[{"oa":1,"publication_identifier":{"issn":["1467-7644","1467-7652"]},"type":"journal_article","date_published":"2021-03-01T00:00:00Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"file_size":15691871,"checksum":"63845be37fb962586e0c7773f2355970","date_created":"2021-04-12T12:29:07Z","file_name":"2021_PlantBiotechJournal_He.pdf","content_type":"application/pdf","date_updated":"2021-04-12T12:29:07Z","relation":"main_file","success":1,"access_level":"open_access","creator":"dernst","file_id":"9321"}],"month":"03","oa_version":"Published Version","has_accepted_license":"1","publication":"Plant Biotechnology Journal","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"The leaf is a crucial organ evolved with remarkable morphological diversity to maximize plant photosynthesis. The leaf shape is a key trait that affects photosynthesis, flowering rates, disease resistance, and yield. Although many genes regulating leaf development have been identified in the past years, the precise regulatory architecture underlying the generation of diverse leaf shapes remains to be elucidated. We used cotton as a reference model to probe the genetic framework underlying divergent leaf forms. Comparative transcriptome analysis revealed that the GhARF16‐1 and GhKNOX2‐1 genes might be potential regulators of leaf shape. We functionally characterized the auxin‐responsive factor ARF16‐1 acting upstream of GhKNOX2‐1 to determine leaf morphology in cotton. The transcription of GhARF16‐1 was significantly higher in lobed‐leaved cotton than in smooth‐leaved cotton. Furthermore, the overexpression of GhARF16‐1 led to the upregulation of GhKNOX2‐1 and resulted in more and deeper serrations in cotton leaves, similar to the leaf shape of cotton plants overexpressing GhKNOX2‐1. We found that GhARF16‐1 specifically bound to the promoter of GhKNOX2‐1 to induce its expression. The heterologous expression of GhARF16‐1 and GhKNOX2‐1 in Arabidopsis led to lobed and curly leaves, and a genetic analysis revealed that GhKNOX2‐1 is epistatic to GhARF16‐1 in Arabidopsis, suggesting that the GhARF16‐1 and GhKNOX2‐1 interaction paradigm also functions to regulate leaf shape in Arabidopsis. To our knowledge, our results uncover a novel mechanism by which auxin, through the key component ARF16‐1 and its downstream‐activated gene KNOX2‐1, determines leaf morphology in eudicots."}],"day":"01","doi":"10.1111/pbi.13484","external_id":{"isi":["000577682300001"],"pmid":["32981232"]},"isi":1,"year":"2021","citation":{"apa":"He, P., Zhang, Y., Li, H., Fu, X., Shang, H., Zou, C., … Xiao, G. (2021). GhARF16-1 modulates leaf development by transcriptionally regulating the GhKNOX2-1 gene in cotton. <i>Plant Biotechnology Journal</i>. Wiley. <a href=\"https://doi.org/10.1111/pbi.13484\">https://doi.org/10.1111/pbi.13484</a>","ama":"He P, Zhang Y, Li H, et al. GhARF16-1 modulates leaf development by transcriptionally regulating the GhKNOX2-1 gene in cotton. <i>Plant Biotechnology Journal</i>. 2021;19(3):548-562. doi:<a href=\"https://doi.org/10.1111/pbi.13484\">10.1111/pbi.13484</a>","ieee":"P. He <i>et al.