[{"publist_id":"6213","acknowledgement":"This research has been financially supported by the Ministry of Education, Youth and Sports of the Czech Republic under the project CEITEC 2020 (LQ1601) (T.N., M.Z., M.P., J.H.), Czech Science Foundation (13-40637S [J.F., M.Z.], 13-39982S [J.H.]); Research Foundation Flanders (Grant number FWO09/PDO/196) (S.V.) and the European Research Council (project ERC-2011-StG-20101109-PSDP) (J.F.). We thank David G. Robinson and Ranjan Swarup for sharing published material; Maria Šimášková, Mamoona Khan, Eva Benková for technical assistance; and R. Tejos, J. Kleine-Vehn, and E. Feraru for helpful discussions.","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"publication":"Molecular Plant","title":"Enquiry into the topology of plasma membrane localized PIN auxin transport components","status":"public","department":[{"_id":"JiFr"}],"has_accepted_license":"1","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2018-12-12T10:13:22Z","publisher":"Cell Press","quality_controlled":"1","day":"07","citation":{"ieee":"T. Nodzyński, S. Vanneste, M. Zwiewka, M. Pernisová, J. Hejátko, and J. Friml, “Enquiry into the topology of plasma membrane localized PIN auxin transport components,” Molecular Plant, vol. 9, no. 11. Cell Press, pp. 1504–1519, 2016.","chicago":"Nodzyński, Tomasz, Steffen Vanneste, Marta Zwiewka, Markéta Pernisová, Jan Hejátko, and Jiří Friml. “Enquiry into the Topology of Plasma Membrane Localized PIN Auxin Transport Components.” Molecular Plant. Cell Press, 2016. https://doi.org/10.1016/j.molp.2016.08.010.","short":"T. Nodzyński, S. Vanneste, M. Zwiewka, M. Pernisová, J. Hejátko, J. Friml, Molecular Plant 9 (2016) 1504–1519.","ista":"Nodzyński T, Vanneste S, Zwiewka M, Pernisová M, Hejátko J, Friml J. 2016. Enquiry into the topology of plasma membrane localized PIN auxin transport components. Molecular Plant. 9(11), 1504–1519.","apa":"Nodzyński, T., Vanneste, S., Zwiewka, M., Pernisová, M., Hejátko, J., & Friml, J. (2016). Enquiry into the topology of plasma membrane localized PIN auxin transport components. Molecular Plant. Cell Press. https://doi.org/10.1016/j.molp.2016.08.010","mla":"Nodzyński, Tomasz, et al. “Enquiry into the Topology of Plasma Membrane Localized PIN Auxin Transport Components.” Molecular Plant, vol. 9, no. 11, Cell Press, 2016, pp. 1504–19, doi:10.1016/j.molp.2016.08.010.","ama":"Nodzyński T, Vanneste S, Zwiewka M, Pernisová M, Hejátko J, Friml J. Enquiry into the topology of plasma membrane localized PIN auxin transport components. Molecular Plant. 2016;9(11):1504-1519. doi:10.1016/j.molp.2016.08.010"},"oa":1,"tmp":{"short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"file":[{"relation":"main_file","content_type":"application/pdf","file_name":"IST-2017-746-v1+1_1-s2.0-S1674205216301915-main.pdf","file_id":"5004","creator":"system","file_size":5005876,"access_level":"open_access","date_created":"2018-12-12T10:13:22Z","date_updated":"2018-12-12T10:13:22Z"}],"volume":9,"page":"1504 - 1519","oa_version":"Published Version","year":"2016","doi":"10.1016/j.molp.2016.08.010","ddc":["581"],"month":"11","language":[{"iso":"eng"}],"intvolume":" 9","publication_status":"published","date_updated":"2021-01-12T06:48:37Z","type":"journal_article","author":[{"full_name":"Nodzyński, Tomasz","first_name":"Tomasz","last_name":"Nodzyński"},{"full_name":"Vanneste, Steffen","first_name":"Steffen","last_name":"Vanneste"},{"last_name":"Zwiewka","first_name":"Marta","full_name":"Zwiewka, Marta"},{"full_name":"Pernisová, Markéta","last_name":"Pernisová","first_name":"Markéta"},{"full_name":"Hejátko, Jan","last_name":"Hejátko","first_name":"Jan"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","first_name":"Jirí"}],"ec_funded":1,"abstract":[{"lang":"eng","text":"Auxin directs plant ontogenesis via differential accumulation within tissues depending largely on the activity of PIN proteins that mediate auxin efflux from cells and its directional cell-to-cell transport. Regardless of the developmental importance of PINs, the structure of these transporters is poorly characterized. Here, we present experimental data concerning protein topology of plasma membrane-localized PINs. Utilizing approaches based on pH-dependent quenching of fluorescent reporters combined with immunolocalization techniques, we mapped the membrane topology of PINs and further cross-validated our results using available topology modeling software. We delineated the topology of PIN1 with two transmembrane (TM) bundles of five α-helices linked by a large intracellular loop and a C-terminus positioned outside the cytoplasm. Using constraints derived from our experimental data, we also provide an updated position of helical regions generating a verisimilitude model of PIN1. Since the canonical long PINs show a high degree of conservation in TM domains and auxin transport capacity has been demonstrated for Arabidopsis representatives of this group, this empirically enhanced topological model of PIN1 will be an important starting point for further studies on PIN structure–function relationships. In addition, we have established protocols that can be used to probe the topology of other plasma membrane proteins in plants. © 2016 The Authors"}],"issue":"11","pubrep_id":"746","scopus_import":1,"date_published":"2016-11-07T00:00:00Z","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","date_created":"2018-12-11T11:50:23Z","_id":"1145"},{"date_created":"2018-12-11T11:50:24Z","_id":"1147","scopus_import":1,"date_published":"2016-11-08T00:00:00Z","license":"https://creativecommons.org/licenses/by/4.0/","pubrep_id":"745","author":[{"full_name":"Balla, Jozef","last_name":"Balla","first_name":"Jozef"},{"last_name":"Medved'Ová","first_name":"Zuzana","full_name":"Medved'Ová, Zuzana"},{"full_name":"Kalousek, Petr","first_name":"Petr","last_name":"Kalousek"},{"first_name":"Natálie","last_name":"Matiješčuková","full_name":"Matiješčuková, Natálie"},{"full_name":"Friml, Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Vilém","last_name":"Reinöhl","full_name":"Reinöhl, Vilém"},{"last_name":"Procházka","first_name":"Stanislav","full_name":"Procházka, Stanislav"}],"abstract":[{"text":"Apical dominance is one of the fundamental developmental phenomena in plant biology, which determines the overall architecture of aerial plant parts. Here we show apex decapitation activated competition for dominance in adjacent upper and lower axillary buds. A two-nodal-bud pea (Pisum sativum L.) was used as a model system to monitor and assess auxin flow, auxin transport channels, and dormancy and initiation status of axillary buds. Auxin flow was manipulated by lateral stem wounds or chemically by auxin efflux inhibitors 2,3,5-triiodobenzoic acid (TIBA), 1-N-naphtylphtalamic acid (NPA), or protein synthesis inhibitor cycloheximide (CHX) treatments, which served to interfere with axillary bud competition. Redirecting auxin flow to different points influenced which bud formed the outgrowing and dominant shoot. The obtained results proved that competition between upper and lower axillary buds as secondary auxin sources is based on the same auxin canalization principle that operates between the shoot apex and axillary bud. © The Author(s) 2016.","lang":"eng"}],"date_updated":"2021-01-12T06:48:38Z","type":"journal_article","intvolume":" 6","publication_status":"published","month":"11","language":[{"iso":"eng"}],"year":"2016","doi":"10.1038/srep35955","ddc":["581"],"file":[{"date_created":"2018-12-12T10:09:28Z","date_updated":"2018-12-12T10:09:28Z","access_level":"open_access","file_size":1587544,"relation":"main_file","content_type":"application/pdf","file_name":"IST-2017-745-v1+1_srep35955.pdf","file_id":"4752","creator":"system"}],"volume":6,"oa_version":"Published Version","tmp":{"image":"/images/cc_by.png","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)"},"day":"08","article_number":"35955","citation":{"apa":"Balla, J., Medved’Ová, Z., Kalousek, P., Matiješčuková, N., Friml, J., Reinöhl, V., & Procházka, S. (2016). Auxin flow mediated competition between axillary buds to restore apical dominance. Scientific Reports. Nature Publishing Group. https://doi.org/10.1038/srep35955","ama":"Balla J, Medved’Ová Z, Kalousek P, et al. Auxin flow mediated competition between axillary buds to restore apical dominance. Scientific Reports. 2016;6. doi:10.1038/srep35955","mla":"Balla, Jozef, et al. “Auxin Flow Mediated Competition between Axillary Buds to Restore Apical Dominance.” Scientific Reports, vol. 6, 35955, Nature Publishing Group, 2016, doi:10.1038/srep35955.","ista":"Balla J, Medved’Ová Z, Kalousek P, Matiješčuková N, Friml J, Reinöhl V, Procházka S. 2016. Auxin flow mediated competition between axillary buds to restore apical dominance. Scientific Reports. 6, 35955.","short":"J. Balla, Z. Medved’Ová, P. Kalousek, N. Matiješčuková, J. Friml, V. Reinöhl, S. Procházka, Scientific Reports 6 (2016).","chicago":"Balla, Jozef, Zuzana Medved’Ová, Petr Kalousek, Natálie Matiješčuková, Jiří Friml, Vilém Reinöhl, and Stanislav Procházka. “Auxin Flow Mediated Competition between Axillary Buds to Restore Apical Dominance.” Scientific Reports. Nature Publishing Group, 2016. https://doi.org/10.1038/srep35955.","ieee":"J. Balla et al., “Auxin flow mediated competition between axillary buds to restore apical dominance,” Scientific Reports, vol. 6. Nature Publishing Group, 2016."},"oa":1,"quality_controlled":"1","publisher":"Nature Publishing Group","has_accepted_license":"1","department":[{"_id":"JiFr"}],"status":"public","title":"Auxin flow mediated competition between axillary buds to restore apical dominance","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2018-12-12T10:09:28Z","publication":"Scientific Reports","publist_id":"6211","acknowledgement":"This research was carried out under the project CEITEC 2020 (LQ1601) with financial support from the Ministry of Education, Youth and Sports of the Czech Republic under the National Sustainability Programme II., supported by the project “CEITEC–Central European Institute of Technology” (CZ.1.05/1.1.00/02.0068) and the Agronomy faculty grant from Mendel University “IGA AF MENDELU” (IP 14/2013)."},{"type":"journal_article","date_updated":"2021-01-12T06:48:39Z","publication_status":"published","intvolume":" 30","month":"10","language":[{"iso":"eng"}],"doi":"10.1101/gad.285361.116","year":"2016","ddc":["570"],"date_created":"2018-12-11T11:50:25Z","_id":"1151","date_published":"2016-10-15T00:00:00Z","scopus_import":1,"pmid":1,"author":[{"full_name":"Simonini, Sara","first_name":"Sara","last_name":"Simonini"},{"full_name":"Deb, Joyita","first_name":"Joyita","last_name":"Deb"},{"full_name":"Moubayidin, Laila","first_name":"Laila","last_name":"Moubayidin"},{"first_name":"Pauline","last_name":"Stephenson","full_name":"Stephenson, Pauline"},{"full_name":"Valluru, Manoj","last_name":"Valluru","first_name":"Manoj"},{"full_name":"Freire Rios, Alejandra","last_name":"Freire Rios","first_name":"Alejandra"},{"first_name":"Karim","last_name":"Sorefan","full_name":"Sorefan, Karim"},{"full_name":"Weijers, Dolf","first_name":"Dolf","last_name":"Weijers"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","last_name":"Friml","first_name":"Jirí","full_name":"Friml, Jirí"},{"first_name":"Lars","last_name":"Östergaard","full_name":"Östergaard, Lars"}],"abstract":[{"text":"Tissue patterning in multicellular organisms is the output of precise spatio–temporal regulation of gene expression coupled with changes in hormone dynamics. In plants, the hormone auxin regulates growth and development at every stage of a plant’s life cycle. Auxin signaling occurs through binding of the auxin molecule to a TIR1/AFB F-box ubiquitin ligase, allowing interaction with Aux/IAA transcriptional repressor proteins. These are subsequently ubiquitinated and degraded via the 26S proteasome, leading to derepression of auxin response factors (ARFs). How auxin is able to elicit such a diverse range of developmental responses through a single signaling module has not yet been resolved. Here we present an alternative auxin-sensing mechanism in which the ARF ARF3/ETTIN controls gene expression through interactions with process-specific transcription factors. This noncanonical hormonesensing mechanism exhibits strong preference for the naturally occurring auxin indole 3-acetic acid (IAA) and is important for coordinating growth and patterning in diverse developmental contexts such as gynoecium morphogenesis, lateral root emergence, ovule development, and primary branch formation. Disrupting this IAA-sensing ability induces morphological aberrations with consequences for plant fitness. Therefore, our findings introduce a novel transcription factor-based mechanism of hormone perception in plants. © 2016 Simonini et al.","lang":"eng"}],"issue":"20","publisher":"Cold Spring Harbor Laboratory Press","has_accepted_license":"1","department":[{"_id":"JiFr"}],"status":"public","title":"A noncanonical auxin sensing mechanism is required for organ morphogenesis in arabidopsis","file_date_updated":"2019-01-25T09:32:55Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Genes and Development","external_id":{"pmid":["27898393"]},"acknowledgement":"We thank Norwich Research Park Bioimaging, Grant Calder, Roy\r\nDunford, Caroline Smith, Paul Thomas, and Mark Youles for\r\ntechnical support; Charlie Scutt, Alejandro Ferrando, and George\r\nLomonossoff for plasmids; Toshiro Ito for seeds; Brendan Davies\r\nand Barry Causier for the REGIA library; and Mark Buttner,\r\nSimona Masiero, Fabio Rossi, Doris Wagner, and Jun Xiao for\r\nhelp and material. We are also grateful to Stefano Bencivenga,\r\nMarie Brüser, Friederike Jantzen, Lukasz Langowski, Xinran Li,\r\nand Nicola Stacey for discussions and helpful comments on the\r\nmanuscript. This work was supported by grants BB/M004112/1\r\nand BB/I017232/1 (Crop Improvement Research Club) to L.