.S. acknowledges support by the Helmholtz Society through HGF impulse fund W2/W3-066 and M. Schnoor by the Mexican Council for Science and Technology (CONACyT, 284292 ), Fund SEP-Cinvestav ( 108 ), and the Royal Society, UK (Newton Advanced Fellowship, NAF/R1/180017 ).","pmid":1,"publication_status":"published","publisher":"Elsevier","department":[{"_id":"MiSi"}],"author":[{"first_name":"Stephanie","last_name":"Stahnke","full_name":"Stahnke, Stephanie"},{"full_name":"Döring, Hermann","first_name":"Hermann","last_name":"Döring"},{"last_name":"Kusch","first_name":"Charly","full_name":"Kusch, Charly"},{"full_name":"de Gorter, David J.J.","first_name":"David J.J.","last_name":"de Gorter"},{"full_name":"Dütting, Sebastian","first_name":"Sebastian","last_name":"Dütting"},{"last_name":"Guledani","first_name":"Aleks","full_name":"Guledani, Aleks"},{"full_name":"Pleines, Irina","last_name":"Pleines","first_name":"Irina"},{"last_name":"Schnoor","first_name":"Michael","full_name":"Schnoor, Michael"},{"last_name":"Sixt","first_name":"Michael K","orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","full_name":"Sixt, Michael K"},{"full_name":"Geffers, Robert","first_name":"Robert","last_name":"Geffers"},{"full_name":"Rohde, Manfred","first_name":"Manfred","last_name":"Rohde"},{"first_name":"Mathias","last_name":"Müsken","full_name":"Müsken, Mathias"},{"first_name":"Frieda","last_name":"Kage","full_name":"Kage, Frieda"},{"last_name":"Steffen","first_name":"Anika","full_name":"Steffen, Anika"},{"last_name":"Faix","first_name":"Jan","full_name":"Faix, Jan"},{"full_name":"Nieswandt, Bernhard","first_name":"Bernhard","last_name":"Nieswandt"},{"first_name":"Klemens","last_name":"Rottner","full_name":"Rottner, Klemens"},{"full_name":"Stradal, Theresia E.B.","first_name":"Theresia E.B.","last_name":"Stradal"}],"date_updated":"2023-08-17T07:01:14Z","date_created":"2022-03-08T07:51:04Z","volume":31,"month":"05","publication_identifier":{"issn":["0960-9822"]},"oa":1,"external_id":{"isi":["000654652200002"],"pmid":["33711252"]},"main_file_link":[{"url":"https://doi.org/10.1101/2020.03.24.005835","open_access":"1"}],"quality_controlled":"1","isi":1,"doi":"10.1016/j.cub.2021.02.043","language":[{"iso":"eng"}],"type":"journal_article","abstract":[{"lang":"eng","text":"Hematopoietic-specific protein 1 (Hem1) is an essential subunit of the WAVE regulatory complex (WRC) in immune cells. WRC is crucial for Arp2/3 complex activation and the protrusion of branched actin filament networks. Moreover, Hem1 loss of function in immune cells causes autoimmune diseases in humans. Here, we show that genetic removal of Hem1 in macrophages diminishes frequency and efficacy of phagocytosis as well as phagocytic cup formation in addition to defects in lamellipodial protrusion and migration. Moreover, Hem1-null macrophages displayed strong defects in cell adhesion despite unaltered podosome formation and concomitant extracellular matrix degradation. Specifically, dynamics of both adhesion and de-adhesion as well as concomitant phosphorylation of paxillin and focal adhesion kinase (FAK) were significantly compromised. Accordingly, disruption of WRC function in non-hematopoietic cells coincided with both defects in adhesion turnover and altered FAK and paxillin phosphorylation. Consistently, platelets exhibited reduced adhesion and diminished integrin αIIbβ3 activation upon WRC removal. Interestingly, adhesion phenotypes, but not lamellipodia formation, were partially rescued by small molecule activation of FAK. A full rescue of the phenotype, including lamellipodia formation, required not only the presence of WRCs but also their binding to and activation by Rac. Collectively, our results uncover that WRC impacts on integrin-dependent processes in a FAK-dependent manner, controlling formation and dismantling of adhesions, relevant for properly grabbing onto extracellular surfaces and particles during cell edge expansion, like in migration or phagocytosis."}],"issue":"10","_id":"10834","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Loss of Hem1 disrupts macrophage function and impacts migration, phagocytosis, and integrin-mediated adhesion","status":"public","intvolume":" 31","oa_version":"Preprint","scopus_import":"1","keyword":["General Agricultural and Biological Sciences","General Biochemistry","Genetics and Molecular Biology"],"day":"24","article_processing_charge":"No","publication":"Current Biology","citation":{"ama":"Stahnke S, Döring H, Kusch C, et al. Loss of Hem1 disrupts macrophage function and impacts migration, phagocytosis, and integrin-mediated adhesion. Current Biology. 2021;31(10):2051-2064.e8. doi:10.1016/j.cub.2021.02.043","apa":"Stahnke, S., Döring, H., Kusch, C., de Gorter, D. J. J., Dütting, S., Guledani, A., … Stradal, T. E. B. (2021). Loss of Hem1 disrupts macrophage function and impacts migration, phagocytosis, and integrin-mediated adhesion. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2021.02.043","ieee":"S. Stahnke et al., “Loss of Hem1 disrupts macrophage function and impacts migration, phagocytosis, and integrin-mediated adhesion,” Current Biology, vol. 31, no. 10. Elsevier, p. 2051–2064.e8, 2021.","ista":"Stahnke S, Döring H, Kusch C, de Gorter DJJ, Dütting S, Guledani A, Pleines I, Schnoor M, Sixt MK, Geffers R, Rohde M, Müsken M, Kage F, Steffen A, Faix J, Nieswandt B, Rottner K, Stradal TEB. 2021. Loss of Hem1 disrupts macrophage function and impacts migration, phagocytosis, and integrin-mediated adhesion. Current Biology. 31(10), 2051–2064.e8.","short":"S. Stahnke, H. Döring, C. Kusch, D.J.J. de Gorter, S. Dütting, A. Guledani, I. Pleines, M. Schnoor, M.K. Sixt, R. Geffers, M. Rohde, M. Müsken, F. Kage, A. Steffen, J. Faix, B. Nieswandt, K. Rottner, T.E.B. Stradal, Current Biology 31 (2021) 2051–2064.e8.","mla":"Stahnke, Stephanie, et al. “Loss of Hem1 Disrupts Macrophage Function and Impacts Migration, Phagocytosis, and Integrin-Mediated Adhesion.” Current Biology, vol. 31, no. 10, Elsevier, 2021, p. 2051–2064.e8, doi:10.1016/j.cub.2021.02.043.","chicago":"Stahnke, Stephanie, Hermann Döring, Charly Kusch, David J.J. de Gorter, Sebastian Dütting, Aleks Guledani, Irina Pleines, et al. “Loss of Hem1 Disrupts Macrophage Function and Impacts Migration, Phagocytosis, and Integrin-Mediated Adhesion.” Current Biology. Elsevier, 2021. https://doi.org/10.1016/j.cub.2021.02.043."