[{"type":"journal_article","article_number":"nph.71072","date_created":"2026-03-23T14:59:06Z","oa_version":"Published Version","oa":1,"has_accepted_license":"1","language":[{"iso":"eng"}],"citation":{"ama":"Babic D, Zupunski M, Friml J. Imaging and genetic toolbox to study Arabidopsis embryogenesis. <i>New Phytologist</i>. 2026. doi:<a href=\"https://doi.org/10.1111/nph.71072\">10.1111/nph.71072</a>","ieee":"D. Babic, M. Zupunski, and J. Friml, “Imaging and genetic toolbox to study Arabidopsis embryogenesis,” <i>New Phytologist</i>. Wiley, 2026.","chicago":"Babic, David, Milan Zupunski, and Jiří Friml. “Imaging and Genetic Toolbox to Study Arabidopsis Embryogenesis.” <i>New Phytologist</i>. Wiley, 2026. <a href=\"https://doi.org/10.1111/nph.71072\">https://doi.org/10.1111/nph.71072</a>.","ista":"Babic D, Zupunski M, Friml J. 2026. Imaging and genetic toolbox to study Arabidopsis embryogenesis. New Phytologist., nph. 71072.","apa":"Babic, D., Zupunski, M., &#38; Friml, J. (2026). Imaging and genetic toolbox to study Arabidopsis embryogenesis. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.71072\">https://doi.org/10.1111/nph.71072</a>","short":"D. Babic, M. Zupunski, J. Friml, New Phytologist (2026).","mla":"Babic, David, et al. “Imaging and Genetic Toolbox to Study Arabidopsis Embryogenesis.” <i>New Phytologist</i>, nph. 71072, Wiley, 2026, doi:<a href=\"https://doi.org/10.1111/nph.71072\">10.1111/nph.71072</a>."},"date_published":"2026-03-11T00:00:00Z","department":[{"_id":"JiFr"},{"_id":"GradSch"}],"_id":"21483","abstract":[{"lang":"eng","text":"Embryogenesis in the model plant Arabidopsis thaliana provides a framework for understanding how cell polarity and patterning coordinate with hormonal signalling to establish the plant body plan. Following fertilisation, the zygote divides asymmetrically to generate apical and basal lineages, establishing the apical–basal axis that defines future shoot and root poles. Genetic and molecular analyses of classical mutants including gnom, monopteros (mp), bodenlos (bdl) and topless revealed that localised auxin biosynthesis, directional transport and downstream transcriptional responses are central to apical–basal axis establishment and organ initiation. The main components of this regulation are polarly localised PIN auxin transporters and downstream modules involving MONOPTEROS and WUSCHEL-RELATED HOMEOBOX transcription factors. Advances in microscopy have transformed the study of Arabidopsis embryogenesis: fluorescence-compatible clearing reagents and three-dimensional reconstructions now permit quantitative analyses of cell geometry, division orientation, and cytoskeletal dynamics. Live ovule imaging setups with confocal laser scanning and multiphoton microscopes enable real-time observation of embryo development, while laser-assisted cell ablation can be used to probe cell-to-cell communication and fate plasticity. Together, these methodological breakthroughs position Arabidopsis embryos as a prime model for dissecting the chemical and biophysical cues that shape plant development."}],"date_updated":"2026-03-30T05:58:35Z","year":"2026","article_processing_charge":"Yes (via OA deal)","article_type":"original","author":[{"full_name":"Babic, David","id":"db566d23-f6e0-11ea-865d-e6f270e968e7","last_name":"Babic","first_name":"David"},{"full_name":"Zupunski, Milan","id":"f6a21fce-573e-11f0-a150-a8d96aee2539","last_name":"Zupunski","first_name":"Milan"},{"last_name":"Friml","orcid":"0000-0002-8302-7596","first_name":"Jiří","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"PlanS_conform":"1","title":"Imaging and genetic toolbox to study Arabidopsis embryogenesis","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","corr_author":"1","OA_place":"publisher","main_file_link":[{"url":"https://doi.org/10.1111/nph.71072","open_access":"1"}],"month":"03","OA_type":"hybrid","doi":"10.1111/nph.71072","external_id":{"pmid":["41808651"]},"acknowledgement":"The authors would like to acknowledge the many colleagues whose valuable contributions to the field could not be included in this review due to space limitations and reference constraints. Open Access funding provided by Institute of Science and Technology Austria/KEMÖ.","quality_controlled":"1","publisher":"Wiley","publication_status":"epub_ahead","publication":"New Phytologist","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"publication_identifier":{"issn":["0028-646X"],"eissn":["1469-8137"]},"day":"11","pmid":1,"status":"public"},{"oa_version":"None","date_created":"2025-03-16T23:01:25Z","type":"journal_article","issue":"1","isi":1,"date_published":"2025-04-01T00:00:00Z","citation":{"ama":"Song X, Zhang M, Wang TT, et al. Polyploidization leads to salt stress resilience via ethylene signaling in citrus plants. <i>New Phytologist</i>. 2025;246(1):176-191. doi:<a href=\"https://doi.org/10.1111/nph.20428\">10.1111/nph.20428</a>","ieee":"X. Song <i>et al.</i>, “Polyploidization leads to salt stress resilience via ethylene signaling in citrus plants,” <i>New Phytologist</i>, vol. 246, no. 1. Wiley, pp. 176–191, 2025.","chicago":"Song, Xin, Miao Zhang, Ting Ting Wang, Yao Yuan Duan, Jie Ren, Hu Gao, Yan Jie Fan, et al. “Polyploidization Leads to Salt Stress Resilience via Ethylene Signaling in Citrus Plants.” <i>New Phytologist</i>. Wiley, 2025. <a href=\"https://doi.org/10.1111/nph.20428\">https://doi.org/10.1111/nph.20428</a>.","ista":"Song X, Zhang M, Wang TT, Duan YY, Ren J, Gao H, Fan YJ, Xia QM, Cao HX, Xie KD, Wu XM, Zhang F, Zhang SQ, Huang Y, Boualem A, Bendahmane A, Tan FQ, Guo WW. 2025. Polyploidization leads to salt stress resilience via ethylene signaling in citrus plants. New Phytologist. 246(1), 176–191.","apa":"Song, X., Zhang, M., Wang, T. T., Duan, Y. Y., Ren, J., Gao, H., … Guo, W. W. (2025). Polyploidization leads to salt stress resilience via ethylene signaling in citrus plants. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.20428\">https://doi.org/10.1111/nph.20428</a>","mla":"Song, Xin, et al. “Polyploidization Leads to Salt Stress Resilience via Ethylene Signaling in Citrus Plants.” <i>New Phytologist</i>, vol. 246, no. 1, Wiley, 2025, pp. 176–91, doi:<a href=\"https://doi.org/10.1111/nph.20428\">10.1111/nph.20428</a>.","short":"X. Song, M. Zhang, T.T. Wang, Y.Y. Duan, J. Ren, H. Gao, Y.J. Fan, Q.M. Xia, H.X. Cao, K.D. Xie, X.M. Wu, F. Zhang, S.Q. Zhang, Y. Huang, A. Boualem, A. Bendahmane, F.Q. Tan, W.W. Guo, New Phytologist 246 (2025) 176–191."},"page":"176-191","department":[{"_id":"XiFe"}],"abstract":[{"lang":"eng","text":"Polyploidization is a common occurrence in the evolutionary history of flowering plants, significantly contributing to their adaptability and diversity. However, the molecular mechanisms behind these adaptive advantages are not well understood.\r\nThrough comprehensive phenotyping of diploid and tetraploid clones from Citrus and Poncirus genera, we discovered that genome doubling significantly enhances salt stress resilience. Epigenetic and transcriptomic analyses revealed that increased ethylene production in the roots of tetraploid plants was associated with hypomethylation and enhanced chromatin accessibility of the ACO1 gene. This increased ethylene production activates the transcription of reactive oxygen species scavenging genes and stress-related hormone biosynthesis genes. Consequently, tetraploid plants exhibited superior root functionality under salt stress, maintaining improved cytosolic K+/Na+ homeostasis.\r\nTo genetically validate the link between salt stress resilience and ACO1 expression, we generated overexpression and knockout lines, confirming the central role of ACO1 expression regulation following genome doubling in salt stress resilience.\r\nOur work elucidates the molecular mechanisms underlying the role of genome doubling in stress resilience. We also highlight the importance of chromatin dynamics in fine-tuning ethylene gene expression and activating salt stress resilience pathways, offering valuable insights into plant adaptation and crop genome evolution."