Ø.\r\nfrom the Biotechnological and Biological Sciences Research\r\nCouncil, and Institute Strategic Programme grant (BB/J004553/\r\n1) to the John Innes Centre. S.S., J.D., and L.Ø conceived the ex-\r\nperiments. ","publist_id":"6207","file":[{"access_level":"open_access","date_created":"2019-01-25T09:32:55Z","date_updated":"2019-01-25T09:32:55Z","relation":"main_file","content_type":"application/pdf","file_name":"2016_GeneDev_Simonini.pdf","success":1,"creator":"dernst","file_id":"5882","file_size":1419263}],"page":"2286 - 2296","oa_version":"Published Version","volume":30,"tmp":{"image":"/images/cc_by.png","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)"},"day":"15","oa":1,"citation":{"apa":"Simonini, S., Deb, J., Moubayidin, L., Stephenson, P., Valluru, M., Freire Rios, A., … Östergaard, L. (2016). A noncanonical auxin sensing mechanism is required for organ morphogenesis in arabidopsis. Genes and Development. Cold Spring Harbor Laboratory Press. https://doi.org/10.1101/gad.285361.116","ama":"Simonini S, Deb J, Moubayidin L, et al. A noncanonical auxin sensing mechanism is required for organ morphogenesis in arabidopsis. Genes and Development. 2016;30(20):2286-2296. doi:10.1101/gad.285361.116","mla":"Simonini, Sara, et al. “A Noncanonical Auxin Sensing Mechanism Is Required for Organ Morphogenesis in Arabidopsis.” Genes and Development, vol. 30, no. 20, Cold Spring Harbor Laboratory Press, 2016, pp. 2286–96, doi:10.1101/gad.285361.116.","ista":"Simonini S, Deb J, Moubayidin L, Stephenson P, Valluru M, Freire Rios A, Sorefan K, Weijers D, Friml J, Östergaard L. 2016. A noncanonical auxin sensing mechanism is required for organ morphogenesis in arabidopsis. Genes and Development. 30(20), 2286–2296.","short":"S. Simonini, J. Deb, L. Moubayidin, P. Stephenson, M. Valluru, A. Freire Rios, K. Sorefan, D. Weijers, J. Friml, L. Östergaard, Genes and Development 30 (2016) 2286–2296.","chicago":"Simonini, Sara, Joyita Deb, Laila Moubayidin, Pauline Stephenson, Manoj Valluru, Alejandra Freire Rios, Karim Sorefan, Dolf Weijers, Jiří Friml, and Lars Östergaard. “A Noncanonical Auxin Sensing Mechanism Is Required for Organ Morphogenesis in Arabidopsis.” Genes and Development. Cold Spring Harbor Laboratory Press, 2016. https://doi.org/10.1101/gad.285361.116.","ieee":"S. Simonini et al., “A noncanonical auxin sensing mechanism is required for organ morphogenesis in arabidopsis,” Genes and Development, vol. 30, no. 20. Cold Spring Harbor Laboratory Press, pp. 2286–2296, 2016."},"quality_controlled":"1"},{"intvolume":" 28","publication_status":"published","date_updated":"2021-01-12T06:48:40Z","type":"journal_article","year":"2016","doi":"10.1105/tpc.15.00569","language":[{"iso":"eng"}],"month":"10","scopus_import":1,"date_published":"2016-10-01T00:00:00Z","_id":"1153","date_created":"2018-12-11T11:50:26Z","issue":"10","abstract":[{"text":"Differential cell growth enables flexible organ bending in the presence of environmental signals such as light or gravity. A prominent example of the developmental processes based on differential cell growth is the formation of the apical hook that protects the fragile shoot apical meristem when it breaks through the soil during germination. Here, we combined in silico and in vivo approaches to identify a minimal mechanism producing auxin gradient-guided differential growth during the establishment of the apical hook in the model plant Arabidopsis thaliana. Computer simulation models based on experimental data demonstrate that asymmetric expression of the PIN-FORMED auxin efflux carrier at the concave (inner) versus convex (outer) side of the hook suffices to establish an auxin maximum in the epidermis at the concave side of the apical hook. Furthermore, we propose a mechanism that translates this maximum into differential growth, and thus curvature, of the apical hook. Through a combination of experimental and in silico computational approaches, we have identified the individual contributions of differential cell elongation and proliferation to defining the apical hook and reveal the role of auxin-ethylene crosstalk in balancing these two processes. © 2016 American Society of Plant Biologists. All rights reserved.","lang":"eng"}],"author":[{"last_name":"Žádníková","first_name":"Petra","full_name":"Žádníková, Petra"},{"full_name":"Wabnik, Krzysztof T","first_name":"Krzysztof T","orcid":"0000-0001-7263-0560","last_name":"Wabnik","id":"4DE369A4-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Abuzeineh","first_name":"Anas","full_name":"Abuzeineh, Anas"},{"full_name":"Gallemí, Marçal","first_name":"Marçal","last_name":"Gallemí"},{"first_name":"Dominique","last_name":"Van Der Straeten","full_name":"Van Der Straeten, Dominique"},{"first_name":"Richard","last_name":"Smith","full_name":"Smith, Richard"},{"full_name":"Inze, Dirk","first_name":"Dirk","last_name":"Inze"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","first_name":"Jirí"},{"full_name":"Prusinkiewicz, Przemysław","first_name":"Przemysław","last_name":"Prusinkiewicz"},{"id":"38F4F166-F248-11E8-B48F-1D18A9856A87","full_name":"Benková, Eva","first_name":"Eva","orcid":"0000-0002-8510-9739","last_name":"Benková"}],"ec_funded":1,"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"EvBe"},{"_id":"JiFr"}],"status":"public","title":"A model of differential growth guided apical hook formation in plants","publisher":"American Society of Plant Biologists","project":[{"name":"Hormonal cross-talk in plant organogenesis","_id":"253FCA6A-B435-11E9-9278-68D0E5697425","grant_number":"207362","call_identifier":"FP7"}],"publist_id":"6205","acknowledgement":"We thank Martine De Cock and Annick Bleys for help in preparing the manuscript, Daniel Van Damme for sharing material and stimulating discussion, and Rudiger Simon for support during revision of the manuscript.\r\nThis work was supported by grants from the European Research Council (StartingIndependentResearchGrantERC-2007-Stg-207362-HCPO)and the Czech Science Foundation (GACR CZ.1.07/2.3.00/20.0043) to E.B.\r\nand Natural Sciences and Engineering Research Council of Canada Discovery Grant 2014-05325 to P.P. K.W. acknowledges funding from a Human Frontier Science Program Long-Term Fellowship (LT-000209-2014).","publication":"Plant Cell","main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5134968/"}],"volume":28,"page":"2464 - 2477","oa_version":"Submitted Version","quality_controlled":"1","citation":{"ista":"Žádníková P, Wabnik KT, Abuzeineh A, Gallemí M, Van Der Straeten D, Smith R, Inze D, Friml J, Prusinkiewicz P, Benková E. 2016. A model of differential growth guided apical hook formation in plants. Plant Cell. 28(10), 2464–2477.","ama":"Žádníková P, Wabnik KT, Abuzeineh A, et al. A model of differential growth guided apical hook formation in plants. Plant Cell. 2016;28(10):2464-2477. doi:10.1105/tpc.15.00569","mla":"Žádníková, Petra, et al. “A Model of Differential Growth Guided Apical Hook Formation in Plants.” Plant Cell, vol. 28, no. 10, American Society of Plant Biologists, 2016, pp. 2464–77, doi:10.1105/tpc.15.00569.","apa":"Žádníková, P., Wabnik, K. T., Abuzeineh, A., Gallemí, M., Van Der Straeten, D., Smith, R., … Benková, E. (2016). A model of differential growth guided apical hook formation in plants. Plant Cell. American Society of Plant Biologists. https://doi.org/10.1105/tpc.15.00569","chicago":"Žádníková, Petra, Krzysztof T Wabnik, Anas Abuzeineh, Marçal Gallemí, Dominique Van Der Straeten, Richard Smith, Dirk Inze, Jiří Friml, Przemysław Prusinkiewicz, and Eva Benková. “A Model of Differential Growth Guided Apical Hook Formation in Plants.” Plant Cell. American Society of Plant Biologists, 2016. https://doi.org/10.1105/tpc.15.00569.","ieee":"P. Žádníková et al., “A model of differential growth guided apical hook formation in plants,” Plant Cell, vol. 28, no. 10. American Society of Plant Biologists, pp. 2464–2477, 2016.","short":"P. Žádníková, K.T. Wabnik, A. Abuzeineh, M. Gallemí, D. Van Der Straeten, R. Smith, D. Inze, J. Friml, P. Prusinkiewicz, E. Benková, Plant Cell 28 (2016) 2464–2477."},"oa":1,"day":"01"},{"ddc":["581"],"doi":"10.1007/s00344-015-9553-2","year":"2016","language":[{"iso":"eng"}],"month":"06","publication_status":"published","intvolume":" 35","type":"journal_article","date_updated":"2021-01-12T06:52:11Z","issue":"2","abstract":[{"lang":"eng","text":"The plant hormone auxin (indole-3-acetic acid) is a major regulator of plant growth and development including embryo and root patterning, lateral organ formation and growth responses to environmental stimuli. Auxin is directionally transported from cell to cell by the action of specific auxin influx [AUXIN-RESISTANT1 (AUX1)] and efflux [PIN-FORMED (PIN)] transport regulators, whose polar, subcellular localizations are aligned with the direction of the auxin flow. Auxin itself regulates its own transport by modulation of the expression and subcellular localization of the auxin transporters. Increased auxin levels promote the transcription of PIN2 and AUX1 genes as well as stabilize PIN proteins at the plasma membrane, whereas prolonged auxin exposure increases the turnover of PIN proteins and their degradation in the vacuole. In this study, we applied a forward genetic approach, to identify molecular components playing a role in the auxin-mediated degradation. We generated EMS-mutagenized Arabidopsis PIN2::PIN2:GFP, AUX1::AUX1:YFP eir1aux1 populations and designed a screen for mutants with persistently strong fluorescent signals of the tagged PIN2 and AUX1 after prolonged treatment with the synthetic auxin 2,4-dichlorophenoxyacetic acid (2,4-D). This approach yielded novel auxin degradation mutants defective in trafficking and degradation of PIN2 and AUX1 proteins and established a role for auxin-mediated degradation in plant development."}],"author":[{"full_name":"Zemová, Radka","first_name":"Radka","last_name":"Zemová"},{"full_name":"Zwiewka, Marta","last_name":"Zwiewka","first_name":"Marta"},{"last_name":"Bielach","first_name":"Agnieszka","full_name":"Bielach, Agnieszka"},{"first_name":"Hélène","last_name":"Robert","full_name":"Robert, Hélène"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jirí","first_name":"Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596"}],"pubrep_id":"1001","date_published":"2016-06-01T00:00:00Z","scopus_import":1,"_id":"1641","date_created":"2018-12-11T11:53:12Z","acknowledgement":"European Social Fund (CZ.1.07/2.3.00/20.0043) and the Czech Science Foundation GAČR (GA13-40637S) to JF. ","publist_id":"5512","publication":"Journal of Plant Growth Regulation","file_date_updated":"2020-07-14T12:45:08Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","title":"A forward genetic screen for new regulators of auxin mediated degradation of auxin transport proteins in Arabidopsis thaliana","department":[{"_id":"JiFr"}],"status":"public","has_accepted_license":"1","publisher":"Springer","quality_controlled":"1","oa":1,"citation":{"ista":"Zemová R, Zwiewka M, Bielach A, Robert H, Friml J. 2016. A forward genetic screen for new regulators of auxin mediated degradation of auxin transport proteins in Arabidopsis thaliana. Journal of Plant Growth Regulation. 35(2), 465–476.","mla":"Zemová, Radka, et al. “A Forward Genetic Screen for New Regulators of Auxin Mediated Degradation of Auxin Transport Proteins in Arabidopsis Thaliana.” Journal of Plant Growth Regulation, vol. 35, no. 2, Springer, 2016, pp. 465–76, doi:10.1007/s00344-015-9553-2.","ama":"Zemová R, Zwiewka M, Bielach A, Robert H, Friml J. A forward genetic screen for new regulators of auxin mediated degradation of auxin transport proteins in Arabidopsis thaliana. Journal of Plant Growth Regulation. 2016;35(2):465-476. doi:10.1007/s00344-015-9553-2","apa":"Zemová, R., Zwiewka, M., Bielach, A., Robert, H., & Friml, J. (2016). A forward genetic screen for new regulators of auxin mediated degradation of auxin transport proteins in Arabidopsis thaliana. Journal of Plant Growth Regulation. Springer. https://doi.org/10.1007/s00344-015-9553-2","chicago":"Zemová, Radka, Marta Zwiewka, Agnieszka Bielach, Hélène Robert, and Jiří Friml. “A Forward Genetic Screen for New Regulators of Auxin Mediated Degradation of Auxin Transport Proteins in Arabidopsis Thaliana.” Journal of Plant Growth Regulation. Springer, 2016. https://doi.org/10.1007/s00344-015-9553-2.","ieee":"R. Zemová, M. Zwiewka, A. Bielach, H. Robert, and J. Friml, “A forward genetic screen for new regulators of auxin mediated degradation of auxin transport proteins in Arabidopsis thaliana,” Journal of Plant Growth Regulation, vol. 35, no. 2. Springer, pp. 465–476, 2016.","short":"R. Zemová, M. Zwiewka, A. Bielach, H. Robert, J. Friml, Journal of Plant Growth Regulation 35 (2016) 465–476."