},"article_type":"original","page":"2051-2064.e8","date_published":"2021-05-24T00:00:00Z"},{"ec_funded":1,"file_date_updated":"2021-04-01T10:53:42Z","author":[{"first_name":"Matous","last_name":"Glanc","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","orcid":"0000-0003-0619-7783","full_name":"Glanc, Matous"},{"full_name":"Van Gelderen, K","last_name":"Van Gelderen","first_name":"K"},{"full_name":"Hörmayer, Lukas","last_name":"Hörmayer","first_name":"Lukas","orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Tan, Shutang","last_name":"Tan","first_name":"Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Naramoto","first_name":"S","full_name":"Naramoto, S"},{"orcid":"0000-0001-7048-4627","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","last_name":"Zhang","first_name":"Xixi","full_name":"Zhang, Xixi"},{"full_name":"Domjan, David","id":"C684CD7A-257E-11EA-9B6F-D8588B4F947F","orcid":"0000-0003-2267-106X","first_name":"David","last_name":"Domjan"},{"full_name":"Vcelarova, L","first_name":"L","last_name":"Vcelarova"},{"full_name":"Hauschild, Robert","first_name":"Robert","last_name":"Hauschild","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9843-3522"},{"full_name":"Johnson, Alexander J","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","first_name":"Alexander J","last_name":"Johnson"},{"full_name":"de Koning, E","last_name":"de Koning","first_name":"E"},{"full_name":"van Dop, M","first_name":"M","last_name":"van Dop"},{"full_name":"Rademacher, E","last_name":"Rademacher","first_name":"E"},{"last_name":"Janson","first_name":"S","full_name":"Janson, S"},{"first_name":"X","last_name":"Wei","full_name":"Wei, X"},{"id":"34F1AF46-F248-11E8-B48F-1D18A9856A87","last_name":"Molnar","first_name":"Gergely","full_name":"Molnar, Gergely"},{"first_name":"Matyas","last_name":"Fendrych","id":"43905548-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9767-8699","full_name":"Fendrych, Matyas"},{"last_name":"De Rybel","first_name":"B","full_name":"De Rybel, B"},{"last_name":"Offringa","first_name":"R","full_name":"Offringa, R"},{"last_name":"Friml","first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"}],"volume":31,"date_updated":"2023-09-05T13:03:34Z","date_created":"2021-03-26T12:09:33Z","pmid":1,"acknowledgement":"We acknowledge Ben Scheres, Christian Luschnig, and Claus Schwechheimer for sharing published material. We thank Monika Hrtyan and Dorota Jaworska at IST Austria and Gerda Lamers and Ward de Winter at IBL Netherlands for technical assistance; Corinna Hartinger, Jakub Hajný, Lesia Rodriguez, Mingyue Li, and Lindy Abas for experimental support; and the Bioimaging Facility at IST Austria and the Bioimaging Core at VIB for imaging support. We are grateful to Christian Luschnig, Lindy Abas, and Roman Pleskot for valuable discussions. We also acknowledge the EMBO for supporting M.G. with a long-term fellowship ( ALTF 1005-2019 ) during the finalization and revision of this manuscript in the laboratory of B.D.R., and we thank R. Pierik for allowing K.V.G. to work on this manuscript during a postdoc in his laboratory at Utrecht University. This work was supported by grants from the European Research Council under the European Union’s Seventh Framework Programme (ERC grant agreements 742985 to J.F., 714055 to B.D.R., and 803048 to M.F.), the Austrian Science Fund (FWF; I 3630-B25 to J.F.), Chemical Sciences (partly) financed by the Dutch Research Council (NWO-CW TOP 700.58.301 to R.O.), the Dutch Research Council (NWO-VICI 865.17.002 to R. Pierik), Grants-in-Aid from the Ministry of Education, Culture, Sports, Science and Technology, Japan (KAKENHI grant 17K17595 to S.N.), the Ministry of Education, Youth and Sports of the Czech Republic (MŠMT project NPUI-LO1417 ), and a China Scholarship Council (to X.W.).","year":"2021","publisher":"Elsevier","department":[{"_id":"JiFr"}],"publication_status":"published","publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"month":"03","doi":"10.1016/j.cub.2021.02.028","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"external_id":{"isi":["000653077800004"],"pmid":["33705718"]},"oa":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"isi":1,"quality_controlled":"1","issue":"9","abstract":[{"lang":"eng","text":"Polar subcellular localization of the PIN exporters of the phytohormone auxin is a key determinant of directional, intercellular auxin transport and thus a central topic of both plant cell and developmental biology. Arabidopsis mutants lacking PID, a kinase that phosphorylates PINs, or the MAB4/MEL proteins of unknown molecular function display PIN polarity defects and phenocopy pin mutants, but mechanistic insights into how these factors convey PIN polarity are missing. Here, by combining protein biochemistry with quantitative live-cell imaging, we demonstrate that PINs, MAB4/MELs, and AGC kinases interact in the same complex at the plasma membrane. MAB4/MELs are recruited to the plasma membrane by the PINs and in concert with the AGC kinases maintain PIN polarity through limiting lateral diffusion-based escape of PINs from the polar domain. The PIN-MAB4/MEL-PID protein complex has self-reinforcing properties thanks to positive feedback between AGC kinase-mediated PIN phosphorylation and MAB4/MEL recruitment. We thus uncover the molecular mechanism by which AGC kinases and MAB4/MEL proteins regulate PIN localization and plant development."}],"type":"journal_article","file":[{"checksum":"b1723040ecfd8c81194185472eb62546","success":1,"date_updated":"2021-04-01T10:53:42Z","date_created":"2021-04-01T10:53:42Z","relation":"main_file","file_id":"9303","content_type":"application/pdf","file_size":4324371,"creator":"dernst","access_level":"open_access","file_name":"2021_CurrentBiology_Glanc.pdf"}],"oa_version":"Published Version","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"9290","intvolume":" 31","title":"AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells","status":"public","ddc":["580"],"article_processing_charge":"No","has_accepted_license":"1","day":"10","date_published":"2021-03-10T00:00:00Z","citation":{"ista":"Glanc M, Van Gelderen K, Hörmayer L, Tan S, Naramoto S, Zhang X, Domjan D, Vcelarova L, Hauschild R, Johnson AJ, de Koning E, van Dop M, Rademacher E, Janson S, Wei X, Molnar G, Fendrych M, De Rybel B, Offringa R, Friml J. 2021. AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. Current Biology. 31(9), 1918–1930.","ieee":"M. Glanc et al., “AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells,” Current Biology, vol. 31, no. 9. Elsevier, pp. 1918–1930, 2021.","apa":"Glanc, M., Van Gelderen, K., Hörmayer, L., Tan, S., Naramoto, S., Zhang, X., … Friml, J. (2021). AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2021.02.028","ama":"Glanc M, Van Gelderen K, Hörmayer L, et al. AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. Current Biology. 2021;31(9):1918-1930. doi:10.1016/j.cub.2021.02.028","chicago":"Glanc, Matous, K Van Gelderen, Lukas Hörmayer, Shutang Tan, S Naramoto, Xixi Zhang, David Domjan, et al. “AGC Kinases and MAB4/MEL Proteins Maintain PIN Polarity by Limiting Lateral Diffusion in Plant Cells.” Current Biology. Elsevier, 2021. https://doi.org/10.1016/j.cub.2021.02.028.","mla":"Glanc, Matous, et al. “AGC Kinases and MAB4/MEL Proteins Maintain PIN Polarity by Limiting Lateral Diffusion in Plant Cells.” Current Biology, vol. 31, no. 9, Elsevier, 2021, pp. 1918–30, doi:10.1016/j.cub.2021.02.028.","short":"M. Glanc, K. Van Gelderen, L. Hörmayer, S. Tan, S. Naramoto, X. Zhang, D. Domjan, L. Vcelarova, R. Hauschild, A.J. Johnson, E. de Koning, M. van Dop, E. Rademacher, S. Janson, X. Wei, G. Molnar, M. Fendrych, B. De Rybel, R. Offringa, J. Friml, Current Biology 31 (2021) 1918–1930."