}],"_id":"19406","date_updated":"2025-09-30T11:00:06Z","language":[{"iso":"eng"}],"year":"2025","article_processing_charge":"No","intvolume":"       246","author":[{"full_name":"Song, Xin","last_name":"Song","first_name":"Xin"},{"full_name":"Zhang, Miao","last_name":"Zhang","first_name":"Miao"},{"full_name":"Wang, Ting Ting","last_name":"Wang","first_name":"Ting Ting"},{"last_name":"Duan","first_name":"Yao Yuan","full_name":"Duan, Yao Yuan"},{"full_name":"Ren, Jie","last_name":"Ren","first_name":"Jie"},{"full_name":"Gao, Hu","last_name":"Gao","first_name":"Hu"},{"full_name":"Fan, Yan Jie","last_name":"Fan","first_name":"Yan Jie"},{"full_name":"Xia, Qiang Ming","last_name":"Xia","first_name":"Qiang Ming"},{"first_name":"Hui Xiang","last_name":"Cao","full_name":"Cao, Hui Xiang"},{"full_name":"Xie, Kai Dong","last_name":"Xie","first_name":"Kai Dong"},{"first_name":"Xiao Meng","last_name":"Wu","full_name":"Wu, Xiao Meng"},{"first_name":"Fei","last_name":"Zhang","full_name":"Zhang, Fei"},{"full_name":"Zhang, Si Qi","last_name":"Zhang","first_name":"Si Qi"},{"full_name":"Huang, Ying","id":"11b5bbff-8b61-11ed-b69e-d8ddd6bce951","last_name":"Huang","first_name":"Ying"},{"full_name":"Boualem, Adnane","last_name":"Boualem","first_name":"Adnane"},{"first_name":"Abdelhafid","last_name":"Bendahmane","full_name":"Bendahmane, Abdelhafid"},{"full_name":"Tan, Feng Quan","last_name":"Tan","first_name":"Feng Quan"},{"first_name":"Wen Wu","last_name":"Guo","full_name":"Guo, Wen Wu"}],"article_type":"original","title":"Polyploidization leads to salt stress resilience via ethylene signaling in citrus plants","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","scopus_import":"1","month":"04","doi":"10.1111/nph.20428","OA_type":"closed access","quality_controlled":"1","external_id":{"pmid":["39969116"],"isi":["001424915600001"]},"acknowledgement":"We thank Prof. Qi Xie from the Institute of Genetics and Development, Chinese Academy of Sciences, for providing the YAO promoter-driven CRISPR/Cas9 vector, our colleague Dr Robert M. Larkin from Huazhong Agricultural University, and Dr Olivier Martin from IPS2 (INRAE, France) for critical reading of the manuscript. This research was financially supported by grants from the National Key Research & Development Program of China (2024YFD1200501), the National Natural Science Foundation of China (32172525 and 32202432), the Foundation of Hubei Hongshan laboratory (2021hszd009), the China Agricultural Research System (CARS-26) and the Department of Science and Technology of Hubei Province (2022BBA0019). A. Bendahmane is funded by the ANR BioAdapt (ANR-21-LCV3-0003), LabEx Saclay Plant Sciences (SPS) (ANR-10-LABX-40-SPS), and the NectarGland ERC Project (101095736).","publication":"New Phytologist","volume":246,"publisher":"Wiley","publication_status":"published","pmid":1,"day":"01","status":"public","publication_identifier":{"issn":["0028-646X"],"eissn":["1469-8137"]}},{"quality_controlled":"1","ddc":["580"],"external_id":{"isi":["001026321500001"],"pmid":["37434303"]},"acknowledgement":"We gratefully acknowledge our brave colleagues, whose excellent efforts kept the plant cAMP research going in the last two decades. The authors were financially supported by the Austrian Science Fund (FWF): I 6123 and P 37051-B.","publication":"New Phytologist","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"volume":240,"publisher":"Wiley","publication_status":"published","day":"01","pmid":1,"status":"public","file":[{"file_id":"14898","relation":"main_file","date_created":"2024-01-29T11:21:43Z","file_size":974464,"access_level":"open_access","file_name":"2023_NewPhytologist_Qi.pdf","success":1,"creator":"dernst","date_updated":"2024-01-29T11:21:43Z","content_type":"application/pdf","checksum":"6d9bbd45b8e7bb3ceee2586d447bacb2"}],"publication_identifier":{"issn":["0028-646X"],"eissn":["1469-8137"]},"corr_author":"1","month":"10","doi":"10.1111/nph.19123","file_date_updated":"2024-01-29T11:21:43Z","project":[{"name":"Peptide receptors for auxin canalization in Arabidopsis","grant_number":"I06123","_id":"bd76d395-d553-11ed-ba76-f678c14f9033"},{"_id":"7bcece63-9f16-11ee-852c-ae94e099eeb6","name":"Guanylate cyclase activity of TIR1/AFBs auxin receptors","grant_number":"P37051"}],"year":"2023","article_processing_charge":"Yes (via OA deal)","author":[{"id":"44B04502-A9ED-11E9-B6FC-583AE6697425","full_name":"Qi, Linlin","first_name":"Linlin","last_name":"Qi","orcid":"0000-0001-5187-8401"},{"orcid":"0000-0002-8302-7596","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"intvolume":"       240","article_type":"original","title":"Tale of cAMP as a second messenger in auxin signaling and beyond","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","scopus_import":"1","oa_version":"Published Version","date_created":"2023-07-23T22:01:13Z","type":"journal_article","issue":"2","oa":1,"isi":1,"citation":{"ieee":"L. Qi and J. Friml, “Tale of cAMP as a second messenger in auxin signaling and beyond,” <i>New Phytologist</i>, vol. 240, no. 2. Wiley, pp. 489–495, 2023.","ama":"Qi L, Friml J. Tale of cAMP as a second messenger in auxin signaling and beyond. <i>New Phytologist</i>. 2023;240(2):489-495. doi:<a href=\"https://doi.org/10.1111/nph.19123\">10.1111/nph.19123</a>","chicago":"Qi, Linlin, and Jiří Friml. “Tale of CAMP as a Second Messenger in Auxin Signaling and Beyond.” <i>New Phytologist</i>. Wiley, 2023. <a href=\"https://doi.org/10.1111/nph.19123\">https://doi.org/10.1111/nph.19123</a>.","ista":"Qi L, Friml J. 2023. Tale of cAMP as a second messenger in auxin signaling and beyond. New Phytologist. 240(2), 489–495.","apa":"Qi, L., &#38; Friml, J. (2023). Tale of cAMP as a second messenger in auxin signaling and beyond. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.19123\">https://doi.org/10.1111/nph.19123</a>","short":"L. Qi, J. Friml, New Phytologist 240 (2023) 489–495.","mla":"Qi, Linlin, and Jiří Friml. “Tale of CAMP as a Second Messenger in Auxin Signaling and Beyond.” <i>New Phytologist</i>, vol. 240, no. 2, Wiley, 2023, pp. 489–95, doi:<a href=\"https://doi.org/10.1111/nph.19123\">10.1111/nph.19123</a>."},"department":[{"_id":"JiFr"}],"page":"489-495","date_published":"2023-10-01T00:00:00Z","_id":"13266","date_updated":"2024-10-22T12:50:00Z","abstract":[{"lang":"eng","text":"The 3′,5′-cyclic adenosine monophosphate (cAMP) is a versatile second messenger in many mammalian signaling pathways. However, its role in plants remains not well-recognized. Recent discovery of adenylate cyclase (AC) activity for transport inhibitor response 1/auxin-signaling F-box proteins (TIR1/AFB) auxin receptors and the demonstration of its importance for canonical auxin signaling put plant cAMP research back into spotlight. This insight briefly summarizes the well-established cAMP signaling pathways in mammalian cells and describes the turbulent and controversial history of plant cAMP research highlighting the major progress and the unresolved points. We also briefly review the current paradigm of auxin signaling to provide a background for the discussion on the AC activity of TIR1/AFB auxin receptors and its potential role in transcriptional auxin signaling as well as impact of these discoveries on plant cAMP research in general."}],"has_accepted_license":"1","language":[{"iso":"eng"}]},{"article_type":"original","intvolume":"       233","author":[{"last_name":"Kashkan","first_name":"Ivan","full_name":"Kashkan, Ivan"},{"last_name":"Hrtyan","first_name":"Mónika","id":"45A71A74-F248-11E8-B48F-1D18A9856A87","full_name":"Hrtyan, Mónika"},{"full_name":"Retzer, Katarzyna","last_name":"Retzer","first_name":"Katarzyna"},{"first_name":"Jana","last_name":"Humpolíčková","full_name":"Humpolíčková, Jana"},{"last_name":"Jayasree","first_name":"Aswathy","full_name":"Jayasree, Aswathy"},{"first_name":"Roberta","last_name":"Filepová","full_name":"Filepová, Roberta"},{"full_name":"Vondráková, Zuzana","last_name":"Vondráková","first_name":"Zuzana"},{"id":"4542EF9A-F248-11E8-B48F-1D18A9856A87","full_name":"Simon, Sibu","first_name":"Sibu","orcid":"0000-0002-1998-6741","last_name":"Simon"},{"last_name":"Rombaut","first_name":"Debbie","full_name":"Rombaut, Debbie"},{"first_name":"Thomas B.","last_name":"Jacobs","full_name":"Jacobs, Thomas B."},{"full_name":"Frilander, Mikko J.","last_name":"Frilander","first_name":"Mikko J."},{"last_name":"Hejátko","first_name":"Jan","full_name":"Hejátko, Jan"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","first_name":"Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml"},{"full_name":"Petrášek, Jan","last_name":"Petrášek","first_name":"Jan"},{"first_name":"Kamil","last_name":"Růžička","full_name":"Růžička, Kamil"}],"year":"2022","article_processing_charge":"No","scopus_import":"1","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","title":"Mutually opposing activity of PIN7 splicing isoforms is required for auxin-mediated tropic responses in Arabidopsis thaliana","oa":1,"isi":1,"issue":"1","type":"journal_article","date_created":"2021-11-14T23:01:24Z","oa_version":"Preprint","language":[{"iso":"eng"}],"page":"329-343","department":[{"_id":"JiFr"}],"date_published":"2022-01-01T00:00:00Z","citation":{"apa":"Kashkan, I., Hrtyan, M., Retzer, K., Humpolíčková, J., Jayasree, A., Filepová, R., … Růžička, K. (2022). Mutually opposing activity of PIN7 splicing isoforms is required for auxin-mediated tropic responses in Arabidopsis thaliana. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.17792\">https://doi.org/10.1111/nph.17792</a>","mla":"Kashkan, Ivan, et al. “Mutually Opposing Activity of PIN7 Splicing Isoforms Is Required for Auxin-Mediated Tropic Responses in Arabidopsis Thaliana.” <i>New Phytologist</i>, vol. 233, no. 1, Wiley, 2022, pp. 329–43, doi:<a href=\"https://doi.org/10.1111/nph.17792\">10.1111/nph.17792</a>.","short":"I. Kashkan, M. Hrtyan, K. Retzer, J. Humpolíčková, A. Jayasree, R. Filepová, Z. Vondráková, S. Simon, D. Rombaut, T.B. Jacobs, M.J. Frilander, J. Hejátko, J. Friml, J. Petrášek, K. Růžička, New Phytologist 233 (2022) 329–343.","ieee":"I. Kashkan <i>et al.</i>, “Mutually opposing activity of PIN7 splicing isoforms is required for auxin-mediated tropic responses in Arabidopsis thaliana,” <i>New Phytologist</i>, vol. 233, no. 1. Wiley, pp. 329–343, 2022.","ama":"Kashkan I, Hrtyan M, Retzer K, et al. Mutually opposing activity of PIN7 splicing isoforms is required for auxin-mediated tropic responses in Arabidopsis thaliana. <i>New Phytologist</i>. 