</i>, “GhARF16-1 modulates leaf development by transcriptionally regulating the GhKNOX2-1 gene in cotton,” <i>Plant Biotechnology Journal</i>, vol. 19, no. 3. Wiley, pp. 548–562, 2021.","chicago":"He, P, Yuzhou Zhang, H Li, X Fu, H Shang, C Zou, Jiří Friml, and G Xiao. “GhARF16-1 Modulates Leaf Development by Transcriptionally Regulating the GhKNOX2-1 Gene in Cotton.” <i>Plant Biotechnology Journal</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/pbi.13484\">https://doi.org/10.1111/pbi.13484</a>.","short":"P. He, Y. Zhang, H. Li, X. Fu, H. Shang, C. Zou, J. Friml, G. Xiao, Plant Biotechnology Journal 19 (2021) 548–562.","mla":"He, P., et al. “GhARF16-1 Modulates Leaf Development by Transcriptionally Regulating the GhKNOX2-1 Gene in Cotton.” <i>Plant Biotechnology Journal</i>, vol. 19, no. 3, Wiley, 2021, pp. 548–62, doi:<a href=\"https://doi.org/10.1111/pbi.13484\">10.1111/pbi.13484</a>.","ista":"He P, Zhang Y, Li H, Fu X, Shang H, Zou C, Friml J, Xiao G. 2021. GhARF16-1 modulates leaf development by transcriptionally regulating the GhKNOX2-1 gene in cotton. Plant Biotechnology Journal. 19(3), 548–562."},"date_updated":"2023-08-04T11:03:10Z","ddc":["580"],"volume":19,"acknowledgement":"We are thankful to Professor Yuxian Zhu from Wuhan University for his extremely valuable remarks and helpful comments on the manuscript. This work was supported by the Shaanxi Natural Science Foundation (2019JQ‐062 and 2020JQ‐410), Shaanxi Youth Entrusted Talents Program (20190205), China Postdoctoral Science Foundation (2018M640947, 2020T130394), Shaanxi Postdoctoral Project (2018BSHYDZZ76), Natural Science Basic Research Plan in Shaanxi Province of China (2018JZ3006), Fundamental Research Funds for the Central Universities (GK201903064, GK201901004, GK202002005 and GK202001004), and State Key Laboratory of Cotton Biology Open Fund (CB2020A12).","intvolume":"        19","title":"GhARF16-1 modulates leaf development by transcriptionally regulating the GhKNOX2-1 gene in cotton","date_created":"2020-10-05T12:44:33Z","department":[{"_id":"JiFr"}],"article_processing_charge":"No","publication_status":"published","issue":"3","author":[{"full_name":"He, P","last_name":"He","first_name":"P"},{"id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","full_name":"Zhang, Yuzhou","orcid":"0000-0003-2627-6956","last_name":"Zhang","first_name":"Yuzhou"},{"first_name":"H","last_name":"Li","full_name":"Li, H"},{"full_name":"Fu, X","last_name":"Fu","first_name":"X"},{"full_name":"Shang, H","last_name":"Shang","first_name":"H"},{"first_name":"C","last_name":"Zou","full_name":"Zou, C"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml"},{"full_name":"Xiao, G","last_name":"Xiao","first_name":"G"}],"scopus_import":"1","_id":"8606","pmid":1,"article_type":"original","publisher":"Wiley","file_date_updated":"2021-04-12T12:29:07Z","quality_controlled":"1","page":"548-562"},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_published":"2021-01-01T00:00:00Z","type":"journal_article","publication_identifier":{"issn":["0028-646x"],"eissn":["1469-8137"]},"oa":1,"file":[{"date_created":"2021-02-04T09:53:16Z","file_size":3674502,"checksum":"d36b6a8c6fafab66264e0d27114dae63","date_updated":"2021-02-04T09:53:16Z","content_type":"application/pdf","file_name":"2021_NewPhytologist_Ke.pdf","success":1,"relation":"main_file","access_level":"open_access","file_id":"9085","creator":"dernst"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","publication":"New Phytologist","has_accepted_license":"1","oa_version":"Published Version","month":"01","language":[{"iso":"eng"}],"date_updated":"2023-09-05T16:06:24Z","year":"2021","citation":{"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.","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.","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>.","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.","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>","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>"},"isi":1,"external_id":{"isi":["000573568000001"],"pmid":["32901934"]},"doi":"10.1111/nph.16915","