[{"year":"2020","ddc":["580"],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","article_number":"299","intvolume":"         9","date_published":"2020-03-01T00:00:00Z","type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"_id":"7582","abstract":[{"lang":"eng","text":"Small RNAs (smRNA, 19–25 nucleotides long), which are transcribed by RNA polymerase II, regulate the expression of genes involved in a multitude of processes in eukaryotes. miRNA biogenesis and the proteins involved in the biogenesis pathway differ across plant and animal lineages. The major proteins constituting the biogenesis pathway, namely, the Dicers (DCL/DCR) and Argonautes (AGOs), have been extensively studied. However, the accessory proteins (DAWDLE (DDL), SERRATE (SE), and TOUGH (TGH)) of the pathway that differs across the two lineages remain largely uncharacterized. We present the first detailed report on the molecular evolution and divergence of these proteins across eukaryotes. Although DDL is present in eukaryotes and prokaryotes, SE and TGH appear to be specific to eukaryotes. The addition/deletion of specific domains and/or domain-specific sequence divergence in the three proteins points to the observed functional divergence of these proteins across the two lineages, which correlates with the differences in miRNA length across the two lineages. Our data enhance the current understanding of the structure–function relationship of these proteins and reveals previous unexplored crucial residues in the three proteins that can be used as a basis for further functional characterization. The data presented here on the number of miRNAs in crown eukaryotic lineages are consistent with the notion of the expansion of the number of miRNA-coding genes in animal and plant lineages correlating with organismal complexity. Whether this difference in functionally correlates with the diversification (or presence/absence) of the three proteins studied here or the miRNA signaling in the plant and animal lineages is unclear. Based on our results of the three proteins studied here and previously available data concerning the evolution of miRNA genes in the plant and animal lineages, we believe that miRNAs probably evolved once in the ancestor to crown eukaryotes and have diversified independently in the eukaryotes."}],"external_id":{"pmid":["32121542"],"isi":["000525315000035"]},"has_accepted_license":"1","day":"01","citation":{"apa":"Moturu, T. R., Sinha, S., Salava, H., Thula, S., Nodzyński, T., Vařeková, R. S., … Simon, S. (2020). Molecular evolution and diversification of proteins involved in miRNA maturation pathway. <i>Plants</i>. MDPI. <a href=\"https://doi.org/10.3390/plants9030299\">https://doi.org/10.3390/plants9030299</a>","short":"T.R. Moturu, S. Sinha, H. Salava, S. Thula, T. Nodzyński, R.S. Vařeková, J. Friml, S. Simon, Plants 9 (2020).","ieee":"T. R. Moturu <i>et al.</i>, “Molecular evolution and diversification of proteins involved in miRNA maturation pathway,” <i>Plants</i>, vol. 9, no. 3. MDPI, 2020.","mla":"Moturu, Taraka Ramji, et al. “Molecular Evolution and Diversification of Proteins Involved in MiRNA Maturation Pathway.” <i>Plants</i>, vol. 9, no. 3, 299, MDPI, 2020, doi:<a href=\"https://doi.org/10.3390/plants9030299\">10.3390/plants9030299</a>.","chicago":"Moturu, Taraka Ramji, Sansrity Sinha, Hymavathi Salava, Sravankumar Thula, Tomasz Nodzyński, Radka Svobodová Vařeková, Jiří Friml, and Sibu Simon. “Molecular Evolution and Diversification of Proteins Involved in MiRNA Maturation Pathway.” <i>Plants</i>. MDPI, 2020. <a href=\"https://doi.org/10.3390/plants9030299\">https://doi.org/10.3390/plants9030299</a>.","ista":"Moturu TR, Sinha S, Salava H, Thula S, Nodzyński T, Vařeková RS, Friml J, Simon S. 2020. Molecular evolution and diversification of proteins involved in miRNA maturation pathway. Plants. 9(3), 299.","ama":"Moturu TR, Sinha S, Salava H, et al. Molecular evolution and diversification of proteins involved in miRNA maturation pathway. <i>Plants</i>. 2020;9(3). doi:<a href=\"https://doi.org/10.3390/plants9030299\">10.3390/plants9030299</a>"},"status":"public","scopus_import":"1","issue":"3","ec_funded":1,"license":"https://creativecommons.org/licenses/by/4.0/","file_date_updated":"2020-07-14T12:48:00Z","isi":1,"publication":"Plants","date_updated":"2026-04-02T14:35:47Z","publication_identifier":{"eissn":["2223-7747"]},"oa_version":"Published Version","title":"Molecular evolution and diversification of proteins involved in miRNA maturation pathway","date_created":"2020-03-15T23:00:52Z","publication_status":"published","file":[{"access_level":"open_access","content_type":"application/pdf","file_size":2373484,"date_created":"2020-03-23T13:37:00Z","checksum":"6d5af3e17266a48996b4af4e67e88a85","file_name":"2020_Plants_Moturu.pdf","relation":"main_file","creator":"dernst","date_updated":"2020-07-14T12:48:00Z","file_id":"7614"}],"publisher":"MDPI","corr_author":"1","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"No","pmid":1,"oa":1,"doi":"10.3390/plants9030299","article_type":"original","project":[{"name":"Polarity and subcellular dynamics in plants","grant_number":"282300","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425"}],"month":"03","department":[{"_id":"JiFr"}],"volume":9,"author":[{"first_name":"Taraka Ramji","full_name":"Moturu, Taraka Ramji","last_name":"Moturu"},{"first_name":"Sansrity","full_name":"Sinha, Sansrity","last_name":"Sinha"},{"last_name":"Salava","full_name":"Salava, Hymavathi","first_name":"Hymavathi"},{"full_name":"Thula, Sravankumar","last_name":"Thula","first_name":"Sravankumar"},{"last_name":"Nodzyński","full_name":"Nodzyński, Tomasz","first_name":"Tomasz"},{"last_name":"Vařeková","full_name":"Vařeková, Radka Svobodová","first_name":"Radka Svobodová"},{"last_name":"Friml","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří"},{"orcid":"0000-0002-1998-6741","first_name":"Sibu","id":"4542EF9A-F248-11E8-B48F-1D18A9856A87","full_name":"Simon, Sibu","last_name":"Simon"}]},{"_id":"6262","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Gravitropism is an adaptive response that orients plant growth parallel to the gravity vector. Asymmetric\r\ndistribution of the phytohormone auxin is a necessary prerequisite to the tropic bending both in roots and\r\nshoots. During hypocotyl gravitropic response, the PIN3 auxin transporter polarizes within gravity-sensing\r\ncells to redirect intercellular auxin fluxes. First gravity-induced PIN3 polarization to the bottom cell mem-\r\nbranes leads to the auxin accumulation at the lower side of the organ, initiating bending and, later, auxin\r\nfeedback-mediated repolarization restores symmetric auxin distribution to terminate bending. Here, we per-\r\nformed a forward genetic screen to identify regulators of both PIN3 polarization events during gravitropic\r\nresponse. We searched for mutants with defective PIN3 polarizations based on easy-to-score morphological\r\noutputs of decreased or increased gravity-induced hypocotyl bending. We identified the number of\r\nhypocotyl reduced bending (hrb) and hypocotyl hyperbending (hhb) mutants, revealing that reduced bending corre-\r\nlated typically with defective gravity-induced PIN3 relocation whereas all analyzed hhb mutants showed\r\ndefects in the second, auxin-mediated PIN3 relocation. Next-generation sequencing-aided mutation map-\r\nping identified several candidate genes, including SCARECROW and ACTIN2, revealing roles of endodermis\r\nspecification and actin cytoskeleton in the respective gravity- and auxin-induced PIN polarization events.\r\nThe hypocotyl gravitropism screen thus promises to provide novel insights into mechanisms underlying cell\r\npolarity and plant adaptive development."}],"external_id":{"pmid":["30821050"],"isi":["000473644100008"]},"type":"journal_article","quality_controlled":"1","has_accepted_license":"1","day":"01","citation":{"chicago":"Rakusová, Hana, Huibin Han, Petr Valošek, and Jiří Friml. “Genetic Screen for Factors Mediating PIN Polarization in Gravistimulated Arabidopsis Thaliana Hypocotyls.” <i>The Plant Journal</i>. Wiley, 2019. <a href=\"https://doi.org/10.1111/tpj.14301\">https://doi.org/10.1111/tpj.14301</a>.","ista":"Rakusová H, Han H, Valošek P, Friml J. 2019. Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls. The Plant Journal. 98(6), 1048–1059.","ama":"Rakusová H, Han H, Valošek P, Friml J. Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls. <i>The Plant Journal</i>. 2019;98(6):1048-1059. doi:<a href=\"https://doi.org/10.1111/tpj.14301\">10.1111/tpj.14301</a>","apa":"Rakusová, H., Han, H., Valošek, P., &#38; Friml, J. (2019). Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls. <i>The Plant Journal</i>. Wiley. <a href=\"https://doi.org/10.1111/tpj.14301\">https://doi.org/10.1111/tpj.14301</a>","ieee":"H. Rakusová, H. Han, P. Valošek, and J. Friml, “Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls,” <i>The Plant Journal</i>, vol. 98, no. 6. Wiley, pp. 1048–1059, 2019.","short":"H. Rakusová, H. Han, P. Valošek, J. Friml, The Plant Journal 98 (2019) 1048–1059.","mla":"Rakusová, Hana, et al. “Genetic Screen for Factors Mediating PIN Polarization in Gravistimulated Arabidopsis Thaliana Hypocotyls.” <i>The Plant Journal</i>, vol. 98, no. 6, Wiley, 2019, pp. 1048–59, doi:<a href=\"https://doi.org/10.1111/tpj.14301\">10.1111/tpj.14301</a>."},"intvolume":"        98","year":"2019","ddc":["580"],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_published":"2019-06-01T00:00:00Z","file_date_updated":"2020-07-14T12:47:25Z","date_updated":"2025-04-15T07:48:04Z","publication":"The Plant Journal","isi":1,"page":"1048-1059","status":"public","issue":"6","ec_funded":1,"scopus_import":"1","publication_status":"published","file":[{"access_level":"open_access","date_created":"2019-04-15T09:38:43Z","file_size":1383100,"content_type":"application/pdf","file_name":"2019_PlantJournal_Rakusov.pdf","checksum":"ad3b5e270b67ba2a45f894ce3be27920","relation":"main_file","date_updated":"2020-07-14T12:47:25Z","file_id":"6304","creator":"dernst"}],"publication_identifier":{"issn":["0960-7412"],"eissn":["1365-313x"]},"title":"Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls","date_created":"2019-04-09T08:46:44Z","oa_version":"Published Version","doi":"10.1111/tpj.14301","oa":1,"author":[{"full_name":"Rakusová, Hana","last_name":"Rakusová","first_name":"Hana"},{"full_name":"Han, Huibin","last_name":"Han","first_name":"Huibin","id":"31435098-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Valošek","full_name":"Valošek, Petr","first_name":"Petr","id":"3CDB6F94-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Friml, Jiří","last_name":"Friml","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"volume":98,"article_type":"original","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"department":[{"_id":"JiFr"}],"month":"06","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"Yes (via OA deal)","publisher":"Wiley","pmid":1},{"isi":1,"date_updated":"2026-04-27T22:31:02Z","publication":"International Journal of Molecular Sciences","file_date_updated":"2020-07-14T12:47:34Z","scopus_import":"1","ec_funded":1,"issue":"13","status":"public","has_accepted_license":"1","citation":{"chicago":"Adamowski, Maciek, Lanxin Li, and Jiří Friml. “Reorientation of Cortical Microtubule Arrays in the Hypocotyl of Arabidopsis Thaliana Is Induced by the Cell Growth Process and Independent of Auxin Signaling.” <i>International Journal of Molecular Sciences</i>. MDPI, 2019. <a href=\"https://doi.org/10.3390/ijms20133337\">https://doi.org/10.3390/ijms20133337</a>.","ista":"Adamowski M, Li L, Friml J. 2019. Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling. International Journal of Molecular Sciences. 20(13), 3337.","ama":"Adamowski M, Li L, Friml J. Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling. <i>International Journal of Molecular Sciences</i>. 2019;20(13). doi:<a href=\"https://doi.org/10.3390/ijms20133337\">10.3390/ijms20133337</a>","apa":"Adamowski, M., Li, L., &#38; Friml, J. (2019). Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling. <i>International Journal of Molecular Sciences</i>. MDPI. <a href=\"https://doi.org/10.3390/ijms20133337\">https://doi.org/10.3390/ijms20133337</a>","ieee":"M. Adamowski, L. Li, and J. Friml, “Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling,” <i>International Journal of Molecular Sciences</i>, vol. 20, no. 13. MDPI, 2019.","short":"M. Adamowski, L. Li, J. Friml, International Journal of Molecular Sciences 20 (2019).","mla":"Adamowski, Maciek, et al. “Reorientation of Cortical Microtubule Arrays in the Hypocotyl of Arabidopsis Thaliana Is Induced by the Cell Growth Process and Independent of Auxin Signaling.” <i>International Journal of Molecular Sciences</i>, vol. 20, no. 13, 3337, MDPI, 2019, doi:<a href=\"https://doi.org/10.3390/ijms20133337\">10.3390/ijms20133337</a>."