},"day":"01","volume":35,"oa_version":"Preprint","page":"465 - 476","file":[{"checksum":"0dc6a300cde6536ceedd2bcdd2060efb","access_level":"open_access","date_updated":"2020-07-14T12:45:08Z","date_created":"2018-12-12T10:08:34Z","file_id":"4695","creator":"system","content_type":"application/pdf","relation":"main_file","file_name":"IST-2018-1001-v1+1_Zemova_JPlantGrowthRegul_2016_proofs.pdf","file_size":5637591}]},{"date_created":"2018-12-11T11:46:53Z","_id":"510","date_published":"2016-06-02T00:00:00Z","scopus_import":"1","author":[{"first_name":"Zhijun","last_name":"Liu","full_name":"Liu, Zhijun"},{"full_name":"Yang, Nan","last_name":"Yang","first_name":"Nan"},{"last_name":"Lv","first_name":"Yanting","full_name":"Lv, Yanting"},{"last_name":"Pan","first_name":"Lixia","full_name":"Pan, Lixia"},{"full_name":"Lv, Shuo","first_name":"Shuo","last_name":"Lv"},{"first_name":"Huibin","last_name":"Han","full_name":"Han, Huibin","id":"31435098-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Guodong","last_name":"Wang","full_name":"Wang, Guodong"}],"abstract":[{"text":"The CLE (CLAVATA3/Embryo Surrounding Region-related) peptides are small secreted signaling peptides that are primarily involved in the regulation of stem cell homeostasis in different plant meristems. Particularly, the characterization of the CLE41-PXY/TDR signaling pathway has greatly advanced our understanding on the potential roles of CLE peptides in vascular development and wood formation. Nevertheless, our knowledge on this gene family in a tree species is limited. In a recent study, we reported on a systematically investigation of the CLE gene family in Populus trichocarpa . The potential roles of PtCLE genes were studied by comparative analysis and transcriptional pro fi ling. Among fi fty PtCLE members, many PtCLE proteins share identical CLE motifs or contain the same CLE motif as that of AtCLEs, while PtCLE genes exhibited either comparable or distinct expression patterns comparing to their Arabidopsis counterparts. These fi ndings indicate the existence of both functional conservation and functional divergence between PtCLEs and their AtCLE orthologues. Our results provide valuable resources for future functional investigations of these critical signaling molecules in woody plants. ","lang":"eng"}],"issue":"6","type":"journal_article","date_updated":"2023-10-17T11:13:40Z","publication_status":"published","intvolume":" 11","month":"06","language":[{"iso":"eng"}],"doi":"10.1080/15592324.2016.1191734","year":"2016","oa_version":"Submitted Version","volume":11,"main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4973754/","open_access":"1"}],"article_number":"e1191734","day":"02","oa":1,"citation":{"ama":"Liu Z, Yang N, Lv Y, et al. The CLE gene family in Populus trichocarpa. Plant Signaling & Behavior. 2016;11(6). doi:10.1080/15592324.2016.1191734","mla":"Liu, Zhijun, et al. “The CLE Gene Family in Populus Trichocarpa.” Plant Signaling & Behavior, vol. 11, no. 6, e1191734, Taylor & Francis, 2016, doi:10.1080/15592324.2016.1191734.","apa":"Liu, Z., Yang, N., Lv, Y., Pan, L., Lv, S., Han, H., & Wang, G. (2016). The CLE gene family in Populus trichocarpa. Plant Signaling & Behavior. Taylor & Francis. https://doi.org/10.1080/15592324.2016.1191734","ista":"Liu Z, Yang N, Lv Y, Pan L, Lv S, Han H, Wang G. 2016. The CLE gene family in Populus trichocarpa. Plant Signaling & Behavior. 11(6), e1191734.","short":"Z. Liu, N. Yang, Y. Lv, L. Pan, S. Lv, H. Han, G. Wang, Plant Signaling & Behavior 11 (2016).","chicago":"Liu, Zhijun, Nan Yang, Yanting Lv, Lixia Pan, Shuo Lv, Huibin Han, and Guodong Wang. “The CLE Gene Family in Populus Trichocarpa.” Plant Signaling & Behavior. Taylor & Francis, 2016. https://doi.org/10.1080/15592324.2016.1191734.","ieee":"Z. Liu et al., “The CLE gene family in Populus trichocarpa,” Plant Signaling & Behavior, vol. 11, no. 6. Taylor & Francis, 2016."},"quality_controlled":"1","publisher":"Taylor & Francis","department":[{"_id":"JiFr"}],"title":"The CLE gene family in Populus trichocarpa","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Plant Signaling & Behavior","article_processing_charge":"No","acknowledgement":"We are grateful to Dr. Long (Laboratoire de Reproduction et Developpement des Plantes,CNRS,INRA,ENSLyon,UCBL,Universite de Lyon,France)for critical reading of the article. Work in our group is supported by the National Natural Science Foundation of China (31271575; 31200902), the Fundamental Research Funds for the Central Univ ersities (GK201103005), the Specialized Research Fund for the Doctoral Program of Higher Education from the Ministry of Education of China (20120202120009), the Scientific Research Foundation for the Returned Overseas Chinese Scholars, State Education Ministry, and the Natural Science Basic Research Plan in Shaanxi Province of China (2014JM3064). ","publist_id":"7308"},{"tmp":{"image":"/images/cc_by.png","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)"},"file":[{"file_size":4297148,"file_name":"IST-2016-521-v1+1_journal.pone.0147830.PDF","relation":"main_file","content_type":"application/pdf","creator":"system","file_id":"5066","date_created":"2018-12-12T10:14:16Z","date_updated":"2020-07-14T12:44:57Z","checksum":"6066146e527335030f83aa5924ab72a6","access_level":"open_access"}],"volume":11,"oa_version":"Published Version","quality_controlled":"1","day":"01","article_number":"e0147830","citation":{"ieee":"M. Adibi, S. Yoshida, D. Weijers, and C. Fleck, “Centering the organizing center in the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin signaling and self-organization,” PLoS One, vol. 11, no. 2. Public Library of Science, 2016.","chicago":"Adibi, Milad, Saiko Yoshida, Dolf Weijers, and Christian Fleck. “Centering the Organizing Center in the Arabidopsis Thaliana Shoot Apical Meristem by a Combination of Cytokinin Signaling and Self-Organization.” PLoS One. Public Library of Science, 2016. https://doi.org/10.1371/journal.pone.0147830.","short":"M. Adibi, S. Yoshida, D. Weijers, C. Fleck, PLoS One 11 (2016).","ista":"Adibi M, Yoshida S, Weijers D, Fleck C. 2016. Centering the organizing center in the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin signaling and self-organization. PLoS One. 11(2), e0147830.","apa":"Adibi, M., Yoshida, S., Weijers, D., & Fleck, C. (2016). Centering the organizing center in the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin signaling and self-organization. PLoS One. Public Library of Science. https://doi.org/10.1371/journal.pone.0147830","ama":"Adibi M, Yoshida S, Weijers D, Fleck C. Centering the organizing center in the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin signaling and self-organization. PLoS One. 2016;11(2). doi:10.1371/journal.pone.0147830","mla":"Adibi, Milad, et al. “Centering the Organizing Center in the Arabidopsis Thaliana Shoot Apical Meristem by a Combination of Cytokinin Signaling and Self-Organization.” PLoS One, vol. 11, no. 2, e0147830, Public Library of Science, 2016, doi:10.1371/journal.pone.0147830."},"oa":1,"status":"public","has_accepted_license":"1","title":"Centering the organizing center in the Arabidopsis thaliana shoot apical meristem by a combination of cytokinin signaling and self-organization","department":[{"_id":"JiFr"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2020-07-14T12:44:57Z","publisher":"Public Library of Science","publist_id":"5711","acknowledgement":"We thank J. Traas, B. Müller and V. Reddy for providing seed materials and Y. Deb for advice regarding the laser ablation experiments. We specially thank Thomas Laux for stimulating discussions and support in the initial phase of this project.","publication":"PLoS One","scopus_import":1,"date_published":"2016-02-01T00:00:00Z","date_created":"2018-12-11T11:52:17Z","_id":"1482","author":[{"last_name":"Adibi","first_name":"Milad","full_name":"Adibi, Milad"},{"id":"2E46069C-F248-11E8-B48F-1D18A9856A87","last_name":"Yoshida","first_name":"Saiko","full_name":"Yoshida, Saiko"},{"full_name":"Weijers, Dolf","first_name":"Dolf","last_name":"Weijers"},{"last_name":"Fleck","first_name":"Christian","full_name":"Fleck, Christian"}],"abstract":[{"text":"Plants have the ability to continously generate new organs by maintaining populations of stem cells throught their lives. The shoot apical meristem (SAM) provides a stable environment for the maintenance of stem cells. All cells inside the SAM divide, yet boundaries and patterns are maintained. Experimental evidence indicates that patterning is independent of cell lineage, thus a dynamic self-regulatory mechanism is required. A pivotal role in the organization of the SAM is played by the WUSCHEL gene (WUS). An important question in this regard is that how WUS expression is positioned in the SAM via a cell-lineage independent signaling mechanism. In this study we demonstrate via mathematical modeling that a combination of an inhibitor of the Cytokinin (CK) receptor, Arabidopsis histidine kinase 4 (AHK4) and two morphogens originating from the top cell layer, can plausibly account for the cell lineage-independent centering of WUS expression within SAM. Furthermore, our laser ablation and microsurgical experiments support the hypothesis that patterning in SAM occurs at the level of CK reception and signaling. The model suggests that the interplay between CK signaling, WUS/CLV feedback loop and boundary signals can account for positioning of the WUS expression, and provides directions for further experimental investigation.","lang":"eng"}],"issue":"2","pubrep_id":"521","intvolume":" 11","publication_status":"published","date_updated":"2021-01-12T06:51:03Z","type":"journal_article","year":"2016","doi":"10.1371/journal.pone.0147830","ddc":["570"],"month":"02","language":[{"iso":"eng"}]},{"publication":"Trends in Cell Biology","acknowledgement":"We thank Maciek Adamowski for helpful discussions and Qiang Zhu and Israel Ausin for critical reading of the manuscript. We sincerely apologize to colleagues whose work we could not include owing to space limitations.","publist_id":"5704","publisher":"Cell Press","file_date_updated":"2020-07-14T12:44:57Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","has_accepted_license":"1","department":[{"_id":"JiFr"}],"status":"public","title":"Environmental and endogenous control of cortical microtubule orientation","oa":1,"citation":{"ieee":"X. Chen, S. Wu, Z. Liu, and J. Friml, “Environmental and endogenous control of cortical microtubule orientation,” Trends in Cell Biology, vol. 26, no. 6. Cell Press, pp. 409–419, 2016.","chicago":"Chen, Xu, Shuang Wu, Zengyu Liu, and Jiří Friml. “Environmental and Endogenous Control of Cortical Microtubule Orientation.” Trends in Cell Biology. Cell Press, 2016. https://doi.org/10.1016/j.tcb.2016.02.003.","short":"X. Chen, S. Wu, Z. Liu, J. Friml, Trends in Cell Biology 26 (2016) 409–419.","ista":"Chen X, Wu S, Liu Z, Friml J. 2016. Environmental and endogenous control of cortical microtubule orientation. Trends in Cell Biology. 26(6), 409–419.","mla":"Chen, Xu, et al. “Environmental and Endogenous Control of Cortical Microtubule Orientation.” Trends in Cell Biology, vol. 26, no. 6, Cell Press, 2016, pp. 409–19, doi:10.1016/j.tcb.2016.02.003.","ama":"Chen X, Wu S, Liu Z, Friml J. Environmental and endogenous control of cortical microtubule orientation. Trends in Cell Biology. 2016;26(6):409-419. doi:10.1016/j.tcb.2016.02.003","apa":"Chen, X., Wu, S., Liu, Z., & Friml, J. (2016). Environmental and endogenous control of cortical microtubule orientation. Trends in Cell Biology. Cell Press. https://doi.org/10.1016/j.tcb.2016.02.003"},"day":"01","quality_controlled":"1","oa_version":"Submitted Version","page":"409 - 419","volume":26,"article_type":"review","file":[{"file_id":"5155","creator":"system","file_name":"IST-2018-1002-v1+1_Chen_TICB_2016_proofs.pdf","relation":"main_file","content_type":"application/pdf","file_size":2329117,"checksum":"b229e5bb4676ec3e27b7b9ea603b3a63","access_level":"open_access","date_updated":"2020-07-14T12:44:57Z","date_created":"2018-12-12T10:15:34Z"}],"language":[{"iso":"eng"}],"month":"06","ddc":["581"],"doi":"10.1016/j.tcb.2016.02.003","year":"2016","type":"journal_article","date_updated":"2021-01-12T06:51:04Z","publication_status":"published","intvolume":" 26","pubrep_id":"1002","issue":"6","author":[{"last_name":"Chen","first_name":"Xu","full_name":"Chen, Xu","id":"4E5ADCAA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Wu, Shuang","last_name":"Wu","first_name":"Shuang"},{"full_name":"Liu, Zengyu","last_name":"Liu","first_name":"Zengyu"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiřĺ","orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jiřĺ"}],"_id":"1484","date_created":"2018-12-11T11:52:17Z","date_published":"2016-06-01T00:00:00Z","scopus_import":1},{"ec_funded":1,"author":[{"orcid":"0000-0002-9767-8699","last_name":"Fendrych","first_name":"Matyas","full_name":"Fendrych, Matyas","id":"43905548-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Leung, Jeffrey","first_name":"Jeffrey","last_name":"Leung"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jirí","first_name":"Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596"}],"abstract":[{"text":"Despite being composed of immobile cells, plants reorient along directional stimuli. The hormone auxin is redistributed in stimulated organs leading to differential growth and bending. Auxin application triggers rapid cell wall acidification and elongation of aerial organs of plants, but the molecular players mediating these effects are still controversial. Here we use genetically-encoded pH and auxin signaling sensors, pharmacological and genetic manipulations available for Arabidopsis etiolated hypocotyls to clarify how auxin is perceived and the downstream growth executed. We show that auxin-induced acidification occurs by local activation of H+-ATPases, which in the context of gravity response is restricted to the lower organ side. This auxin-stimulated acidification and growth require TIR1/AFB-Aux/IAA nuclear auxin perception. In addition, auxin-induced gene transcription and specifically SAUR proteins are crucial downstream mediators of this growth. Our study provides strong experimental support for the acid growth theory and clarified the contribution of the upstream auxin perception mechanisms.","lang":"eng"}],"pubrep_id":"654","date_published":"2016-09-14T00:00:00Z","scopus_import":1,"_id":"1344","date_created":"2018-12-11T11:51:29Z","ddc":["581"],"doi":"10.7554/eLife.19048","year":"2016","language":[{"iso":"eng"}],"month":"09","publication_status":"published","intvolume":" 5","type":"journal_article","date_updated":"2021-01-12T06:50:01Z","quality_controlled":"1","oa":1,"citation":{"mla":"Fendrych, Matyas, et al. “TIR1 AFB Aux IAA Auxin Perception Mediates Rapid Cell Wall Acidification and Growth of Arabidopsis Hypocotyls.” ELife, vol. 5, e19048, eLife Sciences Publications, 2016, doi:10.7554/eLife.19048.","ama":"Fendrych M, Leung J, Friml J. TIR1 AFB Aux IAA auxin perception mediates rapid cell wall acidification and growth of Arabidopsis hypocotyls. eLife. 