day":"01","abstract":[{"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.","lang":"eng"}],"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.","volume":229,"ddc":["580"],"_id":"8608","pmid":1,"scopus_import":"1","author":[{"last_name":"Ke","first_name":"M","full_name":"Ke, M"},{"full_name":"Ma, Z","first_name":"Z","last_name":"Ma"},{"full_name":"Wang, D","last_name":"Wang","first_name":"D"},{"first_name":"Y","last_name":"Sun","full_name":"Sun, Y"},{"first_name":"C","last_name":"Wen","full_name":"Wen, C"},{"first_name":"D","last_name":"Huang","full_name":"Huang, D"},{"full_name":"Chen, Z","last_name":"Chen","first_name":"Z"},{"first_name":"L","last_name":"Yang","full_name":"Yang, L"},{"id":"2DE75584-F248-11E8-B48F-1D18A9856A87","last_name":"Tan","first_name":"Shutang","full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285"},{"full_name":"Li, R","first_name":"R","last_name":"Li"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml","first_name":"Jiří"},{"full_name":"Miao, Y","last_name":"Miao","first_name":"Y"},{"first_name":"X","last_name":"Chen","full_name":"Chen, X"}],"issue":"2","publication_status":"published","department":[{"_id":"JiFr"}],"date_created":"2020-10-05T12:45:36Z","article_processing_charge":"No","title":"Salicylic acid regulates PIN2 auxin transporter hyper-clustering and root gravitropic growth via Remorin-dependent lipid nanodomain organization in Arabidopsis thaliana","intvolume":"       229","page":"963-978","quality_controlled":"1","file_date_updated":"2021-02-04T09:53:16Z","publisher":"Wiley","article_type":"original"},{"file":[{"date_created":"2021-02-04T11:37:50Z","file_size":3458646,"checksum":"30b3393d841fb2b1e2b22fb42b5c8fff","date_updated":"2021-02-04T11:37:50Z","content_type":"application/pdf","file_name":"2021_CurrentBiology_MarquesBueno.pdf","relation":"main_file","success":1,"access_level":"open_access","file_id":"9090","creator":"dernst"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_published":"2021-01-11T00:00:00Z","type":"journal_article","publication_identifier":{"issn":["0960-9822"],"eissn":["1879-0445"]},"oa":1,"language":[{"iso":"eng"}],"publication":"Current Biology","has_accepted_license":"1","oa_version":"Published Version","month":"01","acknowledgement":"We thank the SiCE group for discussions and comments; S. Yalovsky, B. Scheres, and the NASC/ABRC collection for providing transgenic Arabidopsis lines and plasmids; L. Kalmbach and M. Barberon for the gift of pLOK180_pFR7m34GW; A. Lacroix, J. Berger, and P. Bolland for plant care; and M. Fendrych for help with microfluidics in the J.F. lab. We acknowledge\r\nthe contribution of the SFR Biosciences (UMS3444/CNRS, US8/Inser m, ENS de Lyon, UCBL) facilities: C. Lionet, E. Chatre, and J. Brocard at LBIPLATIM-MICROSCOPY for assistance with imaging, and V. GuegenChaignon and A. Page at the Protein Science Facility (PSF) for assistance with protein purification and mass spectrometry. Y.J. was funded by ERC\r\ngrant 3363360-APPL under FP/2007–2013. Y.J. and Z.L.N. were funded by an ANR- and NSF-supported ERA-CAPS project (SICOPID: ANR-17-CAPS0003-01/NSF PGRP IOS-1841917). A.I.C.-D. is funded by an ERC consolidator grant (ERC-2015-CoG–683163) and BIO2016-78955 grant from the Spanish Ministry of Economy and Competitiveness. Exchanges between the Y.J. and T.B. laboratories were funded by Tournesol grant 35656NB. B.K.M. was\r\nfunded by the Omics@vib Marie Curie COFUND and Research Foundation Flanders for a postdoctoral fellowship.","volume":31,"ddc":["570"],"date_updated":"2023-09-05T13:03:15Z","year":"2021","citation":{"chicago":"Marquès-Bueno, MM, L Armengot, LC Noack, J Bareille, Lesia Rodriguez Solovey, MP Platre, V Bayle, et al. “Auxin-Regulated Reversible Inhibition of TMK1 Signaling by MAKR2 Modulates the Dynamics of Root Gravitropism.” <i>Current Biology</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.cub.2020.10.011\">https://doi.org/10.1016/j.cub.2020.10.011</a>.","ieee":"M. Marquès-Bueno <i>et al.