2022;233(1):329-343. doi:<a href=\"https://doi.org/10.1111/nph.17792\">10.1111/nph.17792</a>","chicago":"Kashkan, Ivan, Mónika Hrtyan, Katarzyna Retzer, Jana Humpolíčková, Aswathy Jayasree, Roberta Filepová, Zuzana Vondráková, et al. “Mutually Opposing Activity of PIN7 Splicing Isoforms Is Required for Auxin-Mediated Tropic Responses in Arabidopsis Thaliana.” <i>New Phytologist</i>. Wiley, 2022. <a href=\"https://doi.org/10.1111/nph.17792\">https://doi.org/10.1111/nph.17792</a>.","ista":"Kashkan I, Hrtyan M, Retzer K, Humpolíčková J, Jayasree A, Filepová R, Vondráková Z, Simon S, Rombaut D, Jacobs TB, Frilander MJ, Hejátko J, Friml J, Petrášek J, Růžička K. 2022. Mutually opposing activity of PIN7 splicing isoforms is required for auxin-mediated tropic responses in Arabidopsis thaliana. New Phytologist. 233(1), 329–343."},"_id":"10282","abstract":[{"lang":"eng","text":"Advanced transcriptome sequencing has revealed that the majority of eukaryotic genes undergo alternative splicing (AS). Nonetheless, little effort has been dedicated to investigating the functional relevance of particular splicing events, even those in the key developmental and hormonal regulators. Combining approaches of genetics, biochemistry and advanced confocal microscopy, we describe the impact of alternative splicing on the PIN7 gene in the model plant Arabidopsis thaliana. PIN7 encodes a polarly localized transporter for the phytohormone auxin and produces two evolutionarily conserved transcripts, PIN7a and PIN7b. PIN7a and PIN7b, differing in a four amino acid stretch, exhibit almost identical expression patterns and subcellular localization. We reveal that they are closely associated and mutually influence each other's mobility within the plasma membrane. Phenotypic complementation tests indicate that the functional contribution of PIN7b per se is minor, but it markedly reduces the prominent PIN7a activity, which is required for correct seedling apical hook formation and auxin-mediated tropic responses. Our results establish alternative splicing of the PIN family as a conserved, functionally relevant mechanism, revealing an additional regulatory level of auxin-mediated plant development."}],"date_updated":"2024-05-22T11:33:15Z","external_id":{"isi":["000714678100001"],"pmid":["34637542"]},"acknowledgement":"We thank Claus Schwechheimer for the pin34 and pin347 seeds, Yuliia Mironova for technical assistance, Ksenia Timofeyenko and Dmitry Konovalov for help with the evolutional analysis, Konstantin Kutashev and Siarhei Dabravolski for assistance with FRET-FLIM, Huibin Han for advice with hypocotyl imaging, Karel Müller for the initial qRT-PCR on the tobacco cell lines, Stano Pekár for suggestions regarding the statistical analysis of the morphodynamic measurements, and Jozef Mravec, Dolf Weijers and Lindy Abas for their comments on the manuscript. This work was supported by the Czech Science Foundation (projects 16-26428S and 19-23773S to IK, MH and KRůžička, 19-18917S to JHumpolíčková and 18-26981S to JF), and the Ministry of Education, Youth and Sports of the Czech Republic (MEYS, CZ.02.1.01/0.0/0.0/16_019/0000738) to KRůžička and JHejátko. The imaging facilities of the Institute of Experimental Botany and CEITEC are supported by MEYS (LM2018129 – Czech BioImaging and CZ.02.1.01/0.0/0.0/16_013/0001775). The authors declare no competing interests.","quality_controlled":"1","publication_identifier":{"issn":["0028-646X"],"eissn":["1469-8137"]},"pmid":1,"day":"01","status":"public","publisher":"Wiley","publication_status":"published","publication":"New Phytologist","volume":233,"main_file_link":[{"url":"https://www.biorxiv.org/content/10.1101/2020.05.02.074070v2","open_access":"1"}],"doi":"10.1111/nph.17792","month":"01"},{"ec_funded":1,"project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"doi":"10.1111/nph.16887","file_date_updated":"2021-02-04T09:44:17Z","month":"01","ddc":["580"],"external_id":{"isi":["000570187900001"],"pmid":["32810889"]},"acknowledgement":"We thank Dr Ingo Heilmann (Martin‐Luther‐University Halle‐Wittenberg) for the XVE>>PIP5K1‐YFP line, Dr Brad Day (Michigan State University) for the ndr1‐1 mutant and the complementation lines, and Dr Patricia C. Zambryski (University of California, Berkeley) for the 35S::P30‐GFP line, the Bioimaging team (IST Austria) for assistance with imaging, group members for discussions, Martine De Cock for help in preparing the manuscript and Nataliia Gnyliukh for critical reading and revision of the manuscript. This project received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (grant agreement No. 742985) and Comisión Nacional de Investigación Científica y Tecnológica (Project CONICYT‐PAI 82130047). DvW received funding from the People Programme (Marie Curie Actions) of the European Union’s Seventh Framework Programme (FP7/2007‐2013) under REA grant agreement no. 291734.","quality_controlled":"1","file":[{"file_id":"9084","date_created":"2021-02-04T09:44:17Z","relation":"main_file","file_size":4061962,"success":1,"access_level":"open_access","file_name":"2021_NewPhytologist_Li.pdf","date_updated":"2021-02-04T09:44:17Z","creator":"dernst","checksum":"b45621607b4cab97eeb1605ab58e896e","content_type":"application/pdf"}],"publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646X"]},"pmid":1,"day":"01","status":"public","publisher":"Wiley","publication_status":"published","publication":"New Phytologist","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"volume":229,"oa":1,"isi":1,"issue":"1","type":"journal_article","date_created":"2020-09-28T08:59:28Z","oa_version":"Published Version","has_accepted_license":"1","acknowledged_ssus":[{"_id":"Bio"}],"language":[{"iso":"eng"}],"citation":{"ieee":"H. Li <i>et al.</i>, “Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana,” <i>New Phytologist</i>, vol. 229, no. 1. Wiley, pp. 351–369, 2021.","ama":"Li H, von Wangenheim D, Zhang X, et al. Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana. <i>New Phytologist</i>. 2021;229(1):351-369. doi:<a href=\"https://doi.org/10.1111/nph.16887\">10.1111/nph.16887</a>","ista":"Li H, von Wangenheim D, Zhang X, Tan S, Darwish-Miranda N, Naramoto S, Wabnik KT, de Rycke R, Kaufmann W, Gütl DJ, Tejos R, Grones P, Ke M, Chen X, Dettmer J, Friml J. 2021. Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana. New Phytologist. 229(1), 351–369.","chicago":"Li, Hongjiang, Daniel von Wangenheim, Xixi Zhang, Shutang Tan, Nasser Darwish-Miranda, Satoshi Naramoto, Krzysztof T Wabnik, et al. “Cellular Requirements for PIN Polar Cargo Clustering in Arabidopsis Thaliana.” <i>New Phytologist</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/nph.16887\">https://doi.org/10.1111/nph.16887</a>.","short":"H. Li, D. von Wangenheim, X. Zhang, S. Tan, N. Darwish-Miranda, S. Naramoto, K.T. Wabnik, R. de Rycke, W. Kaufmann, D.J. Gütl, R. Tejos, P. Grones, M. Ke, X. Chen, J. Dettmer, J. Friml, New Phytologist 229 (2021) 351–369.","mla":"Li, Hongjiang, et al. “Cellular Requirements for PIN Polar Cargo Clustering in Arabidopsis Thaliana.” <i>New Phytologist</i>, vol. 229, no. 1, Wiley, 2021, pp. 351–69, doi:<a href=\"https://doi.org/10.1111/nph.16887\">10.1111/nph.16887</a>.","apa":"Li, H., von Wangenheim, D., Zhang, X., Tan, S., Darwish-Miranda, N., Naramoto, S., … Friml, J. (2021). Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.16887\">https://doi.org/10.1111/nph.16887</a>"},"department":[{"_id":"JiFr"},{"_id":"EM-Fac"},{"_id":"Bio"},{"_id":"EvBe"}],"page":"351-369","date_published":"2021-01-01T00:00:00Z","_id":"8582","abstract":[{"text":"Cell and tissue polarization is fundamental for plant growth and morphogenesis. The polar, cellular localization of Arabidopsis PIN‐FORMED (PIN) proteins is crucial for their function in directional auxin transport. The clustering of PIN polar cargoes within the plasma membrane has been proposed to be important for the maintenance of their polar distribution. However, the more detailed features of PIN clusters and the cellular requirements of cargo clustering remain unclear.\r\nHere, we characterized PIN clusters in detail by means of multiple advanced microscopy and quantification methods, such as 3D quantitative imaging or freeze‐fracture replica labeling. The size and aggregation types of PIN clusters were determined by electron microscopy at the nanometer level at different polar domains and at different developmental stages, revealing a strong preference for clustering at the polar domains.\r\nPharmacological and genetic studies revealed that PIN clusters depend on phosphoinositol pathways, cytoskeletal structures and specific cell‐wall components as well as connections between the cell wall and the plasma membrane.