2016;5. doi:10.7554/eLife.19048","apa":"Fendrych, M., Leung, J., & Friml, J. (2016). TIR1 AFB Aux IAA auxin perception mediates rapid cell wall acidification and growth of Arabidopsis hypocotyls. ELife. eLife Sciences Publications. https://doi.org/10.7554/eLife.19048","ista":"Fendrych M, Leung J, Friml J. 2016. TIR1 AFB Aux IAA auxin perception mediates rapid cell wall acidification and growth of Arabidopsis hypocotyls. eLife. 5, e19048.","short":"M. Fendrych, J. Leung, J. Friml, ELife 5 (2016).","chicago":"Fendrych, Matyas, Jeffrey Leung, and Jiří Friml. “TIR1 AFB Aux IAA Auxin Perception Mediates Rapid Cell Wall Acidification and Growth of Arabidopsis Hypocotyls.” ELife. eLife Sciences Publications, 2016. https://doi.org/10.7554/eLife.19048.","ieee":"M. Fendrych, J. Leung, and J. Friml, “TIR1 AFB Aux IAA auxin perception mediates rapid cell wall acidification and growth of Arabidopsis hypocotyls,” eLife, vol. 5. eLife Sciences Publications, 2016."},"article_number":"e19048","day":"14","tmp":{"image":"/images/cc_by.png","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)"},"volume":5,"oa_version":"Published Version","file":[{"checksum":"9209541fbba00f24daad21a5d568540d","access_level":"open_access","date_updated":"2020-07-14T12:44:45Z","date_created":"2018-12-12T10:09:24Z","creator":"system","file_id":"4748","content_type":"application/pdf","relation":"main_file","file_name":"IST-2016-693-v1+1_e19048-download.pdf","file_size":5666343}],"project":[{"name":"International IST Postdoc Fellowship Programme","grant_number":"291734","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"},{"name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425"}],"acknowledgement":"The authors express their gratitude to Veronika Bierbaum, Robert Hauschild for help with MATLAB,\r\nDaniel von Wangenheim for the gravitropism assay. We are thankful to Bill Gray, Mark Estelle,\r\nMichael Prigge, Ottoline Leyser, Claudia Oecking for sharing the seeds with us. We thank Katelyn\r\nSageman-Furnas and the members of the Friml lab for critical reading of the manuscript. The\r\nresearch leading to these results has received funding from the People Programme (Marie Curie\r\nActions) of the European Union’s Seventh Framework Programme (FP7/2007-2013) under REA grant\r\nagreement n° 291734. This work was also supported by the European Research Council (project\r\nERC-2011-StG-20101109-PSDP).","publist_id":"5908","publication":"eLife","file_date_updated":"2020-07-14T12:44:45Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"JiFr"}],"status":"public","title":"TIR1 AFB Aux IAA auxin perception mediates rapid cell wall acidification and growth of Arabidopsis hypocotyls","has_accepted_license":"1","publisher":"eLife Sciences Publications"},{"year":"2016","doi":"10.1038/nplants.2016.102","ddc":["581"],"month":"07","language":[{"iso":"eng"}],"intvolume":" 2","publication_status":"published","date_updated":"2021-01-12T06:50:02Z","type":"journal_article","author":[{"full_name":"Molnar, Gergely","last_name":"Molnar","first_name":"Gergely","id":"34F1AF46-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Fendrych, Matyas","orcid":"0000-0002-9767-8699","last_name":"Fendrych","first_name":"Matyas","id":"43905548-F248-11E8-B48F-1D18A9856A87"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí"}],"abstract":[{"lang":"eng","text":"The electrostatic charge at the inner surface of the plasma membrane is strongly negative in higher organisms. A new study shows that phosphatidylinositol-4-phosphate plays a critical role in establishing plasma membrane surface charge in Arabidopsis, which regulates the correct localization of signalling components."}],"pubrep_id":"1007","scopus_import":1,"date_published":"2016-07-01T00:00:00Z","date_created":"2018-12-11T11:51:30Z","_id":"1345","publist_id":"5907","publication":"Nature Plants","has_accepted_license":"1","department":[{"_id":"JiFr"}],"status":"public","title":"Plasma membrane: Negative attraction","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2020-07-14T12:44:45Z","publisher":"Nature Publishing Group","quality_controlled":"1","day":"01","article_number":"16102","citation":{"ama":"Molnar G, Fendrych M, Friml J. Plasma membrane: Negative attraction. Nature Plants. 2016;2. doi:10.1038/nplants.2016.102","mla":"Molnar, Gergely, et al. “Plasma Membrane: Negative Attraction.” Nature Plants, vol. 2, 16102, Nature Publishing Group, 2016, doi:10.1038/nplants.2016.102.","apa":"Molnar, G., Fendrych, M., & Friml, J. (2016). Plasma membrane: Negative attraction. Nature Plants. Nature Publishing Group. https://doi.org/10.1038/nplants.2016.102","ista":"Molnar G, Fendrych M, Friml J. 2016. Plasma membrane: Negative attraction. Nature Plants. 2, 16102.","short":"G. Molnar, M. Fendrych, J. Friml, Nature Plants 2 (2016).","chicago":"Molnar, Gergely, Matyas Fendrych, and Jiří Friml. “Plasma Membrane: Negative Attraction.” Nature Plants. Nature Publishing Group, 2016. https://doi.org/10.1038/nplants.2016.102.","ieee":"G. Molnar, M. Fendrych, and J. Friml, “Plasma membrane: Negative attraction,” Nature Plants, vol. 2. Nature Publishing Group, 2016."},"oa":1,"file":[{"file_id":"4954","creator":"system","relation":"main_file","content_type":"application/pdf","file_name":"IST-2018-1007-v1+1_Molnar_NatPlants_2016.pdf","file_size":127781,"access_level":"open_access","checksum":"9ba65f558563b287f875f48fa9f30fb2","date_updated":"2020-07-14T12:44:45Z","date_created":"2018-12-12T10:12:36Z"},{"creator":"system","file_id":"4955","file_name":"IST-2018-1007-v1+2_Molnar_NatPlants_2016_editor_statement.pdf","content_type":"application/pdf","relation":"main_file","file_size":430556,"access_level":"open_access","checksum":"550d252be808d8ca2b43e83dddb4212f","date_updated":"2020-07-14T12:44:45Z","date_created":"2018-12-12T10:12:37Z"}],"oa_version":"Published Version","volume":2},{"quality_controlled":"1","day":"08","article_number":"11710","citation":{"ama":"Dejonghe W, Kuenen S, Mylle E, et al. Mitochondrial uncouplers inhibit clathrin-mediated endocytosis largely through cytoplasmic acidification. Nature Communications. 2016;7. doi:10.1038/ncomms11710","mla":"Dejonghe, Wim, et al. “Mitochondrial Uncouplers Inhibit Clathrin-Mediated Endocytosis Largely through Cytoplasmic Acidification.” Nature Communications, vol. 7, 11710, Nature Publishing Group, 2016, doi:10.1038/ncomms11710.","apa":"Dejonghe, W., Kuenen, S., Mylle, E., Vasileva, M. K., Keech, O., Viotti, C., … Russinova, E. (2016). Mitochondrial uncouplers inhibit clathrin-mediated endocytosis largely through cytoplasmic acidification. Nature Communications. Nature Publishing Group. https://doi.org/10.1038/ncomms11710","ista":"Dejonghe W, Kuenen S, Mylle E, Vasileva MK, Keech O, Viotti C, Swerts J, Fendrych M, Ortiz Morea F, Mishev K, Delang S, Scholl S, Zarza X, Heilmann M, Kourelis J, Kasprowicz J, Nguyen L, Drozdzecki A, Van Houtte I, Szatmári A, Majda M, Baisa G, Bednarek S, Robert S, Audenaert D, Testerink C, Munnik T, Van Damme D, Heilmann I, Schumacher K, Winne J, Friml J, Verstreken P, Russinova E. 2016. Mitochondrial uncouplers inhibit clathrin-mediated endocytosis largely through cytoplasmic acidification. Nature Communications. 7, 11710.","short":"W. Dejonghe, S. Kuenen, E. Mylle, M.K. Vasileva, O. Keech, C. Viotti, J. Swerts, M. Fendrych, F. Ortiz Morea, K. Mishev, S. Delang, S. Scholl, X. Zarza, M. Heilmann, J. Kourelis, J. Kasprowicz, L. Nguyen, A. Drozdzecki, I. Van Houtte, A. Szatmári, M. Majda, G. Baisa, S. Bednarek, S. Robert, D. Audenaert, C. Testerink, T. Munnik, D. Van Damme, I. Heilmann, K. Schumacher, J. Winne, J. Friml, P. Verstreken, E. Russinova, Nature Communications 7 (2016).","ieee":"W. Dejonghe et al., “Mitochondrial uncouplers inhibit clathrin-mediated endocytosis largely through cytoplasmic acidification,” Nature Communications, vol. 7. Nature Publishing Group, 2016.","chicago":"Dejonghe, Wim, Sabine Kuenen, Evelien Mylle, Mina K Vasileva, Olivier Keech, Corrado Viotti, Jef Swerts, et al. “Mitochondrial Uncouplers Inhibit Clathrin-Mediated Endocytosis Largely through Cytoplasmic Acidification.” Nature Communications. Nature Publishing Group, 2016. https://doi.org/10.1038/ncomms11710."},"oa":1,"tmp":{"image":"/images/cc_by.png","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)"},"file":[{"access_level":"open_access","checksum":"e8dc81b3e44db5a7718d7f1501ce1aa7","date_created":"2018-12-12T10:18:47Z","date_updated":"2020-07-14T12:44:45Z","relation":"main_file","content_type":"application/pdf","file_name":"IST-2016-653-v1+1_ncomms11710_1_.pdf","creator":"system","file_id":"5369","file_size":3532505}],"oa_version":"Published Version","volume":7,"publist_id":"5906","acknowledgement":"We thank Yvon Jaillais, Ikuko Hara-Nishimura, Akihiko Nakano, Takashi Ueda and Jinxing Lin for providing materials, Natasha Raikhel, Glenn Hicks, Steffen Vanneste, and Ricardo Tejos for useful suggestions, Patrick Callaerts for providing S2 Drosophila cell cultures, Michael Sixt for providing HeLa cells, Annick Bleys for literature searches, VIB Bio Imaging Core for help with imaging conditions and Martine De Cock for help in preparing the article. This work was supported by the Agency for Innovation by Science\r\nand Technology for a pre-doctoral fellowship to W.D.; the Research fund KU Leuven\r\n(GOA), a Methusalem grant of the Flemish government and VIB to S.K., J.K. and P.V.;\r\nby the Netherlands Organisation for Scientific Research (NWO) for ALW grants\r\n846.11.002 (C.T.) and 867.15.020 (T.M.); the European Research Council (project\r\nERC-2011-StG-20101109 PSDP) (to J.F.); a European Research Council (ERC) Starting\r\nGrant (grant 260678) (to P.V.), the Research Foundation-Flanders (grants G.0747.09,\r\nG094011 and G095511) (to P.V.), the Hercules Foundation, an Interuniversity Attraction\r\nPoles Poles Program, initiated by the Belgian State, Science Policy Office (to P.V.),\r\nthe Swedish VetenskapsRådet grant to O.K., the Ghent University ‘Bijzonder\r\nOnderzoek Fonds’ (BOF) for a predoctoral fellowship to F.A.O.-M., the Research\r\nFoundation-Flanders (FWO) to K.M. and E.R.","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"publication":"Nature Communications","has_accepted_license":"1","status":"public","department":[{"_id":"JiFr"}],"title":"Mitochondrial uncouplers inhibit clathrin-mediated endocytosis largely through cytoplasmic acidification","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2020-07-14T12:44:45Z","publisher":"Nature Publishing Group","ec_funded":1,"abstract":[{"lang":"eng","text":"ATP production requires the establishment of an electrochemical proton gradient across the inner mitochondrial membrane. Mitochondrial uncouplers dissipate this proton gradient and disrupt numerous cellular processes, including vesicular trafficking, mainly through energy depletion. Here we show that Endosidin9 (ES9), a novel mitochondrial uncoupler, is a potent inhibitor of clathrin-mediated endocytosis (CME) in different systems and that ES9 induces inhibition of CME not because of its effect on cellular ATP, but rather due to its protonophore activity that leads to cytoplasm acidification. We show that the known tyrosine kinase inhibitor tyrphostinA23, which is routinely used to block CME, displays similar properties, thus questioning its use as a specific inhibitor of cargo recognition by the AP-2 adaptor complex via tyrosine motif-based endocytosis signals. Furthermore, we show that cytoplasm acidification dramatically affects the dynamics and recruitment of clathrin and associated adaptors, and leads to reduction of phosphatidylinositol 4,5-biphosphate from the plasma membrane."