},"day":"07","type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"_id":"6627","abstract":[{"text":"Cortical microtubule arrays in elongating epidermal cells in both the root and stem of plants have the propensity of dynamic reorientations that are correlated with the activation or inhibition of growth. Factors regulating plant growth, among them the hormone auxin, have been recognized as regulators of microtubule array orientations. Some previous work in the field has aimed at elucidating the causal relationship between cell growth, the signaling of auxin or other growth-regulating factors, and microtubule array reorientations, with various conclusions. Here, we revisit this problem of causality with a comprehensive set of experiments in Arabidopsis thaliana, using the now available pharmacological and genetic tools. We use isolated, auxin-depleted hypocotyls, an experimental system allowing for full control of both growth and auxin signaling. We demonstrate that reorientation of microtubules is not directly triggered by an auxin signal during growth activation. Instead, reorientation is triggered by the activation of the growth process itself and is auxin-independent in its nature. We discuss these findings in the context of previous relevant work, including that on the mechanical regulation of microtubule array orientation.","lang":"eng"}],"external_id":{"pmid":["31284661"],"isi":["000477041100221"]},"date_published":"2019-07-07T00:00:00Z","year":"2019","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","ddc":["580"],"intvolume":"        20","article_number":"3337","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"},{"name":"International IST Doctoral Program","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"name":"IST Austria Open Access Fund","_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854"}],"article_type":"original","department":[{"_id":"JiFr"}],"month":"07","author":[{"full_name":"Adamowski, Maciek","last_name":"Adamowski","orcid":"0000-0001-6463-5257","first_name":"Maciek","id":"45F536D2-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-5607-272X","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","first_name":"Lanxin","last_name":"Li","full_name":"Li, Lanxin"},{"last_name":"Friml","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","orcid":"0000-0002-8302-7596"}],"volume":20,"doi":"10.3390/ijms20133337","oa":1,"pmid":1,"related_material":{"record":[{"status":"public","id":"10083","relation":"dissertation_contains"}]},"publisher":"MDPI","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"corr_author":"1","article_processing_charge":"Yes","file":[{"checksum":"dd9d1cbb933a72ceb666c9667890ac51","file_name":"2019_JournalMolecularScience_Adamowski.pdf","file_id":"6645","creator":"dernst","relation":"main_file","date_updated":"2020-07-14T12:47:34Z","access_level":"open_access","content_type":"application/pdf","date_created":"2019-07-17T06:17:15Z","file_size":3330291}],"publication_status":"published","oa_version":"Published Version","date_created":"2019-07-11T12:00:32Z","title":"Reorientation of cortical microtubule arrays in the hypocotyl of arabidopsis thaliana is induced by the cell growth process and independent of auxin signaling","publication_identifier":{"eissn":["1422-0067"]}},{"pmid":1,"publisher":"Oxford University Press","article_processing_charge":"No","corr_author":"1","month":"11","department":[{"_id":"JiFr"}],"project":[{"grant_number":"282300","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants"},{"grant_number":"742985","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}],"article_type":"original","author":[{"id":"4AE5C486-F248-11E8-B48F-1D18A9856A87","first_name":"Urszula","full_name":"Kania, Urszula","last_name":"Kania"},{"first_name":"Tomasz","full_name":"Nodzyński, Tomasz","last_name":"Nodzyński"},{"last_name":"Lu","full_name":"Lu, Qing","first_name":"Qing"},{"first_name":"Glenn R","full_name":"Hicks, Glenn R","last_name":"Hicks"},{"last_name":"Nerinckx","full_name":"Nerinckx, Wim","first_name":"Wim"},{"first_name":"Kiril","last_name":"Mishev","full_name":"Mishev, Kiril"},{"first_name":"Francois","last_name":"Peurois","full_name":"Peurois, Francois"},{"first_name":"Jacqueline","full_name":"Cherfils, Jacqueline","last_name":"Cherfils"},{"first_name":"Rycke Riet Maria","last_name":"De","full_name":"De, Rycke Riet Maria"},{"full_name":"Grones, Peter","last_name":"Grones","id":"399876EC-F248-11E8-B48F-1D18A9856A87","first_name":"Peter"},{"last_name":"Robert","full_name":"Robert, Stéphanie","first_name":"Stéphanie"},{"last_name":"Russinova","full_name":"Russinova, Eugenia","first_name":"Eugenia"},{"full_name":"Friml, Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí"}],"volume":30,"doi":"10.1105/tpc.18.00127","oa":1,"acknowledgement":"We thank Gerd Jürgens, Sandra Richter, and Sheng Yang He for providing antibodies; Maciek Adamowski, Fernando Aniento, Sebastian Bednarek, Nico Callewaert, Matyás Fendrych, Elena Feraru, and Mugurel I. Feraru for helpful suggestions; Siamsa Doyle for critical reading of the manuscript and helpful comments and suggestions; and Stephanie Smith and Martine De Cock for help in editing and language corrections. We acknowledge the core facility Cellular Imaging of CEITEC supported by the Czech-BioImaging large RI project (LM2015062 funded by MEYS CR) for their support with obtaining scientific data presented in this article. Plant Sciences Core Facility of CEITEC Masaryk University is gratefully acknowledged for obtaining part of the scientific data presented in this article. We acknowledge support from the Fondation pour la Recherche Médicale and from the Institut National du Cancer (J.C.). The research leading to these results was funded by the European Research Council under the European Union's 7th Framework Program (FP7/2007-2013)/ERC grant agreement numbers 282300 and 742985 and the Czech Science Foundation GAČR (GA18-26981S; J.F.); Ministry of Education, Youth, and Sports/MEYS of the Czech Republic under the Project CEITEC 2020 (LQ1601; T.N.); the China Science Council for a predoctoral fellowship (Q.L.); a joint research project within the framework of cooperation between the Research Foundation-Flanders and the Bulgarian Academy of Sciences (VS.025.13N; K.M. and E.R.); Vetenskapsrådet and Vinnova (Verket för Innovationssystem; S.R.), Knut och Alice Wallenbergs Stiftelse via “Shapesystem” Grant 2012.0050 (S.R.), Kempe stiftelserna (P.G.), Tryggers CTS410 (P.G.).","oa_version":"Published Version","title":"The inhibitor Endosidin 4 targets SEC7 domain-type ARF GTPase exchange factors and interferes with sub cellular trafficking in eukaryotes","date_created":"2018-12-11T11:44:52Z","publication_identifier":{"issn":["1040-4651"]},"publication_status":"published","publist_id":"7776","scopus_import":"1","ec_funded":1,"issue":"10","page":"2553 - 2572","status":"public","isi":1,"publication":"The Plant Cell","date_updated":"2025-04-14T07:45:02Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1105/tpc.18.00127"}],"date_published":"2018-11-12T00:00:00Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","year":"2018","intvolume":"        30","day":"12","citation":{"ieee":"U. Kania <i>et al.</i>, “The inhibitor Endosidin 4 targets SEC7 domain-type ARF GTPase exchange factors and interferes with sub cellular trafficking in eukaryotes,” <i>The Plant Cell</i>, vol. 30, no. 10. Oxford University Press, pp. 2553–2572, 2018.","short":"U. Kania, T. Nodzyński, Q. Lu, G.R. Hicks, W. Nerinckx, K. Mishev, F. Peurois, J. Cherfils, R.R.M. De, P. Grones, S. Robert, E. Russinova, J. Friml, The Plant Cell 30 (2018) 2553–2572.","mla":"Kania, Urszula, et al. “The Inhibitor Endosidin 4 Targets SEC7 Domain-Type ARF GTPase Exchange Factors and Interferes with Sub Cellular Trafficking in Eukaryotes.” <i>The Plant Cell</i>, vol. 30, no. 10, Oxford University Press, 2018, pp. 2553–72, doi:<a href=\"https://doi.org/10.1105/tpc.18.00127\">10.1105/tpc.18.00127</a>.","apa":"Kania, U., Nodzyński, T., Lu, Q., Hicks, G. R., Nerinckx, W., Mishev, K., … Friml, J. (2018). The inhibitor Endosidin 4 targets SEC7 domain-type ARF GTPase exchange factors and interferes with sub cellular trafficking in eukaryotes. <i>The Plant Cell</i>. Oxford University Press. <a href=\"https://doi.org/10.1105/tpc.18.00127\">https://doi.org/10.1105/tpc.18.00127</a>","ista":"Kania U, Nodzyński T, Lu Q, Hicks GR, Nerinckx W, Mishev K, Peurois F, Cherfils J, De RRM, Grones P, Robert S, Russinova E, Friml J. 2018. The inhibitor Endosidin 4 targets SEC7 domain-type ARF GTPase exchange factors and interferes with sub cellular trafficking in eukaryotes. The Plant Cell. 30(10), 2553–2572.","ama":"Kania U, Nodzyński T, Lu Q, et al. The inhibitor Endosidin 4 targets SEC7 domain-type ARF GTPase exchange factors and interferes with sub cellular trafficking in eukaryotes. <i>The Plant Cell</i>. 2018;30(10):2553-2572. doi:<a href=\"https://doi.org/10.1105/tpc.18.00127\">10.1105/tpc.18.00127</a>","chicago":"Kania, Urszula, Tomasz Nodzyński, Qing Lu, Glenn R Hicks, Wim Nerinckx, Kiril Mishev, Francois Peurois, et al. “The Inhibitor Endosidin 4 Targets SEC7 Domain-Type ARF GTPase Exchange Factors and Interferes with Sub Cellular Trafficking in Eukaryotes.” <i>The Plant Cell</i>. Oxford University Press, 2018. <a href=\"https://doi.org/10.1105/tpc.18.00127\">https://doi.org/10.1105/tpc.18.00127</a>."},"quality_controlled":"1","type":"journal_article","external_id":{"pmid":["30018156"],"isi":["000450000500023"]},"language":[{"iso":"eng"}],"_id":"147","abstract":[{"text":"The trafficking of subcellular cargos in eukaryotic cells crucially depends on vesicle budding, a process mediated by ARF-GEFs (ADP-ribosylation factor guanine nucleotide exchange factors). In plants, ARF-GEFs play essential roles in endocytosis, vacuolar trafficking, recycling, secretion, and polar trafficking. Moreover, they are important for plant development, mainly through controlling the polar subcellular localization of PIN-FORMED (PIN) transporters of the plant hormone auxin. Here, using a chemical genetics screen in Arabidopsis thaliana, we identified Endosidin 4 (ES4), an inhibitor of eukaryotic ARF-GEFs. ES4 acts similarly to and synergistically with the established ARF-GEF inhibitor Brefeldin A and has broad effects on intracellular trafficking, including endocytosis, exocytosis, and vacuolar targeting. Additionally, Arabidopsis and yeast (Sacharomyces cerevisiae) mutants defective in ARF-GEF show altered sensitivity to ES4. ES4 interferes with the activation-based membrane association of the ARF1 GTPases, but not of their mutant variants that are activated independently of ARF-GEF activity. Biochemical approaches and docking simulations confirmed that ES4 specifically targets the SEC7 domain-containing ARF-GEFs. These observations collectively identify ES4 as a chemical tool enabling the study of ARF-GEF-mediated processes, including ARF-GEF-mediated plant development.","lang":"eng"}]},{"page":"6864-6869","status":"public","ec_funded":1,"issue":"26","scopus_import":"1","publication":"PNAS","date_updated":"2025-07-10T11:52:05Z","isi":1,"intvolume":"       115","year":"2018","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2018-06-26T00:00:00Z","OA_place":"repository","main_file_link":[{"url":"http://eprints.nottingham.ac.uk/52388/","open_access":"1"}],"language":[{"iso":"eng"}],"_id":"203","abstract":[{"lang":"eng","text":"Asymmetric auxin distribution is instrumental for the differential growth that causes organ bending on tropic stimuli and curvatures during plant development. Local differences in auxin concentrations are achieved mainly by polarized cellular distribution of PIN auxin transporters, but whether other mechanisms involving auxin homeostasis are also relevant for the formation of auxin gradients is not clear. Here we show that auxin methylation is required for asymmetric auxin distribution across the hypocotyl, particularly during its response to gravity. We found that loss-of-function mutants in Arabidopsis IAA CARBOXYL METHYLTRANSFERASE1 (IAMT1) prematurely unfold the apical hook, and that their hypocotyls are impaired in gravitropic reorientation. This defect is linked to an auxin-dependent increase in PIN gene expression, leading to an increased polar auxin transport and lack of asymmetric distribution of PIN3 in the iamt1 mutant. Gravitropic reorientation in the iamt1 mutant could be restored with either endodermis-specific expression of IAMT1 or partial inhibition of polar auxin transport, which also results in normal PIN gene expression levels. We propose that IAA methylation is necessary in gravity-sensing cells to restrict polar auxin transport within the range of auxin levels that allow for differential responses."}],"external_id":{"isi":["000436245000096"]},"type":"journal_article","quality_controlled":"1","citation":{"apa":"Abbas, M., Hernández, G. J., Pollmann, S., Samodelov, S. L., Kolb, M., Friml, J., … Alabadí, D. (2018). Auxin methylation is required for differential growth in Arabidopsis. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1806565115\">https://doi.org/10.1073/pnas.1806565115</a>","mla":"Abbas, Mohamad, et al. “Auxin Methylation Is Required for Differential Growth in Arabidopsis.” <i>PNAS</i>, vol. 115, no. 26, National Academy of Sciences, 2018, pp. 6864–69, doi:<a href=\"https://doi.org/10.1073/pnas.1806565115\">10.1073/pnas.1806565115</a>.","ieee":"M. Abbas <i>et al.</i>, “Auxin methylation is required for differential growth in Arabidopsis,” <i>PNAS</i>, vol. 115, no. 26. National Academy of Sciences, pp. 6864–6869, 2018.","short":"M. Abbas, G.J. Hernández, S. Pollmann, S.L. Samodelov, M. Kolb, J. Friml, U.Z. Hammes, M.D. Zurbriggen, M. Blázquez, D. Alabadí, PNAS 115 (2018) 6864–6869.","chicago":"Abbas, Mohamad, García J Hernández, Stephan Pollmann, Sophia L Samodelov, Martina Kolb, Jiří Friml, Ulrich Z Hammes, Matias D Zurbriggen, Miguel Blázquez, and David Alabadí. “Auxin Methylation Is Required for Differential Growth in Arabidopsis.” <i>PNAS</i>. National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1806565115\">https://doi.org/10.1073/pnas.1806565115</a>.","ama":"Abbas M, Hernández GJ, Pollmann S, et al. Auxin methylation is required for differential growth in Arabidopsis. <i>PNAS</i>. 