\r\nThis study identifies the role of different cellular processes and structures in polar cargo clustering and provides initial mechanistic insight into the maintenance of polarity in plants and other systems.","lang":"eng"}],"date_updated":"2025-06-12T06:32:24Z","article_type":"original","author":[{"id":"33CA54A6-F248-11E8-B48F-1D18A9856A87","full_name":"Li, Hongjiang","orcid":"0000-0001-5039-9660","last_name":"Li","first_name":"Hongjiang"},{"first_name":"Daniel","orcid":"0000-0002-6862-1247","last_name":"von Wangenheim","full_name":"von Wangenheim, Daniel","id":"49E91952-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Xixi","last_name":"Zhang","orcid":"0000-0001-7048-4627","full_name":"Zhang, Xixi","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A"},{"id":"2DE75584-F248-11E8-B48F-1D18A9856A87","full_name":"Tan, Shutang","first_name":"Shutang","last_name":"Tan","orcid":"0000-0002-0471-8285"},{"first_name":"Nasser","last_name":"Darwish-Miranda","orcid":"0000-0002-8821-8236","full_name":"Darwish-Miranda, Nasser","id":"39CD9926-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Naramoto, Satoshi","last_name":"Naramoto","first_name":"Satoshi"},{"full_name":"Wabnik, Krzysztof T","id":"4DE369A4-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7263-0560","last_name":"Wabnik","first_name":"Krzysztof T"},{"full_name":"de Rycke, Riet","first_name":"Riet","last_name":"de Rycke"},{"full_name":"Kaufmann, Walter","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","first_name":"Walter","last_name":"Kaufmann","orcid":"0000-0001-9735-5315"},{"id":"381929CE-F248-11E8-B48F-1D18A9856A87","full_name":"Gütl, Daniel J","last_name":"Gütl","first_name":"Daniel J"},{"last_name":"Tejos","first_name":"Ricardo","full_name":"Tejos, Ricardo"},{"first_name":"Peter","last_name":"Grones","full_name":"Grones, Peter","id":"399876EC-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Ke, Meiyu","last_name":"Ke","first_name":"Meiyu"},{"last_name":"Chen","first_name":"Xu","full_name":"Chen, Xu","id":"4E5ADCAA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Jan","last_name":"Dettmer","full_name":"Dettmer, Jan"},{"first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"intvolume":"       229","year":"2021","article_processing_charge":"Yes (via OA deal)","scopus_import":"1","title":"Cellular requirements for PIN polar cargo clustering in Arabidopsis thaliana","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"publisher":"Wiley","publication_status":"published","publication":"New Phytologist","volume":229,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"file":[{"file_id":"9085","date_created":"2021-02-04T09:53:16Z","relation":"main_file","file_size":3674502,"access_level":"open_access","file_name":"2021_NewPhytologist_Ke.pdf","success":1,"creator":"dernst","date_updated":"2021-02-04T09:53:16Z","content_type":"application/pdf","checksum":"d36b6a8c6fafab66264e0d27114dae63"}],"publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646x"]},"pmid":1,"day":"01","status":"public","ddc":["580"],"external_id":{"pmid":["32901934"],"isi":["000573568000001"]},"acknowledgement":"This work was supported by the National Key Research andDevelopment Programme of China (2017YFA0506100), theNational Natural Science Foundation of China (31870170 and31701168), and the Fok Ying Tung Education Foundation(161027) to XC; NTU startup grant (M4081533) and NIM/01/2016 (NTU, Singapore) to YM. We thank Lei Shi andZhongquan Lin for microscopy assistance.","quality_controlled":"1","month":"01","doi":"10.1111/nph.16915","file_date_updated":"2021-02-04T09:53:16Z","scopus_import":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana","year":"2021","article_processing_charge":"No","article_type":"original","intvolume":"       229","author":[{"full_name":"Ke, M","last_name":"Ke","first_name":"M"},{"first_name":"Z","last_name":"Ma","full_name":"Ma, Z"},{"full_name":"Wang, D","first_name":"D","last_name":"Wang"},{"last_name":"Sun","first_name":"Y","full_name":"Sun, Y"},{"full_name":"Wen, C","first_name":"C","last_name":"Wen"},{"full_name":"Huang, D","last_name":"Huang","first_name":"D"},{"first_name":"Z","last_name":"Chen","full_name":"Chen, Z"},{"first_name":"L","last_name":"Yang","full_name":"Yang, L"},{"full_name":"Tan, Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","first_name":"Shutang","last_name":"Tan","orcid":"0000-0002-0471-8285"},{"last_name":"Li","first_name":"R","full_name":"Li, R"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","first_name":"Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml"},{"last_name":"Miao","first_name":"Y","full_name":"Miao, Y"},{"last_name":"Chen","first_name":"X","full_name":"Chen, X"}],"has_accepted_license":"1","language":[{"iso":"eng"}],"citation":{"ama":"Ke M, Ma Z, Wang D, et al. Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana. <i>New Phytologist</i>. 2021;229(2):963-978. doi:<a href=\"https://doi.org/10.1111/nph.16915\">10.1111/nph.16915</a>","ieee":"M. Ke <i>et al.</i>, “Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana,” <i>New Phytologist</i>, vol. 229, no. 2. Wiley, pp. 963–978, 2021.","ista":"Ke M, Ma Z, Wang D, Sun Y, Wen C, Huang D, Chen Z, Yang L, Tan S, Li R, Friml J, Miao Y, Chen X. 2021. Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana. New Phytologist. 229(2), 963–978.","chicago":"Ke, M, Z Ma, D Wang, Y Sun, C Wen, D Huang, Z Chen, et al. “Salicylic Acid Regulates PIN2 Auxin Transporter Hyper-Clustering and Root Gravitropic Growth via Remorin-Dependent Lipid Nanodomain Organization in Arabidopsis Thaliana.” <i>New Phytologist</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/nph.16915\">https://doi.org/10.1111/nph.16915</a>.","mla":"Ke, M., et al. “Salicylic Acid Regulates PIN2 Auxin Transporter Hyper-Clustering and Root Gravitropic Growth via Remorin-Dependent Lipid Nanodomain Organization in Arabidopsis Thaliana.” <i>New Phytologist</i>, vol. 229, no. 2, Wiley, 2021, pp. 963–78, doi:<a href=\"https://doi.org/10.1111/nph.16915\">10.1111/nph.16915</a>.","short":"M. Ke, Z. Ma, D. Wang, Y. Sun, C. Wen, D. Huang, Z. Chen, L. Yang, S. Tan, R. Li, J. Friml, Y. Miao, X. Chen, New Phytologist 229 (2021) 963–978.","apa":"Ke, M., Ma, Z., Wang, D., Sun, Y., Wen, C., Huang, D., … Chen, X. (2021). Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.16915\">https://doi.org/10.1111/nph.16915</a>"},"page":"963-978","date_published":"2021-01-01T00:00:00Z","department":[{"_id":"JiFr"}],"date_updated":"2023-09-05T16:06:24Z","_id":"8608","abstract":[{"lang":"eng","text":"To adapt to the diverse array of biotic and abiotic cues, plants have evolved sophisticated mechanisms to sense changes in environmental conditions and modulate their growth. Growth-promoting hormones and defence signalling fine tune plant development antagonistically. During host-pathogen interactions, this defence-growth trade-off is mediated by the counteractive effects of the defence hormone salicylic acid (SA) and the growth hormone auxin. Here we revealed an underlying mechanism of SA regulating auxin signalling by constraining the plasma membrane dynamics of PIN2 auxin efflux transporter in Arabidopsis thaliana roots. The lateral diffusion of PIN2 proteins is constrained by SA signalling, during which PIN2 proteins are condensed into hyperclusters depending on REM1.2-mediated nanodomain compartmentalisation. Furthermore, membrane nanodomain compartmentalisation by SA or Remorin (REM) assembly significantly suppressed clathrin-mediated endocytosis. Consequently, SA-induced heterogeneous surface condensation disrupted asymmetric auxin distribution and the resultant gravitropic response. Our results demonstrated a defence-growth trade-off mechanism by which SA signalling crosstalked with auxin transport by concentrating membrane-resident PIN2 into heterogeneous compartments."}],"type":"journal_article","date_created":"2020-10-05T12:45:36Z","oa_version":"Published Version","isi":1,"oa":1,"issue":"2"},{"type":"journal_article","oa_version":"Published Version","date_created":"2021-03-26T12:09:01Z","oa":1,"isi":1,"issue":"6","language":[{"iso":"eng"}],"department":[{"_id":"JiFr"}],"citation":{"ama":"El Houari I, Van Beirs C, Arents H, et al. Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport. <i>New Phytologist</i>. 2021;230(6):2275-2291. doi:<a href=\"https://doi.org/10.1111/nph.17349\">10.1111/nph.17349</a>","ieee":"I. El Houari <i>et al.</i>, “Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport,” <i>New Phytologist</i>, vol. 230, no. 6. Wiley, pp. 2275–2291, 2021.","chicago":"El Houari, I, C Van Beirs, HE Arents, Huibin Han, A Chanoca, D Opdenacker, J Pollier, et al. “Seedling Developmental Defects upon Blocking CINNAMATE-4-HYDROXYLASE Are Caused by Perturbations in Auxin Transport.” <i>New Phytologist</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/nph.17349\">https://doi.org/10.1111/nph.17349</a>.","ista":"El Houari I, Van Beirs C, Arents H, Han H, Chanoca A, Opdenacker D, Pollier J, Storme V, Steenackers W, Quareshy M, Napier R, Beeckman T, Friml J, De Rybel B, Boerjan W, Vanholme B. 2021. Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport. New Phytologist. 230(6), 2275–2291.","apa":"El Houari, I., Van Beirs, C., Arents, H., Han, H., Chanoca, A., Opdenacker, D., … Vanholme, B. (2021). Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.17349\">https://doi.org/10.1111/nph.17349</a>","mla":"El Houari, I., et al. “Seedling Developmental Defects upon Blocking CINNAMATE-4-HYDROXYLASE Are Caused by Perturbations in Auxin Transport.” <i>New Phytologist</i>, vol. 230, no. 6, Wiley, 2021, pp. 2275–91, doi:<a href=\"https://doi.org/10.1111/nph.17349\">10.1111/nph.17349</a>.","short":"I. El Houari, C. Van Beirs, H. Arents, H. Han, A. Chanoca, D. Opdenacker, J. Pollier, V. Storme, W. Steenackers, M. Quareshy, R. Napier, T. Beeckman, J. Friml, B. De Rybel, W. Boerjan, B. Vanholme, New Phytologist 230 (2021) 2275–2291."},"page":"2275-2291","date_published":"2021-03-17T00:00:00Z","_id":"9288","date_updated":"2023-09-05T15:46:55Z","abstract":[{"lang":"eng","text":"• The phenylpropanoid pathway serves a central role in plant metabolism, providing numerous compounds involved in diverse physiological processes. Most carbon entering the pathway is incorporated into lignin. Although several phenylpropanoid pathway mutants show seedling growth arrest, the role for lignin in seedling growth and development is unexplored.