}],"author":[{"full_name":"Dejonghe, Wim","last_name":"Dejonghe","first_name":"Wim"},{"last_name":"Kuenen","first_name":"Sabine","full_name":"Kuenen, Sabine"},{"first_name":"Evelien","last_name":"Mylle","full_name":"Mylle, Evelien"},{"id":"3407EB18-F248-11E8-B48F-1D18A9856A87","last_name":"Vasileva","first_name":"Mina K","full_name":"Vasileva, Mina K"},{"last_name":"Keech","first_name":"Olivier","full_name":"Keech, Olivier"},{"last_name":"Viotti","first_name":"Corrado","full_name":"Viotti, Corrado"},{"full_name":"Swerts, Jef","first_name":"Jef","last_name":"Swerts"},{"id":"43905548-F248-11E8-B48F-1D18A9856A87","full_name":"Fendrych, Matyas","first_name":"Matyas","orcid":"0000-0002-9767-8699","last_name":"Fendrych"},{"last_name":"Ortiz Morea","first_name":"Fausto","full_name":"Ortiz Morea, Fausto"},{"last_name":"Mishev","first_name":"Kiril","full_name":"Mishev, Kiril"},{"full_name":"Delang, Simon","last_name":"Delang","first_name":"Simon"},{"full_name":"Scholl, Stefan","first_name":"Stefan","last_name":"Scholl"},{"last_name":"Zarza","first_name":"Xavier","full_name":"Zarza, Xavier"},{"full_name":"Heilmann, Mareike","first_name":"Mareike","last_name":"Heilmann"},{"first_name":"Jiorgos","last_name":"Kourelis","full_name":"Kourelis, Jiorgos"},{"last_name":"Kasprowicz","first_name":"Jaroslaw","full_name":"Kasprowicz, Jaroslaw"},{"full_name":"Nguyen, Le","first_name":"Le","last_name":"Nguyen"},{"full_name":"Drozdzecki, Andrzej","first_name":"Andrzej","last_name":"Drozdzecki"},{"full_name":"Van Houtte, Isabelle","last_name":"Van Houtte","first_name":"Isabelle"},{"first_name":"Anna","last_name":"Szatmári","full_name":"Szatmári, Anna"},{"last_name":"Majda","first_name":"Mateusz","full_name":"Majda, Mateusz"},{"last_name":"Baisa","first_name":"Gary","full_name":"Baisa, Gary"},{"last_name":"Bednarek","first_name":"Sebastian","full_name":"Bednarek, Sebastian"},{"full_name":"Robert, Stéphanie","last_name":"Robert","first_name":"Stéphanie"},{"first_name":"Dominique","last_name":"Audenaert","full_name":"Audenaert, Dominique"},{"last_name":"Testerink","first_name":"Christa","full_name":"Testerink, Christa"},{"first_name":"Teun","last_name":"Munnik","full_name":"Munnik, Teun"},{"first_name":"Daniël","last_name":"Van Damme","full_name":"Van Damme, Daniël"},{"full_name":"Heilmann, Ingo","last_name":"Heilmann","first_name":"Ingo"},{"last_name":"Schumacher","first_name":"Karin","full_name":"Schumacher, Karin"},{"full_name":"Winne, Johan","last_name":"Winne","first_name":"Johan"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jirí"},{"last_name":"Verstreken","first_name":"Patrik","full_name":"Verstreken, Patrik"},{"full_name":"Russinova, Eugenia","last_name":"Russinova","first_name":"Eugenia"}],"pubrep_id":"653","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"7172"}]},"scopus_import":1,"date_published":"2016-06-08T00:00:00Z","date_created":"2018-12-11T11:51:30Z","_id":"1346","year":"2016","doi":"10.1038/ncomms11710","ddc":["570"],"month":"06","language":[{"iso":"eng"}],"intvolume":" 7","publication_status":"published","date_updated":"2023-09-07T12:54:35Z","type":"journal_article"},{"pubrep_id":"1006","issue":"2","author":[{"first_name":"Markéta","last_name":"Pernisová","full_name":"Pernisová, Markéta"},{"id":"3DA3BFEE-F248-11E8-B48F-1D18A9856A87","full_name":"Prat, Tomas","first_name":"Tomas","last_name":"Prat"},{"full_name":"Grones, Peter","last_name":"Grones","first_name":"Peter","id":"399876EC-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Haruštiaková","first_name":"Danka","full_name":"Haruštiaková, Danka"},{"first_name":"Martina","last_name":"Matonohova","full_name":"Matonohova, Martina"},{"full_name":"Spíchal, Lukáš","first_name":"Lukáš","last_name":"Spíchal"},{"full_name":"Nodzyński, Tomasz","last_name":"Nodzyński","first_name":"Tomasz"},{"first_name":"Jirí","orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hejátko, Jan","first_name":"Jan","last_name":"Hejátko"}],"abstract":[{"text":"Redirection of intercellular auxin fluxes via relocalization of the PIN-FORMED 3 (PIN3) and PIN7 auxin efflux carriers has been suggested to be necessary for the root gravitropic response. Cytokinins have also been proposed to play a role in controlling root gravitropism, but conclusive evidence is lacking. We present a detailed study of the dynamics of root bending early after gravistimulation, which revealed a delayed gravitropic response in transgenic lines with depleted endogenous cytokinins (Pro35S:AtCKX) and cytokinin signaling mutants. Pro35S:AtCKX lines, as well as a cytokinin receptor mutant ahk3, showed aberrations in the auxin response distribution in columella cells consistent with defects in the auxin transport machinery. Using in vivo real-time imaging of PIN3-GFP and PIN7-GFP in AtCKX3 overexpression and ahk3 backgrounds, we observed wild-type-like relocalization of PIN proteins in the columella early after gravistimulation, with gravity-induced relocalization of PIN7 faster than that of PIN3. Nonetheless, the cellular distribution of PIN3 and PIN7 and expression of PIN7 and the auxin influx carrier AUX1 was affected in AtCKX overexpression lines. Based on the retained cytokinin sensitivity in pin3 pin4 pin7 mutant, we propose the AUX1-mediated auxin transport rather than columella-located PIN proteins as a target of endogenous cytokinins in the control of root gravitropism.","lang":"eng"}],"_id":"1372","date_created":"2018-12-11T11:51:38Z","date_published":"2016-10-01T00:00:00Z","scopus_import":1,"language":[{"iso":"eng"}],"month":"10","ddc":["581"],"doi":"10.1111/nph.14049","year":"2016","type":"journal_article","date_updated":"2021-01-12T06:50:13Z","publication_status":"published","intvolume":" 212","oa":1,"citation":{"apa":"Pernisová, M., Prat, T., Grones, P., Haruštiaková, D., Matonohova, M., Spíchal, L., … Hejátko, J. (2016). Cytokinins influence root gravitropism via differential regulation of auxin transporter expression and localization in Arabidopsis. New Phytologist. Wiley-Blackwell. https://doi.org/10.1111/nph.14049","mla":"Pernisová, Markéta, et al. “Cytokinins Influence Root Gravitropism via Differential Regulation of Auxin Transporter Expression and Localization in Arabidopsis.” New Phytologist, vol. 212, no. 2, Wiley-Blackwell, 2016, pp. 497–509, doi:10.1111/nph.14049.","ama":"Pernisová M, Prat T, Grones P, et al. Cytokinins influence root gravitropism via differential regulation of auxin transporter expression and localization in Arabidopsis. New Phytologist. 2016;212(2):497-509. doi:10.1111/nph.14049","ista":"Pernisová M, Prat T, Grones P, Haruštiaková D, Matonohova M, Spíchal L, Nodzyński T, Friml J, Hejátko J. 2016. Cytokinins influence root gravitropism via differential regulation of auxin transporter expression and localization in Arabidopsis. New Phytologist. 212(2), 497–509.","short":"M. Pernisová, T. Prat, P. Grones, D. Haruštiaková, M. Matonohova, L. Spíchal, T. Nodzyński, J. Friml, J. Hejátko, New Phytologist 212 (2016) 497–509.","ieee":"M. Pernisová et al., “Cytokinins influence root gravitropism via differential regulation of auxin transporter expression and localization in Arabidopsis,” New Phytologist, vol. 212, no. 2. Wiley-Blackwell, pp. 497–509, 2016.","chicago":"Pernisová, Markéta, Tomas Prat, Peter Grones, Danka Haruštiaková, Martina Matonohova, Lukáš Spíchal, Tomasz Nodzyński, Jiří Friml, and Jan Hejátko. “Cytokinins Influence Root Gravitropism via Differential Regulation of Auxin Transporter Expression and Localization in Arabidopsis.” New Phytologist. Wiley-Blackwell, 2016. https://doi.org/10.1111/nph.14049."},"day":"01","quality_controlled":"1","page":"497 - 509","oa_version":"Submitted Version","volume":212,"file":[{"creator":"system","file_id":"5108","relation":"main_file","content_type":"application/pdf","file_name":"IST-2018-1006-v1+1_Pernisova_NewPhytol_2016_peer_review.pdf","file_size":972763,"checksum":"27fd841ceaf0403559d7048ef51500f9","access_level":"open_access","date_updated":"2020-07-14T12:44:47Z","date_created":"2018-12-12T10:14:53Z"}],"publication":"New Phytologist","acknowledgement":"Funded by Ministry of Education, Youth and Sports Czech Republic. Grant Numbers: CEITEC 2020, LQ1601, LO1204, LH14104 and The European Research Council. Grant Number: ERC-2011-StG-20101109-PSDP and The Czech Science Foundation. Grant Numbers: GAP501/11/1150, GA13-40637S, GP14-30004P","publist_id":"5839","publisher":"Wiley-Blackwell","file_date_updated":"2020-07-14T12:44:47Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","title":"Cytokinins influence root gravitropism via differential regulation of auxin transporter expression and localization in Arabidopsis","status":"public","department":[{"_id":"JiFr"}],"has_accepted_license":"1"},{"volume":250,"page":"10 - 19","oa_version":"Submitted Version","file":[{"file_size":4338545,"file_id":"6331","creator":"dernst","content_type":"application/pdf","relation":"main_file","file_name":"2016_PlantScience_Ugalde.pdf","date_updated":"2020-07-14T12:44:53Z","date_created":"2019-04-17T07:41:57Z","checksum":"ca08de036e6ddc81e6f760e0ccdebd3f","access_level":"open_access"}],"quality_controlled":"1","oa":1,"citation":{"short":"J. Ugalde, C. Rodríguez Furlán, R. De Rycke, L. Norambuena, J. Friml, G. León, R. Tejos, Plant Science 250 (2016) 10–19.","chicago":"Ugalde, José, Cecilia Rodríguez Furlán, Riet De Rycke, Lorena Norambuena, Jiří Friml, Gabriel León, and Ricardo Tejos. “Phosphatidylinositol 4-Phosphate 5-Kinases 1 and 2 Are Involved in the Regulation of Vacuole Morphology during Arabidopsis Thaliana Pollen Development.” Plant Science. Elsevier, 2016. https://doi.org/10.1016/j.plantsci.2016.05.014.","ieee":"J. Ugalde et al., “Phosphatidylinositol 4-phosphate 5-kinases 1 and 2 are involved in the regulation of vacuole morphology during Arabidopsis thaliana pollen development,” Plant Science, vol. 250. Elsevier, pp. 10–19, 2016.","mla":"Ugalde, José, et al. “Phosphatidylinositol 4-Phosphate 5-Kinases 1 and 2 Are Involved in the Regulation of Vacuole Morphology during Arabidopsis Thaliana Pollen Development.” Plant Science, vol. 250, Elsevier, 2016, pp. 10–19, doi:10.1016/j.plantsci.2016.05.014.","ama":"Ugalde J, Rodríguez Furlán C, De Rycke R, et al. Phosphatidylinositol 4-phosphate 5-kinases 1 and 2 are involved in the regulation of vacuole morphology during Arabidopsis thaliana pollen development. Plant Science. 2016;250:10-19. doi:10.1016/j.plantsci.2016.05.014","apa":"Ugalde, J., Rodríguez Furlán, C., De Rycke, R., Norambuena, L., Friml, J., León, G., & Tejos, R. (2016). Phosphatidylinositol 4-phosphate 5-kinases 1 and 2 are involved in the regulation of vacuole morphology during Arabidopsis thaliana pollen development. Plant Science. Elsevier. https://doi.org/10.1016/j.plantsci.2016.05.014","ista":"Ugalde J, Rodríguez Furlán C, De Rycke R, Norambuena L, Friml J, León G, Tejos R. 2016. Phosphatidylinositol 4-phosphate 5-kinases 1 and 2 are involved in the regulation of vacuole morphology during Arabidopsis thaliana pollen development. Plant Science. 250, 10–19."},"day":"01","file_date_updated":"2020-07-14T12:44:53Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","has_accepted_license":"1","title":"Phosphatidylinositol 4-phosphate 5-kinases 1 and 2 are involved in the regulation of vacuole morphology during Arabidopsis thaliana pollen development","department":[{"_id":"JiFr"}],"publisher":"Elsevier","acknowledgement":"the Odysseus Program of the Research Foundation-Flanders [G091608] to JF.","external_id":{"pmid":["27457979"]},"publist_id":"5797","publication":"Plant Science","pmid":1,"date_published":"2016-09-01T00:00:00Z","scopus_import":1,"_id":"1410","date_created":"2018-12-11T11:51:51Z","abstract":[{"text":"The pollen grains arise after meiosis of pollen mother cells within the anthers. A series of complex structural changes follows, generating mature pollen grains capable of performing the double fertilization of the female megasporophyte. Several signaling molecules, including hormones and lipids, have been involved in the regulation and appropriate control of pollen development. Phosphatidylinositol 4-phophate 5-kinases (PIP5K), which catalyze the biosynthesis of the phosphoinositide PtdIns(4,5)P2, are important for tip polar growth of root hairs and pollen tubes, embryo development, vegetative plant growth, and responses to the environment. Here, we report a role of PIP5Ks during microgametogenesis. PIP5K1 and PIP5K2 are expressed during early stages of pollen development and their transcriptional activity respond to auxin in pollen grains. Early male gametophytic lethality to certain grade was observed in both pip5k1-/- and pip5k2-/- single mutants. The number of pip5k mutant alleles is directly related to the frequency of aborted pollen grains suggesting the two genes are involved in the same function. Indeed PIP5K1 and PIP5K2 are functionally redundant since homozygous double mutants did not render viable pollen grains. The loss of function of PIP5K1 and PIP5K2results in defects in vacuole morphology in pollen at the later stages and epidermal root cells. Our results show that PIP5K1, PIP5K2 and phosphoinositide signaling are important cues for early developmental stages and vacuole formation during microgametogenesis.","lang":"eng"}],"author":[{"first_name":"José","last_name":"Ugalde","full_name":"Ugalde, José"},{"first_name":"Cecilia","last_name":"Rodríguez Furlán","full_name":"Rodríguez Furlán, Cecilia"},{"last_name":"De Rycke","first_name":"Riet","full_name":"De Rycke, Riet"},{"full_name":"Norambuena, Lorena","last_name":"Norambuena","first_name":"Lorena"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí"},{"full_name":"León, Gabriel","first_name":"Gabriel","last_name":"León"},{"first_name":"Ricardo","last_name":"Tejos","full_name":"Tejos, Ricardo"}],"pubrep_id":"1005","publication_status":"published","intvolume":" 