},"publication":"Current Biology","page":"1918-1930","article_type":"original"},{"day":"11","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","publication":"Current Biology","citation":{"chicago":"Marquès-Bueno, MM, L Armengot, LC Noack, J Bareille, Lesia Rodriguez Solovey, MP Platre, V Bayle, et al. “Auxin-Regulated Reversible Inhibition of TMK1 Signaling by MAKR2 Modulates the Dynamics of Root Gravitropism.” Current Biology. Elsevier, 2021. https://doi.org/10.1016/j.cub.2020.10.011.","mla":"Marquès-Bueno, MM, et al. “Auxin-Regulated Reversible Inhibition of TMK1 Signaling by MAKR2 Modulates the Dynamics of Root Gravitropism.” Current Biology, vol. 31, no. 1, Elsevier, 2021, doi:10.1016/j.cub.2020.10.011.","short":"M. Marquès-Bueno, L. Armengot, L. Noack, J. Bareille, L. Rodriguez Solovey, M. Platre, V. Bayle, M. Liu, D. Opdenacker, S. Vanneste, B. Möller, Z. Nimchuk, T. Beeckman, A. Caño-Delgado, J. Friml, Y. Jaillais, Current Biology 31 (2021).","ista":"Marquès-Bueno M, Armengot L, Noack L, Bareille J, Rodriguez Solovey L, Platre M, Bayle V, Liu M, Opdenacker D, Vanneste S, Möller B, Nimchuk Z, Beeckman T, Caño-Delgado A, Friml J, Jaillais Y. 2021. Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. Current Biology. 31(1).","ieee":"M. Marquès-Bueno et al., “Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism,” Current Biology, vol. 31, no. 1. Elsevier, 2021.","apa":"Marquès-Bueno, M., Armengot, L., Noack, L., Bareille, J., Rodriguez Solovey, L., Platre, M., … Jaillais, Y. (2021). Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2020.10.011","ama":"Marquès-Bueno M, Armengot L, Noack L, et al. Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. Current Biology. 2021;31(1). doi:10.1016/j.cub.2020.10.011"},"article_type":"original","date_published":"2021-01-11T00:00:00Z","type":"journal_article","abstract":[{"lang":"eng","text":"Plants are able to orient their growth according to gravity, which ultimately controls both shoot and root architecture.1 Gravitropism is a dynamic process whereby gravistimulation induces the asymmetric distribution of the plant hormone auxin, leading to asymmetric growth, organ bending, and subsequent reset of auxin distribution back to the original pre-gravistimulation situation.1, 2, 3 Differential auxin accumulation during the gravitropic response depends on the activity of polarly localized PIN-FORMED (PIN) auxin-efflux carriers.1, 2, 3, 4 In particular, the timing of this dynamic response is regulated by PIN2,5,6 but the underlying molecular mechanisms are poorly understood. Here, we show that MEMBRANE ASSOCIATED KINASE REGULATOR2 (MAKR2) controls the pace of the root gravitropic response. We found that MAKR2 is required for the PIN2 asymmetry during gravitropism by acting as a negative regulator of the cell-surface signaling mediated by the receptor-like kinase TRANSMEMBRANE KINASE1 (TMK1).2,7, 8, 9, 10 Furthermore, we show that the MAKR2 inhibitory effect on TMK1 signaling is antagonized by auxin itself, which triggers rapid MAKR2 membrane dissociation in a TMK1-dependent manner. Our findings suggest that the timing of the root gravitropic response is orchestrated by the reversible inhibition of the TMK1 signaling pathway at the cell surface."}],"issue":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"8824","title":"Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism","ddc":["570"],"status":"public","intvolume":" 31","oa_version":"Published Version","file":[{"access_level":"open_access","file_name":"2021_CurrentBiology_MarquesBueno.pdf","creator":"dernst","file_size":3458646,"content_type":"application/pdf","file_id":"9090","relation":"main_file","success":1,"checksum":"30b3393d841fb2b1e2b22fb42b5c8fff","date_created":"2021-02-04T11:37:50Z","date_updated":"2021-02-04T11:37:50Z"}],"month":"01","publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"external_id":{"pmid":["33157019"],"isi":["000614361000039"]},"quality_controlled":"1","isi":1,"doi":"10.1016/j.cub.2020.10.011","language":[{"iso":"eng"}],"file_date_updated":"2021-02-04T11:37:50Z","year":"2021","acknowledgement":"We thank the SiCE group for discussions and comments; S. Yalovsky, B. Scheres, and the NASC/ABRC collection for providing transgenic Arabidopsis lines and plasmids; L. Kalmbach and M. Barberon for the gift of pLOK180_pFR7m34GW; A. Lacroix, J. Berger, and P. Bolland for plant care; and M. Fendrych for help with microfluidics in the J.F. lab. We acknowledge\r\nthe contribution of the SFR Biosciences (UMS3444/CNRS, US8/Inser m, ENS de Lyon, UCBL) facilities: C. Lionet, E. Chatre, and J. Brocard at LBIPLATIM-MICROSCOPY for assistance with imaging, and V. GuegenChaignon and A. Page at the Protein Science Facility (PSF) for assistance with protein purification and mass spectrometry. Y.J. was funded by ERC\r\ngrant 3363360-APPL under FP/2007–2013. Y.J. and Z.L.N. were funded by an ANR- and NSF-supported ERA-CAPS project (SICOPID: ANR-17-CAPS0003-01/NSF PGRP IOS-1841917). A.I.C.-D. is funded by an ERC consolidator grant (ERC-2015-CoG–683163) and BIO2016-78955 grant from the Spanish Ministry of Economy and Competitiveness. Exchanges between the Y.J. and T.B. laboratories were funded by Tournesol grant 35656NB. B.K.M. was\r\nfunded by the Omics@vib Marie Curie COFUND and Research Foundation Flanders for a postdoctoral fellowship.","pmid":1,"publication_status":"published","publisher":"Elsevier","department":[{"_id":"JiFr"}],"author":[{"last_name":"Marquès-Bueno","first_name":"MM","full_name":"Marquès-Bueno, MM"},{"full_name":"Armengot, L","last_name":"Armengot","first_name":"L"},{"full_name":"Noack, LC","first_name":"LC","last_name":"Noack"},{"full_name":"Bareille, J","last_name":"Bareille","first_name":"J"},{"full_name":"Rodriguez Solovey, Lesia","first_name":"Lesia","last_name":"Rodriguez Solovey","id":"3922B506-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7244-7237"},{"full_name":"Platre, MP","first_name":"MP","last_name":"Platre"},{"full_name":"Bayle, V","last_name":"Bayle","first_name":"V"},{"full_name":"Liu, M","last_name":"Liu","first_name":"M"},{"full_name":"Opdenacker, D","first_name":"D","last_name":"Opdenacker"},{"last_name":"Vanneste","first_name":"S","full_name":"Vanneste, S"},{"first_name":"BK","last_name":"Möller","full_name":"Möller, BK"},{"full_name":"Nimchuk, ZL","first_name":"ZL","last_name":"Nimchuk"},{"last_name":"Beeckman","first_name":"T","full_name":"Beeckman, T"},{"full_name":"Caño-Delgado, AI","first_name":"AI","last_name":"Caño-Delgado"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří"},{"last_name":"Jaillais","first_name":"Y","full_name":"Jaillais, Y"}],"date_created":"2020-12-01T13:39:46Z","date_updated":"2023-09-05T13:03:15Z","volume":31},{"acknowledgement":"We thank Gregory Copenhaver (University of North Carolina), Avraham Levy (The Weizmann Institute), and Scott Poethig (University of Pennsylvania) for FTLs; Piotr Ziolkowski for Col-420/Bur seed; Sureshkumar Balasubramanian\r\n(Monash University) for providing British and Irish Arabidopsis accessions; Mathilde Grelon (INRA, Versailles) for providing the MLH1 antibody; and the Gurdon Institute for access to microscopes. This work was supported by a BBSRC DTP studentship (E.J.L.), European Research Area Network for Coordinating Action in Plant Sciences/BBSRC ‘‘DeCOP’’ (BB/M004937/1; C.L.), a BBSRC David Phillips Fellowship (BB/L025043/1; H.G. and X.F.), the European Research Council (CoG ‘‘SynthHotspot,’’ A.J.T., C.L., and I.R.H.; StG ‘‘SexMeth,’’ X.F.), and a Sainsbury Charitable Foundation Studentship (A.R.B.).","year":"2019","pmid":1,"publication_status":"published","publisher":"Elsevier BV","department":[{"_id":"XiFe"}],"author":[{"last_name":"Lawrence","first_name":"Emma J.","full_name":"Lawrence, Emma J."