</i>, “Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism,” <i>Current Biology</i>, vol. 31, no. 1. Elsevier, 2021.","ama":"Marquès-Bueno M, Armengot L, Noack L, et al. Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. <i>Current Biology</i>. 2021;31(1). doi:<a href=\"https://doi.org/10.1016/j.cub.2020.10.011\">10.1016/j.cub.2020.10.011</a>","apa":"Marquès-Bueno, M., Armengot, L., Noack, L., Bareille, J., Rodriguez Solovey, L., Platre, M., … Jaillais, Y. (2021). Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. <i>Current Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cub.2020.10.011\">https://doi.org/10.1016/j.cub.2020.10.011</a>","ista":"Marquès-Bueno M, Armengot L, Noack L, Bareille J, Rodriguez Solovey L, Platre M, Bayle V, Liu M, Opdenacker D, Vanneste S, Möller B, Nimchuk Z, Beeckman T, Caño-Delgado A, Friml J, Jaillais Y. 2021. Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism. Current Biology. 31(1).","short":"M. Marquès-Bueno, L. Armengot, L. Noack, J. Bareille, L. Rodriguez Solovey, M. Platre, V. Bayle, M. Liu, D. Opdenacker, S. Vanneste, B. Möller, Z. Nimchuk, T. Beeckman, A. Caño-Delgado, J. Friml, Y. Jaillais, Current Biology 31 (2021).","mla":"Marquès-Bueno, MM, et al. “Auxin-Regulated Reversible Inhibition of TMK1 Signaling by MAKR2 Modulates the Dynamics of Root Gravitropism.” <i>Current Biology</i>, vol. 31, no. 1, Elsevier, 2021, doi:<a href=\"https://doi.org/10.1016/j.cub.2020.10.011\">10.1016/j.cub.2020.10.011</a>."},"isi":1,"external_id":{"isi":["000614361000039"],"pmid":["33157019"]},"doi":"10.1016/j.cub.2020.10.011","day":"11","abstract":[{"lang":"eng","text":"Plants are able to orient their growth according to gravity, which ultimately controls both shoot and root architecture.1 Gravitropism is a dynamic process whereby gravistimulation induces the asymmetric distribution of the plant hormone auxin, leading to asymmetric growth, organ bending, and subsequent reset of auxin distribution back to the original pre-gravistimulation situation.1,  2,  3 Differential auxin accumulation during the gravitropic response depends on the activity of polarly localized PIN-FORMED (PIN) auxin-efflux carriers.1,  2,  3,  4 In particular, the timing of this dynamic response is regulated by PIN2,5,6 but the underlying molecular mechanisms are poorly understood. Here, we show that MEMBRANE ASSOCIATED KINASE REGULATOR2 (MAKR2) controls the pace of the root gravitropic response. We found that MAKR2 is required for the PIN2 asymmetry during gravitropism by acting as a negative regulator of the cell-surface signaling mediated by the receptor-like kinase TRANSMEMBRANE KINASE1 (TMK1).2,7,  8,  9,  10 Furthermore, we show that the MAKR2 inhibitory effect on TMK1 signaling is antagonized by auxin itself, which triggers rapid MAKR2 membrane dissociation in a TMK1-dependent manner. Our findings suggest that the timing of the root gravitropic response is orchestrated by the reversible inhibition of the TMK1 signaling pathway at the cell surface."