250","type":"journal_article","date_updated":"2021-01-12T06:50:33Z","ddc":["581"],"doi":"10.1016/j.plantsci.2016.05.014","year":"2016","language":[{"iso":"eng"}],"month":"09"},{"publisher":"Wiley-Blackwell","has_accepted_license":"1","status":"public","department":[{"_id":"JiFr"}],"title":"PIN6 auxin transporter at endoplasmic reticulum and plasma membrane mediates auxin homeostasis and organogenesis in Arabidopsis","file_date_updated":"2020-07-14T12:44:53Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publication":"New Phytologist","acknowledgement":"This work was supported by the European Research Council (project ERC-2011-StG-20101109-PSDP, project CEITEC (CZ.1.05/1.1.00/02.0068) and the Czech Science Foundation GACR (project no. 13-4063 7S to J.F.)","publist_id":"5790","file":[{"access_level":"open_access","checksum":"23522ced3508ffe7a4f247c4230e6493","date_updated":"2020-07-14T12:44:53Z","date_created":"2018-12-12T10:13:32Z","creator":"system","file_id":"5016","relation":"main_file","content_type":"application/pdf","file_name":"IST-2018-1004-v1+1_Simon_NewPhytol_2016_proof.pdf","file_size":3828383}],"oa_version":"Submitted Version","volume":211,"page":"65 - 74","day":"01","oa":1,"citation":{"ieee":"S. Simon et al., “PIN6 auxin transporter at endoplasmic reticulum and plasma membrane mediates auxin homeostasis and organogenesis in Arabidopsis,” New Phytologist, vol. 211, no. 1. Wiley-Blackwell, pp. 65–74, 2016.","chicago":"Simon, Sibu, Petr Skůpa, Tom Viaene, Marta Zwiewka, Ricardo Tejos, Petr Klíma, Mária Čarná, et al. “PIN6 Auxin Transporter at Endoplasmic Reticulum and Plasma Membrane Mediates Auxin Homeostasis and Organogenesis in Arabidopsis.” New Phytologist. Wiley-Blackwell, 2016. https://doi.org/10.1111/nph.14019.","short":"S. Simon, P. Skůpa, T. Viaene, M. Zwiewka, R. Tejos, P. Klíma, M. Čarná, J. Rolčík, R. De Rycke, I. Moreno, P. Dobrev, A. Orellana, E. Zažímalová, J. Friml, New Phytologist 211 (2016) 65–74.","ista":"Simon S, Skůpa P, Viaene T, Zwiewka M, Tejos R, Klíma P, Čarná M, Rolčík J, De Rycke R, Moreno I, Dobrev P, Orellana A, Zažímalová E, Friml J. 2016. PIN6 auxin transporter at endoplasmic reticulum and plasma membrane mediates auxin homeostasis and organogenesis in Arabidopsis. New Phytologist. 211(1), 65–74.","ama":"Simon S, Skůpa P, Viaene T, et al. PIN6 auxin transporter at endoplasmic reticulum and plasma membrane mediates auxin homeostasis and organogenesis in Arabidopsis. New Phytologist. 2016;211(1):65-74. doi:10.1111/nph.14019","mla":"Simon, Sibu, et al. “PIN6 Auxin Transporter at Endoplasmic Reticulum and Plasma Membrane Mediates Auxin Homeostasis and Organogenesis in Arabidopsis.” New Phytologist, vol. 211, no. 1, Wiley-Blackwell, 2016, pp. 65–74, doi:10.1111/nph.14019.","apa":"Simon, S., Skůpa, P., Viaene, T., Zwiewka, M., Tejos, R., Klíma, P., … Friml, J. (2016). PIN6 auxin transporter at endoplasmic reticulum and plasma membrane mediates auxin homeostasis and organogenesis in Arabidopsis. New Phytologist. Wiley-Blackwell. https://doi.org/10.1111/nph.14019"},"quality_controlled":"1","type":"journal_article","date_updated":"2021-01-12T06:50:36Z","publication_status":"published","intvolume":" 211","month":"07","language":[{"iso":"eng"}],"doi":"10.1111/nph.14019","year":"2016","ddc":["581"],"date_created":"2018-12-11T11:51:54Z","_id":"1417","date_published":"2016-07-01T00:00:00Z","scopus_import":1,"pubrep_id":"1004","abstract":[{"text":"Plant development mediated by the phytohormone auxin depends on tightly controlled cellular auxin levels at its target tissue that are largely established by intercellular and intracellular auxin transport mediated by PIN auxin transporters. Among the eight members of the Arabidopsis PIN family, PIN6 is the least characterized candidate. In this study we generated functional, fluorescent protein-tagged PIN6 proteins and performed comprehensive analysis of their subcellular localization and also performed a detailed functional characterization of PIN6 and its developmental roles. The localization study of PIN6 revealed a dual localization at the plasma membrane (PM) and endoplasmic reticulum (ER). Transport and metabolic profiling assays in cultured cells and Arabidopsis strongly suggest that PIN6 mediates both auxin transport across the PM and intracellular auxin homeostasis, including the regulation of free auxin and auxin conjugates levels. As evidenced by the loss- and gain-of-function analysis, the complex function of PIN6 in auxin transport and homeostasis is required for auxin distribution during lateral and adventitious root organogenesis and for progression of these developmental processes. These results illustrate a unique position of PIN6 within the family of PIN auxin transporters and further add complexity to the developmentally crucial process of auxin transport.","lang":"eng"}],"author":[{"id":"4542EF9A-F248-11E8-B48F-1D18A9856A87","first_name":"Sibu","last_name":"Simon","orcid":"0000-0002-1998-6741","full_name":"Simon, Sibu"},{"last_name":"Skůpa","first_name":"Petr","full_name":"Skůpa, Petr"},{"last_name":"Viaene","first_name":"Tom","full_name":"Viaene, Tom"},{"full_name":"Zwiewka, Marta","last_name":"Zwiewka","first_name":"Marta"},{"full_name":"Tejos, Ricardo","last_name":"Tejos","first_name":"Ricardo"},{"last_name":"Klíma","first_name":"Petr","full_name":"Klíma, Petr"},{"first_name":"Mária","last_name":"Čarná","full_name":"Čarná, Mária"},{"full_name":"Rolčík, Jakub","first_name":"Jakub","last_name":"Rolčík"},{"first_name":"Riet","last_name":"De Rycke","full_name":"De Rycke, Riet"},{"last_name":"Moreno","first_name":"Ignacio","full_name":"Moreno, Ignacio"},{"full_name":"Dobrev, Petre","last_name":"Dobrev","first_name":"Petre"},{"first_name":"Ariel","last_name":"Orellana","full_name":"Orellana, Ariel"},{"full_name":"Zažímalová, Eva","last_name":"Zažímalová","first_name":"Eva"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jirí","orcid":"0000-0002-8302-7596","last_name":"Friml","first_name":"Jirí"}],"issue":"1"},{"date_updated":"2021-01-12T06:49:08Z","type":"journal_article","intvolume":" 26","publication_status":"published","month":"11","language":[{"iso":"eng"}],"year":"2016","doi":"10.1016/j.cub.2016.08.067","ddc":["581"],"date_created":"2018-12-11T11:50:44Z","_id":"1212","scopus_import":1,"date_published":"2016-11-21T00:00:00Z","pubrep_id":"1008","author":[{"full_name":"Rakusová, Hana","last_name":"Rakusová","first_name":"Hana"},{"last_name":"Abbas","first_name":"Mohamad","full_name":"Abbas, Mohamad","id":"47E8FC1C-F248-11E8-B48F-1D18A9856A87"},{"id":"31435098-F248-11E8-B48F-1D18A9856A87","last_name":"Han","first_name":"Huibin","full_name":"Han, Huibin"},{"full_name":"Song, Siyuan","first_name":"Siyuan","last_name":"Song"},{"first_name":"Hélène","last_name":"Robert","full_name":"Robert, Hélène"},{"orcid":"0000-0002-8302-7596","last_name":"Friml","first_name":"Jirí","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"ec_funded":1,"abstract":[{"lang":"eng","text":"Plants adjust their growth according to gravity. Gravitropism involves gravity perception, signal transduction, and asymmetric growth response, with organ bending as a consequence [1]. Asymmetric growth results from the asymmetric distribution of the plant-specific signaling molecule auxin [2] that is generated by lateral transport, mediated in the hypocotyl predominantly by the auxin transporter PIN-FORMED3 (PIN3) [3–5]. Gravity stimulation polarizes PIN3 to the bottom sides of endodermal cells, correlating with increased auxin accumulation in adjacent tissues at the lower side of the stimulated organ, where auxin induces cell elongation and, hence, organ bending. A curvature response allows the hypocotyl to resume straight growth at a defined angle [6], implying that at some point auxin symmetry is restored to prevent overbending. Here, we present initial insights into cellular and molecular mechanisms that lead to the termination of the tropic response. We identified an auxin feedback on PIN3 polarization as underlying mechanism that restores symmetry of the PIN3-dependent auxin flow. Thus, two mechanistically distinct PIN3 polarization events redirect auxin fluxes at different time points of the gravity response: first, gravity-mediated redirection of PIN3-mediated auxin flow toward the lower hypocotyl side, where auxin gradually accumulates and promotes growth, and later PIN3 polarization to the opposite cell side, depleting this auxin maximum to end the bending. Accordingly, genetic or pharmacological interference with the late PIN3 polarization prevents termination of the response and leads to hypocotyl overbending. This observation reveals a role of auxin feedback on PIN polarity in the termination of the tropic response. © 2016 Elsevier Ltd"}],"issue":"22","publisher":"Cell Press","has_accepted_license":"1","department":[{"_id":"JiFr"}],"title":"Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity","status":"public","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2020-07-14T12:44:39Z","publication":"Current Biology","publist_id":"6138","acknowledgement":"We thank Dr. Jie Li (Key Laboratory of Plant Molecular Physiology, Chinese Academy of Science, China) for the pPIN3::PIN3-GFP/DII::VENUS line and Martine De Cock for help in preparing the manuscript. This work was supported by the European Research Council (project ERC-2011-StG-20101109-PSDP), by the Czech Science Foundation GAČR (GA13-40637S) to J.F., and by the Ministry of Education, Youth and Sports of the Czech Republic under the project CEITEC 2020 (LQ1601) to H.S.R. H.R. is indebted to the Agency for Innovation by Science and Technology (IWT) for a predoctoral fellowship.\r\n","project":[{"call_identifier":"FP7","grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants"}],"file":[{"access_level":"open_access","checksum":"79ed2498185a027cf51a8f88100379e6","date_updated":"2020-07-14T12:44:39Z","date_created":"2018-12-12T10:09:33Z","file_id":"4757","creator":"system","relation":"main_file","content_type":"application/pdf","file_name":"IST-2018-1008-v1+1_Rakusova_CurrBiol_2016_proof.pdf","file_size":5391923}],"page":"3026 - 3032","volume":26,"oa_version":"Submitted Version","day":"21","citation":{"ieee":"H. Rakusová, M. Abbas, H. Han, S. Song, H. Robert, and J. Friml, “Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity,” Current Biology, vol. 26, no. 22. Cell Press, pp. 3026–3032, 2016.","chicago":"Rakusová, Hana, Mohamad Abbas, Huibin Han, Siyuan Song, Hélène Robert, and Jiří Friml. “Termination of Shoot Gravitropic Responses by Auxin Feedback on PIN3 Polarity.” Current Biology. Cell Press, 2016. https://doi.org/10.1016/j.cub.2016.08.067.","short":"H. Rakusová, M. Abbas, H. Han, S. Song, H. Robert, J. Friml, Current Biology 26 (2016) 3026–3032.","ista":"Rakusová H, Abbas M, Han H, Song S, Robert H, Friml J. 2016. Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity. Current Biology. 26(22), 3026–3032.","apa":"Rakusová, H., Abbas, M., Han, H., Song, S., Robert, H., & Friml, J. (2016). Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity. Current Biology. Cell Press. https://doi.org/10.1016/j.cub.2016.08.067","mla":"Rakusová, Hana, et al. “Termination of Shoot Gravitropic Responses by Auxin Feedback on PIN3 Polarity.” Current Biology, vol. 26, no. 22, Cell Press, 2016, pp. 3026–32, doi:10.1016/j.cub.2016.08.067.","ama":"Rakusová H, Abbas M, Han H, Song S, Robert H, Friml J. Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity. Current Biology. 2016;26(22):3026-3032. doi:10.1016/j.cub.2016.08.067"},"oa":1,"quality_controlled":"1"},{"publication":"F1000 Research ","article_processing_charge":"No","publist_id":"6113","acknowledgement":"This work was supported by ERC Independent Research grant (ERC-2011-StG-20101109-PSDP to JF). JM internship was supported by the grant “Action Austria – Slovakia”. MG was supported by the scholarship \"Stipendien der Stipendienstiftung der Republik Österreich\". Work by EH and CPR were supported by ANR blanc ANR-14-CE11-0018. We would like to thank Mark Estelle and Yunde Zhao for provid\r\n-\r\ning \r\nabp1-c1\r\n, \r\nabp1-TD1 \r\nand \r\nabp1-WTc1 \r\nseeds. We thank Emeline \r\nHuault for technical assistance.","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300","call_identifier":"FP7","name":"Polarity and subcellular dynamics in plants"}],"publisher":"F1000 Research","status":"public","has_accepted_license":"1","title":"Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein","department":[{"_id":"JiFr"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2020-07-14T12:44:39Z","day":"20","article_number":"86","citation":{"mla":"Michalko, Jaroslav, et al. “Strong Morphological Defects in Conditional Arabidopsis Abp1 Knock-down Mutants Generated in Absence of Functional ABP1 Protein.” F1000 Research , vol. 5, 86, F1000 Research, 2016, doi:10.12688/f1000research.7654.1.","ama":"Michalko J, Glanc M, Perrot Rechenmann C, Friml J. Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein. F1000 Research . 2016;5. doi:10.12688/f1000research.7654.1","apa":"Michalko, J., Glanc, M., Perrot Rechenmann, C., & Friml, J. (2016). Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein. F1000 Research . F1000 Research. https://doi.org/10.12688/f1000research.7654.1","ista":"Michalko J, Glanc M, Perrot Rechenmann C, Friml J. 2016. Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein. F1000 Research . 