2018;115(26):6864-6869. doi:<a href=\"https://doi.org/10.1073/pnas.1806565115\">10.1073/pnas.1806565115</a>","ista":"Abbas M, Hernández GJ, Pollmann S, Samodelov SL, Kolb M, Friml J, Hammes UZ, Zurbriggen MD, Blázquez M, Alabadí D. 2018. Auxin methylation is required for differential growth in Arabidopsis. PNAS. 115(26), 6864–6869."},"day":"26","article_processing_charge":"No","publisher":"National Academy of Sciences","doi":"10.1073/pnas.1806565115","oa":1,"volume":115,"author":[{"first_name":"Mohamad","id":"47E8FC1C-F248-11E8-B48F-1D18A9856A87","full_name":"Abbas, Mohamad","last_name":"Abbas"},{"full_name":"Hernández, García J","last_name":"Hernández","first_name":"García J"},{"first_name":"Stephan","full_name":"Pollmann, Stephan","last_name":"Pollmann"},{"full_name":"Samodelov, Sophia L","last_name":"Samodelov","first_name":"Sophia L"},{"full_name":"Kolb, Martina","last_name":"Kolb","first_name":"Martina"},{"full_name":"Friml, Jirí","last_name":"Friml","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"first_name":"Ulrich Z","last_name":"Hammes","full_name":"Hammes, Ulrich Z"},{"full_name":"Zurbriggen, Matias D","last_name":"Zurbriggen","first_name":"Matias D"},{"first_name":"Miguel","last_name":"Blázquez","full_name":"Blázquez, Miguel"},{"last_name":"Alabadí","full_name":"Alabadí, David","first_name":"David"}],"project":[{"name":"Polarity and subcellular dynamics in plants","grant_number":"282300","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425"}],"article_type":"original","month":"06","department":[{"_id":"JiFr"}],"title":"Auxin methylation is required for differential growth in Arabidopsis","date_created":"2018-12-11T11:45:11Z","oa_version":"Submitted Version","OA_type":"green","publist_id":"7710","publication_status":"published"},{"page":"2367-2378","status":"public","issue":"9","ec_funded":1,"scopus_import":"1","date_updated":"2025-04-15T07:48:01Z","publication":"Journal of Experimental Botany","isi":1,"intvolume":"        69","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","year":"2018","date_published":"2018-04-13T00:00:00Z","external_id":{"pmid":["29538714"],"isi":["000430727000016"]},"_id":"10881","abstract":[{"lang":"eng","text":"Strigolactones (SLs) are a relatively recent addition to the list of plant hormones that control different aspects of plant development. SL signalling is perceived by an α/β hydrolase, DWARF 14 (D14). A close homolog of D14, KARRIKIN INSENSTIVE2 (KAI2), is involved in perception of an uncharacterized molecule called karrikin (KAR). Recent studies in Arabidopsis identified the SUPPRESSOR OF MAX2 1 (SMAX1) and SMAX1-LIKE 7 (SMXL7) to be potential SCF–MAX2 complex-mediated proteasome targets of KAI2 and D14, respectively. Genetic studies on SMXL7 and SMAX1 demonstrated distinct developmental roles for each, but very little is known about these repressors in terms of their sequence features. In this study, we performed an extensive comparative analysis of SMXLs and determined their phylogenetic and evolutionary history in the plant lineage. Our results show that SMXL family members can be sub-divided into four distinct phylogenetic clades/classes, with an ancient SMAX1. Further, we identified the clade-specific motifs that have evolved and that might act as determinants of SL-KAR signalling specificity. These specificities resulted from functional diversities among the clades. Our results suggest that a gradual co-evolution of SMXL members with their upstream receptors D14/KAI2 provided an increased specificity to both the SL perception and response in land plants."}],"language":[{"iso":"eng"}],"quality_controlled":"1","type":"journal_article","citation":{"chicago":"Moturu, Taraka Ramji, Sravankumar Thula, Ravi Kumar Singh, Tomasz Nodzyński, Radka Svobodová Vařeková, Jiří Friml, and Sibu Simon. “Molecular Evolution and Diversification of the SMXL Gene Family.” <i>Journal of Experimental Botany</i>. Oxford University Press, 2018. <a href=\"https://doi.org/10.1093/jxb/ery097\">https://doi.org/10.1093/jxb/ery097</a>.","ista":"Moturu TR, Thula S, Singh RK, Nodzyński T, Vařeková RS, Friml J, Simon S. 2018. Molecular evolution and diversification of the SMXL gene family. Journal of Experimental Botany. 69(9), 2367–2378.","ama":"Moturu TR, Thula S, Singh RK, et al. Molecular evolution and diversification of the SMXL gene family. <i>Journal of Experimental Botany</i>. 2018;69(9):2367-2378. doi:<a href=\"https://doi.org/10.1093/jxb/ery097\">10.1093/jxb/ery097</a>","apa":"Moturu, T. R., Thula, S., Singh, R. K., Nodzyński, T., Vařeková, R. S., Friml, J., &#38; Simon, S. (2018). Molecular evolution and diversification of the SMXL gene family. <i>Journal of Experimental Botany</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/jxb/ery097\">https://doi.org/10.1093/jxb/ery097</a>","short":"T.R. Moturu, S. Thula, R.K. Singh, T. Nodzyński, R.S. Vařeková, J. Friml, S. Simon, Journal of Experimental Botany 69 (2018) 2367–2378.","ieee":"T. R. Moturu <i>et al.</i>, “Molecular evolution and diversification of the SMXL gene family,” <i>Journal of Experimental Botany</i>, vol. 69, no. 9. Oxford University Press, pp. 2367–2378, 2018.","mla":"Moturu, Taraka Ramji, et al. “Molecular Evolution and Diversification of the SMXL Gene Family.” <i>Journal of Experimental Botany</i>, vol. 69, no. 9, Oxford University Press, 2018, pp. 2367–78, doi:<a href=\"https://doi.org/10.1093/jxb/ery097\">10.1093/jxb/ery097</a>."},"day":"13","article_processing_charge":"No","publisher":"Oxford University Press","pmid":1,"doi":"10.1093/jxb/ery097","acknowledgement":"This project received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Actions and it is co-financed by the South Moravian Region under grant agreement No. 665860 (SS). Access to computing and storage facilities owned by parties and projects contributing to the national grid infrastructure, MetaCentrum, provided under the program ‘Projects of Large Infrastructure for Research, Development, and Innovations’ (LM2010005) was greatly appreciated (RSV). The project was funded by The Ministry of Education, Youth and Sports/MES of the Czech Republic under the project CEITEC 2020 (LQ1601) (TN, TRM). JF was supported by the European Research Council (project ERC-2011-StG 20101109-PSDP) and the Czech Science Foundation GAČR (GA13-40637S). We thank Dr Kamel Chibani for active discussions on the evolutionary analysis and Nandan Mysore Vardarajan for his critical comments on the manuscript. This article reflects\r\nonly the authors’ views, and the EU is not responsible for any use that may be made of the information it contains. ","volume":69,"author":[{"last_name":"Moturu","full_name":"Moturu, Taraka Ramji","first_name":"Taraka Ramji"},{"last_name":"Thula","full_name":"Thula, Sravankumar","first_name":"Sravankumar"},{"full_name":"Singh, Ravi Kumar","last_name":"Singh","first_name":"Ravi Kumar"},{"first_name":"Tomasz","last_name":"Nodzyński","full_name":"Nodzyński, Tomasz"},{"first_name":"Radka Svobodová","full_name":"Vařeková, Radka Svobodová","last_name":"Vařeková"},{"last_name":"Friml","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Simon","full_name":"Simon, Sibu","first_name":"Sibu"}],"month":"04","department":[{"_id":"JiFr"}],"project":[{"name":"Polarity and subcellular dynamics in plants","_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300"}],"article_type":"original","keyword":["Plant Science","Physiology"],"publication_identifier":{"eissn":["1460-2431"],"issn":["0022-0957"]},"date_created":"2022-03-18T12:43:22Z","title":"Molecular evolution and diversification of the SMXL gene family","oa_version":"None","publication_status":"published"},{"publist_id":"7763","publication_status":"published","oa_version":"Submitted Version","title":"Maternal auxin supply contributes to early embryo patterning in Arabidopsis","date_created":"2018-12-11T11:44:56Z","acknowledgement":"This work was further supported by the Czech Science Foundation GACR (GA13-40637S) to J.F.;","doi":"10.1038/s41477-018-0204-z","oa":1,"project":[{"grant_number":"282300","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","name":"Polarity and subcellular dynamics in plants"}],"department":[{"_id":"JiFr"}],"month":"07","volume":4,"author":[{"last_name":"Robert","full_name":"Robert, Hélène","first_name":"Hélène"},{"full_name":"Park, Chulmin","last_name":"Park","first_name":"Chulmin"},{"first_name":"Carla","last_name":"Gutièrrez","full_name":"Gutièrrez, Carla"},{"full_name":"Wójcikowska, Barbara","last_name":"Wójcikowska","first_name":"Barbara"},{"first_name":"Aleš","full_name":"Pěnčík, Aleš","last_name":"Pěnčík"},{"first_name":"Ondřej","last_name":"Novák","full_name":"Novák, Ondřej"},{"first_name":"Junyi","last_name":"Chen","full_name":"Chen, Junyi"},{"last_name":"Grunewald","full_name":"Grunewald, Wim","first_name":"Wim"},{"last_name":"Dresselhaus","full_name":"Dresselhaus, Thomas","first_name":"Thomas"},{"first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jirí"},{"last_name":"Laux","full_name":"Laux, Thomas","first_name":"Thomas"}],"publisher":"Nature Publishing Group","article_processing_charge":"No","pmid":1,"related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/plant-mothers-talk-to-their-embryos-via-the-hormone-auxin/"}]},"type":"journal_article","quality_controlled":"1","_id":"158","language":[{"iso":"eng"}],"abstract":[{"text":"The angiosperm seed is composed of three genetically distinct tissues: the diploid embryo that originates from the fertilized egg cell, the triploid endosperm that is produced from the fertilized central cell, and the maternal sporophytic integuments that develop into the seed coat1. At the onset of embryo development in Arabidopsis thaliana, the zygote divides asymmetrically, producing a small apical embryonic cell and a larger basal cell that connects the embryo to the maternal tissue2. The coordinated and synchronous development of the embryo and the surrounding integuments, and the alignment of their growth axes, suggest communication between maternal tissues and the embryo. In contrast to animals, however, where a network of maternal factors that direct embryo patterning have been identified3,4, only a few maternal mutations have been described to affect embryo development in plants5–7. Early embryo patterning in Arabidopsis requires accumulation of the phytohormone auxin in the apical cell by directed transport from the suspensor8–10. However, the origin of this auxin has remained obscure. Here we investigate the source of auxin for early embryogenesis and provide evidence that the mother plant coordinates seed development by supplying auxin to the early embryo from the integuments of the ovule. We show that auxin response increases in ovules after fertilization, due to upregulated auxin biosynthesis in the integuments, and this maternally produced auxin is required for correct embryo development.","lang":"eng"}],"external_id":{"isi":["000443861300011"],"pmid":["30013211"]},"day":"16","citation":{"ama":"Robert H, Park C, Gutièrrez C, et al. Maternal auxin supply contributes to early embryo patterning in Arabidopsis. <i>Nature Plants</i>. 2018;4(8):548-553. doi:<a href=\"https://doi.org/10.1038/s41477-018-0204-z\">10.1038/s41477-018-0204-z</a>","ista":"Robert H, Park C, Gutièrrez C, Wójcikowska B, Pěnčík A, Novák O, Chen J, Grunewald W, Dresselhaus T, Friml J, Laux T. 2018. Maternal auxin supply contributes to early embryo patterning in Arabidopsis. Nature Plants. 4(8), 548–553.","chicago":"Robert, Hélène, Chulmin Park, Carla Gutièrrez, Barbara Wójcikowska, Aleš Pěnčík, Ondřej Novák, Junyi Chen, et al. “Maternal Auxin Supply Contributes to Early Embryo Patterning in Arabidopsis.” <i>Nature Plants</i>. Nature Publishing Group, 2018. <a href=\"https://doi.org/10.1038/s41477-018-0204-z\">https://doi.org/10.1038/s41477-018-0204-z</a>.","mla":"Robert, Hélène, et al. “Maternal Auxin Supply Contributes to Early Embryo Patterning in Arabidopsis.” <i>Nature Plants</i>, vol. 4, no. 8, Nature Publishing Group, 2018, pp. 548–53, doi:<a href=\"https://doi.org/10.1038/s41477-018-0204-z\">10.1038/s41477-018-0204-z</a>.","short":"H. Robert, C. Park, C. Gutièrrez, B. Wójcikowska, A. Pěnčík, O. Novák, J. Chen, W. Grunewald, T. Dresselhaus, J. Friml, T. Laux, Nature Plants 4 (2018) 548–553.","ieee":"H. Robert <i>et al.