\r\n• We use complementary pharmacological and genetic approaches to block CINNAMATE‐4‐HYDROXYLASE (C4H) functionality in Arabidopsis seedlings and a set of molecular and biochemical techniques to investigate the underlying phenotypes.\r\n• Blocking C4H resulted in reduced lateral rooting and increased adventitious rooting apically in the hypocotyl. These phenotypes coincided with an inhibition in auxin transport. The upstream accumulation in cis‐cinnamic acid was found to likely cause polar auxin transport inhibition. Conversely, a downstream depletion in lignin perturbed phloem‐mediated auxin transport. Restoring lignin deposition effectively reestablished phloem transport and, accordingly, auxin homeostasis.\r\n• Our results show that the accumulation of bioactive intermediates and depletion in lignin jointly cause the aberrant phenotypes upon blocking C4H, and demonstrate that proper deposition of lignin is essential for the establishment of auxin distribution in seedlings. Our data position the phenylpropanoid pathway and lignin in a new physiological framework, consolidating their importance in plant growth and development."}],"year":"2021","article_processing_charge":"No","article_type":"original","intvolume":"       230","author":[{"last_name":"El Houari","first_name":"I","full_name":"El Houari, I"},{"first_name":"C","last_name":"Van Beirs","full_name":"Van Beirs, C"},{"first_name":"HE","last_name":"Arents","full_name":"Arents, HE"},{"id":"31435098-F248-11E8-B48F-1D18A9856A87","full_name":"Han, Huibin","first_name":"Huibin","last_name":"Han"},{"last_name":"Chanoca","first_name":"A","full_name":"Chanoca, A"},{"full_name":"Opdenacker, D","first_name":"D","last_name":"Opdenacker"},{"first_name":"J","last_name":"Pollier","full_name":"Pollier, J"},{"first_name":"V","last_name":"Storme","full_name":"Storme, V"},{"last_name":"Steenackers","first_name":"W","full_name":"Steenackers, W"},{"last_name":"Quareshy","first_name":"M","full_name":"Quareshy, M"},{"full_name":"Napier, R","last_name":"Napier","first_name":"R"},{"full_name":"Beeckman, T","first_name":"T","last_name":"Beeckman"},{"orcid":"0000-0002-8302-7596","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"De Rybel, B","last_name":"De Rybel","first_name":"B"},{"full_name":"Boerjan, W","last_name":"Boerjan","first_name":"W"},{"full_name":"Vanholme, B","first_name":"B","last_name":"Vanholme"}],"scopus_import":"1","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport","main_file_link":[{"url":"https://biblio.ugent.be/publication/8703799/file/8703800.pdf","open_access":"1"}],"month":"03","doi":"10.1111/nph.17349","external_id":{"pmid":["33728703"],"isi":["000639552400001"]},"quality_controlled":"1","publisher":"Wiley","publication_status":"published","publication":"New Phytologist","volume":230,"publication_identifier":{"issn":["0028-646x"],"eissn":["1469-8137"]},"day":"17","pmid":1,"status":"public"},{"project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","call_identifier":"FWF"}],"doi":"10.1111/nph.17617","file_date_updated":"2021-10-07T13:42:47Z","month":"10","ec_funded":1,"corr_author":"1","file":[{"file_id":"10105","date_created":"2021-10-07T13:42:47Z","relation":"main_file","access_level":"open_access","file_name":"2021_NewPhytologist_Han.pdf","success":1,"file_size":1939800,"content_type":"application/pdf","checksum":"6422a6eb329b52d96279daaee0fcf189","creator":"kschuh","date_updated":"2021-10-07T13:42:47Z"}],"publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646x"]},"pmid":1,"day":"01","status":"public","publisher":"Wiley","publication_status":"published","publication":"New Phytologist","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"volume":232,"ddc":["580"],"external_id":{"pmid":["34254313"],"isi":["000680587100001"]},"acknowledgement":"We are grateful to Lukas Fiedler, Alexandra Mally (IST Austria) and Dr. Bartel Vanholme (VIB, Ghent) for their critical comments on the manuscript. We apologize to those researchers whose great work was not cited. This work is supported by the European Research Council under the European Union’s Horizon 2020 research and innovation Programme (ERC grant agreement number 742985), and the Austrian Science Fund (FWF, grant number I 3630-B25) to JF. HH is supported by the China Scholarship Council (CSC scholarship, 201506870018) and a starting grant from Jiangxi Agriculture University (9232308314).","quality_controlled":"1","has_accepted_license":"1","language":[{"iso":"eng"}],"department":[{"_id":"JiFr"}],"page":"510-522","citation":{"ieee":"H. Han, M. Adamowski, L. Qi, S. Alotaibi, and J. Friml, “PIN-mediated polar auxin transport regulations in plant tropic responses,” <i>New Phytologist</i>, vol. 232, no. 2. Wiley, pp. 510–522, 2021.","ama":"Han H, Adamowski M, Qi L, Alotaibi S, Friml J. PIN-mediated polar auxin transport regulations in plant tropic responses. <i>New Phytologist</i>. 2021;232(2):510-522. doi:<a href=\"https://doi.org/10.1111/nph.17617\">10.1111/nph.17617</a>","ista":"Han H, Adamowski M, Qi L, Alotaibi S, Friml J. 2021. PIN-mediated polar auxin transport regulations in plant tropic responses. New Phytologist. 232(2), 510–522.","chicago":"Han, Huibin, Maciek Adamowski, Linlin Qi, SS Alotaibi, and Jiří Friml. “PIN-Mediated Polar Auxin Transport Regulations in Plant Tropic Responses.” <i>New Phytologist</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/nph.17617\">https://doi.org/10.1111/nph.17617</a>.","mla":"Han, Huibin, et al. “PIN-Mediated Polar Auxin Transport Regulations in Plant Tropic Responses.” <i>New Phytologist</i>, vol. 232, no. 2, Wiley, 2021, pp. 510–22, doi:<a href=\"https://doi.org/10.1111/nph.17617\">10.1111/nph.17617</a>.","short":"H. Han, M. Adamowski, L. Qi, S. Alotaibi, J. Friml, New Phytologist 232 (2021) 510–522.","apa":"Han, H., Adamowski, M., Qi, L., Alotaibi, S., &#38; Friml, J. (2021). PIN-mediated polar auxin transport regulations in plant tropic responses. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.17617\">https://doi.org/10.1111/nph.17617</a>"},"date_published":"2021-10-01T00:00:00Z","_id":"9656","date_updated":"2025-04-14T07:45:00Z","abstract":[{"text":"Tropisms, growth responses to environmental stimuli such as light or gravity, are spectacular examples of adaptive plant development. The plant hormone auxin serves as a major coordinative signal. The PIN auxin exporters, through their dynamic polar subcellular localizations, redirect auxin fluxes in response to environmental stimuli and the resulting auxin gradients across organs underly differential cell elongation and bending. In this review, we discuss recent advances concerning regulations of PIN polarity during tropisms, focusing on PIN phosphorylation and trafficking. We also cover how environmental cues regulate PIN actions during tropisms, and a crucial role of auxin feedback on PIN polarity during bending termination. Finally, the interactions between different tropisms are reviewed to understand plant adaptive growth in the natural environment.","lang":"eng"}],"isi":1,"oa":1,"issue":"2","type":"journal_article","oa_version":"Published Version","date_created":"2021-07-14T15:29:14Z","scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"PIN-mediated polar auxin transport regulations in plant tropic responses","article_type":"original","intvolume":"       232","author":[{"id":"31435098-F248-11E8-B48F-1D18A9856A87","full_name":"Han, Huibin","last_name":"Han","first_name":"Huibin"},{"full_name":"Adamowski, Maciek","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","first_name":"Maciek","orcid":"0000-0001-6463-5257","last_name":"Adamowski"},{"full_name":"Qi, Linlin","id":"44B04502-A9ED-11E9-B6FC-583AE6697425","orcid":"0000-0001-5187-8401","last_name":"Qi","first_name":"Linlin"},{"last_name":"Alotaibi","first_name":"SS","full_name":"Alotaibi, SS"},{"first_name":"Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"}],"year":"2021","article_processing_charge":"Yes (via OA deal)"},{"year":"2020","article_processing_charge":"Yes (via OA deal)","intvolume":"       227","author":[{"first_name":"Yuzhou","orcid":"0000-0003-2627-6956","last_name":"Zhang","full_name":"Zhang, Yuzhou","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Hartinger","orcid":"0000-0003-1618-2737","first_name":"Corinna","full_name":"Hartinger, Corinna","id":"AEFB2266-8ABF-11EA-AA39-812C3623CBE4"},{"full_name":"Wang, Xiaojuan","last_name":"Wang","first_name":"Xiaojuan"},{"full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","orcid":"0000-0002-8302-7596","first_name":"Jiří"}],"article_type":"original","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","title":"Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters","scopus_import":"1","date_created":"2020-04-30T08:43:29Z","oa_version":"Published Version","type":"journal_article","issue":"5","isi":1,"oa":1,"citation":{"ista":"Zhang Y, Hartinger C, Wang X, Friml J. 2020. Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. New Phytologist. 