5, 86.","short":"J. Michalko, M. Glanc, C. Perrot Rechenmann, J. Friml, F1000 Research 5 (2016).","ieee":"J. Michalko, M. Glanc, C. Perrot Rechenmann, and J. Friml, “Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein,” F1000 Research , vol. 5. F1000 Research, 2016.","chicago":"Michalko, Jaroslav, Matous Glanc, Catherine Perrot Rechenmann, and Jiří Friml. “Strong Morphological Defects in Conditional Arabidopsis Abp1 Knock-down Mutants Generated in Absence of Functional ABP1 Protein.” F1000 Research . F1000 Research, 2016. https://doi.org/10.12688/f1000research.7654.1."},"oa":1,"quality_controlled":"1","file":[{"file_size":2990459,"relation":"main_file","content_type":"application/pdf","file_name":"IST-2016-711-v1+1_770cf1e0-612f-4e85-a500-54b6349fbbab_7654_-_jaroslav_michalko.pdf","creator":"system","file_id":"5154","date_created":"2018-12-12T10:15:33Z","date_updated":"2020-07-14T12:44:39Z","checksum":"c9e50bb6096a7ba4a832969935820f19","access_level":"open_access"}],"article_type":"original","volume":5,"oa_version":"Published Version","tmp":{"image":"/images/cc_by.png","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)"},"month":"01","language":[{"iso":"eng"}],"year":"2016","doi":"10.12688/f1000research.7654.1","ddc":["581"],"date_updated":"2025-05-07T11:12:30Z","type":"journal_article","intvolume":" 5","publication_status":"published","pubrep_id":"711","ec_funded":1,"abstract":[{"lang":"eng","text":"The Auxin Binding Protein 1 (ABP1) is one of the most studied proteins in plants. Since decades ago, it has been the prime receptor candidate for the plant hormone auxin with a plethora of described functions in auxin signaling and development. The developmental importance of ABP1 has recently been questioned by identification of Arabidopsis thaliana abp1 knock-out alleles that show no obvious phenotypes under normal growth conditions. In this study, we examined the contradiction between the normal growth and development of the abp1 knock-outs and the strong morphological defects observed in three different ethanol-inducible abp1 knock-down mutants ( abp1-AS, SS12K, SS12S). By analyzing segregating populations of abp1 knock-out vs. abp1 knock-down crosses we show that the strong morphological defects that were believed to be the result of conditional down-regulation of ABP1 can be reproduced also in the absence of the functional ABP1 protein. This data suggests that the phenotypes in abp1 knock-down lines are due to the off-target effects and asks for further reflections on the biological function of ABP1 or alternative explanations for the missing phenotypic defects in the abp1 loss-of-function alleles."}],"author":[{"full_name":"Michalko, Jaroslav","last_name":"Michalko","first_name":"Jaroslav","id":"483727CA-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Glanc, Matous","first_name":"Matous","orcid":"0000-0003-0619-7783","last_name":"Glanc","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2"},{"full_name":"Perrot Rechenmann, Catherine","first_name":"Catherine","last_name":"Perrot Rechenmann"},{"last_name":"Friml","orcid":"0000-0002-8302-7596","first_name":"Jirí","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2018-12-11T11:50:47Z","_id":"1221","scopus_import":"1","date_published":"2016-01-20T00:00:00Z"},{"month":"01","language":[{"iso":"eng"}],"doi":"10.3389/fpls.2015.01262","year":"2016","ddc":["581"],"type":"journal_article","date_updated":"2021-01-12T06:49:18Z","publication_status":"published","intvolume":" 6","pubrep_id":"710","author":[{"first_name":"Daniel","orcid":"0000-0002-6862-1247","last_name":"Von Wangenheim","full_name":"Von Wangenheim, Daniel","id":"49E91952-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Amparo","last_name":"Rosero","full_name":"Rosero, Amparo"},{"full_name":"Komis, George","last_name":"Komis","first_name":"George"},{"full_name":"Šamajová, Olga","first_name":"Olga","last_name":"Šamajová"},{"first_name":"Miroslav","last_name":"Ovečka","full_name":"Ovečka, Miroslav"},{"last_name":"Voigt","first_name":"Boris","full_name":"Voigt, Boris"},{"first_name":"Jozef","last_name":"Šamaj","full_name":"Šamaj, Jozef"}],"abstract":[{"text":"The dynamic localization of endosomal compartments labeled with targeted fluorescent protein tags is routinely followed by time lapse fluorescence microscopy approaches and single particle tracking algorithms. In this way trajectories of individual endosomes can be mapped and linked to physiological processes as cell growth. However, other aspects of dynamic behavior including endosomal interactions are difficult to follow in this manner. Therefore, we characterized the localization and dynamic properties of early and late endosomes throughout the entire course of root hair formation by means of spinning disc time lapse imaging and post-acquisition automated multitracking and quantitative analysis. Our results show differential motile behavior of early and late endosomes and interactions of late endosomes that may be specified to particular root hair domains. Detailed data analysis revealed a particular transient interaction between late endosomes—termed herein as dancing-endosomes—which is not concluding to vesicular fusion. Endosomes preferentially located in the root hair tip interacted as dancing-endosomes and traveled short distances during this interaction. Finally, sizes of early and late endosomes were addressed by means of super-resolution structured illumination microscopy (SIM) to corroborate measurements on the spinning disc. This is a first study providing quantitative microscopic data on dynamic spatio-temporal interactions of endosomes during root hair tip growth.","lang":"eng"}],"issue":"JAN2016","date_created":"2018-12-11T11:50:53Z","_id":"1238","date_published":"2016-01-29T00:00:00Z","scopus_import":1,"publication":"Frontiers in Plant Science","acknowledgement":"This work was supported by National Program for Sustainability I (grant no. LO1204) provided by the Czech Ministry of Education and by Institutional Fund of Palacký University Olomouc (GK and OŠ).\r\nWe thank Sabine Fischer for help with the statistics.","publist_id":"6094","publisher":"Frontiers Research Foundation","status":"public","department":[{"_id":"JiFr"}],"has_accepted_license":"1","title":"Endosomal interactions during root hair growth","file_date_updated":"2020-07-14T12:44:41Z","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","article_number":"1262","day":"29","oa":1,"citation":{"chicago":"Wangenheim, Daniel von, Amparo Rosero, George Komis, Olga Šamajová, Miroslav Ovečka, Boris Voigt, and Jozef Šamaj. “Endosomal Interactions during Root Hair Growth.” Frontiers in Plant Science. Frontiers Research Foundation, 2016. https://doi.org/10.3389/fpls.2015.01262.","ieee":"D. von Wangenheim et al., “Endosomal interactions during root hair growth,” Frontiers in Plant Science, vol. 6, no. JAN2016. Frontiers Research Foundation, 2016.","short":"D. von Wangenheim, A. Rosero, G. Komis, O. Šamajová, M. Ovečka, B. Voigt, J. Šamaj, Frontiers in Plant Science 6 (2016).","ista":"von Wangenheim D, Rosero A, Komis G, Šamajová O, Ovečka M, Voigt B, Šamaj J. 2016. Endosomal interactions during root hair growth. Frontiers in Plant Science. 6(JAN2016), 1262.","ama":"von Wangenheim D, Rosero A, Komis G, et al. Endosomal interactions during root hair growth. Frontiers in Plant Science. 2016;6(JAN2016). doi:10.3389/fpls.2015.01262","mla":"von Wangenheim, Daniel, et al. “Endosomal Interactions during Root Hair Growth.” Frontiers in Plant Science, vol. 6, no. JAN2016, 1262, Frontiers Research Foundation, 2016, doi:10.3389/fpls.2015.01262.","apa":"von Wangenheim, D., Rosero, A., Komis, G., Šamajová, O., Ovečka, M., Voigt, B., & Šamaj, J. (2016). Endosomal interactions during root hair growth. Frontiers in Plant Science. Frontiers Research Foundation. https://doi.org/10.3389/fpls.2015.01262"},"quality_controlled":"1","file":[{"file_size":1640550,"file_id":"4760","creator":"system","file_name":"IST-2016-710-v1+1_fpls-06-01262.pdf","content_type":"application/pdf","relation":"main_file","date_updated":"2020-07-14T12:44:41Z","date_created":"2018-12-12T10:09:36Z","access_level":"open_access","checksum":"3127eab844d53564bf47e2b6b42f1ca0"}],"volume":6,"oa_version":"Published Version","tmp":{"image":"/images/cc_by.png","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)"}},{"oa":1,"citation":{"apa":"Karampelias, M., Neyt, P., De Groeve, S., Aesaert, S., Coussens, G., Rolčík, J., … Van Lijsebettens, M. (2016). ROTUNDA3 function in plant development by phosphatase 2A-mediated regulation of auxin transporter recycling. PNAS. National Academy of Sciences. https://doi.org/10.1073/pnas.1501343112","ama":"Karampelias M, Neyt P, De Groeve S, et al. ROTUNDA3 function in plant development by phosphatase 2A-mediated regulation of auxin transporter recycling. PNAS. 2016;113(10):2768-2773. doi:10.1073/pnas.1501343112","mla":"Karampelias, Michael, et al. “ROTUNDA3 Function in Plant Development by Phosphatase 2A-Mediated Regulation of Auxin Transporter Recycling.” PNAS, vol. 113, no. 10, National Academy of Sciences, 2016, pp. 2768–73, doi:10.1073/pnas.1501343112.","ista":"Karampelias M, Neyt P, De Groeve S, Aesaert S, Coussens G, Rolčík J, Bruno L, De Winne N, Van Minnebruggen A, Van Montagu M, Ponce M, Micol J, Friml J, De Jaeger G, Van Lijsebettens M. 2016. ROTUNDA3 function in plant development by phosphatase 2A-mediated regulation of auxin transporter recycling. PNAS. 113(10), 2768–2773.","short":"M. Karampelias, P. Neyt, S. De Groeve, S. Aesaert, G. Coussens, J. Rolčík, L. Bruno, N. De Winne, A. Van Minnebruggen, M. Van Montagu, M. Ponce, J. Micol, J. Friml, G. De Jaeger, M. Van Lijsebettens, PNAS 113 (2016) 2768–2773.","ieee":"M. Karampelias et al., “ROTUNDA3 function in plant development by phosphatase 2A-mediated regulation of auxin transporter recycling,” PNAS, vol. 113, no. 10. National Academy of Sciences, pp. 2768–2773, 2016.","chicago":"Karampelias, Michael, Pia Neyt, Steven De Groeve, Stijn Aesaert, Griet Coussens, Jakub Rolčík, Leonardo Bruno, et al. “ROTUNDA3 Function in Plant Development by Phosphatase 2A-Mediated Regulation of Auxin Transporter Recycling.” PNAS. National Academy of Sciences, 2016. https://doi.org/10.1073/pnas.1501343112."},"day":"08","quality_controlled":"1","volume":113,"oa_version":"Submitted Version","page":"2768 - 2773","main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4791031/"}],"publication":"PNAS","project":[{"call_identifier":"FP7","grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants"}],"acknowledgement":"This work was supported by the Ghent University Special Research Fund (M.K.), the European Research Council (Project ERC-2011-StG-20101109-PSDP) (to J.F.), and the Körber European Science Foun-\r\ndation (J.F.). S.D.G. is indebted to the Agency for Science and Technology for\r\na predoctoral fellowship.","publist_id":"6081","publisher":"National Academy of Sciences","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","status":"public","department":[{"_id":"JiFr"}],"title":"ROTUNDA3 function in plant development by phosphatase 2A-mediated regulation of auxin transporter recycling","issue":"10","abstract":[{"lang":"eng","text":"The shaping of organs in plants depends on the intercellular flow of the phytohormone auxin, of which the directional signaling is determined by the polar subcellular localization of PIN-FORMED (PIN) auxin transport proteins. Phosphorylation dynamics of PIN proteins are affected by the protein phosphatase 2A (PP2A) and the PINOID kinase, which act antagonistically to mediate their apical-basal polar delivery. Here, we identified the ROTUNDA3 (RON3) protein as a regulator of the PP2A phosphatase activity in Arabidopsis thaliana. The RON3 gene was map-based cloned starting from the ron3-1 leaf mutant and found to be a unique, plant-specific gene coding for a protein with high and dispersed proline content. The ron3-1 and ron3-2 mutant phenotypes [i.e., reduced apical dominance, primary root length, lateral root emergence, and growth; increased ectopic stages II, IV, and V lateral root primordia; decreased auxin maxima in indole-3-acetic acid (IAA)-treated root apical meristems; hypergravitropic root growth and response; increased IAA levels in shoot apices; and reduced auxin accumulation in root meristems] support a role for RON3 in auxin biology. The affinity-purified PP2A complex with RON3 as bait suggested that RON3 might act in PIN transporter trafficking. Indeed, pharmacological interference with vesicle trafficking processes revealed that single ron3-2 and double ron3-2 rcn1 mutants have altered PIN polarity and endocytosis in specific cells. Our data indicate that RON3 contributes to auxin-mediated development by playing a role in PIN recycling and polarity establishment through regulation of the PP2A complex activity."