},{"full_name":"Gao, Hongbo","last_name":"Gao","first_name":"Hongbo"},{"full_name":"Tock, Andrew J.","last_name":"Tock","first_name":"Andrew J."},{"full_name":"Lambing, Christophe","last_name":"Lambing","first_name":"Christophe"},{"full_name":"Blackwell, Alexander R.","last_name":"Blackwell","first_name":"Alexander R."},{"id":"e0164712-22ee-11ed-b12a-d80fcdf35958","orcid":"0000-0002-4008-1234","first_name":"Xiaoqi","last_name":"Feng","full_name":"Feng, Xiaoqi"},{"full_name":"Henderson, Ian R.","last_name":"Henderson","first_name":"Ian R."}],"date_created":"2023-01-16T09:16:33Z","date_updated":"2023-05-08T10:54:54Z","volume":29,"extern":"1","external_id":{"pmid":["31378616"]},"quality_controlled":"1","doi":"10.1016/j.cub.2019.06.084","language":[{"iso":"eng"}],"month":"08","publication_identifier":{"issn":["0960-9822"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"12190","title":"Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis","status":"public","intvolume":" 29","oa_version":"None","type":"journal_article","abstract":[{"lang":"eng","text":"Meiotic crossover frequency varies within genomes, which influences genetic diversity and adaptation. In turn, genetic variation within populations can act to modify crossover frequency in cis and trans. To identify genetic variation that controls meiotic crossover frequency, we screened Arabidopsis accessions using fluorescent recombination reporters. We mapped a genetic modifier of crossover frequency in Col × Bur populations of Arabidopsis to a premature stop codon within TBP-ASSOCIATED FACTOR 4b (TAF4b), which encodes a subunit of the RNA polymerase II general transcription factor TFIID. The Arabidopsis taf4b mutation is a rare variant found in the British Isles, originating in South-West Ireland. Using genetics, genomics, and immunocytology, we demonstrate a genome-wide decrease in taf4b crossovers, with strongest reduction in the sub-telomeric regions. Using RNA sequencing (RNA-seq) from purified meiocytes, we show that TAF4b expression is meiocyte enriched, whereas its paralog TAF4 is broadly expressed. Consistent with the role of TFIID in promoting gene expression, RNA-seq of wild-type and taf4b meiocytes identified widespread transcriptional changes, including in genes that regulate the meiotic cell cycle and recombination. Therefore, TAF4b duplication is associated with acquisition of meiocyte-specific expression and promotion of germline transcription, which act directly or indirectly to elevate crossovers. This identifies a novel mode of meiotic recombination control via a general transcription factor."}],"issue":"16","publication":"Current Biology","citation":{"ama":"Lawrence EJ, Gao H, Tock AJ, et al. Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis. Current Biology. 2019;29(16):2676-2686.e3. doi:10.1016/j.cub.2019.06.084","ista":"Lawrence EJ, Gao H, Tock AJ, Lambing C, Blackwell AR, Feng X, Henderson IR. 2019. Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis. Current Biology. 29(16), 2676–2686.e3.","apa":"Lawrence, E. J., Gao, H., Tock, A. J., Lambing, C., Blackwell, A. R., Feng, X., & Henderson, I. R. (2019). Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis. Current Biology. Elsevier BV. https://doi.org/10.1016/j.cub.2019.06.084","ieee":"E. J. Lawrence et al., “Natural variation in TBP-ASSOCIATED FACTOR 4b controls meiotic crossover and germline transcription in Arabidopsis,” Current Biology, vol. 29, no. 16. Elsevier BV, p. 2676–2686.e3, 2019.","mla":"Lawrence, Emma J., et al. “Natural Variation in TBP-ASSOCIATED FACTOR 4b Controls Meiotic Crossover and Germline Transcription in Arabidopsis.” Current Biology, vol. 29, no. 16, Elsevier BV, 2019, p. 2676–2686.e3, doi:10.1016/j.cub.2019.06.084.","short":"E.J. Lawrence, H. Gao, A.J. Tock, C. Lambing, A.R. Blackwell, X. Feng, I.R. Henderson, Current Biology 29 (2019) 2676–2686.e3.","chicago":"Lawrence, Emma J., Hongbo Gao, Andrew J. Tock, Christophe Lambing, Alexander R. Blackwell, Xiaoqi Feng, and Ian R. Henderson. “Natural Variation in TBP-ASSOCIATED FACTOR 4b Controls Meiotic Crossover and Germline Transcription in Arabidopsis.” Current Biology. Elsevier BV, 2019. https://doi.org/10.1016/j.cub.2019.06.084."},"article_type":"original","page":"2676-2686.e3","date_published":"2019-08-19T00:00:00Z","scopus_import":"1","keyword":["General Agricultural and Biological Sciences","General Biochemistry","Genetics and Molecular Biology"],"day":"19","article_processing_charge":"No"},{"issue":"20","type":"journal_article","oa_version":"None","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"6979","title":"Gut homeostasis: Active migration of intestinal epithelial cells in tissue renewal","status":"public","intvolume":" 29","day":"21","article_processing_charge":"No","scopus_import":"1","date_published":"2019-10-21T00:00:00Z","publication":"Current Biology","citation":{"chicago":"Kopf, Aglaja, and Michael K Sixt. “Gut Homeostasis: Active Migration of Intestinal Epithelial Cells in Tissue Renewal.” Current Biology. Cell Press, 2019. https://doi.org/10.1016/j.cub.2019.08.068.","mla":"Kopf, Aglaja, and Michael K. Sixt. “Gut Homeostasis: Active Migration of Intestinal Epithelial Cells in Tissue Renewal.” Current Biology, vol. 29, no. 20, Cell Press, 2019, pp. R1091–93, doi:10.1016/j.cub.2019.08.068.","short":"A. Kopf, M.K. Sixt, Current Biology 29 (2019) R1091–R1093.","ista":"Kopf A, Sixt MK. 2019. Gut homeostasis: Active migration of intestinal epithelial cells in tissue renewal. Current Biology. 29(20), R1091–R1093.","ieee":"A. Kopf and M. K. Sixt, “Gut homeostasis: Active migration of intestinal epithelial cells in tissue renewal,” Current Biology, vol. 29, no. 20. Cell Press, pp. R1091–R1093, 2019.","apa":"Kopf, A., & Sixt, M. K. (2019). Gut homeostasis: Active migration of intestinal epithelial cells in tissue renewal. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2019.08.068","ama":"Kopf A, Sixt MK. Gut homeostasis: Active migration of intestinal epithelial cells in tissue renewal. 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Elsevier, 2015. https://doi.org/10.1016/j.cub.2015.02.033.","mla":"Hatch, Emily M., and Martin Hetzer. “Chromothripsis.” Current Biology, vol. 25, no. 10, Elsevier, 2015, pp. PR397-R399, doi:10.1016/j.cub.2015.02.033.","short":"E.M. Hatch, M. Hetzer, Current Biology 25 (2015) PR397-R399.","ista":"Hatch EM, Hetzer M. 2015. Chromothripsis. Current Biology. 