}],"quality_controlled":"1","file_date_updated":"2021-02-04T11:37:50Z","publisher":"Elsevier","article_type":"original","pmid":1,"_id":"8824","author":[{"last_name":"Marquès-Bueno","first_name":"MM","full_name":"Marquès-Bueno, MM"},{"last_name":"Armengot","first_name":"L","full_name":"Armengot, L"},{"first_name":"LC","last_name":"Noack","full_name":"Noack, LC"},{"last_name":"Bareille","first_name":"J","full_name":"Bareille, J"},{"last_name":"Rodriguez Solovey","first_name":"Lesia","full_name":"Rodriguez Solovey, Lesia","orcid":"0000-0002-7244-7237","id":"3922B506-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Platre","first_name":"MP","full_name":"Platre, MP"},{"first_name":"V","last_name":"Bayle","full_name":"Bayle, V"},{"last_name":"Liu","first_name":"M","full_name":"Liu, M"},{"full_name":"Opdenacker, D","last_name":"Opdenacker","first_name":"D"},{"first_name":"S","last_name":"Vanneste","full_name":"Vanneste, S"},{"full_name":"Möller, BK","first_name":"BK","last_name":"Möller"},{"first_name":"ZL","last_name":"Nimchuk","full_name":"Nimchuk, ZL"},{"full_name":"Beeckman, T","last_name":"Beeckman","first_name":"T"},{"full_name":"Caño-Delgado, AI","last_name":"Caño-Delgado","first_name":"AI"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"},{"first_name":"Y","last_name":"Jaillais","full_name":"Jaillais, Y"}],"issue":"1","publication_status":"published","date_created":"2020-12-01T13:39:46Z","article_processing_charge":"Yes (via OA deal)","department":[{"_id":"JiFr"}],"title":"Auxin-regulated reversible inhibition of TMK1 signaling by MAKR2 modulates the dynamics of root gravitropism","intvolume":"        31"},{"month":"02","article_number":"110750","oa_version":"Published Version","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants"},{"name":"A Case Study of Plant Growth Regulation: Molecular Mechanism of Auxin-mediated Rapid Growth Inhibition in Arabidopsis Root","grant_number":"25351","_id":"26B4D67E-B435-11E9-9278-68D0E5697425"}],"publication":"Plant Science","has_accepted_license":"1","language":[{"iso":"eng"}],"keyword":["Agronomy and Crop Science","Plant Science","Genetics","General Medicine"],"oa":1,"publication_identifier":{"issn":["0168-9452"]},"date_published":"2021-02-01T00:00:00Z","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"status":"public","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"11626"},{"relation":"dissertation_contains","id":"10083","status":"public"}]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"content_type":"application/pdf","file_name":"2021_PlantScience_Gelova.pdf","date_updated":"2021-02-04T07:49:25Z","checksum":"a7f2562bdca62d67dfa88e271b62a629","file_size":12563728,"date_created":"2021-02-04T07:49:25Z","creator":"dernst","file_id":"9083","relation":"main_file","success":1,"access_level":"open_access"}],"title":"Developmental roles of auxin binding protein 1 in Arabidopsis thaliana","intvolume":"       303","publication_status":"published","article_processing_charge":"Yes (via OA deal)","date_created":"2020-12-09T14:48:28Z","department":[{"_id":"JiFr"},{"_id":"Bio"}],"author":[{"id":"0AE74790-0E0B-11E9-ABC7-1ACFE5697425","orcid":"0000-0003-4783-1752","full_name":"Gelová, Zuzana","first_name":"Zuzana","last_name":"Gelová"},{"id":"35A03822-F248-11E8-B48F-1D18A9856A87","first_name":"Michelle C","last_name":"Gallei","orcid":"0000-0003-1286-7368","full_name":"Gallei, Michelle