</i>, “Maternal auxin supply contributes to early embryo patterning in Arabidopsis,” <i>Nature Plants</i>, vol. 4, no. 8. Nature Publishing Group, pp. 548–553, 2018.","apa":"Robert, H., Park, C., Gutièrrez, C., Wójcikowska, B., Pěnčík, A., Novák, O., … Laux, T. (2018). Maternal auxin supply contributes to early embryo patterning in Arabidopsis. <i>Nature Plants</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41477-018-0204-z\">https://doi.org/10.1038/s41477-018-0204-z</a>"},"year":"2018","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":"         4","main_file_link":[{"open_access":"1","url":"https://www.ncbi.nlm.nih.gov/pubmed/30013211"}],"date_published":"2018-07-16T00:00:00Z","isi":1,"publication":"Nature Plants","date_updated":"2025-04-15T07:48:03Z","status":"public","page":"548 - 553","scopus_import":"1","issue":"8","ec_funded":1},{"type":"journal_article","quality_controlled":"1","abstract":[{"lang":"eng","text":"Coordinated cell polarization in developing tissues is a recurrent theme in multicellular organisms. In plants, a directional distribution of the plant hormone auxin is at the core of many developmental programs. A feedback regulation of auxin on the polarized localization of PIN auxin transporters in individual cells has been proposed as a self-organizing mechanism for coordinated tissue polarization, but the molecular mechanisms linking auxin signalling to PIN-dependent auxin transport remain unknown. We performed a microarray-based approach to find regulators of the auxin-induced PIN relocation in the Arabidopsis thaliana root. We identified a subset of a family of phosphatidylinositol transfer proteins (PITP), the PATELLINs (PATL). Here, we show that PATLs are expressed in partially overlapping cells types in different tissues going through mitosis or initiating differentiation programs. PATLs are plasma membrane-associated proteins accumulated in Arabidopsis embryos, primary roots, lateral root primordia, and developing stomata. Higher order patl mutants display reduced PIN1 repolarization in response to auxin, shorter root apical meristem, and drastic defects in embryo and seedling development. This suggests PATLs redundantly play a crucial role in polarity and patterning in Arabidopsis."}],"_id":"913","language":[{"iso":"eng"}],"external_id":{"isi":["000424842400019"]},"has_accepted_license":"1","day":"29","citation":{"apa":"Tejos, R., Rodríguez Furlán, C., Adamowski, M., Sauer, M., Norambuena, L., &#38; Friml, J. (2018). PATELLINS are regulators of auxin mediated PIN1 relocation and plant development in Arabidopsis thaliana. <i>Journal of Cell Science</i>. Company of Biologists. <a href=\"https://doi.org/10.1242/jcs.204198\">https://doi.org/10.1242/jcs.204198</a>","mla":"Tejos, Ricardo, et al. “PATELLINS Are Regulators of Auxin Mediated PIN1 Relocation and Plant Development in Arabidopsis Thaliana.” <i>Journal of Cell Science</i>, vol. 131, no. 2, jcs. 204198, Company of Biologists, 2018, doi:<a href=\"https://doi.org/10.1242/jcs.204198\">10.1242/jcs.204198</a>.","short":"R. Tejos, C. Rodríguez Furlán, M. Adamowski, M. Sauer, L. Norambuena, J. Friml, Journal of Cell Science 131 (2018).","ieee":"R. Tejos, C. Rodríguez Furlán, M. Adamowski, M. Sauer, L. Norambuena, and J. Friml, “PATELLINS are regulators of auxin mediated PIN1 relocation and plant development in Arabidopsis thaliana,” <i>Journal of Cell Science</i>, vol. 131, no. 2. Company of Biologists, 2018.","chicago":"Tejos, Ricardo, Cecilia Rodríguez Furlán, Maciek Adamowski, Michael Sauer, Lorena Norambuena, and Jiří Friml. “PATELLINS Are Regulators of Auxin Mediated PIN1 Relocation and Plant Development in Arabidopsis Thaliana.” <i>Journal of Cell Science</i>. Company of Biologists, 2018. <a href=\"https://doi.org/10.1242/jcs.204198\">https://doi.org/10.1242/jcs.204198</a>.","ama":"Tejos R, Rodríguez Furlán C, Adamowski M, Sauer M, Norambuena L, Friml J. PATELLINS are regulators of auxin mediated PIN1 relocation and plant development in Arabidopsis thaliana. <i>Journal of Cell Science</i>. 2018;131(2). doi:<a href=\"https://doi.org/10.1242/jcs.204198\">10.1242/jcs.204198</a>","ista":"Tejos R, Rodríguez Furlán C, Adamowski M, Sauer M, Norambuena L, Friml J. 2018. PATELLINS are regulators of auxin mediated PIN1 relocation and plant development in Arabidopsis thaliana. Journal of Cell Science. 131(2), jcs. 204198."},"year":"2018","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["581"],"article_number":"jcs.204198","intvolume":"       131","date_published":"2018-01-29T00:00:00Z","file_date_updated":"2020-07-14T12:48:15Z","isi":1,"date_updated":"2025-07-10T12:01:38Z","publication":"Journal of Cell Science","status":"public","scopus_import":"1","ec_funded":1,"issue":"2","publist_id":"6530","publication_status":"published","file":[{"access_level":"open_access","content_type":"application/pdf","file_size":14925985,"date_created":"2019-04-12T08:46:32Z","checksum":"bf156c20a4f117b4b932370d54cbac8c","file_name":"2017_adamowski_PATELLINS_are.pdf","relation":"main_file","date_updated":"2020-07-14T12:48:15Z","file_id":"6299","creator":"dernst"}],"publication_identifier":{"issn":["0021-9533"]},"oa_version":"Published Version","title":"PATELLINS are regulators of auxin mediated PIN1 relocation and plant development in Arabidopsis thaliana","date_created":"2018-12-11T11:49:10Z","pubrep_id":"988","doi":"10.1242/jcs.204198","oa":1,"project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"department":[{"_id":"JiFr"}],"month":"01","volume":131,"author":[{"first_name":"Ricardo","full_name":"Tejos, Ricardo","last_name":"Tejos"},{"last_name":"Rodríguez Furlán","full_name":"Rodríguez Furlán, Cecilia","first_name":"Cecilia"},{"full_name":"Adamowski, Maciek","last_name":"Adamowski","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","first_name":"Maciek","orcid":"0000-0001-6463-5257"},{"last_name":"Sauer","full_name":"Sauer, Michael","first_name":"Michael"},{"last_name":"Norambuena","full_name":"Norambuena, Lorena","first_name":"Lorena"},{"last_name":"Friml","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","orcid":"0000-0002-8302-7596"}],"publisher":"Company of Biologists","corr_author":"1","article_processing_charge":"No"},{"file":[{"file_name":"2018_PNAS_Salanenka.pdf","checksum":"1fcf7223fb8f99559cfa80bd6f24ce44","relation":"main_file","file_id":"5700","creator":"dernst","date_updated":"2020-07-14T12:46:26Z","access_level":"open_access","file_size":1924101,"date_created":"2018-12-17T12:30:14Z","content_type":"application/pdf"}],"publication_status":"published","publist_id":"7395","oa_version":"Published Version","date_created":"2018-12-11T11:46:25Z","title":"Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane","month":"04","department":[{"_id":"JiFr"}],"project":[{"name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300"}],"author":[{"last_name":"Salanenka","full_name":"Salanenka, Yuliya","first_name":"Yuliya","id":"46DAAE7E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Verstraeten, Inge","last_name":"Verstraeten","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","first_name":"Inge"},{"first_name":"Christian","full_name":"Löfke, Christian","last_name":"Löfke"},{"id":"7DAAEDA4-02D0-11E9-B11A-A5A4D7DFFFD0","first_name":"Kaori","last_name":"Tabata","full_name":"Tabata, Kaori"},{"first_name":"Satoshi","last_name":"Naramoto","full_name":"Naramoto, Satoshi"},{"last_name":"Glanc","full_name":"Glanc, Matous","first_name":"Matous","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","orcid":"0000-0003-0619-7783"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","full_name":"Friml, Jirí","last_name":"Friml"}],"volume":115,"oa":1,"doi":"10.1073/pnas.1721760115","acknowledgement":"We gratefully acknowledge M. Blázquez (Instituto de Biología Molecular y Celular de Plantas), M. Fendrych, C. Cuesta Moliner (Institute of Science and Technology Austria), M. Vanstraelen, M. Nowack (Center for Plant Systems Biology, Ghent), C. Luschnig (Universitat fur Bodenkultur Wien, Vienna), S. Simon (Central European Institute of Technology, Brno), C. Sommerville (Carnegie Institution for Science), and Y. Gu (Penn State University) for making available the materials used in this study;\r\n...funding from the European Research Council (ERC) under the European Union’s Seventh Framework Programme (FP7/2007-2013)/ERC Grant Agreement 282300.\r\nCC BY NC ND","publisher":"National Academy of Sciences","article_processing_charge":"No","tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"corr_author":"1","day":"03","citation":{"ista":"Salanenka Y, Verstraeten I, Löfke C, Tabata K, Naramoto S, Glanc M, Friml J. 2018. Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane. Proceedings of the National Academy of Sciences of the United States of America. 115(14), 3716–3721.","ama":"Salanenka Y, Verstraeten I, Löfke C, et al. Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2018;115(14):3716-3721. doi:<a href=\"https://doi.org/10.1073/pnas.1721760115\">10.1073/pnas.1721760115</a>","chicago":"Salanenka, Yuliya, Inge Verstraeten, Christian Löfke, Kaori Tabata, Satoshi Naramoto, Matous Glanc, and Jiří Friml. “Gibberellin DELLA Signaling Targets the Retromer Complex to Redirect Protein Trafficking to the Plasma Membrane.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2018. <a href=\"https://doi.org/10.1073/pnas.1721760115\">https://doi.org/10.1073/pnas.1721760115</a>.","ieee":"Y. Salanenka <i>et al.</i>, “Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 115, no. 14. National Academy of Sciences, pp. 3716–3721, 2018.","short":"Y. Salanenka, I. Verstraeten, C. Löfke, K. Tabata, S. Naramoto, M. Glanc, J. Friml, Proceedings of the National Academy of Sciences of the United States of America 115 (2018) 3716–3721.","mla":"Salanenka, Yuliya, et al. “Gibberellin DELLA Signaling Targets the Retromer Complex to Redirect Protein Trafficking to the Plasma Membrane.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 115, no. 14, National Academy of Sciences, 2018, pp. 3716–21, doi:<a href=\"https://doi.org/10.1073/pnas.1721760115\">10.1073/pnas.1721760115</a>.","apa":"Salanenka, Y., Verstraeten, I., Löfke, C., Tabata, K., Naramoto, S., Glanc, M., &#38; Friml, J. (2018). Gibberellin DELLA signaling targets the retromer complex to redirect protein trafficking to the plasma membrane. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1721760115\">https://doi.org/10.1073/pnas.1721760115</a>"},"has_accepted_license":"1","quality_controlled":"1","type":"journal_article","external_id":{"isi":["000429012500073"]},"language":[{"iso":"eng"}],"_id":"428","abstract":[{"lang":"eng","text":"The plant hormone gibberellic acid (GA) is a crucial regulator of growth and development. The main paradigm of GA signaling puts forward transcriptional regulation via the degradation of DELLA transcriptional repressors. GA has also been shown to regulate tropic responses by modulation of the plasma membrane incidence of PIN auxin transporters by an unclear mechanism. Here we uncovered the cellular and molecular mechanisms by which GA redirects protein trafficking and thus regulates cell surface functionality. Photoconvertible reporters revealed that GA balances the protein traffic between the vacuole degradation route and recycling back to the cell surface. Low GA levels promote vacuolar delivery and degradation of multiple cargos, including PIN proteins, whereas high GA levels promote their recycling to the plasma membrane. This GA effect requires components of the retromer complex, such as Sorting Nexin 1 (SNX1) and its interacting, microtubule (MT)-associated protein, the Cytoplasmic Linker-Associated Protein (CLASP1). Accordingly, GA regulates the subcellular distribution of SNX1 and CLASP1, and the intact MT cytoskeleton is essential for the GA effect on trafficking. This GA cellular action occurs through DELLA proteins that regulate the MT and retromer presumably via their interaction partners Prefoldins (PFDs). Our study identified a branching of the GA signaling pathway at the level of DELLA proteins, which, in parallel to regulating transcription, also target by a nontranscriptional mechanism the retromer complex acting at the intersection of the degradation and recycling trafficking routes. By this mechanism, GA can redirect receptors and transporters to the cell surface, thus coregulating multiple processes, including PIN-dependent auxin fluxes during tropic responses."}],"date_published":"2018-04-03T00:00:00Z","ddc":["580"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2018","intvolume":"       115","isi":1,"publication":"Proceedings of the National Academy of Sciences of the United States of America","date_updated":"2025-06-03T11:21:29Z","file_date_updated":"2020-07-14T12:46:26Z","scopus_import":"1","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","ec_funded":1,"issue":"14","status":"public","page":" 3716 - 3721"},{"scopus_import":"1","issue":"1","ec_funded":1,"status":"public","isi":1,"date_updated":"2026-04-27T22:30:43Z","publication":"PLoS Genetics","file_date_updated":"2020-07-14T12:46:30Z","date_published":"2018-01-29T00:00:00Z","year":"2018","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","ddc":["581"],"intvolume":"        14","has_accepted_license":"1","citation":{"chicago":"Prat, Tomas, Jakub Hajny, Wim Grunewald, Mina K Vasileva, Gergely Molnar, Ricardo Tejos, Markus Schmid, Michael Sauer, and Jiří Friml. “WRKY23 Is a Component of the Transcriptional Network Mediating Auxin Feedback on PIN Polarity.” <i>PLoS Genetics</i>. Public Library of Science, 2018. <a href=\"https://doi.org/10.1371/journal.pgen.1007177\">https://doi.org/10.1371/journal.pgen.1007177</a>.","ama":"Prat T, Hajny J, Grunewald W, et al. WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity. <i>PLoS Genetics</i>. 2018;14(1). doi:<a href=\"https://doi.org/10.1371/journal.pgen.1007177\">10.1371/journal.pgen.1007177</a>","ista":"Prat T, Hajny J, Grunewald W, Vasileva MK, Molnar G, Tejos R, Schmid M, Sauer M, Friml J. 2018. WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity. PLoS Genetics. 