227(5), 1406–1416.","chicago":"Zhang, Yuzhou, Corinna Hartinger, Xiaojuan Wang, and Jiří Friml. “Directional Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin Transporters.” <i>New Phytologist</i>. Wiley, 2020. <a href=\"https://doi.org/10.1111/nph.16629\">https://doi.org/10.1111/nph.16629</a>.","ama":"Zhang Y, Hartinger C, Wang X, Friml J. Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. <i>New Phytologist</i>. 2020;227(5):1406-1416. doi:<a href=\"https://doi.org/10.1111/nph.16629\">10.1111/nph.16629</a>","ieee":"Y. Zhang, C. Hartinger, X. Wang, and J. Friml, “Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters,” <i>New Phytologist</i>, vol. 227, no. 5. Wiley, pp. 1406–1416, 2020.","short":"Y. Zhang, C. Hartinger, X. Wang, J. Friml, New Phytologist 227 (2020) 1406–1416.","mla":"Zhang, Yuzhou, et al. “Directional Auxin Fluxes in Plants by Intramolecular Domain‐domain Co‐evolution of PIN Auxin Transporters.” <i>New Phytologist</i>, vol. 227, no. 5, Wiley, 2020, pp. 1406–16, doi:<a href=\"https://doi.org/10.1111/nph.16629\">10.1111/nph.16629</a>.","apa":"Zhang, Y., Hartinger, C., Wang, X., &#38; Friml, J. (2020). Directional auxin fluxes in plants by intramolecular domain‐domain co‐evolution of PIN auxin transporters. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.16629\">https://doi.org/10.1111/nph.16629</a>"},"date_published":"2020-09-01T00:00:00Z","page":"1406-1416","department":[{"_id":"JiFr"}],"abstract":[{"text":"* Morphogenesis and adaptive tropic growth in plants depend on gradients of the phytohormone auxin, mediated by the membrane‐based PIN‐FORMED (PIN) auxin transporters. PINs localize to a particular side of the plasma membrane (PM) or to the endoplasmic reticulum (ER) to directionally transport auxin and maintain intercellular and intracellular auxin homeostasis, respectively. However, the molecular cues that confer their diverse cellular localizations remain largely unknown.\r\n* In this study, we systematically swapped the domains between ER‐ and PM‐localized PIN proteins, as well as between apical and basal PM‐localized PINs from Arabidopsis thaliana , to shed light on why PIN family members with similar topological structures reside at different membrane compartments within cells.\r\n* Our results show that not only do the N‐ and C‐terminal transmembrane domains (TMDs) and central hydrophilic loop contribute to their differential subcellular localizations and cellular polarity, but that the pairwise‐matched N‐ and C‐terminal TMDs resulting from intramolecular domain–domain coevolution are also crucial for their divergent patterns of localization.\r\n* These findings illustrate the complexity of the evolutionary path of PIN proteins in acquiring their plethora of developmental functions and adaptive growth in plants.","lang":"eng"}],"_id":"7697","date_updated":"2025-04-14T07:45:03Z","has_accepted_license":"1","language":[{"iso":"eng"}],"quality_controlled":"1","external_id":{"pmid":["32350870"],"isi":["000534092400001"]},"ddc":["580"],"publication":"New Phytologist","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"volume":227,"publisher":"Wiley","publication_status":"published","day":"01","pmid":1,"status":"public","file":[{"date_created":"2020-11-24T12:19:38Z","relation":"main_file","file_id":"8799","content_type":"application/pdf","checksum":"8e8150dbbba8cb65b72f81d1f0864b8b","creator":"dernst","date_updated":"2020-11-24T12:19:38Z","file_name":"2020_09_NewPhytologist_Zhang.pdf","access_level":"open_access","success":1,"file_size":3643395}],"publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646X"]},"corr_author":"1","ec_funded":1,"month":"09","doi":"10.1111/nph.16629","file_date_updated":"2020-11-24T12:19:38Z","project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985"},{"call_identifier":"FWF","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants","_id":"26538374-B435-11E9-9278-68D0E5697425"},{"name":"International IST Postdoc Fellowship Programme","grant_number":"291734","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"}]},{"publication_status":"published","publisher":"Wiley","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"volume":225,"publication":"New Phytologist","publication_identifier":{"issn":["0028-646x"],"eissn":["1469-8137"]},"file":[{"date_updated":"2020-11-18T16:42:48Z","creator":"dernst","checksum":"cd42ffdb381fd52812b9583d4d407139","content_type":"application/pdf","file_size":717345,"success":1,"access_level":"open_access","file_name":"2020_NewPhytologist_Zhang.pdf","relation":"main_file","date_created":"2020-11-18T16:42:48Z","file_id":"8772"}],"status":"public","pmid":1,"day":"01","external_id":{"isi":["000489638800001"],"pmid":["31603260"]},"ddc":["580"],"quality_controlled":"1","month":"02","project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"},{"_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","call_identifier":"FWF"},{"grant_number":"291734","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7","_id":"25681D80-B435-11E9-9278-68D0E5697425"}],"file_date_updated":"2020-11-18T16:42:48Z","doi":"10.1111/nph.16203","corr_author":"1","ec_funded":1,"scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Auxin guides roots to avoid obstacles during gravitropic growth","article_processing_charge":"Yes (via OA deal)","year":"2020","article_type":"original","intvolume":"       225","author":[{"id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","full_name":"Zhang, Yuzhou","orcid":"0000-0003-2627-6956","last_name":"Zhang","first_name":"Yuzhou"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","first_name":"Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml"}],"language":[{"iso":"eng"}],"has_accepted_license":"1","date_updated":"2025-04-14T07:45:04Z","_id":"6997","date_published":"2020-02-01T00:00:00Z","page":"1049-1052","citation":{"short":"Y. Zhang, J. Friml, New Phytologist 225 (2020) 1049–1052.","mla":"Zhang, Yuzhou, and Jiří Friml. “Auxin Guides Roots to Avoid Obstacles during Gravitropic Growth.” <i>New Phytologist</i>, vol. 225, no. 3, Wiley, 2020, pp. 1049–52, doi:<a href=\"https://doi.org/10.1111/nph.16203\">10.1111/nph.16203</a>.","apa":"Zhang, Y., &#38; Friml, J. (2020). Auxin guides roots to avoid obstacles during gravitropic growth. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.16203\">https://doi.org/10.1111/nph.16203</a>","ista":"Zhang Y, Friml J. 2020. Auxin guides roots to avoid obstacles during gravitropic growth. New Phytologist. 225(3), 1049–1052.","chicago":"Zhang, Yuzhou, and Jiří Friml. “Auxin Guides Roots to Avoid Obstacles during Gravitropic Growth.” <i>New Phytologist</i>. Wiley, 2020. <a href=\"https://doi.org/10.1111/nph.16203\">https://doi.org/10.1111/nph.16203</a>.","ieee":"Y. Zhang and J. Friml, “Auxin guides roots to avoid obstacles during gravitropic growth,” <i>New Phytologist</i>, vol. 225, no. 3. Wiley, pp. 1049–1052, 2020.","ama":"Zhang Y, Friml J. Auxin guides roots to avoid obstacles during gravitropic growth. <i>New Phytologist</i>. 2020;225(3):1049-1052. doi:<a href=\"https://doi.org/10.1111/nph.16203\">10.1111/nph.16203</a>"},"department":[{"_id":"JiFr"}],"type":"journal_article","oa_version":"Published Version","date_created":"2019-11-12T11:41:32Z","isi":1,"oa":1,"issue":"3"},{"acknowledgement":"We thank Mark Estelle, José M. Alonso and the Arabidopsis Stock Centre for providing seeds. We acknowledge the core facility CELLIM of CEITEC supported by the MEYS CR (LM2015062 Czech‐BioImaging) and Plant Sciences Core Facility of CEITEC Masaryk University for help in generating essential data. This project received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (grant agreement no. 742985) and the Czech Science Foundation GAČR (GA13‐40637S and GA18‐26981S) to JF. JH is the recipient of a DOC Fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology. The authors declare no competing interests.","ddc":["580"],"external_id":{"pmid":["31971254"],"isi":["000514939700001"]},"quality_controlled":"1","publication_status":"published","publisher":"Wiley","volume":226,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"publication":"New Phytologist","publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646x"]},"file":[{"file_size":2106888,"file_name":"2020_NewPhytologist_Mazur.pdf","access_level":"open_access","success":1,"creator":"dernst","date_updated":"2020-11-20T09:32:10Z","content_type":"application/pdf","checksum":"17de728b0205979feb95ce663ba918c2","file_id":"8781","relation":"main_file","date_created":"2020-11-20T09:32:10Z"}],"status":"public","pmid":1,"day":"01","corr_author":"1","ec_funded":1,"month":"06","project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"grant_number":"25239","name":"Cell surface receptor complexes for PIN polarity and auxin-mediated development","_id":"2699E3D2-B435-11E9-9278-68D0E5697425"}],"file_date_updated":"2020-11-20T09:32:10Z","doi":"10.1111/nph.16446","article_processing_charge":"No","year":"2020","related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"8822"}]},"article_type":"original","intvolume":"       226","author":[{"full_name":"Mazur, E","first_name":"E","last_name":"Mazur"},{"last_name":"Kulik","first_name":"Ivan","id":"F0AB3FCE-02D1-11E9-BD0E-99399A5D3DEB","full_name":"Kulik, Ivan"},{"id":"4800CC20-F248-11E8-B48F-1D18A9856A87","full_name":"Hajny, Jakub","last_name":"Hajny","orcid":"0000-0003-2140-7195","first_name":"Jakub"},{"first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"}],"scopus_import":"1","title":"Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in arabidopsis","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","type":"journal_article","oa_version":"Published Version","date_created":"2020-02-18T10:03:47Z","isi":1,"oa":1,"issue":"5","language":[{"iso":"eng"}],"has_accepted_license":"1","_id":"7500","abstract":[{"lang":"eng","text":"Plant survival depends on vascular tissues, which originate in a self‐organizing manner as strands of cells co‐directionally transporting the plant hormone auxin. The latter phenomenon (also known as auxin canalization) is classically hypothesized to be regulated by auxin itself via the effect of this hormone on the polarity of its own intercellular transport. Correlative observations supported this concept, but molecular insights remain limited.