25(10), PR397-R399.","ieee":"E. M. Hatch and M. Hetzer, “Chromothripsis,” Current Biology, vol. 25, no. 10. Elsevier, pp. PR397-R399, 2015.","apa":"Hatch, E. M., & Hetzer, M. (2015). Chromothripsis. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2015.02.033","ama":"Hatch EM, Hetzer M. Chromothripsis. Current Biology. 2015;25(10):PR397-R399. doi:10.1016/j.cub.2015.02.033"},"article_type":"original","page":"PR397-R399","date_published":"2015-05-18T00:00:00Z","scopus_import":"1","keyword":["General Agricultural and Biological Sciences","General Biochemistry","Genetics and Molecular Biology"],"day":"18","article_processing_charge":"No"},{"type":"journal_article","abstract":[{"text":"Cytosine methylation is an ancient process with conserved enzymology but diverse biological functions that include defense against transposable elements and regulation of gene expression. Here we will discuss the evolution and biological significance of eukaryotic DNA methylation, the likely drivers of that evolution, and major remaining mysteries.","lang":"eng"}],"issue":"17","_id":"9489","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","status":"public","title":"Evolution of eukaryotic DNA methylation and the pursuit of safer sex","intvolume":" 20","oa_version":"Published Version","scopus_import":"1","day":"14","article_processing_charge":"No","publication":"Current Biology","citation":{"chicago":"Zemach, Assaf, and Daniel Zilberman. “Evolution of Eukaryotic DNA Methylation and the Pursuit of Safer Sex.” Current Biology. Elsevier, 2010. https://doi.org/10.1016/j.cub.2010.07.007.","short":"A. Zemach, D. Zilberman, Current Biology 20 (2010) R780–R785.","mla":"Zemach, Assaf, and Daniel Zilberman. “Evolution of Eukaryotic DNA Methylation and the Pursuit of Safer Sex.” Current Biology, vol. 20, no. 17, Elsevier, 2010, pp. R780–85, doi:10.1016/j.cub.2010.07.007.","apa":"Zemach, A., & Zilberman, D. (2010). Evolution of eukaryotic DNA methylation and the pursuit of safer sex. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2010.07.007","ieee":"A. Zemach and D. Zilberman, “Evolution of eukaryotic DNA methylation and the pursuit of safer sex,” Current Biology, vol. 20, no. 17. Elsevier, pp. R780–R785, 2010.","ista":"Zemach A, Zilberman D. 2010. Evolution of eukaryotic DNA methylation and the pursuit of safer sex. Current Biology. 20(17), R780–R785.","ama":"Zemach A, Zilberman D. Evolution of eukaryotic DNA methylation and the pursuit of safer sex. 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E.B.","full_name":"Kruuk, Loeske. E.B."}],"intvolume":" 18","publisher":"Elsevier","publication_status":"published","status":"public","title":"Environmental heterogeneity generates fluctuating selection on a secondary sexual trait","year":"2008","_id":"7752","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","extern":"1","issue":"10","type":"journal_article","language":[{"iso":"eng"}],"doi":"10.1016/j.cub.2008.04.059","date_published":"2008-05-20T00:00:00Z","page":"751-757","quality_controlled":"1","article_type":"original","citation":{"chicago":"Robinson, Matthew Richard, Jill G. Pilkington, Tim H. Clutton-Brock, Josephine M. Pemberton, and Loeske. E.B. Kruuk. “Environmental Heterogeneity Generates Fluctuating Selection on a Secondary Sexual Trait.” Current Biology. Elsevier, 2008. https://doi.org/10.1016/j.cub.2008.04.059.","short":"M.R. Robinson, J.G. Pilkington, T.H. Clutton-Brock, J.M. Pemberton, L.E.B. Kruuk, Current Biology 18 (2008) 751–757.","mla":"Robinson, Matthew Richard, et al. “Environmental Heterogeneity Generates Fluctuating Selection on a Secondary Sexual Trait.” Current Biology, vol. 18, no. 10, Elsevier, 2008, pp. 751–57, doi:10.1016/j.cub.2008.04.059.","ieee":"M. R. Robinson, J. G. Pilkington, T. H. Clutton-Brock, J. M. Pemberton, and L. E. B. Kruuk, “Environmental heterogeneity generates fluctuating selection on a secondary sexual trait,” Current Biology, vol. 18, no. 10. Elsevier, pp. 751–757, 2008.","apa":"Robinson, M. R., Pilkington, J. G., Clutton-Brock, T. H., Pemberton, J. M., & Kruuk, L. E. B. (2008). Environmental heterogeneity generates fluctuating selection on a secondary sexual trait. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2008.04.059","ista":"Robinson MR, Pilkington JG, Clutton-Brock TH, Pemberton JM, Kruuk LEB. 2008. Environmental heterogeneity generates fluctuating selection on a secondary sexual trait. 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L., MacNeil, L. T., Wang, H., de Bono, M., Wrana, J. L., & Padgett, R. W. (2007). Glypican LON-2 is a conserved negative regulator of BMP-like signaling in Caenorhabditis elegans. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2006.11.065","ieee":"T. L. Gumienny, L. T. MacNeil, H. Wang, M. de Bono, J. L. Wrana, and R. W. Padgett, “Glypican LON-2 is a conserved negative regulator of BMP-like signaling in Caenorhabditis elegans,” Current Biology, vol. 17, no. 2. Elsevier, pp. 159–164, 2007.","ista":"Gumienny TL, MacNeil LT, Wang H, de Bono M, Wrana JL, Padgett RW. 2007. Glypican LON-2 is a conserved negative regulator of BMP-like signaling in Caenorhabditis elegans. Current Biology. 17(2), 159–164.","ama":"Gumienny TL, MacNeil LT, Wang H, de Bono M, Wrana JL, Padgett RW. Glypican LON-2 is a conserved negative regulator of BMP-like signaling in Caenorhabditis elegans. Current Biology. 2007;17(2):159-164. doi:10.1016/j.cub.2006.11.065","chicago":"Gumienny, Tina L., Lesley T. MacNeil, Huang Wang, Mario de Bono, Jeffrey L. Wrana, and Richard W. Padgett. “Glypican LON-2 Is a Conserved Negative Regulator of BMP-like Signaling in Caenorhabditis Elegans.” Current Biology. Elsevier, 2007. https://doi.org/10.1016/j.cub.2006.11.065.","short":"T.L. Gumienny, L.T. MacNeil, H. Wang, M. de Bono, J.L. Wrana, R.W. Padgett, Current Biology 17 (2007) 159–164.","mla":"Gumienny, Tina L., et al. “Glypican LON-2 Is a Conserved Negative Regulator of BMP-like Signaling in Caenorhabditis Elegans.” Current Biology, vol. 17, no. 2, Elsevier, 2007, pp. 159–64, doi:10.1016/j.cub.2006.11.065."},"month":"01","day":"23","publication_identifier":{"issn":["0960-9822"]}},{"date_published":"2006-04-04T00:00:00Z","doi":"10.1016/j.cub.2006.03.023","language":[{"iso":"eng"}],"external_id":{"pmid":["16581509"]},"citation":{"chicago":"Rogers, Candida, Annelie Persson, Benny Cheung, and Mario de Bono. “Behavioral Motifs and Neural Pathways Coordinating O2 Responses and Aggregation in C. Elegans.” Current Biology. Elsevier, 2006. https://doi.org/10.1016/j.cub.2006.03.023.","short":"C. Rogers, A. Persson, B. Cheung, M. de Bono, Current Biology 16 (2006) 649–659.","mla":"Rogers, Candida, et al. “Behavioral Motifs and Neural Pathways Coordinating O2 Responses and Aggregation in C. Elegans.” Current Biology, vol. 16, no. 7, Elsevier, 2006, pp. 649–59, doi:10.1016/j.cub.2006.03.023.","ieee":"C. Rogers, A. Persson, B. Cheung, and M. de Bono, “Behavioral motifs and neural pathways coordinating O2 responses and aggregation in C. elegans,” Current Biology, vol. 16, no. 7. Elsevier, pp. 649–659, 2006.","apa":"Rogers, C., Persson, A., Cheung, B., & de Bono, M. (2006). Behavioral motifs and neural pathways coordinating O2 responses and aggregation in C. elegans. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2006.03.023","ista":"Rogers C, Persson A, Cheung B, de Bono M. 2006. Behavioral motifs and neural pathways coordinating O2 responses and aggregation in C. elegans. 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Elegans Behavior by Ambient Oxygen.” Current Biology. Elsevier, 2005. https://doi.org/10.1016/j.cub.2005.04.017.","mla":"Cheung, Benny H. H., et al. “Experience-Dependent Modulation of C. Elegans Behavior by Ambient Oxygen.” Current Biology, vol. 15, no. 10, Elsevier, 2005, pp. 905–17, doi:10.1016/j.cub.2005.04.017.","short":"B.H.H. Cheung, M. Cohen, C. Rogers, O. Albayram, M. de Bono, Current Biology 15 (2005) 905–917.","ista":"Cheung BHH, Cohen M, Rogers C, Albayram O, de Bono M. 2005. Experience-dependent modulation of C. elegans behavior by ambient oxygen. Current Biology. 15(10), 905–917.","apa":"Cheung, B. H. H., Cohen, M., Rogers, C., Albayram, O., & de Bono, M. (2005). Experience-dependent modulation of C. elegans behavior by ambient oxygen. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2005.04.017","ieee":"B. H. H. Cheung, M. Cohen, C. Rogers, O. Albayram, and M. de Bono, “Experience-dependent modulation of C. elegans behavior by ambient oxygen,” Current Biology, vol. 15, no. 10. Elsevier, pp. 905–917, 2005.","ama":"Cheung BHH, Cohen M, Rogers C, Albayram O, de Bono M. Experience-dependent modulation of C. elegans behavior by ambient oxygen. Current Biology. 2005;15(10):905-917. doi:10.1016/j.cub.2005.04.017"},"external_id":{"pmid":["15916947"]},"quality_controlled":"1","page":"905-917"},{"scopus_import":"1","article_processing_charge":"No","day":"26","page":"154-159","article_type":"original","citation":{"mla":"Tran, Robert K., et al. “DNA Methylation Profiling Identifies CG Methylation Clusters in Arabidopsis Genes.” Current Biology, vol. 15, no. 2, Elsevier, 2005, pp. 154–59, doi:10.1016/j.cub.2005.01.008.","short":"R.K. Tran, J.G. Henikoff, D. Zilberman, R.F. Ditt, S.E. Jacobsen, S. Henikoff, Current Biology 15 (2005) 154–159.","chicago":"Tran, Robert K., Jorja G. Henikoff, Daniel Zilberman, Renata F. Ditt, Steven E. Jacobsen, and Steven Henikoff. “DNA Methylation Profiling Identifies CG Methylation Clusters in Arabidopsis Genes.” Current Biology. Elsevier, 2005. https://doi.org/10.1016/j.cub.2005.01.008.","ama":"Tran RK, Henikoff JG, Zilberman D, Ditt RF, Jacobsen SE, Henikoff S. DNA methylation profiling identifies CG methylation clusters in Arabidopsis genes. Current Biology. 2005;15(2):154-159. doi:10.1016/j.cub.2005.01.008","ista":"Tran RK, Henikoff JG, Zilberman D, Ditt RF, Jacobsen SE, Henikoff S. 2005. DNA methylation profiling identifies CG methylation clusters in Arabidopsis genes. Current Biology. 15(2), 154–159.","apa":"Tran, R. K., Henikoff, J. G., Zilberman, D., Ditt, R. F., Jacobsen, S. E., & Henikoff, S. (2005). DNA methylation profiling identifies CG methylation clusters in Arabidopsis genes. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2005.01.008","ieee":"R. K. Tran, J. G. Henikoff, D. Zilberman, R. F. Ditt, S. E. Jacobsen, and S. Henikoff, “DNA methylation profiling identifies CG methylation clusters in Arabidopsis genes,” Current Biology, vol. 15, no. 2. Elsevier, pp. 154–159, 2005."},"publication":"Current Biology","date_published":"2005-01-26T00:00:00Z","type":"journal_article","issue":"2","abstract":[{"text":"Cytosine DNA methylation in vertebrates is widespread, but methylation in plants is found almost exclusively at transposable elements and repetitive DNA [1]. Within regions of methylation, methylcytosines are typically found in CG, CNG, and asymmetric contexts. CG sites are maintained by a plant homolog of mammalian Dnmt1 acting on hemi-methylated DNA after replication. Methylation of CNG and asymmetric sites appears to be maintained at each cell cycle by other mechanisms. We report a new type of DNA methylation in Arabidopsis, dense CG methylation clusters found at scattered sites throughout the genome. These clusters lack non-CG methylation and are preferentially found in genes, although they are relatively deficient toward the 5′ end. CG methylation clusters are present in lines derived from different accessions and in mutants that eliminate de novo methylation, indicating that CG methylation clusters are stably maintained at specific sites. Because 5-methylcytosine is mutagenic, the appearance of CG methylation clusters over evolutionary time predicts a genome-wide deficiency of CG dinucleotides and an excess of C(A/T)G trinucleotides within transcribed regions. This is exactly what we find, implying that CG methylation clusters have contributed profoundly to plant gene evolution. We suggest that CG methylation clusters silence cryptic promoters that arise sporadically within transcription units.","lang":"eng"}],"intvolume":" 15","status":"public","title":"DNA methylation profiling identifies CG methylation clusters in Arabidopsis genes","_id":"9491","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","oa_version":"Published Version","publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"month":"01","quality_controlled":"1","oa":1,"main_file_link":[{"url":"https://doi.org/10.1016/j.cub.2005.01.008","open_access":"1"}],"external_id":{"pmid":["15668172 "]},"language":[{"iso":"eng"}],"doi":"10.1016/j.cub.2005.01.008","extern":"1","publisher":"Elsevier","department":[{"_id":"DaZi"}],"publication_status":"published","pmid":1,"year":"2005","volume":15,"date_updated":"2021-12-14T09:12:26Z","date_created":"2021-06-07T10:24:30Z","author":[{"full_name":"Tran, Robert K.","first_name":"Robert K.","last_name":"Tran"},{"full_name":"Henikoff, Jorja G.","first_name":"Jorja G.","last_name":"Henikoff"},{"full_name":"Zilberman, Daniel","last_name":"Zilberman","first_name":"Daniel","orcid":"0000-0002-0123-8649","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1"},{"first_name":"Renata F.","last_name":"Ditt","full_name":"Ditt, Renata F."},{"first_name":"Steven E.","last_name":"Jacobsen","full_name":"Jacobsen, Steven E."