14(1).","apa":"Prat, T., Hajny, J., Grunewald, W., Vasileva, M. K., Molnar, G., Tejos, R., … Friml, J. (2018). WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity. <i>PLoS Genetics</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pgen.1007177\">https://doi.org/10.1371/journal.pgen.1007177</a>","mla":"Prat, Tomas, et al. “WRKY23 Is a Component of the Transcriptional Network Mediating Auxin Feedback on PIN Polarity.” <i>PLoS Genetics</i>, vol. 14, no. 1, Public Library of Science, 2018, doi:<a href=\"https://doi.org/10.1371/journal.pgen.1007177\">10.1371/journal.pgen.1007177</a>.","ieee":"T. Prat <i>et al.</i>, “WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity,” <i>PLoS Genetics</i>, vol. 14, no. 1. Public Library of Science, 2018.","short":"T. Prat, J. Hajny, W. Grunewald, M.K. Vasileva, G. Molnar, R. Tejos, M. Schmid, M. Sauer, J. Friml, PLoS Genetics 14 (2018)."},"day":"29","type":"journal_article","quality_controlled":"1","_id":"449","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Auxin is unique among plant hormones due to its directional transport that is mediated by the polarly distributed PIN auxin transporters at the plasma membrane. The canalization hypothesis proposes that the auxin feedback on its polar flow is a crucial, plant-specific mechanism mediating multiple self-organizing developmental processes. Here, we used the auxin effect on the PIN polar localization in Arabidopsis thaliana roots as a proxy for the auxin feedback on the PIN polarity during canalization. We performed microarray experiments to find regulators of this process that act downstream of auxin. We identified genes that were transcriptionally regulated by auxin in an AXR3/IAA17- and ARF7/ARF19-dependent manner. Besides the known components of the PIN polarity, such as PID and PIP5K kinases, a number of potential new regulators were detected, among which the WRKY23 transcription factor, which was characterized in more detail. Gain- and loss-of-function mutants confirmed a role for WRKY23 in mediating the auxin effect on the PIN polarity. Accordingly, processes requiring auxin-mediated PIN polarity rearrangements, such as vascular tissue development during leaf venation, showed a higher WRKY23 expression and required the WRKY23 activity. Our results provide initial insights into the auxin transcriptional network acting upstream of PIN polarization and, potentially, canalization-mediated plant development."}],"external_id":{"isi":["000423718600034"]},"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"7172"},{"relation":"dissertation_contains","id":"1127","status":"public"},{"id":"8822","status":"public","relation":"dissertation_contains"}]},"publisher":"Public Library of Science","corr_author":"1","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"Yes","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"month":"01","department":[{"_id":"JiFr"}],"author":[{"last_name":"Prat","full_name":"Prat, Tomas","id":"3DA3BFEE-F248-11E8-B48F-1D18A9856A87","first_name":"Tomas"},{"full_name":"Hajny, Jakub","last_name":"Hajny","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","first_name":"Jakub","orcid":"0000-0003-2140-7195"},{"first_name":"Wim","full_name":"Grunewald, Wim","last_name":"Grunewald"},{"last_name":"Vasileva","full_name":"Vasileva, Mina K","first_name":"Mina K","id":"3407EB18-F248-11E8-B48F-1D18A9856A87"},{"id":"34F1AF46-F248-11E8-B48F-1D18A9856A87","first_name":"Gergely","full_name":"Molnar, Gergely","last_name":"Molnar"},{"first_name":"Ricardo","last_name":"Tejos","full_name":"Tejos, Ricardo"},{"first_name":"Markus","last_name":"Schmid","full_name":"Schmid, Markus"},{"first_name":"Michael","last_name":"Sauer","full_name":"Sauer, Michael"},{"full_name":"Friml, Jirí","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí"}],"volume":14,"pubrep_id":"967","doi":"10.1371/journal.pgen.1007177","oa":1,"oa_version":"Published Version","title":"WRKY23 is a component of the transcriptional network mediating auxin feedback on PIN polarity","date_created":"2018-12-11T11:46:32Z","file":[{"file_name":"IST-2018-967-v1+1_journal.pgen.1007177.pdf","checksum":"0276d66788ec076f4924164a39e6a712","date_updated":"2020-07-14T12:46:30Z","relation":"main_file","creator":"system","file_id":"4843","access_level":"open_access","file_size":24709062,"date_created":"2018-12-12T10:10:52Z","content_type":"application/pdf"}],"publist_id":"7373","publication_status":"published"},{"publication":"Scientific Reports","date_updated":"2026-04-27T22:30:43Z","isi":1,"file_date_updated":"2020-07-14T12:45:20Z","issue":"1","ec_funded":1,"scopus_import":"1","status":"public","day":"06","citation":{"ama":"Grones P, Abas MF, Hajny J, et al. PID/WAG-mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism. <i>Scientific Reports</i>. 2018;8(1). doi:<a href=\"https://doi.org/10.1038/s41598-018-28188-1\">10.1038/s41598-018-28188-1</a>","ista":"Grones P, Abas MF, Hajny J, Jones A, Waidmann S, Kleine Vehn J, Friml J. 2018. PID/WAG-mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism. Scientific Reports. 8(1), 10279.","chicago":"Grones, Peter, Melinda F Abas, Jakub Hajny, Angharad Jones, Sascha Waidmann, Jürgen Kleine Vehn, and Jiří Friml. “PID/WAG-Mediated Phosphorylation of the Arabidopsis PIN3 Auxin Transporter Mediates Polarity Switches during Gravitropism.” <i>Scientific Reports</i>. Springer, 2018. <a href=\"https://doi.org/10.1038/s41598-018-28188-1\">https://doi.org/10.1038/s41598-018-28188-1</a>.","mla":"Grones, Peter, et al. “PID/WAG-Mediated Phosphorylation of the Arabidopsis PIN3 Auxin Transporter Mediates Polarity Switches during Gravitropism.” <i>Scientific Reports</i>, vol. 8, no. 1, 10279, Springer, 2018, doi:<a href=\"https://doi.org/10.1038/s41598-018-28188-1\">10.1038/s41598-018-28188-1</a>.","ieee":"P. Grones <i>et al.</i>, “PID/WAG-mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism,” <i>Scientific Reports</i>, vol. 8, no. 1. Springer, 2018.","short":"P. Grones, M.F. Abas, J. Hajny, A. Jones, S. Waidmann, J. Kleine Vehn, J. Friml, Scientific Reports 8 (2018).","apa":"Grones, P., Abas, M. F., Hajny, J., Jones, A., Waidmann, S., Kleine Vehn, J., &#38; Friml, J. (2018). PID/WAG-mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism. <i>Scientific Reports</i>. Springer. <a href=\"https://doi.org/10.1038/s41598-018-28188-1\">https://doi.org/10.1038/s41598-018-28188-1</a>"},"has_accepted_license":"1","external_id":{"isi":["000437673200053"]},"_id":"191","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"Intercellular distribution of the plant hormone auxin largely depends on the polar subcellular distribution of the plasma membrane PIN-FORMED (PIN) auxin transporters. PIN polarity switches in response to different developmental and environmental signals have been shown to redirect auxin fluxes mediating certain developmental responses. PIN phosphorylation at different sites and by different kinases is crucial for PIN function. Here we investigate the role of PIN phosphorylation during gravitropic response. Loss- and gain-of-function mutants in PINOID and related kinases but not in D6PK kinase as well as mutations mimicking constitutive dephosphorylated or phosphorylated status of two clusters of predicted phosphorylation sites partially disrupted PIN3 phosphorylation and caused defects in gravitropic bending in roots and hypocotyls. In particular, they impacted PIN3 polarity rearrangements in response to gravity and during feed-back regulation by auxin itself. Thus PIN phosphorylation, besides regulating transport activity and apical-basal targeting, is also important for the rapid polarity switches in response to environmental and endogenous signals."}],"quality_controlled":"1","type":"journal_article","date_published":"2018-07-06T00:00:00Z","article_number":"10279","intvolume":"         8","ddc":["581"],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","year":"2018","volume":8,"author":[{"id":"399876EC-F248-11E8-B48F-1D18A9856A87","first_name":"Peter","last_name":"Grones","full_name":"Grones, Peter"},{"last_name":"Abas","full_name":"Abas, Melinda F","id":"3CFB3B1C-F248-11E8-B48F-1D18A9856A87","first_name":"Melinda F"},{"first_name":"Jakub","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2140-7195","last_name":"Hajny","full_name":"Hajny, Jakub"},{"first_name":"Angharad","last_name":"Jones","full_name":"Jones, Angharad"},{"first_name":"Sascha","last_name":"Waidmann","full_name":"Waidmann, Sascha"},{"first_name":"Jürgen","last_name":"Kleine Vehn","full_name":"Kleine Vehn, Jürgen"},{"last_name":"Friml","full_name":"Friml, Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","orcid":"0000-0002-8302-7596"}],"department":[{"_id":"JiFr"},{"_id":"EvBe"}],"month":"07","project":[{"name":"Polarity and subcellular dynamics in plants","grant_number":"282300","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425"},{"grant_number":"742985","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}],"oa":1,"doi":"10.1038/s41598-018-28188-1","related_material":{"record":[{"id":"8822","status":"public","relation":"dissertation_contains"}]},"article_processing_charge":"No","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publisher":"Springer","file":[{"access_level":"open_access","date_created":"2018-12-17T15:38:56Z","file_size":2413876,"content_type":"application/pdf","file_name":"2018_ScientificReports_Grones.pdf","checksum":"266b03f4fb8198e83141617aaa99dcab","relation":"main_file","file_id":"5714","date_updated":"2020-07-14T12:45:20Z","creator":"dernst"}],"publication_status":"published","publist_id":"7729","date_created":"2018-12-11T11:45:06Z","title":"PID/WAG-mediated phosphorylation of the Arabidopsis PIN3 auxin transporter mediates polarity switches during gravitropism","oa_version":"Published Version"},{"publication_identifier":{"issn":["1040-4651"],"eissn":["1532-298X"]},"oa_version":"Published Version","date_created":"2018-12-11T11:46:20Z","title":"A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis","publist_id":"7417","publication_status":"published","file":[{"file_size":4407538,"date_created":"2022-05-23T09:12:38Z","success":1,"content_type":"application/pdf","access_level":"open_access","creator":"dernst","date_updated":"2022-05-23T09:12:38Z","file_id":"11406","relation":"main_file","file_name":"2018_PlantCell_Adamowski.pdf","checksum":"4e165e653b67d3f0684697f21aace5a1"}],"publisher":"American Society of Plant Biologists","corr_author":"1","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"No","pmid":1,"related_material":{"record":[{"relation":"dissertation_contains","id":"6269","status":"public"}]},"acknowledgement":"We thank James Matthew Watson, Monika Borowska, and Peggy Stolt-Bergner at ProTech Facility of the Vienna Biocenter Core Facilities for the CRISPR/CAS9 construct; Anna Müller for assistance with molecular cloning; Sebastian Bednarek, Liwen Jiang, and Daniël Van Damme for sharing published material; Matyáš Fendrych, Daniël Van Damme, and Lindy Abas for valuable discussions; and Martine De Cock for help with correcting the manuscript. This work was supported by the European Research Council under the European Union Seventh Framework Programme (FP7/2007-2013)/ERC Grant 282300 and by the Ministry of Education of the Czech Republic/MŠMT project NPUI-LO1417.","doi":"10.1105/tpc.17.00785","oa":1,"project":[{"call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"article_type":"original","month":"04","department":[{"_id":"JiFr"}],"volume":30,"author":[{"orcid":"0000-0001-6463-5257","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","first_name":"Maciek","last_name":"Adamowski","full_name":"Adamowski, Maciek"},{"orcid":"0000-0002-8600-0671","first_name":"Madhumitha","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","full_name":"Narasimhan, Madhumitha","last_name":"Narasimhan"},{"full_name":"Kania, Urszula","last_name":"Kania","first_name":"Urszula","id":"4AE5C486-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Glanc","full_name":"Glanc, Matous","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","first_name":"Matous","orcid":"0000-0003-0619-7783"},{"full_name":"De Jaeger, Geert","last_name":"De Jaeger","first_name":"Geert"},{"first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jirí"}],"year":"2018","ddc":["580"],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","intvolume":"        30","date_published":"2018-04-09T00:00:00Z","type":"journal_article","quality_controlled":"1","abstract":[{"text":"Clathrin-mediated endocytosis (CME) is a cellular trafficking process in which cargoes and lipids are internalized from the plasma membrane into vesicles coated with clathrin and adaptor proteins. CME is essential for many developmental and physiological processes in plants, but its underlying mechanism is not well characterised compared to that in yeast and animal systems. Here, we searched for new factors involved in CME in Arabidopsis thaliana by performing Tandem Affinity Purification of proteins that interact with clathrin light chain, a principal component of the clathrin coat. Among the confirmed interactors, we found two putative homologues of the clathrin-coat uncoating factor auxilin previously described in non-plant systems. Overexpression of AUXILIN-LIKE1 and AUXILIN-LIKE2 in A. thaliana caused an arrest of seedling growth and development. This was concomitant with inhibited endocytosis due to blocking of clathrin recruitment after the initial step of adaptor protein binding to the plasma membrane. By contrast, auxilin-like(1/2) loss-of-function lines did not present endocytosis-related developmental or cellular phenotypes under normal growth conditions. This work contributes to the on-going characterization of the endocytotic machinery in plants and provides a robust tool for conditionally and specifically interfering with CME in A. thaliana.","lang":"eng"}],"_id":"412","language":[{"iso":"eng"}],"external_id":{"isi":["000429441400018"],"pmid":["29511054"]},"has_accepted_license":"1","citation":{"chicago":"Adamowski, Maciek, Madhumitha Narasimhan, Urszula Kania, Matous Glanc, Geert De Jaeger, and Jiří Friml. “A Functional Study of AUXILIN LIKE1 and 2 Two Putative Clathrin Uncoating Factors in Arabidopsis.” <i>The Plant Cell</i>. American Society of Plant Biologists, 2018. <a href=\"https://doi.org/10.1105/tpc.17.00785\">https://doi.org/10.1105/tpc.17.00785</a>.","ama":"Adamowski M, Narasimhan M, Kania U, Glanc M, De Jaeger G, Friml J. A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis. <i>The Plant Cell</i>. 