C"},{"first_name":"Markéta","last_name":"Pernisová","full_name":"Pernisová, Markéta"},{"first_name":"Géraldine","last_name":"Brunoud","full_name":"Brunoud, Géraldine"},{"last_name":"Zhang","first_name":"Xixi","full_name":"Zhang, Xixi","orcid":"0000-0001-7048-4627","id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A"},{"first_name":"Matous","last_name":"Glanc","orcid":"0000-0003-0619-7783","full_name":"Glanc, Matous","id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2"},{"full_name":"Li, Lanxin","orcid":"0000-0002-5607-272X","last_name":"Li","first_name":"Lanxin","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87"},{"id":"483727CA-F248-11E8-B48F-1D18A9856A87","first_name":"Jaroslav","last_name":"Michalko","full_name":"Michalko, Jaroslav"},{"first_name":"Zlata","last_name":"Pavlovicova","full_name":"Pavlovicova, Zlata"},{"first_name":"Inge","last_name":"Verstraeten","orcid":"0000-0001-7241-2328","full_name":"Verstraeten, Inge","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Han, Huibin","last_name":"Han","first_name":"Huibin","id":"31435098-F248-11E8-B48F-1D18A9856A87"},{"id":"4800CC20-F248-11E8-B48F-1D18A9856A87","full_name":"Hajny, Jakub","orcid":"0000-0003-2140-7195","last_name":"Hajny","first_name":"Jakub"},{"id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","last_name":"Hauschild","first_name":"Robert","full_name":"Hauschild, Robert","orcid":"0000-0001-9843-3522"},{"full_name":"Čovanová, Milada","last_name":"Čovanová","first_name":"Milada"},{"full_name":"Zwiewka, Marta","last_name":"Zwiewka","first_name":"Marta"},{"id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","full_name":"Hörmayer, Lukas","orcid":"0000-0001-8295-2926","last_name":"Hörmayer","first_name":"Lukas"},{"orcid":"0000-0002-9767-8699","full_name":"Fendrych, Matyas","first_name":"Matyas","last_name":"Fendrych","id":"43905548-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Xu, Tongda","last_name":"Xu","first_name":"Tongda"},{"full_name":"Vernoux, Teva","last_name":"Vernoux","first_name":"Teva"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří"}],"pmid":1,"_id":"8931","scopus_import":"1","article_type":"original","publisher":"Elsevier","file_date_updated":"2021-02-04T07:49:25Z","quality_controlled":"1","ec_funded":1,"abstract":[{"text":"Auxin is a major plant growth regulator, but current models on auxin perception and signaling cannot explain the whole plethora of auxin effects, in particular those associated with rapid responses. A possible candidate for a component of additional auxin perception mechanisms is the AUXIN BINDING PROTEIN 1 (ABP1), whose function in planta remains unclear.\r\nHere we combined expression analysis with gain- and loss-of-function approaches to analyze the role of ABP1 in plant development. ABP1 shows a broad expression largely overlapping with, but not regulated by, transcriptional auxin response activity. Furthermore, ABP1 activity is not essential for the transcriptional auxin signaling. Genetic in planta analysis revealed that abp1 loss-of-function mutants show largely normal development with minor defects in bolting. On the other hand, ABP1 gain-of-function alleles show a broad range of growth and developmental defects, including root and hypocotyl growth and bending, lateral root and leaf development, bolting, as well as response to heat stress. At the cellular level, ABP1 gain-of-function leads to impaired auxin effect on PIN polar distribution and affects BFA-sensitive PIN intracellular aggregation.\r\nThe gain-of-function analysis suggests a broad, but still mechanistically unclear involvement of ABP1 in plant development, possibly masked in abp1 loss-of-function mutants by a functional redundancy.","lang":"eng"}],"doi":"10.1016/j.plantsci.2020.110750","day":"01","isi":1,"external_id":{"pmid":["33487339"],"isi":["000614154500001"]},"date_updated":"2024-10-29T10:22:43Z","citation":{"ama":"Gelová Z, Gallei MC, Pernisová M, et al. Developmental roles of auxin binding protein 1 in Arabidopsis thaliana. <i>Plant Science</i>. 