\r\nIn the current study, we established an experimental system based on the model Arabidopsis thaliana, which exhibits auxin transport channels and formation of vasculature strands in response to local auxin application.\r\nOur methodology permits the genetic analysis of auxin canalization under controllable experimental conditions. By utilizing this opportunity, we confirmed the dependence of auxin canalization on a PIN‐dependent auxin transport and nuclear, TIR1/AFB‐mediated auxin signaling. We also show that leaf venation and auxin‐mediated PIN repolarization in the root require TIR1/AFB signaling.\r\nFurther studies based on this experimental system are likely to yield better understanding of the mechanisms underlying auxin transport polarization in other developmental contexts."}],"date_updated":"2026-04-25T22:31:15Z","date_published":"2020-06-01T00:00:00Z","citation":{"apa":"Mazur, E., Kulik, I., Hajny, J., &#38; Friml, J. (2020). Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in arabidopsis. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.16446\">https://doi.org/10.1111/nph.16446</a>","short":"E. Mazur, I. Kulik, J. Hajny, J. Friml, New Phytologist 226 (2020) 1375–1383.","mla":"Mazur, E., et al. “Auxin Canalization and Vascular Tissue Formation by TIR1/AFB-Mediated Auxin Signaling in Arabidopsis.” <i>New Phytologist</i>, vol. 226, no. 5, Wiley, 2020, pp. 1375–83, doi:<a href=\"https://doi.org/10.1111/nph.16446\">10.1111/nph.16446</a>.","chicago":"Mazur, E, Ivan Kulik, Jakub Hajny, and Jiří Friml. “Auxin Canalization and Vascular Tissue Formation by TIR1/AFB-Mediated Auxin Signaling in Arabidopsis.” <i>New Phytologist</i>. Wiley, 2020. <a href=\"https://doi.org/10.1111/nph.16446\">https://doi.org/10.1111/nph.16446</a>.","ista":"Mazur E, Kulik I, Hajny J, Friml J. 2020. Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in arabidopsis. New Phytologist. 226(5), 1375–1383.","ieee":"E. Mazur, I. Kulik, J. Hajny, and J. Friml, “Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in arabidopsis,” <i>New Phytologist</i>, vol. 226, no. 5. Wiley, pp. 1375–1383, 2020.","ama":"Mazur E, Kulik I, Hajny J, Friml J. Auxin canalization and vascular tissue formation by TIR1/AFB-mediated auxin signaling in arabidopsis. <i>New Phytologist</i>. 2020;226(5):1375-1383. doi:<a href=\"https://doi.org/10.1111/nph.16446\">10.1111/nph.16446</a>"},"page":"1375-1383","department":[{"_id":"JiFr"}]},{"ddc":["580"],"external_id":{"isi":["000487184200024"],"pmid":["31111487"]},"quality_controlled":"1","publication_status":"published","publisher":"Wiley","volume":224,"publication":"New Phytologist","publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646x"]},"file":[{"file_id":"8661","date_created":"2020-10-14T08:59:33Z","relation":"main_file","file_size":1099061,"success":1,"file_name":"2019_NewPhytologist_Zhang_accepted.pdf","access_level":"open_access","creator":"dernst","date_updated":"2020-10-14T08:59:33Z","checksum":"6488243334538f5c39099a701cbf76b9","content_type":"application/pdf"}],"status":"public","pmid":1,"day":"01","month":"10","file_date_updated":"2020-10-14T08:59:33Z","doi":"10.1111/nph.15932","article_processing_charge":"No","year":"2019","article_type":"original","author":[{"full_name":"Zhang, Yuzhou","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","first_name":"Yuzhou","orcid":"0000-0003-2627-6956","last_name":"Zhang"},{"full_name":"He, P","first_name":"P","last_name":"He"},{"full_name":"Ma, X","first_name":"X","last_name":"Ma"},{"last_name":"Yang","first_name":"Z","full_name":"Yang, Z"},{"last_name":"Pang","first_name":"C","full_name":"Pang, C"},{"full_name":"Yu, J","first_name":"J","last_name":"Yu"},{"full_name":"Wang, G","first_name":"G","last_name":"Wang"},{"orcid":"0000-0002-8302-7596","last_name":"Friml","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří"},{"first_name":"G","last_name":"Xiao","full_name":"Xiao, G"}],"intvolume":"       224","scopus_import":"1","title":"Auxin-mediated statolith production for root gravitropism","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","type":"journal_article","oa_version":"Submitted Version","date_created":"2019-05-28T14:33:26Z","oa":1,"isi":1,"issue":"2","language":[{"iso":"eng"}],"has_accepted_license":"1","abstract":[{"lang":"eng","text":"Root gravitropism is one of the most important processes allowing plant adaptation to the land environment. Auxin plays a central role in mediating root gravitropism, but how auxin contributes to gravitational perception and the subsequent response is still unclear.\r\n\r\nHere, we showed that the local auxin maximum/gradient within the root apex, which is generated by the PIN directional auxin transporters, regulates the expression of three key starch granule synthesis genes, SS4, PGM and ADG1, which in turn influence the accumulation of starch granules that serve as a statolith perceiving gravity.\r\n\r\nMoreover, using the cvxIAA‐ccvTIR1 system, we also showed that TIR1‐mediated auxin signaling is required for starch granule formation and gravitropic response within root tips. In addition, axr3 mutants showed reduced auxin‐mediated starch granule accumulation and disruption of gravitropism within the root apex.\r\n\r\nOur results indicate that auxin‐mediated statolith production relies on the TIR1/AFB‐AXR3‐mediated auxin signaling pathway. In summary, we propose a dual role for auxin in gravitropism: the regulation of both gravity perception and response."}],"_id":"6504","date_updated":"2023-08-28T08:40:13Z","citation":{"ieee":"Y. Zhang <i>et al.</i>, “Auxin-mediated statolith production for root gravitropism,” <i>New Phytologist</i>, vol. 224, no. 2. Wiley, pp. 761–774, 2019.","ama":"Zhang Y, He P, Ma X, et al. Auxin-mediated statolith production for root gravitropism. <i>New Phytologist</i>. 2019;224(2):761-774. doi:<a href=\"https://doi.org/10.1111/nph.15932\">10.1111/nph.15932</a>","ista":"Zhang Y, He P, Ma X, Yang Z, Pang C, Yu J, Wang G, Friml J, Xiao G. 2019. Auxin-mediated statolith production for root gravitropism. New Phytologist. 224(2), 761–774.","chicago":"Zhang, Yuzhou, P He, X Ma, Z Yang, C Pang, J Yu, G Wang, Jiří Friml, and G Xiao. “Auxin-Mediated Statolith Production for Root Gravitropism.” <i>New Phytologist</i>. Wiley, 2019. <a href=\"https://doi.org/10.1111/nph.15932\">https://doi.org/10.1111/nph.15932</a>.","short":"Y. Zhang, P. He, X. Ma, Z. Yang, C. Pang, J. Yu, G. Wang, J. Friml, G. Xiao, New Phytologist 224 (2019) 761–774.","mla":"Zhang, Yuzhou, et al. “Auxin-Mediated Statolith Production for Root Gravitropism.” <i>New Phytologist</i>, vol. 224, no. 2, Wiley, 2019, pp. 761–74, doi:<a href=\"https://doi.org/10.1111/nph.15932\">10.1111/nph.15932</a>.","apa":"Zhang, Y., He, P., Ma, X., Yang, Z., Pang, C., Yu, J., … Xiao, G. (2019). Auxin-mediated statolith production for root gravitropism. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.15932\">https://doi.org/10.1111/nph.15932</a>"},"date_published":"2019-10-01T00:00:00Z","department":[{"_id":"JiFr"}],"page":"761-774"},{"ec_funded":1,"file_date_updated":"2020-07-14T12:47:42Z","doi":"10.1111/nph.16180","project":[{"call_identifier":"FP7","grant_number":"329960","name":"Mating system and the evolutionary dynamics of hybrid zones","_id":"25B36484-B435-11E9-9278-68D0E5697425"},{"_id":"2662AADE-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Sex chromosomes and species barriers","grant_number":"M02463"}],"month":"11","quality_controlled":"1","external_id":{"pmid":["31505037"]},"ddc":["570"],"status":"public","day":"01","pmid":1,"publication_identifier":{"eissn":["1469-8137"],"issn":["0028-646X"]},"file":[{"file_id":"7011","relation":"main_file","date_created":"2019-11-13T08:15:05Z","access_level":"open_access","file_name":"2019_NewPhytologist_Pickup.pdf","file_size":1511958,"content_type":"application/pdf","checksum":"21e4c95599bbcaf7c483b89954658672","date_updated":"2020-07-14T12:47:42Z","creator":"dernst"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"volume":224,"publication":"New Phytologist","publication_status":"published","publisher":"Wiley","issue":"3","oa":1,"date_created":"2019-09-07T14:35:40Z","oa_version":"Published Version","type":"journal_article","abstract":[{"text":"Plant mating systems play a key role in structuring genetic variation both within and between species. In hybrid zones, the outcomes and dynamics of hybridization are usually interpreted as the balance between gene flow and selection against hybrids. Yet, mating systems can introduce selective forces that alter these expectations; with diverse outcomes for the