2018;30(3):700-716. doi:<a href=\"https://doi.org/10.1105/tpc.17.00785\">10.1105/tpc.17.00785</a>","ista":"Adamowski M, Narasimhan M, Kania U, Glanc M, De Jaeger G, Friml J. 2018. A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis. The Plant Cell. 30(3), 700–716.","apa":"Adamowski, M., Narasimhan, M., Kania, U., Glanc, M., De Jaeger, G., &#38; Friml, J. (2018). A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis. <i>The Plant Cell</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1105/tpc.17.00785\">https://doi.org/10.1105/tpc.17.00785</a>","mla":"Adamowski, Maciek, et al. “A Functional Study of AUXILIN LIKE1 and 2 Two Putative Clathrin Uncoating Factors in Arabidopsis.” <i>The Plant Cell</i>, vol. 30, no. 3, American Society of Plant Biologists, 2018, pp. 700–16, doi:<a href=\"https://doi.org/10.1105/tpc.17.00785\">10.1105/tpc.17.00785</a>.","short":"M. Adamowski, M. Narasimhan, U. Kania, M. Glanc, G. De Jaeger, J. Friml, The Plant Cell 30 (2018) 700–716.","ieee":"M. Adamowski, M. Narasimhan, U. Kania, M. Glanc, G. De Jaeger, and J. Friml, “A functional study of AUXILIN LIKE1 and 2 two putative clathrin uncoating factors in Arabidopsis,” <i>The Plant Cell</i>, vol. 30, no. 3. American Society of Plant Biologists, pp. 700–716, 2018."},"day":"09","page":"700 - 716","status":"public","scopus_import":"1","ec_funded":1,"issue":"3","file_date_updated":"2022-05-23T09:12:38Z","isi":1,"publication":"The Plant Cell","date_updated":"2026-04-27T22:30:46Z"},{"type":"journal_article","quality_controlled":"1","abstract":[{"text":"Auxin steers numerous physiological processes in plants, making the tight control of its endogenous levels and spatiotemporal distribution a necessity. This regulation is achieved by different mechanisms, including auxin biosynthesis, metabolic conversions, degradation, and transport. Here, we introduce cis-cinnamic acid (c-CA) as a novel and unique addition to a small group of endogenous molecules affecting in planta auxin concentrations. c-CA is the photo-isomerization product of the phenylpropanoid pathway intermediate trans-CA (t-CA). When grown on c-CA-containing medium, an evolutionary diverse set of plant species were shown to exhibit phenotypes characteristic for high auxin levels, including inhibition of primary root growth, induction of root hairs, and promotion of adventitious and lateral rooting. By molecular docking and receptor binding assays, we showed that c-CA itself is neither an auxin nor an anti-auxin, and auxin profiling data revealed that c-CA does not significantly interfere with auxin biosynthesis. Single cell-based auxin accumulation assays showed that c-CA, and not t-CA, is a potent inhibitor of auxin efflux. Auxin signaling reporters detected changes in spatiotemporal distribution of the auxin response along the root of c-CA-treated plants, and long-distance auxin transport assays showed no inhibition of rootward auxin transport. Overall, these results suggest that the phenotypes of c-CA-treated plants are the consequence of a local change in auxin accumulation, induced by the inhibition of auxin efflux. This work reveals a novel mechanism how plants may regulate auxin levels and adds a novel, naturally occurring molecule to the chemical toolbox for the studies of auxin homeostasis.","lang":"eng"}],"_id":"1159","language":[{"iso":"eng"}],"external_id":{"isi":["000394135800041"],"pmid":["27837086"]},"has_accepted_license":"1","citation":{"apa":"Steenackers, W., Klíma, P., Quareshy, M., Cesarino, I., Kumpf, R., Corneillie, S., … Vanholme, B. (2017). Cis-cinnamic acid is a novel natural auxin efflux inhibitor that promotes lateral root formation. <i>Plant Physiology</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1104/pp.16.00943\">https://doi.org/10.1104/pp.16.00943</a>","short":"W. Steenackers, P. Klíma, M. Quareshy, I. Cesarino, R. Kumpf, S. Corneillie, P. Araújo, T. Viaene, G. Goeminne, M. Nowack, K. Ljung, J. Friml, J. Blakeslee, O. Novák, E. Zažímalová, R. Napier, W. Boerjan, B. Vanholme, Plant Physiology 173 (2017) 552–565.","ieee":"W. Steenackers <i>et al.</i>, “Cis-cinnamic acid is a novel natural auxin efflux inhibitor that promotes lateral root formation,” <i>Plant Physiology</i>, vol. 173, no. 1. American Society of Plant Biologists, pp. 552–565, 2017.","mla":"Steenackers, Ward, et al. “Cis-Cinnamic Acid Is a Novel Natural Auxin Efflux Inhibitor That Promotes Lateral Root Formation.” <i>Plant Physiology</i>, vol. 173, no. 1, American Society of Plant Biologists, 2017, pp. 552–65, doi:<a href=\"https://doi.org/10.1104/pp.16.00943\">10.1104/pp.16.00943</a>.","chicago":"Steenackers, Ward, Petr Klíma, Mussa Quareshy, Igor Cesarino, Robert Kumpf, Sander Corneillie, Pedro Araújo, et al. “Cis-Cinnamic Acid Is a Novel Natural Auxin Efflux Inhibitor That Promotes Lateral Root Formation.” <i>Plant Physiology</i>. American Society of Plant Biologists, 2017. <a href=\"https://doi.org/10.1104/pp.16.00943\">https://doi.org/10.1104/pp.16.00943</a>.","ista":"Steenackers W, Klíma P, Quareshy M, Cesarino I, Kumpf R, Corneillie S, Araújo P, Viaene T, Goeminne G, Nowack M, Ljung K, Friml J, Blakeslee J, Novák O, Zažímalová E, Napier R, Boerjan W, Vanholme B. 2017. Cis-cinnamic acid is a novel natural auxin efflux inhibitor that promotes lateral root formation. Plant Physiology. 173(1), 552–565.","ama":"Steenackers W, Klíma P, Quareshy M, et al. Cis-cinnamic acid is a novel natural auxin efflux inhibitor that promotes lateral root formation. <i>Plant Physiology</i>. 2017;173(1):552-565. doi:<a href=\"https://doi.org/10.1104/pp.16.00943\">10.1104/pp.16.00943</a>"},"day":"01","year":"2017","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","ddc":["580"],"intvolume":"       173","date_published":"2017-01-01T00:00:00Z","file_date_updated":"2020-07-14T12:44:36Z","isi":1,"date_updated":"2025-04-15T07:48:02Z","publication":"Plant Physiology","page":"552 - 565","status":"public","scopus_import":"1","issue":"1","ec_funded":1,"publist_id":"6199","publication_status":"published","file":[{"creator":"dernst","relation":"main_file","date_updated":"2020-07-14T12:44:36Z","file_id":"7040","file_name":"2016_PlantPhysi_Steenackers.pdf","checksum":"fd4d1cfe7ed70e54bb12ae3881f3fb91","date_created":"2019-11-18T16:12:25Z","file_size":4109142,"content_type":"application/pdf","access_level":"open_access"}],"publication_identifier":{"issn":["0032-0889"]},"oa_version":"Submitted Version","title":"Cis-cinnamic acid is a novel natural auxin efflux inhibitor that promotes lateral root formation","date_created":"2018-12-11T11:50:28Z","doi":"10.1104/pp.16.00943","oa":1,"project":[{"name":"Polarity and subcellular dynamics in plants","grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7"}],"article_type":"original","month":"01","department":[{"_id":"JiFr"}],"author":[{"first_name":"Ward","last_name":"Steenackers","full_name":"Steenackers, Ward"},{"last_name":"Klíma","full_name":"Klíma, Petr","first_name":"Petr"},{"first_name":"Mussa","full_name":"Quareshy, Mussa","last_name":"Quareshy"},{"last_name":"Cesarino","full_name":"Cesarino, Igor","first_name":"Igor"},{"full_name":"Kumpf, Robert","last_name":"Kumpf","first_name":"Robert"},{"full_name":"Corneillie, Sander","last_name":"Corneillie","first_name":"Sander"},{"first_name":"Pedro","last_name":"Araújo","full_name":"Araújo, Pedro"},{"first_name":"Tom","full_name":"Viaene, Tom","last_name":"Viaene"},{"first_name":"Geert","full_name":"Goeminne, Geert","last_name":"Goeminne"},{"last_name":"Nowack","full_name":"Nowack, Moritz","first_name":"Moritz"},{"first_name":"Karin","last_name":"Ljung","full_name":"Ljung, Karin"},{"last_name":"Friml","full_name":"Friml, Jirí","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"full_name":"Blakeslee, Joshua","last_name":"Blakeslee","first_name":"Joshua"},{"full_name":"Novák, Ondřej","last_name":"Novák","first_name":"Ondřej"},{"first_name":"Eva","full_name":"Zažímalová, Eva","last_name":"Zažímalová"},{"first_name":"Richard","full_name":"Napier, Richard","last_name":"Napier"},{"first_name":"Wout","last_name":"Boerjan","full_name":"Boerjan, Wout"},{"first_name":"Bartel","full_name":"Vanholme, Bartel","last_name":"Vanholme"}],"volume":173,"publisher":"American Society of Plant Biologists","article_processing_charge":"No","pmid":1},{"title":"Light sheet fluorescence microscopy of plant roots growing on the surface of a gel","date_created":"2018-12-11T11:50:01Z","oa_version":"Published Version","file":[{"access_level":"open_access","content_type":"application/pdf","date_created":"2018-12-12T10:16:31Z","file_size":57678,"file_name":"IST-2017-808-v1+1_2017_VWangenheim_list.pdf","date_updated":"2018-12-12T10:16:31Z","relation":"main_file","creator":"system","file_id":"5219"},{"file_name":"IST-2017-808-v1+2_2017_VWangenheim_article.pdf","creator":"system","date_updated":"2018-12-12T10:16:32Z","file_id":"5220","relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_size":1317820,"date_created":"2018-12-12T10:16:32Z"}],"publication_status":"published","publist_id":"6302","related_material":{"record":[{"relation":"popular_science","id":"5565","status":"public"}]},"article_processing_charge":"No","publisher":"Journal of Visualized Experiments","volume":2017,"author":[{"full_name":"Von Wangenheim, Daniel","last_name":"Von Wangenheim","orcid":"0000-0002-6862-1247","id":"49E91952-F248-11E8-B48F-1D18A9856A87","first_name":"Daniel"},{"last_name":"Hauschild","full_name":"Hauschild, Robert","orcid":"0000-0001-9843-3522","first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jirí"}],"department":[{"_id":"JiFr"},{"_id":"Bio"}],"month":"01","project":[{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme"},{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"doi":"10.3791/55044","oa":1,"pubrep_id":"808","date_published":"2017-01-18T00:00:00Z","intvolume":"      2017","article_number":"e55044","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","ddc":["580"],"year":"2017","day":"18","citation":{"chicago":"Wangenheim, Daniel von, Robert Hauschild, and Jiří Friml. “Light Sheet Fluorescence Microscopy of Plant Roots Growing on the Surface of a Gel.” <i>Journal of Visualized Experiments JoVE</i>. Journal of Visualized Experiments, 2017. <a href=\"https://doi.org/10.3791/55044\">https://doi.org/10.3791/55044</a>.","ama":"von Wangenheim D, Hauschild R, Friml J. Light sheet fluorescence microscopy of plant roots growing on the surface of a gel. <i>Journal of visualized experiments JoVE</i>. 2017;2017(119). doi:<a href=\"https://doi.org/10.3791/55044\">10.3791/55044</a>","ista":"von Wangenheim D, Hauschild R, Friml J. 2017. Light sheet fluorescence microscopy of plant roots growing on the surface of a gel. Journal of visualized experiments JoVE. 2017(119), e55044.","apa":"von Wangenheim, D., Hauschild, R., &#38; Friml, J. (2017). Light sheet fluorescence microscopy of plant roots growing on the surface of a gel. <i>Journal of Visualized Experiments JoVE</i>. Journal of Visualized Experiments. <a href=\"https://doi.org/10.3791/55044\">https://doi.org/10.3791/55044</a>","mla":"von Wangenheim, Daniel, et al. “Light Sheet Fluorescence Microscopy of Plant Roots Growing on the Surface of a Gel.” <i>Journal of Visualized Experiments JoVE</i>, vol. 2017, no. 119, e55044, Journal of Visualized Experiments, 2017, doi:<a href=\"https://doi.org/10.3791/55044\">10.3791/55044</a>.","short":"D. von Wangenheim, R. Hauschild, J. Friml, Journal of Visualized Experiments JoVE 2017 (2017).","ieee":"D. von Wangenheim, R. Hauschild, and J. Friml, “Light sheet fluorescence microscopy of plant roots growing on the surface of a gel,” <i>Journal of visualized experiments JoVE</i>, vol. 2017, no. 119. Journal of Visualized Experiments, 2017."