}],"author":[{"full_name":"Karampelias, Michael","last_name":"Karampelias","first_name":"Michael"},{"full_name":"Neyt, Pia","first_name":"Pia","last_name":"Neyt"},{"full_name":"De Groeve, Steven","last_name":"De Groeve","first_name":"Steven"},{"full_name":"Aesaert, Stijn","first_name":"Stijn","last_name":"Aesaert"},{"last_name":"Coussens","first_name":"Griet","full_name":"Coussens, Griet"},{"full_name":"Rolčík, Jakub","last_name":"Rolčík","first_name":"Jakub"},{"first_name":"Leonardo","last_name":"Bruno","full_name":"Bruno, Leonardo"},{"full_name":"De Winne, Nancy","first_name":"Nancy","last_name":"De Winne"},{"full_name":"Van Minnebruggen, Annemie","first_name":"Annemie","last_name":"Van Minnebruggen"},{"last_name":"Van Montagu","first_name":"Marc","full_name":"Van Montagu, Marc"},{"last_name":"Ponce","first_name":"Maria","full_name":"Ponce, Maria"},{"full_name":"Micol, José","last_name":"Micol","first_name":"José"},{"full_name":"Friml, Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"De Jaeger, Geert","first_name":"Geert","last_name":"De Jaeger"},{"full_name":"Van Lijsebettens, Mieke","first_name":"Mieke","last_name":"Van Lijsebettens"}],"ec_funded":1,"_id":"1247","date_created":"2018-12-11T11:50:56Z","date_published":"2016-03-08T00:00:00Z","scopus_import":1,"language":[{"iso":"eng"}],"month":"03","doi":"10.1073/pnas.1501343112","year":"2016","type":"journal_article","date_updated":"2021-01-12T06:49:22Z","publication_status":"published","intvolume":" 113"},{"title":"TWISTED DWARF1 mediates the action of auxin transport inhibitors on actin cytoskeleton dynamics","status":"public","department":[{"_id":"JiFr"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publisher":"American Society of Plant Biologists","publist_id":"6078","acknowledgement":" This work was supported by grants from the European Social Fund (CZ.1.07/2.3.00/20.0043), the Czech Science Foundation GAČR (GA13-40637S) to J.F. and M.Z., the Ministry of Education, Youth, and Sports of the Czech Republic under the project CEITEC 2020 (LQ1601) to M.Z., the Ministry for Higher Education and Research of Luxembourg (REC-LOCM-20140703) to C.T., the Partial Funding Program for Short Stays Abroad of CONICET Argentina (to N.I.B.), Swiss National Funds, the Pool de Recherche of the University of Fribourg, and the Novartis Foundation (all to M.G.). ","publication":"Plant Cell","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4863381/","open_access":"1"}],"page":"930 - 948","oa_version":"Submitted Version","volume":28,"quality_controlled":"1","day":"01","citation":{"chicago":"Zhu, Jinsheng, Aurélien Bailly, Marta Zwiewka, Valpuri Sovero, Martin Di Donato, Pei Ge, Jacqueline Oehri, et al. “TWISTED DWARF1 Mediates the Action of Auxin Transport Inhibitors on Actin Cytoskeleton Dynamics.” Plant Cell. American Society of Plant Biologists, 2016. https://doi.org/10.1105/tpc.15.00726.","ieee":"J. Zhu et al., “TWISTED DWARF1 mediates the action of auxin transport inhibitors on actin cytoskeleton dynamics,” Plant Cell, vol. 28, no. 4. American Society of Plant Biologists, pp. 930–948, 2016.","short":"J. Zhu, A. Bailly, M. Zwiewka, V. Sovero, M. Di Donato, P. Ge, J. Oehri, B. Aryal, P. Hao, M. Linnert, N. Burgardt, C. Lücke, M. Weiwad, M. Michel, O. Weiergräber, S. Pollmann, E. Azzarello, S. Mancuso, N. Ferro, Y. Fukao, C. Hoffmann, R. Wedlich Söldner, J. Friml, C. Thomas, M. Geisler, Plant Cell 28 (2016) 930–948.","ista":"Zhu J, Bailly A, Zwiewka M, Sovero V, Di Donato M, Ge P, Oehri J, Aryal B, Hao P, Linnert M, Burgardt N, Lücke C, Weiwad M, Michel M, Weiergräber O, Pollmann S, Azzarello E, Mancuso S, Ferro N, Fukao Y, Hoffmann C, Wedlich Söldner R, Friml J, Thomas C, Geisler M. 2016. TWISTED DWARF1 mediates the action of auxin transport inhibitors on actin cytoskeleton dynamics. Plant Cell. 28(4), 930–948.","apa":"Zhu, J., Bailly, A., Zwiewka, M., Sovero, V., Di Donato, M., Ge, P., … Geisler, M. (2016). TWISTED DWARF1 mediates the action of auxin transport inhibitors on actin cytoskeleton dynamics. Plant Cell. American Society of Plant Biologists. https://doi.org/10.1105/tpc.15.00726","ama":"Zhu J, Bailly A, Zwiewka M, et al. TWISTED DWARF1 mediates the action of auxin transport inhibitors on actin cytoskeleton dynamics. Plant Cell. 2016;28(4):930-948. doi:10.1105/tpc.15.00726","mla":"Zhu, Jinsheng, et al. “TWISTED DWARF1 Mediates the Action of Auxin Transport Inhibitors on Actin Cytoskeleton Dynamics.” Plant Cell, vol. 28, no. 4, American Society of Plant Biologists, 2016, pp. 930–48, doi:10.1105/tpc.15.00726."},"oa":1,"intvolume":" 28","publication_status":"published","date_updated":"2021-01-12T06:49:24Z","type":"journal_article","year":"2016","doi":"10.1105/tpc.15.00726","month":"04","language":[{"iso":"eng"}],"scopus_import":1,"date_published":"2016-04-01T00:00:00Z","date_created":"2018-12-11T11:50:57Z","_id":"1251","abstract":[{"text":"Plant growth and architecture is regulated by the polar distribution of the hormone auxin. Polarity and flexibility of this process is provided by constant cycling of auxin transporter vesicles along actin filaments, coordinated by a positive auxinactin feedback loop. Both polar auxin transport and vesicle cycling are inhibited by synthetic auxin transport inhibitors, such as 1-Nnaphthylphthalamic acid (NPA), counteracting the effect of auxin; however, underlying targets and mechanisms are unclear. Using NMR, we map the NPA binding surface on the Arabidopsis thaliana ABCB chaperone TWISTED DWARF1 (TWD1).We identify ACTIN7 as a relevant, although likely indirect, TWD1 interactor, and show TWD1-dependent regulation of actin filament organization and dynamics and that TWD1 is required for NPA-mediated actin cytoskeleton remodeling. The TWD1-ACTIN7 axis controls plasma membrane presence of efflux transporters, and as a consequence act7 and twd1 share developmental and physiological phenotypes indicative of defects in auxin transport. These can be phenocopied by NPA treatment or by chemical actin (de)stabilization. We provide evidence that TWD1 determines downstreamlocations of auxin efflux transporters by adjusting actin filament debundling and dynamizing processes and mediating NPA action on the latter. This function appears to be evolutionary conserved since TWD1 expression in budding yeast alters actin polarization and cell polarity and provides NPA sensitivity.","lang":"eng"}],"author":[{"first_name":"Jinsheng","last_name":"Zhu","full_name":"Zhu, Jinsheng"},{"full_name":"Bailly, Aurélien","last_name":"Bailly","first_name":"Aurélien"},{"first_name":"Marta","last_name":"Zwiewka","full_name":"Zwiewka, Marta"},{"full_name":"Sovero, Valpuri","last_name":"Sovero","first_name":"Valpuri"},{"first_name":"Martin","last_name":"Di Donato","full_name":"Di Donato, Martin"},{"full_name":"Ge, Pei","last_name":"Ge","first_name":"Pei"},{"first_name":"Jacqueline","last_name":"Oehri","full_name":"Oehri, Jacqueline"},{"first_name":"Bibek","last_name":"Aryal","full_name":"Aryal, Bibek"},{"full_name":"Hao, Pengchao","first_name":"Pengchao","last_name":"Hao"},{"full_name":"Linnert, Miriam","first_name":"Miriam","last_name":"Linnert"},{"first_name":"Noelia","last_name":"Burgardt","full_name":"Burgardt, Noelia"},{"full_name":"Lücke, Christian","last_name":"Lücke","first_name":"Christian"},{"last_name":"Weiwad","first_name":"Matthias","full_name":"Weiwad, Matthias"},{"last_name":"Michel","first_name":"Max","full_name":"Michel, Max"},{"last_name":"Weiergräber","first_name":"Oliver","full_name":"Weiergräber, Oliver"},{"full_name":"Pollmann, Stephan","last_name":"Pollmann","first_name":"Stephan"},{"last_name":"Azzarello","first_name":"Elisa","full_name":"Azzarello, Elisa"},{"last_name":"Mancuso","first_name":"Stefano","full_name":"Mancuso, Stefano"},{"full_name":"Ferro, Noel","first_name":"Noel","last_name":"Ferro"},{"full_name":"Fukao, Yoichiro","last_name":"Fukao","first_name":"Yoichiro"},{"first_name":"Céline","last_name":"Hoffmann","full_name":"Hoffmann, Céline"},{"full_name":"Wedlich Söldner, Roland","first_name":"Roland","last_name":"Wedlich Söldner"},{"full_name":"Friml, Jirí","first_name":"Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Thomas, Clément","last_name":"Thomas","first_name":"Clément"},{"full_name":"Geisler, Markus","first_name":"Markus","last_name":"Geisler"}],"issue":"4"},{"quality_controlled":"1","day":"01","oa":1,"citation":{"short":"G. Sancho Andrés, E. Soriano Ortega, C. Gao, J. Bernabé Orts, M. Narasimhan, A. Müller, R. Tejos, L. Jiang, J. Friml, F. Aniento, M. Marcote, Plant Physiology 171 (2016) 1965–1982.","chicago":"Sancho Andrés, Gloria, Esther Soriano Ortega, Caiji Gao, Joan Bernabé Orts, Madhumitha Narasimhan, Anna Müller, Ricardo Tejos, et al. “Sorting Motifs Involved in the Trafficking and Localization of the PIN1 Auxin Efflux Carrier.” Plant Physiology. American Society of Plant Biologists, 2016. https://doi.org/10.1104/pp.16.00373.","ieee":"G. Sancho Andrés et al., “Sorting motifs involved in the trafficking and localization of the PIN1 auxin efflux carrier,” Plant Physiology, vol. 171, no. 3. American Society of Plant Biologists, pp. 1965–1982, 2016.","apa":"Sancho Andrés, G., Soriano Ortega, E., Gao, C., Bernabé Orts, J., Narasimhan, M., Müller, A., … Marcote, M. (2016). Sorting motifs involved in the trafficking and localization of the PIN1 auxin efflux carrier. Plant Physiology. American Society of Plant Biologists. https://doi.org/10.1104/pp.16.00373","ama":"Sancho Andrés G, Soriano Ortega E, Gao C, et al. Sorting motifs involved in the trafficking and localization of the PIN1 auxin efflux carrier. Plant Physiology. 2016;171(3):1965-1982. doi:10.1104/pp.16.00373","mla":"Sancho Andrés, Gloria, et al. “Sorting Motifs Involved in the Trafficking and Localization of the PIN1 Auxin Efflux Carrier.” Plant Physiology, vol. 171, no. 3, American Society of Plant Biologists, 2016, pp. 1965–82, doi:10.1104/pp.16.00373.","ista":"Sancho Andrés G, Soriano Ortega E, Gao C, Bernabé Orts J, Narasimhan M, Müller A, Tejos R, Jiang L, Friml J, Aniento F, Marcote M. 2016. Sorting motifs involved in the trafficking and localization of the PIN1 auxin efflux carrier. Plant Physiology. 171(3), 1965–1982."},"main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4936568/"}],"oa_version":"Submitted Version","volume":171,"page":"1965 - 1982","acknowledgement":"We thank Dr. R. Offringa (Leiden University) for providing the GST-\r\nPIN-CL construct; Sandra Richter and Gerd Jurgens (University of Tübin-\r\ngen) for providing the estradiol-inducible PIN1-RFP construct and the\r\ngnl1 mutant expressing BFA-sensitive GNL1; F.J. Santonja (University of Valencia)\r\nfor help with the statistical analysis; Jurgen Kleine-Vehn, Elke Barbez, and\r\nEva Benkova for helpful discussions; the Salk Institute Genomic Analysis\r\nLaboratory for providing the sequence-indexed Arabidopsis T-DNA in-\r\nsertion mutants; and the greenhouse section and the microscopy section\r\nof SCSIE (University of Valencia) and Pilar Selvi for excellent technical\r\nassistance.","publist_id":"6059","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"publication":"Plant Physiology","title":"Sorting motifs involved in the trafficking and localization of the PIN1 auxin efflux carrier","status":"public","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","publisher":"American Society of Plant Biologists","author":[{"first_name":"Gloria","last_name":"Sancho Andrés","full_name":"Sancho Andrés, Gloria"},{"first_name":"Esther","last_name":"Soriano Ortega","full_name":"Soriano Ortega, Esther"},{"full_name":"Gao, Caiji","last_name":"Gao","first_name":"Caiji"},{"first_name":"Joan","last_name":"Bernabé Orts","full_name":"Bernabé Orts, Joan"},{"first_name":"Madhumitha","orcid":"0000-0002-8600-0671","last_name":"Narasimhan","full_name":"Narasimhan, Madhumitha","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Müller, Anna","last_name":"Müller","first_name":"Anna","id":"420AB15A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Tejos","first_name":"Ricardo","full_name":"Tejos, Ricardo"},{"last_name":"Jiang","first_name":"Liwen","full_name":"Jiang, Liwen"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jirí","first_name":"Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596"},{"last_name":"Aniento","first_name":"Fernando","full_name":"Aniento, Fernando"},{"full_name":"Marcote, Maria","first_name":"Maria","last_name":"Marcote"}],"abstract":[{"lang":"eng","text":"n contrast with the wealth of recent reports about the function of μ-adaptins and clathrin adaptor protein (AP) complexes, there is very little information about the motifs that determine the sorting of membrane proteins within clathrin-coated vesicles in plants. Here, we investigated putative sorting signals in the large cytosolic loop of the Arabidopsis (Arabidopsis thaliana) PIN-FORMED1 (PIN1) auxin transporter, which are involved in binding μ-adaptins and thus in PIN1 trafficking and localization. We found that Phe-165 and Tyr-280, Tyr-328, and Tyr-394 are involved in the binding of different μ-adaptins in vitro. However, only Phe-165, which binds μA(μ2)- and μD(μ3)-adaptin, was found to be essential for PIN1 trafficking and localization in vivo. The PIN1:GFP-F165A mutant showed reduced endocytosis but also localized to intracellular structures containing several layers of membranes and endoplasmic reticulum (ER) markers, suggesting that they correspond to ER or ER-derived membranes. While PIN1:GFP localized normally in a μA (μ2)-adaptin mutant, it accumulated in big intracellular structures containing LysoTracker in a μD (μ3)-adaptin mutant, consistent with previous results obtained with mutants of other subunits of the AP-3 complex. Our data suggest that Phe-165, through the binding of μA (μ2)- and μD (μ3)-adaptin, is important for PIN1 endocytosis and for PIN1 trafficking along the secretory pathway, respectively."}],"ec_funded":1,"issue":"3","date_published":"2016-07-01T00:00:00Z","scopus_import":1,"date_created":"2018-12-11T11:51:01Z","_id":"1264","doi":"10.1104/pp.16.00373","year":"2016","month":"07","language":[{"iso":"eng"}],"publication_status":"published","intvolume":" 171","type":"journal_article","date_updated":"2021-01-12T06:49:29Z"}]