level and direction of gene flow depending on variation in outcrossing and whether the mating systems of the species pair are the same or divergent. We present a survey of hybridization in 133 species pairs from 41 plant families and examine how patterns of hybridization vary with mating system. We examine if hybrid zone mode, level of gene flow, asymmetries in gene flow and the frequency of reproductive isolating barriers vary in relation to mating system/s of the species pair. We combine these results with a simulation model and examples from the literature to address two general themes: (i) the two‐way interaction between introgression and the evolution of reproductive systems, and (ii) how mating system can facilitate or restrict interspecific gene flow. We conclude that examining mating system with hybridization provides unique opportunities to understand divergence and the processes underlying reproductive isolation.","lang":"eng"}],"_id":"6856","date_updated":"2025-04-15T07:17:08Z","department":[{"_id":"NiBa"}],"page":"1035-1047","date_published":"2019-11-01T00:00:00Z","citation":{"short":"M. Pickup, N.H. Barton, Y. Brandvain, C. Fraisse, S. Yakimowski, T. Dixit, C. Lexer, E. Cereghetti, D. Field, New Phytologist 224 (2019) 1035–1047.","mla":"Pickup, Melinda, et al. “Mating System Variation in Hybrid Zones: Facilitation, Barriers and Asymmetries to Gene Flow.” <i>New Phytologist</i>, vol. 224, no. 3, Wiley, 2019, pp. 1035–47, doi:<a href=\"https://doi.org/10.1111/nph.16180\">10.1111/nph.16180</a>.","apa":"Pickup, M., Barton, N. H., Brandvain, Y., Fraisse, C., Yakimowski, S., Dixit, T., … Field, D. (2019). Mating system variation in hybrid zones: Facilitation, barriers and asymmetries to gene flow. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.16180\">https://doi.org/10.1111/nph.16180</a>","ista":"Pickup M, Barton NH, Brandvain Y, Fraisse C, Yakimowski S, Dixit T, Lexer C, Cereghetti E, Field D. 2019. Mating system variation in hybrid zones: Facilitation, barriers and asymmetries to gene flow. New Phytologist. 224(3), 1035–1047.","chicago":"Pickup, Melinda, Nicholas H Barton, Yaniv Brandvain, Christelle Fraisse, Sarah Yakimowski, Tanmay Dixit, Christian Lexer, Eva Cereghetti, and David Field. “Mating System Variation in Hybrid Zones: Facilitation, Barriers and Asymmetries to Gene Flow.” <i>New Phytologist</i>. Wiley, 2019. <a href=\"https://doi.org/10.1111/nph.16180\">https://doi.org/10.1111/nph.16180</a>.","ama":"Pickup M, Barton NH, Brandvain Y, et al. Mating system variation in hybrid zones: Facilitation, barriers and asymmetries to gene flow. <i>New Phytologist</i>. 2019;224(3):1035-1047. doi:<a href=\"https://doi.org/10.1111/nph.16180\">10.1111/nph.16180</a>","ieee":"M. Pickup <i>et al.</i>, “Mating system variation in hybrid zones: Facilitation, barriers and asymmetries to gene flow,” <i>New Phytologist</i>, vol. 224, no. 3. Wiley, pp. 1035–1047, 2019."},"language":[{"iso":"eng"}],"has_accepted_license":"1","intvolume":"       224","author":[{"first_name":"Melinda","last_name":"Pickup","orcid":"0000-0001-6118-0541","id":"2C78037E-F248-11E8-B48F-1D18A9856A87","full_name":"Pickup, Melinda"},{"full_name":"Barton, Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","orcid":"0000-0002-8548-5240","first_name":"Nicholas H"},{"full_name":"Brandvain, Yaniv","last_name":"Brandvain","first_name":"Yaniv"},{"first_name":"Christelle","last_name":"Fraisse","orcid":"0000-0001-8441-5075","full_name":"Fraisse, Christelle","id":"32DF5794-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Yakimowski","first_name":"Sarah","full_name":"Yakimowski, Sarah"},{"first_name":"Tanmay","last_name":"Dixit","full_name":"Dixit, Tanmay"},{"full_name":"Lexer, Christian","last_name":"Lexer","first_name":"Christian"},{"id":"71AA91B4-05ED-11EA-8BEB-F5833E63BD63","full_name":"Cereghetti, Eva","last_name":"Cereghetti","first_name":"Eva"},{"first_name":"David","orcid":"0000-0002-4014-8478","last_name":"Field","id":"419049E2-F248-11E8-B48F-1D18A9856A87","full_name":"Field, David"}],"article_type":"original","article_processing_charge":"No","year":"2019","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Mating system variation in hybrid zones: Facilitation, barriers and asymmetries to gene flow","scopus_import":"1"},{"has_accepted_license":"1","language":[{"iso":"eng"}],"department":[{"_id":"NiBa"},{"_id":"BeVi"}],"page":"1108-1120","citation":{"ieee":"G. Puixeu Sala, M. Pickup, D. Field, and S. C. H. Barrett, “Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics,” <i>New Phytologist</i>, vol. 224, no. 3. Wiley, pp. 1108–1120, 2019.","ama":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics. <i>New Phytologist</i>. 2019;224(3):1108-1120. doi:<a href=\"https://doi.org/10.1111/nph.16050\">10.1111/nph.16050</a>","chicago":"Puixeu Sala, Gemma, Melinda Pickup, David Field, and Spencer C.H. Barrett. “Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics.” <i>New Phytologist</i>. Wiley, 2019. <a href=\"https://doi.org/10.1111/nph.16050\">https://doi.org/10.1111/nph.16050</a>.","ista":"Puixeu Sala G, Pickup M, Field D, Barrett SCH. 2019. Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics. New Phytologist. 224(3), 1108–1120.","apa":"Puixeu Sala, G., Pickup, M., Field, D., &#38; Barrett, S. C. H. (2019). Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.16050\">https://doi.org/10.1111/nph.16050</a>","short":"G. Puixeu Sala, M. Pickup, D. Field, S.C.H. Barrett, New Phytologist 224 (2019) 1108–1120.","mla":"Puixeu Sala, Gemma, et al. “Variation in Sexual Dimorphism in a Wind-Pollinated Plant: The Influence of Geographical Context and Life-Cycle Dynamics.” <i>New Phytologist</i>, vol. 224, no. 3, Wiley, 2019, pp. 1108–20, doi:<a href=\"https://doi.org/10.1111/nph.16050\">10.1111/nph.16050</a>."},"date_published":"2019-11-01T00:00:00Z","_id":"6831","abstract":[{"text":"* Understanding the mechanisms causing phenotypic differences between females and males has long fascinated evolutionary biologists. An extensive literature exists on animal sexual dimorphism but less information is known about sex differences in plants, particularly the extent of geographical variation in sexual dimorphism and its life‐cycle dynamics.\r\n* Here, we investigated patterns of genetically based sexual dimorphism in vegetative and reproductive traits of a wind‐pollinated dioecious plant, Rumex hastatulus, across three life‐cycle stages using open‐pollinated families from 30 populations spanning the geographic range and chromosomal variation (XY and XY1Y2) of the species.\r\n* The direction and degree of sexual dimorphism was highly variable among populations and life‐cycle stages. Sex‐specific differences in reproductive function explained a significant amount of temporal change in sexual dimorphism. For several traits, geographical variation in sexual dimorphism was associated with bioclimatic parameters, likely due to the differential responses of the sexes to climate. We found no systematic differences in sexual dimorphism between chromosome races.\r\n* Sex‐specific trait differences in dioecious plants largely result from a balance between sexual and natural selection on resource allocation. Our results indicate that abiotic factors associated with geographical context also play a role in modifying sexual dimorphism during the plant life‐cycle.","lang":"eng"}],"date_updated":"2026-04-07T13:25:33Z","oa":1,"isi":1,"issue":"3","type":"journal_article","date_created":"2019-08-25T22:00:51Z","oa_version":"Published Version","scopus_import":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","title":"Variation in sexual dimorphism in a wind-pollinated plant: The influence of geographical context and life-cycle dynamics","article_type":"original","related_material":{"record":[{"relation":"research_data","id":"9803","status":"public"},{"relation":"dissertation_contains","status":"public","id":"14058"}]},"intvolume":"       224","author":[{"first_name":"Gemma","last_name":"Puixeu Sala","orcid":"0000-0001-8330-1754","id":"33AB266C-F248-11E8-B48F-1D18A9856A87","full_name":"Puixeu Sala, Gemma"},{"orcid":"0000-0001-6118-0541","last_name":"Pickup","first_name":"Melinda","full_name":"Pickup, Melinda","id":"2C78037E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Field","orcid":"0000-0002-4014-8478","first_name":"David","full_name":"Field, David"},{"full_name":"Barrett, Spencer C.H.","first_name":"Spencer C.H.","last_name":"Barrett"}],"year":"2019","article_processing_charge":"Yes (via OA deal)","project":[{"call_identifier":"H2020","grant_number":"665385","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"doi":"10.1111/nph.16050","file_date_updated":"2020-07-14T12:47:42Z","month":"11","ec_funded":1,"corr_author":"1","file":[{"relation":"main_file","date_created":"2019-08-27T12:44:54Z","file_id":"6833","content_type":"application/pdf","checksum":"6370e7567d96b7b562e77d8b89653f80","creator":"apreinsp","date_updated":"2020-07-14T12:47:42Z","file_name":"2019_NewPhytologist_Puixeu.pdf","access_level":"open_access","file_size":2314016}],"publication_identifier":{"eissn":["1469-8137"]},"day":"01","status":"public","publisher":"Wiley","publication_status":"published","publication":"New Phytologist","volume":224,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"external_id":{"isi":["000481376500001"]},"ddc":["570"],"quality_controlled":"1"}]