},"has_accepted_license":"1","external_id":{"isi":["000397847200041"]},"language":[{"iso":"eng"}],"_id":"1078","abstract":[{"lang":"eng","text":"One of the key questions in understanding plant development is how single cells behave in a larger context of the tissue. Therefore, it requires the observation of the whole organ with a high spatial- as well as temporal resolution over prolonged periods of time, which may cause photo-toxic effects. This protocol shows a plant sample preparation method for light-sheet microscopy, which is characterized by mounting the plant vertically on the surface of a gel. The plant is mounted in such a way that the roots are submerged in a liquid medium while the leaves remain in the air. In order to ensure photosynthetic activity of the plant, a custom-made lighting system illuminates the leaves. To keep the roots in darkness the water surface is covered with sheets of black plastic foil. This method allows long-term imaging of plant organ development in standardized conditions. "}],"type":"journal_article","issue":"119","ec_funded":1,"scopus_import":"1","status":"public","publication":"Journal of visualized experiments JoVE","date_updated":"2025-04-15T06:50:23Z","isi":1,"acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"Bio"}],"file_date_updated":"2018-12-12T10:16:32Z"},{"publication_identifier":{"issn":["2045-2322"]},"title":"Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity","date_created":"2018-12-11T11:50:12Z","oa_version":"Published Version","publist_id":"6258","publication_status":"published","file":[{"file_name":"IST-2017-803-v1+1_srep41906.pdf","file_id":"5328","creator":"system","date_updated":"2018-12-12T10:18:09Z","relation":"main_file","access_level":"open_access","file_size":1654496,"date_created":"2018-12-12T10:18:09Z","content_type":"application/pdf"}],"tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"No","publisher":"Nature Publishing Group","acknowledgement":"European Research Council (project ERC-2011-StG-20101109-PSDP), European Social Fund (CZ.1.07/2.3.00/20.0043) and the Czech Science Foundation (GA13-40637S) [JF].","doi":"10.1038/srep41906","oa":1,"pubrep_id":"803","author":[{"last_name":"Kuhn","full_name":"Kuhn, Benjamin","first_name":"Benjamin"},{"first_name":"Tomasz","full_name":"Nodzyński, Tomasz","last_name":"Nodzyński"},{"first_name":"Sanae","last_name":"Errafi","full_name":"Errafi, Sanae"},{"first_name":"Rahel","full_name":"Bucher, Rahel","last_name":"Bucher"},{"full_name":"Gupta, Shibu","last_name":"Gupta","first_name":"Shibu"},{"first_name":"Bibek","full_name":"Aryal, Bibek","last_name":"Aryal"},{"first_name":"Petre","last_name":"Dobrev","full_name":"Dobrev, Petre"},{"last_name":"Bigler","full_name":"Bigler, Laurent","first_name":"Laurent"},{"full_name":"Geisler, Markus","last_name":"Geisler","first_name":"Markus"},{"first_name":"Eva","last_name":"Zažímalová","full_name":"Zažímalová, Eva"},{"last_name":"Friml","full_name":"Friml, Jirí","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"first_name":"Christoph","full_name":"Ringli, Christoph","last_name":"Ringli"}],"volume":7,"project":[{"name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300"}],"department":[{"_id":"JiFr"}],"month":"02","intvolume":"         7","article_number":"41906","year":"2017","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["581"],"date_published":"2017-02-06T00:00:00Z","_id":"1110","abstract":[{"lang":"eng","text":"The phytohormone auxin is a major determinant and regulatory component important for plant development. Auxin transport between cells is mediated by a complex system of transporters such as AUX1/LAX, PIN, and ABCB proteins, and their localization and activity is thought to be influenced by phosphatases and kinases. Flavonols have been shown to alter auxin transport activity and changes in flavonol accumulation in the Arabidopsis thaliana rol1-2 mutant cause defects in auxin transport and seedling development. A new mutation in ROOTS CURL IN NPA 1 (RCN1), encoding a regulatory subunit of the phosphatase PP2A, was found to suppress the growth defects of rol1-2 without changing the flavonol content. rol1-2 rcn1-3 double mutants show wild type-like auxin transport activity while levels of free auxin are not affected by rcn1-3. In the rol1-2 mutant, PIN2 shows a flavonol-induced basal-to-apical shift in polar localization which is reversed in the rol1-2 rcn1-3 to basal localization. In vivo analysis of PINOID action, a kinase known to influence PIN protein localization in a PP2A-antagonistic manner, revealed a negative impact of flavonols on PINOID activity. Together, these data suggest that flavonols affect auxin transport by modifying the antagonistic kinase/phosphatase equilibrium."}],"language":[{"iso":"eng"}],"external_id":{"isi":["000393367600001"]},"type":"journal_article","quality_controlled":"1","has_accepted_license":"1","day":"06","citation":{"ama":"Kuhn B, Nodzyński T, Errafi S, et al. Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity. <i>Scientific Reports</i>. 2017;7. doi:<a href=\"https://doi.org/10.1038/srep41906\">10.1038/srep41906</a>","ista":"Kuhn B, Nodzyński T, Errafi S, Bucher R, Gupta S, Aryal B, Dobrev P, Bigler L, Geisler M, Zažímalová E, Friml J, Ringli C. 2017. Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity. Scientific Reports. 7, 41906.","chicago":"Kuhn, Benjamin, Tomasz Nodzyński, Sanae Errafi, Rahel Bucher, Shibu Gupta, Bibek Aryal, Petre Dobrev, et al. “Flavonol-Induced Changes in PIN2 Polarity and Auxin Transport in the Arabidopsis Thaliana Rol1-2 Mutant Require Phosphatase Activity.” <i>Scientific Reports</i>. Nature Publishing Group, 2017. <a href=\"https://doi.org/10.1038/srep41906\">https://doi.org/10.1038/srep41906</a>.","mla":"Kuhn, Benjamin, et al. “Flavonol-Induced Changes in PIN2 Polarity and Auxin Transport in the Arabidopsis Thaliana Rol1-2 Mutant Require Phosphatase Activity.” <i>Scientific Reports</i>, vol. 7, 41906, Nature Publishing Group, 2017, doi:<a href=\"https://doi.org/10.1038/srep41906\">10.1038/srep41906</a>.","ieee":"B. Kuhn <i>et al.</i>, “Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity,” <i>Scientific Reports</i>, vol. 7. Nature Publishing Group, 2017.","short":"B. Kuhn, T. Nodzyński, S. Errafi, R. Bucher, S. Gupta, B. Aryal, P. Dobrev, L. Bigler, M. Geisler, E. Zažímalová, J. Friml, C. Ringli, Scientific Reports 7 (2017).","apa":"Kuhn, B., Nodzyński, T., Errafi, S., Bucher, R., Gupta, S., Aryal, B., … Ringli, C. (2017). Flavonol-induced changes in PIN2 polarity and auxin transport in the Arabidopsis thaliana rol1-2 mutant require phosphatase activity. <i>Scientific Reports</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/srep41906\">https://doi.org/10.1038/srep41906</a>"},"status":"public","ec_funded":1,"scopus_import":"1","file_date_updated":"2018-12-12T10:18:09Z","publication":"Scientific Reports","date_updated":"2025-07-10T11:50:06Z","isi":1},{"related_material":{"record":[{"relation":"popular_science","id":"5566","status":"public"}]},"publisher":"eLife Sciences Publications","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"Yes","project":[{"name":"International IST Postdoc Fellowship Programme","grant_number":"291734","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"},{"_id":"2572ED28-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"M02128","name":"Molecular basis of root growth inhibition by auxin"},{"_id":"2542D156-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"I 1774-B16","name":"Hormone cross-talk drives nutrient dependent plant development"},{"name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300"}],"month":"06","department":[{"_id":"JiFr"},{"_id":"Bio"},{"_id":"CaHe"},{"_id":"EvBe"}],"volume":6,"author":[{"last_name":"Von Wangenheim","full_name":"Von Wangenheim, Daniel","first_name":"Daniel","id":"49E91952-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6862-1247"},{"orcid":"0000-0001-9843-3522","first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","full_name":"Hauschild, Robert","last_name":"Hauschild"},{"full_name":"Fendrych, Matyas","last_name":"Fendrych","id":"43905548-F248-11E8-B48F-1D18A9856A87","first_name":"Matyas","orcid":"0000-0002-9767-8699"},{"last_name":"Barone","full_name":"Barone, Vanessa","orcid":"0000-0003-2676-3367","id":"419EECCC-F248-11E8-B48F-1D18A9856A87","first_name":"Vanessa"},{"orcid":"0000-0002-8510-9739","first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","last_name":"Benková","full_name":"Benková, Eva"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","last_name":"Friml","full_name":"Friml, Jirí"}],"pubrep_id":"847","acknowledgement":"Funding: Marie Curie Actions (FP7/2007-2013 no 291734) to Daniel von Wangenheim; Austrian Science Fund (M 2128-B21) to Matyáš Fendrych; Austrian Science Fund (FWF01_I1774S) to Eva Benková; European Research Council (FP7/2007-2013 no 282300) to Jiří Friml. \r\nThe authors are grateful to the Miba Machine Shop at IST Austria for their contribution to the microscope setup and to Yvonne Kemper for reading, understanding and correcting the manuscript.\r\n#BioimagingFacility","oa":1,"doi":"10.7554/eLife.26792","oa_version":"Published Version","date_created":"2018-12-11T11:49:21Z","title":"Live tracking of moving samples in confocal microscopy for vertically grown roots","file":[{"file_name":"IST-2017-847-v1+1_elife-26792-v2.pdf","checksum":"9af3398cb0d81f99d79016a616df22e9","date_updated":"2020-07-14T12:48:15Z","file_id":"5315","relation":"main_file","creator":"system","access_level":"open_access","date_created":"2018-12-12T10:17:57Z","file_size":19581847,"content_type":"application/pdf"}],"publist_id":"6471","publication_status":"published","scopus_import":"1","ec_funded":1,"status":"public","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"Bio"}],"isi":1,"date_updated":"2025-04-15T06:37:26Z","publication":"eLife","file_date_updated":"2020-07-14T12:48:15Z","date_published":"2017-06-19T00:00:00Z","year":"2017","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","ddc":["570"],"intvolume":"         6","article_number":"e26792","has_accepted_license":"1","citation":{"ista":"von Wangenheim D, Hauschild R, Fendrych M, Barone V, Benková E, Friml J. 2017. Live tracking of moving samples in confocal microscopy for vertically grown roots. eLife. 6, e26792.","ama":"von Wangenheim D, Hauschild R, Fendrych M, Barone V, Benková E, Friml J. Live tracking of moving samples in confocal microscopy for vertically grown roots. <i>eLife</i>. 2017;6. doi:<a href=\"https://doi.org/10.7554/eLife.26792\">10.7554/eLife.26792</a>","chicago":"Wangenheim, Daniel von, Robert Hauschild, Matyas Fendrych, Vanessa Barone, Eva Benková, and Jiří Friml. “Live Tracking of Moving Samples in Confocal Microscopy for Vertically Grown Roots.” <i>ELife</i>. eLife Sciences Publications, 2017. <a href=\"https://doi.org/10.7554/eLife.26792\">https://doi.org/10.7554/eLife.26792</a>.","ieee":"D. von Wangenheim, R. Hauschild, M. Fendrych, V. Barone, E. Benková, and J. Friml, “Live tracking of moving samples in confocal microscopy for vertically grown roots,” <i>eLife</i>, vol. 6. eLife Sciences Publications, 2017.","short":"D. von Wangenheim, R. Hauschild, M. Fendrych, V. Barone, E. Benková, J. Friml, ELife 6 (2017).","mla":"von Wangenheim, Daniel, et al. “Live Tracking of Moving Samples in Confocal Microscopy for Vertically Grown Roots.” <i>ELife</i>, vol. 6, e26792, eLife Sciences Publications, 2017, doi:<a href=\"https://doi.org/10.7554/eLife.26792\">10.7554/eLife.26792</a>.","apa":"von Wangenheim, D., Hauschild, R., Fendrych, M., Barone, V., Benková, E., &#38; Friml, J. (2017). Live tracking of moving samples in confocal microscopy for vertically grown roots. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.26792\">https://doi.org/10.7554/eLife.26792</a>"},"day":"19","type":"journal_article","quality_controlled":"1","_id":"946","abstract":[{"text":"Roots navigate through soil integrating environmental signals to orient their growth. The Arabidopsis root is a widely used model for developmental, physiological and cell biological studies. Live imaging greatly aids these efforts, but the horizontal sample position and continuous root tip displacement present significant difficulties. Here, we develop a confocal microscope setup for vertical sample mounting and integrated directional illumination. We present TipTracker – a custom software for automatic tracking of diverse moving objects usable on various microscope setups. Combined, this enables observation of root tips growing along the natural gravity vector over prolonged periods of time, as well as the ability to induce rapid gravity or light stimulation. We also track migrating cells in the developing zebrafish embryo, demonstrating the utility of this system in the acquisition of high-resolution data sets of dynamic samples. We provide detailed descriptions of the tools enabling the easy implementation on other microscopes.","lang":"eng"}],"language":[{"iso":"eng"}],"external_id":{"isi":["000404728300001"]}},{"citation":{"ieee":"E. Mazur and J. Friml, “Vascular tissue development and regeneration in the model plant arabidopsis,” in <i>Plant Engineering</i>, S. Jurić, Ed. IntechOpen, 2017, pp. 113–140.","short":"E. Mazur, J. Friml, in:, S. Jurić (Ed.), Plant Engineering, IntechOpen, 2017, pp. 113–140.","mla":"Mazur, Ewa, and Jiří Friml. “Vascular Tissue Development and Regeneration in the Model Plant Arabidopsis.” <i>Plant Engineering</i>, edited by Snježana Jurić, IntechOpen, 2017, pp. 113–40, doi:<a href=\"https://doi.org/10.5772/intechopen.69712\">10.5772/intechopen.69712</a>.","apa":"Mazur, E., &#38; Friml, J. (2017). Vascular tissue development and regeneration in the model plant arabidopsis. In S. Jurić (Ed.), <i>Plant Engineering</i> (pp. 113–140). IntechOpen. <a href=\"https://doi.org/10.5772/intechopen.69712\">https://doi.org/10.5772/intechopen.69712</a>","ista":"Mazur E, Friml J. 2017.Vascular tissue development and regeneration in the model plant arabidopsis. In: Plant Engineering. Agricultural and Biological Sciences, , 113–140.","ama":"Mazur E, Friml J. Vascular tissue development and regeneration in the model plant arabidopsis. In: Jurić S, ed. <i>Plant Engineering</i>. Plant Engineering. IntechOpen; 2017:113-140. doi:<a href=\"https://doi.org/10.5772/intechopen.69712\">10.5772/intechopen.69712</a>","chicago":"Mazur, Ewa, and Jiří Friml. “Vascular Tissue Development and Regeneration in the Model Plant Arabidopsis.” In <i>Plant Engineering</i>, edited by Snježana Jurić, 113–40. Plant Engineering. IntechOpen, 2017. <a href=\"https://doi.org/10.5772/intechopen.69712\">https://doi.org/10.5772/intechopen.69712</a>."