},{"first_name":"Steven","last_name":"Henikoff","full_name":"Henikoff, Steven"}]},{"publisher":"Elsevier","intvolume":" 14","status":"public","title":"Soluble guanylate cyclases act in neurons exposed to the body fluid to promote C. elegans aggregation behavior","publication_status":"published","pmid":1,"_id":"6155","year":"2004","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","oa_version":"None","volume":14,"date_created":"2019-03-21T09:42:01Z","date_updated":"2021-01-12T08:06:25Z","author":[{"last_name":"Cheung","first_name":"Benny H.H","full_name":"Cheung, Benny H.H"},{"full_name":"Arellano-Carbajal, Fausto","last_name":"Arellano-Carbajal","first_name":"Fausto"},{"last_name":"Rybicki","first_name":"Irene","full_name":"Rybicki, Irene"},{"id":"4E3FF80E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8347-0443","first_name":"Mario","last_name":"de Bono","full_name":"de Bono, Mario"}],"type":"journal_article","extern":"1","issue":"12","abstract":[{"lang":"eng","text":"The genome of the nematode Caenorhabditis elegans encodes seven soluble guanylate cyclases (sGCs) [1]. In mammals, sGCs function as α/β heterodimers activated by gaseous ligands binding to a haem prosthetic group 2, 3. The principal activator is nitric oxide, which acts through sGCs to regulate diverse cellular events. In C. elegans the function of sGCs is mysterious: the worm genome does not appear to encode nitric oxide synthase, and all C. elegans sGC subunits are more closely related to mammalian β than α subunits [1]. Here, we show that two of the seven C. elegans sGCs, GCY-35 and GCY-36, promote aggregation behavior. gcy-35 and gcy-36 are expressed in a small number of neurons. These include the body cavity neurons AQR, PQR, and URX, which are directly exposed to the blood equivalent of C. elegans and regulate aggregation behavior [4]. We show that GCY-35 and GCY-36 act as α-like and β-like sGC subunits and that their function in the URX sensory neurons is sufficient for strong nematode aggregation. Neither GCY-35 nor GCY-36 is absolutely required for C. elegans to aggregate. Instead, these molecules may transduce one of several pathways that induce C. elegans to aggregate or may modulate aggregation by responding to cues in C. elegans body fluid."}],"page":"1105-1111","quality_controlled":"1","external_id":{"pmid":["15203005"]},"citation":{"ieee":"B. H. . Cheung, F. Arellano-Carbajal, I. Rybicki, and M. de Bono, “Soluble guanylate cyclases act in neurons exposed to the body fluid to promote C. elegans aggregation behavior,” Current Biology, vol. 14, no. 12. Elsevier, pp. 1105–1111, 2004.","apa":"Cheung, B. H. ., Arellano-Carbajal, F., Rybicki, I., & de Bono, M. (2004). Soluble guanylate cyclases act in neurons exposed to the body fluid to promote C. elegans aggregation behavior. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2004.06.027","ista":"Cheung BH., Arellano-Carbajal F, Rybicki I, de Bono M. 2004. Soluble guanylate cyclases act in neurons exposed to the body fluid to promote C. elegans aggregation behavior. Current Biology. 14(12), 1105–1111.","ama":"Cheung BH., Arellano-Carbajal F, Rybicki I, de Bono M. Soluble guanylate cyclases act in neurons exposed to the body fluid to promote C. elegans aggregation behavior. Current Biology. 2004;14(12):1105-1111. doi:10.1016/j.cub.2004.06.027","chicago":"Cheung, Benny H.H, Fausto Arellano-Carbajal, Irene Rybicki, and Mario de Bono. “Soluble Guanylate Cyclases Act in Neurons Exposed to the Body Fluid to Promote C. Elegans Aggregation Behavior.” Current Biology. Elsevier, 2004. https://doi.org/10.1016/j.cub.2004.06.027.","short":"B.H.. Cheung, F. Arellano-Carbajal, I. Rybicki, M. de Bono, Current Biology 14 (2004) 1105–1111.","mla":"Cheung, Benny H. .., et al. “Soluble Guanylate Cyclases Act in Neurons Exposed to the Body Fluid to Promote C. Elegans Aggregation Behavior.” Current Biology, vol. 14, no. 12, Elsevier, 2004, pp. 1105–11, doi:10.1016/j.cub.2004.06.027."},"publication":"Current Biology","language":[{"iso":"eng"}],"doi":"10.1016/j.cub.2004.06.027","date_published":"2004-06-22T00:00:00Z","publication_identifier":{"issn":["0960-9822"]},"day":"22","month":"06"},{"date_created":"2021-06-07T10:33:00Z","date_updated":"2021-12-14T08:52:00Z","volume":14,"author":[{"full_name":"Zilberman, Daniel","orcid":"0000-0002-0123-8649","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","last_name":"Zilberman","first_name":"Daniel"},{"full_name":"Cao, Xiaofeng","first_name":"Xiaofeng","last_name":"Cao"},{"last_name":"Johansen","first_name":"Lisa K.","full_name":"Johansen, Lisa K."},{"last_name":"Xie","first_name":"Zhixin","full_name":"Xie, Zhixin"},{"last_name":"Carrington","first_name":"James C.","full_name":"Carrington, James C."},{"full_name":"Jacobsen, Steven E.","last_name":"Jacobsen","first_name":"Steven E."}],"publication_status":"published","department":[{"_id":"DaZi"}],"publisher":"Elsevier","year":"2004","pmid":1,"extern":"1","language":[{"iso":"eng"}],"doi":"10.1016/j.cub.2004.06.055","quality_controlled":"1","main_file_link":[{"url":"https://doi.org/10.1016/j.cub.2004.06.055","open_access":"1"}],"oa":1,"external_id":{"pmid":["15242620 "]},"month":"07","publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"oa_version":"Published Version","status":"public","title":"Role of Arabidopsis ARGONAUTE4 in RNA-directed DNA methylation triggered by inverted repeats","intvolume":" 14","_id":"9493","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","abstract":[{"lang":"eng","text":"In a number of organisms, transgenes containing transcribed inverted repeats (IRs) that produce hairpin RNA can trigger RNA-mediated silencing, which is associated with 21-24 nucleotide small interfering RNAs (siRNAs). In plants, IR-driven RNA silencing also causes extensive cytosine methylation of homologous DNA in both the transgene \"trigger\" and any other homologous DNA sequences--\"targets\". Endogenous genomic sequences, including transposable elements and repeated elements, are also subject to RNA-mediated silencing. The RNA silencing gene ARGONAUTE4 (AGO4) is required for maintenance of DNA methylation at several endogenous loci and for the establishment of methylation at the FWA gene. Here, we show that mutation of AGO4 substantially reduces the maintenance of DNA methylation triggered by IR transgenes, but AGO4 loss-of-function does not block the initiation of DNA methylation by IRs. AGO4 primarily affects non-CG methylation of the target sequences, while the IR trigger sequences lose methylation in all sequence contexts. Finally, we find that AGO4 and the DRM methyltransferase genes are required for maintenance of siRNAs at a subset of endogenous sequences, but AGO4 is not required for the accumulation of IR-induced siRNAs or a number of endogenous siRNAs, suggesting that AGO4 may function downstream of siRNA production."}],"issue":"13","type":"journal_article","date_published":"2004-07-13T00:00:00Z","article_type":"original","page":"1214-1220","publication":"Current Biology","citation":{"short":"D. Zilberman, X. Cao, L.K. Johansen, Z. Xie, J.C. Carrington, S.E. Jacobsen, Current Biology 14 (2004) 1214–1220.","mla":"Zilberman, Daniel, et al. “Role of Arabidopsis ARGONAUTE4 in RNA-Directed DNA Methylation Triggered by Inverted Repeats.” Current Biology, vol. 14, no. 13, Elsevier, 2004, pp. 1214–20, doi:10.1016/j.cub.2004.06.055.","chicago":"Zilberman, Daniel, Xiaofeng Cao, Lisa K. Johansen, Zhixin Xie, James C. Carrington, and Steven E. Jacobsen. “Role of Arabidopsis ARGONAUTE4 in RNA-Directed DNA Methylation Triggered by Inverted Repeats.” Current Biology. Elsevier, 2004. https://doi.org/10.1016/j.cub.2004.06.055.","ama":"Zilberman D, Cao X, Johansen LK, Xie Z, Carrington JC, Jacobsen SE. Role of Arabidopsis ARGONAUTE4 in RNA-directed DNA methylation triggered by inverted repeats. Current Biology. 2004;14(13):1214-1220. doi:10.1016/j.cub.2004.06.055","apa":"Zilberman, D., Cao, X., Johansen, L. K., Xie, Z., Carrington, J. C., & Jacobsen, S. E. (2004). Role of Arabidopsis ARGONAUTE4 in RNA-directed DNA methylation triggered by inverted repeats. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2004.06.055","ieee":"D. Zilberman, X. Cao, L. K. Johansen, Z. Xie, J. C. Carrington, and S. E. Jacobsen, “Role of Arabidopsis ARGONAUTE4 in RNA-directed DNA methylation triggered by inverted repeats,” Current Biology, vol. 14, no. 13. Elsevier, pp. 1214–1220, 2004.","ista":"Zilberman D, Cao X, Johansen LK, Xie Z, Carrington JC, Jacobsen SE. 2004. Role of Arabidopsis ARGONAUTE4 in RNA-directed DNA methylation triggered by inverted repeats. Current Biology. 14(13), 1214–1220."},"day":"13","article_processing_charge":"No","scopus_import":"1"},{"day":"16","article_processing_charge":"No","scopus_import":"1","date_published":"2003-12-16T00:00:00Z","article_type":"original","page":"2212-2217","publication":"Current Biology","citation":{"ieee":"X. Cao et al., “Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation,” Current Biology, vol. 13, no. 24. Elsevier, pp. 2212–2217, 2003.","apa":"Cao, X., Aufsatz, W., Zilberman, D., Mette, M. F., Huang, M. S., Matzke, M., & Jacobsen, S. E. (2003). Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation. Current Biology. Elsevier. https://doi.org/10.1016/j.cub.2003.11.052","ista":"Cao X, Aufsatz W, Zilberman D, Mette MF, Huang MS, Matzke M, Jacobsen SE. 2003. Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation. Current Biology. 13(24), 2212–2217.","ama":"Cao X, Aufsatz W, Zilberman D, et al. Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation. Current Biology. 2003;13(24):2212-2217. doi:10.1016/j.cub.2003.11.052","chicago":"Cao, Xiaofeng, Werner Aufsatz, Daniel Zilberman, M.Florian Mette, Michael S. Huang, Marjori Matzke, and Steven E. Jacobsen. “Role of the DRM and CMT3 Methyltransferases in RNA-Directed DNA Methylation.” Current Biology. Elsevier, 2003. https://doi.org/10.1016/j.cub.2003.11.052.","short":"X. Cao, W. Aufsatz, D. Zilberman, M.F. Mette, M.S. Huang, M. Matzke, S.E. Jacobsen, Current Biology 13 (2003) 2212–2217.","mla":"Cao, Xiaofeng, et al. “Role of the DRM and CMT3 Methyltransferases in RNA-Directed DNA Methylation.” Current Biology, vol. 13, no. 24, Elsevier, 2003, pp. 2212–17, doi:10.1016/j.cub.2003.11.052."},"abstract":[{"text":"RNA interference is a conserved process in which double-stranded RNA is processed into 21–25 nucleotide siRNAs that trigger posttranscriptional gene silencing. In addition, plants display a phenomenon termed RNA-directed DNA methylation (RdDM) in which DNA with sequence identity to silenced RNA is de novo methylated at its cytosine residues. This methylation is not only at canonical CpG sites but also at cytosines in CpNpG and asymmetric sequence contexts. In this report, we study the role of the DRM and CMT3 DNA methyltransferase genes in the initiation and maintenance of RdDM. Neither drm nor cmt3 mutants affected the maintenance of preestablished RNA-directed CpG methylation. However, drm mutants showed a nearly complete loss of asymmetric methylation and a partial loss of CpNpG methylation. The remaining asymmetric and CpNpG methylation was dependent on the activity of CMT3, showing that DRM and CMT3 act redundantly to maintain non-CpG methylation. These DNA methyltransferases appear to act downstream of siRNAs, since drm1 drm2 cmt3 triple mutants show a lack of non-CpG methylation but elevated levels of siRNAs. Finally, we demonstrate that DRM activity is required for the initial establishment of RdDM in all sequence contexts including CpG, CpNpG, and asymmetric sites.","lang":"eng"}],"issue":"24","type":"journal_article","oa_version":"Published Version","title":"Role of the DRM and CMT3 methyltransferases in RNA-directed DNA methylation","status":"public","intvolume":" 13","_id":"9495","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","month":"12","publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"language":[{"iso":"eng"}],"doi":"10.1016/j.cub.2003.11.052","quality_controlled":"1","external_id":{"pmid":["14680640"]},"oa":1,"main_file_link":[{"url":"https://doi.org/10.1016/j.cub.2003.11.052","open_access":"1"}],"extern":"1","date_created":"2021-06-07T10:43:02Z","date_updated":"2021-12-14T08:41:38Z","volume":13,"author":[{"first_name":"Xiaofeng","last_name":"Cao","full_name":"Cao, Xiaofeng"},{"last_name":"Aufsatz","first_name":"Werner","full_name":"Aufsatz, Werner"},{"first_name":"Daniel","last_name":"Zilberman","id":"6973db13-dd5f-11ea-814e-b3e5455e9ed1","orcid":"0000-0002-0123-8649","full_name":"Zilberman, Daniel"},{"first_name":"M.Florian","last_name":"Mette","full_name":"Mette, M.Florian"},{"full_name":"Huang, Michael S.","first_name":"Michael S.","last_name":"Huang"},{"full_name":"Matzke, Marjori","first_name":"Marjori","last_name":"Matzke"},{"full_name":"Jacobsen, Steven E.","first_name":"Steven E.","last_name":"Jacobsen"}],"publication_status":"published","department":[{"_id":"DaZi"}],"publisher":"Elsevier","year":"2003","pmid":1},{"scopus_import":"1","article_processing_charge":"No","day":"19","page":"R649 - R651","article_type":"original","citation":{"short":"N.H. Barton, W. Zuidema, Current Biology 13 (2003) R649–R651.","mla":"Barton, Nicholas H., and Willem Zuidema. “The Erratic Path towards Complexity.” Current Biology, vol. 13, no. 16, Cell Press, 2003, pp. R649–51, doi:10.1016/S0960-9822(03)00573-6.","chicago":"Barton, Nicholas H, and Willem Zuidema. “The Erratic Path towards Complexity.” Current Biology. Cell Press, 2003. https://doi.org/10.1016/S0960-9822(03)00573-6.","ama":"Barton NH, Zuidema W. The erratic path towards complexity. Current Biology. 2003;13(16):R649-R651. doi:10.1016/S0960-9822(03)00573-6","ieee":"N. H. Barton and W. Zuidema, “The erratic path towards complexity,” Current Biology, vol. 13, no. 16. Cell Press, pp. R649–R651, 2003.","apa":"Barton, N. H., & Zuidema, W. (2003). The erratic path towards complexity. Current Biology. Cell Press. https://doi.org/10.1016/S0960-9822(03)00573-6","ista":"Barton NH, Zuidema W. 2003. The erratic path towards complexity. Current Biology. 13(16), R649–R651."},"publication":"Current Biology","date_published":"2003-08-19T00:00:00Z","type":"journal_article","issue":"16","abstract":[{"text":"Artificial Life models may shed new light on the long-standing challenge for evolutionary biology of explaining the origins of complex organs. Real progress on this issue, however, requires Artificial Life researchers to take seriously the tools and insights from population genetics.","lang":"eng"}],"intvolume":" 13","title":"The erratic path towards complexity","status":"public","user_id":"ea97e931-d5af-11eb-85d4-e6957dddbf17","_id":"4256","oa_version":"Published Version","publication_identifier":{"issn":["0960-9822"]},"month":"08","quality_controlled":"1","language":[{"iso":"eng"}],"doi":"10.1016/S0960-9822(03)00573-6","extern":"1","publist_id":"1838","publisher":"Cell Press","publication_status":"published","year":"2003","volume":13,"date_updated":"2024-01-23T09:41:33Z","date_created":"2018-12-11T12:07:53Z","author":[{"first_name":"Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H"},{"first_name":"Willem","last_name":"Zuidema","full_name":"Zuidema, Willem"}]}]