},"day":"17","has_accepted_license":"1","quality_controlled":"1","type":"book_chapter","language":[{"iso":"eng"}],"_id":"545","abstract":[{"text":"Development of vascular tissue is a remarkable example of intercellular communication and coordinated development involving hormonal signaling and tissue polarity. Thus far, studies on vascular patterning and regeneration have been conducted mainly in trees—woody plants—with a well-developed layer of vascular cambium and secondary tissues. Trees are difficult to use as genetic models, i.e., due to long generation time, unstable environmental conditions, and lack of available mutants and transgenic lines. Therefore, the use of the main genetic model plant Arabidopsis thaliana (L.) Heynh., with a wealth of available marker and transgenic lines, provides a unique opportunity to address molecular mechanism of vascular tissue formation and regeneration. With specific treatments, the tiny weed Arabidopsis can serve as a model to understand the growth of mighty trees and interconnect a tree physiology with molecular genetics and cell biology of Arabidopsis.","lang":"eng"}],"date_published":"2017-11-17T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["581"],"year":"2017","date_updated":"2025-09-22T08:43:49Z","publication":"Plant Engineering","file_date_updated":"2020-07-14T12:46:58Z","editor":[{"first_name":"Snježana","full_name":"Jurić, Snježana","last_name":"Jurić"}],"ec_funded":1,"page":"113 - 140","status":"public","file":[{"checksum":"e1f05e5850dfd9f9434d2d373ca61941","file_name":"IST-2018-929-v1+1_56106.pdf","relation":"main_file","file_id":"4969","date_updated":"2020-07-14T12:46:58Z","creator":"system","access_level":"open_access","content_type":"application/pdf","date_created":"2018-12-12T10:12:49Z","file_size":7443683}],"publication_status":"published","publist_id":"7269","oa_version":"Published Version","date_created":"2018-12-11T11:47:05Z","title":"Vascular tissue development and regeneration in the model plant arabidopsis","alternative_title":["Agricultural and Biological Sciences"],"month":"11","department":[{"_id":"JiFr"}],"project":[{"grant_number":"282300","_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Polarity and subcellular dynamics in plants"}],"author":[{"first_name":"Ewa","full_name":"Mazur, Ewa","last_name":"Mazur"},{"orcid":"0000-0002-8302-7596","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","full_name":"Friml, Jirí"}],"pubrep_id":"929","oa":1,"doi":"10.5772/intechopen.69712","related_material":{"record":[{"id":"1274","status":"public","relation":"earlier_version"}]},"series_title":"Plant Engineering","publisher":"IntechOpen","article_processing_charge":"No","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"}},{"file_date_updated":"2018-12-12T10:13:22Z","isi":1,"publication":"Molecular Plant","date_updated":"2025-09-22T14:08:07Z","status":"public","page":"1504 - 1519","scopus_import":"1","issue":"11","ec_funded":1,"type":"journal_article","quality_controlled":"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"}],"_id":"1145","language":[{"iso":"eng"}],"external_id":{"isi":["000389594100008"]},"has_accepted_license":"1","day":"07","citation":{"short":"T. Nodzyński, S. Vanneste, M. Zwiewka, M. Pernisová, J. Hejátko, J. Friml, Molecular Plant 9 (2016) 1504–1519.","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,” <i>Molecular Plant</i>, vol. 9, no. 11. Cell Press, pp. 1504–1519, 2016.","mla":"Nodzyński, Tomasz, et al. “Enquiry into the Topology of Plasma Membrane Localized PIN Auxin Transport Components.” <i>Molecular Plant</i>, vol. 9, no. 11, Cell Press, 2016, pp. 1504–19, doi:<a href=\"https://doi.org/10.1016/j.molp.2016.08.010\">10.1016/j.molp.2016.08.010</a>.","apa":"Nodzyński, T., Vanneste, S., Zwiewka, M., Pernisová, M., Hejátko, J., &#38; Friml, J. (2016). Enquiry into the topology of plasma membrane localized PIN auxin transport components. <i>Molecular Plant</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.molp.2016.08.010\">https://doi.org/10.1016/j.molp.2016.08.010</a>","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.","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. <i>Molecular Plant</i>. 2016;9(11):1504-1519. doi:<a href=\"https://doi.org/10.1016/j.molp.2016.08.010\">10.1016/j.molp.2016.08.010</a>","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.” <i>Molecular Plant</i>. Cell Press, 2016. <a href=\"https://doi.org/10.1016/j.molp.2016.08.010\">https://doi.org/10.1016/j.molp.2016.08.010</a>."},"year":"2016","ddc":["581"],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","intvolume":"         9","date_published":"2016-11-07T00:00:00Z","pubrep_id":"746","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.","doi":"10.1016/j.molp.2016.08.010","oa":1,"project":[{"call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"month":"11","department":[{"_id":"JiFr"}],"author":[{"first_name":"Tomasz","full_name":"Nodzyński, Tomasz","last_name":"Nodzyński"},{"last_name":"Vanneste","full_name":"Vanneste, Steffen","first_name":"Steffen"},{"first_name":"Marta","last_name":"Zwiewka","full_name":"Zwiewka, Marta"},{"full_name":"Pernisová, Markéta","last_name":"Pernisová","first_name":"Markéta"},{"first_name":"Jan","full_name":"Hejátko, Jan","last_name":"Hejátko"},{"full_name":"Friml, Jirí","last_name":"Friml","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"volume":9,"publisher":"Cell Press","tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"article_processing_charge":"No","publist_id":"6213","publication_status":"published","file":[{"file_name":"IST-2017-746-v1+1_1-s2.0-S1674205216301915-main.pdf","creator":"system","relation":"main_file","date_updated":"2018-12-12T10:13:22Z","file_id":"5004","access_level":"open_access","file_size":5005876,"date_created":"2018-12-12T10:13:22Z","content_type":"application/pdf"}],"oa_version":"Published Version","title":"Enquiry into the topology of plasma membrane localized PIN auxin transport components","date_created":"2018-12-11T11:50:23Z"},{"citation":{"ama":"Rakusová H, Abbas M, Han H, Song S, Robert H, Friml J. Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity. <i>Current Biology</i>. 2016;26(22):3026-3032. doi:<a href=\"https://doi.org/10.1016/j.cub.2016.08.067\">10.1016/j.cub.2016.08.067</a>","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.","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.” <i>Current Biology</i>. Cell Press, 2016. <a href=\"https://doi.org/10.1016/j.cub.2016.08.067\">https://doi.org/10.1016/j.cub.2016.08.067</a>.","mla":"Rakusová, Hana, et al. “Termination of Shoot Gravitropic Responses by Auxin Feedback on PIN3 Polarity.” <i>Current Biology</i>, vol. 26, no. 22, Cell Press, 2016, pp. 3026–32, doi:<a href=\"https://doi.org/10.1016/j.cub.2016.08.067\">10.1016/j.cub.2016.08.067</a>.","short":"H. Rakusová, M. Abbas, H. Han, S. Song, H. Robert, J. Friml, Current Biology 26 (2016) 3026–3032.","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,” <i>Current Biology</i>, vol. 26, no. 22. Cell Press, pp. 3026–3032, 2016.","apa":"Rakusová, H., Abbas, M., Han, H., Song, S., Robert, H., &#38; Friml, J. (2016). Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity. <i>Current Biology</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cub.2016.08.067\">https://doi.org/10.1016/j.cub.2016.08.067</a>"},"day":"21","has_accepted_license":"1","external_id":{"isi":["000388545900020"]},"language":[{"iso":"eng"}],"_id":"1212","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"}],"quality_controlled":"1","type":"journal_article","date_published":"2016-11-21T00:00:00Z","intvolume":"        26","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","ddc":["581"],"year":"2016","date_updated":"2025-09-22T09:37:31Z","publication":"Current Biology","isi":1,"file_date_updated":"2020-07-14T12:44:39Z","ec_funded":1,"issue":"22","scopus_import":"1","status":"public","page":"3026 - 3032","file":[{"relation":"main_file","file_id":"4757","creator":"system","date_updated":"2020-07-14T12:44:39Z","file_name":"IST-2018-1008-v1+1_Rakusova_CurrBiol_2016_proof.pdf","checksum":"79ed2498185a027cf51a8f88100379e6","date_created":"2018-12-12T10:09:33Z","file_size":5391923,"content_type":"application/pdf","access_level":"open_access"}],"publication_status":"published","publist_id":"6138","date_created":"2018-12-11T11:50:44Z","title":"Termination of shoot gravitropic responses by auxin feedback on PIN3 polarity","oa_version":"Submitted Version","author":[{"first_name":"Hana","full_name":"Rakusová, Hana","last_name":"Rakusová"},{"id":"47E8FC1C-F248-11E8-B48F-1D18A9856A87","first_name":"Mohamad","last_name":"Abbas","full_name":"Abbas, Mohamad"},{"last_name":"Han","full_name":"Han, Huibin","id":"31435098-F248-11E8-B48F-1D18A9856A87","first_name":"Huibin"},{"first_name":"Siyuan","last_name":"Song","full_name":"Song, Siyuan"},{"full_name":"Robert, Hélène","last_name":"Robert","first_name":"Hélène"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jirí","orcid":"0000-0002-8302-7596","full_name":"Friml, Jirí","last_name":"Friml"}],"volume":26,"month":"11","department":[{"_id":"JiFr"}],"project":[{"name":"Polarity and subcellular dynamics in plants","_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300"}],"doi":"10.1016/j.cub.2016.08.067","oa":1,"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","pubrep_id":"1008","article_processing_charge":"No","publisher":"Cell Press"},{"file":[{"relation":"main_file","file_id":"5154","date_updated":"2020-07-14T12:44:39Z","creator":"system","checksum":"c9e50bb6096a7ba4a832969935820f19","file_name":"IST-2016-711-v1+1_770cf1e0-612f-4e85-a500-54b6349fbbab_7654_-_jaroslav_michalko.pdf","content_type":"application/pdf","date_created":"2018-12-12T10:15:33Z","file_size":2990459,"access_level":"open_access"}],"publist_id":"6113","publication_status":"published","oa_version":"Published Version","date_created":"2018-12-11T11:50:47Z","title":"Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein","article_type":"original","project":[{"_id":"25716A02-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","grant_number":"282300","name":"Polarity and subcellular dynamics in plants"}],"month":"01","department":[{"_id":"JiFr"}],"volume":5,"author":[{"full_name":"Michalko, Jaroslav","last_name":"Michalko","id":"483727CA-F248-11E8-B48F-1D18A9856A87","first_name":"Jaroslav"},{"orcid":"0000-0003-0619-7783","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","first_name":"Matous","full_name":"Glanc, Matous","last_name":"Glanc"},{"first_name":"Catherine","full_name":"Perrot Rechenmann, Catherine","last_name":"Perrot Rechenmann"},{"full_name":"Friml, Jirí","last_name":"Friml","first_name":"Jirí","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"pubrep_id":"711","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.","oa":1,"doi":"10.12688/f1000research.7654.1","publisher":"F1000 Research","tmp":{"short":"CC BY (4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"article_processing_charge":"No","has_accepted_license":"1","day":"20","citation":{"apa":"Michalko, J., Glanc, M., Perrot Rechenmann, C., &#38; Friml, J. (2016). Strong morphological defects in conditional Arabidopsis abp1 knock-down mutants generated in absence of functional ABP1 protein. <i>F1000 Research </i>. F1000 Research. <a href=\"https://doi.org/10.12688/f1000research.7654.1\">https://doi.org/10.12688/f1000research.7654.1</a>","mla":"Michalko, Jaroslav, et al. “Strong Morphological Defects in Conditional Arabidopsis Abp1 Knock-down Mutants Generated in Absence of Functional ABP1 Protein.” <i>F1000 Research </i>, vol. 5, 86, F1000 Research, 2016, doi:<a href=\"https://doi.org/10.12688/f1000research.7654.1\">10.12688/f1000research.7654.1</a>.","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,” <i>F1000 Research </i>, 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.” <i>F1000 Research </i>. F1000 Research, 2016. <a href=\"https://doi.org/10.12688/f1000research.7654.1\">https://doi.org/10.12688/f1000research.7654.1</a>.","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. <i>F1000 Research </i>. 2016;5. doi:<a href=\"https://doi.org/10.12688/f1000research.7654.1\">10.12688/f1000research.7654.1</a>","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."},"type":"journal_article","quality_controlled":"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."}],"_id":"1221","language":[{"iso":"eng"}],"date_published":"2016-01-20T00:00:00Z","year":"2016","ddc":["581"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"         5","article_number":"86","publication":"F1000 Research ","date_updated":"2025-04-15T07:48:02Z","file_date_updated":"2020-07-14T12:44:39Z","scopus_import":"1","ec_funded":1,"status":"public"}]