2021;303. doi:<a href=\"https://doi.org/10.1016/j.plantsci.2020.110750\">10.1016/j.plantsci.2020.110750</a>","apa":"Gelová, Z., Gallei, M. C., Pernisová, M., Brunoud, G., Zhang, X., Glanc, M., … Friml, J. (2021). Developmental roles of auxin binding protein 1 in Arabidopsis thaliana. <i>Plant Science</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.plantsci.2020.110750\">https://doi.org/10.1016/j.plantsci.2020.110750</a>","ieee":"Z. Gelová <i>et al.</i>, “Developmental roles of auxin binding protein 1 in Arabidopsis thaliana,” <i>Plant Science</i>, vol. 303. Elsevier, 2021.","chicago":"Gelová, Zuzana, Michelle C Gallei, Markéta Pernisová, Géraldine Brunoud, Xixi Zhang, Matous Glanc, Lanxin Li, et al. “Developmental Roles of Auxin Binding Protein 1 in Arabidopsis Thaliana.” <i>Plant Science</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.plantsci.2020.110750\">https://doi.org/10.1016/j.plantsci.2020.110750</a>.","mla":"Gelová, Zuzana, et al. “Developmental Roles of Auxin Binding Protein 1 in Arabidopsis Thaliana.” <i>Plant Science</i>, vol. 303, 110750, Elsevier, 2021, doi:<a href=\"https://doi.org/10.1016/j.plantsci.2020.110750\">10.1016/j.plantsci.2020.110750</a>.","short":"Z. Gelová, M.C. Gallei, M. Pernisová, G. Brunoud, X. Zhang, M. Glanc, L. Li, J. Michalko, Z. Pavlovicova, I. Verstraeten, H. Han, J. Hajny, R. Hauschild, M. Čovanová, M. Zwiewka, L. Hörmayer, M. Fendrych, T. Xu, T. Vernoux, J. Friml, Plant Science 303 (2021).","ista":"Gelová Z, Gallei MC, Pernisová M, Brunoud G, Zhang X, Glanc M, Li L, Michalko J, Pavlovicova Z, Verstraeten I, Han H, Hajny J, Hauschild R, Čovanová M, Zwiewka M, Hörmayer L, Fendrych M, Xu T, Vernoux T, Friml J. 2021. Developmental roles of auxin binding protein 1 in Arabidopsis thaliana. Plant Science. 303, 110750."},"year":"2021","ddc":["580"],"volume":303,"acknowledgement":"We would like to acknowledge Bioimaging and Life Science Facilities at IST Austria for continuous support and also the Plant Sciences Core Facility of CEITEC Masaryk University for their support with obtaining a part of the scientific data. We gratefully acknowledge Lindy Abas for help with ABP1::GFP-ABP1 construct design. This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program [grant agreement no. 742985] and Austrian Science Fund (FWF) [I 3630-B25] to J.F.; DOC Fellowship of the Austrian Academy of Sciences to L.L.; the European Structural and Investment Funds, Operational Programme Research, Development and Education - Project „MSCAfellow@MUNI“ [CZ.02.2.69/0.0/0.0/17_050/0008496] to M.P.. This project was also supported by the Czech Science Foundation [GA 20-20860Y] to M.Z and MEYS CR [project no.CZ.02.1.01/0.0/0.0/16_019/0000738] to M. Č."},{"abstract":[{"lang":"eng","text":"The phytohormone auxin plays a central role in shaping plant growth and development. With decades of genetic and biochemical studies, numerous core molecular components and their networks, underlying auxin biosynthesis, transport, and signaling, have been identified. Notably, protein phosphorylation, catalyzed by kinases and oppositely hydrolyzed by phosphatases, has been emerging to be a crucial type of post-translational modification, regulating physiological and developmental auxin output at all levels. In this review, we comprehensively discuss earlier and recent advances in our understanding of genetics, biochemistry, and cell biology of the kinases and phosphatases participating in auxin action. We provide insights into the mechanisms by which reversible protein phosphorylation defines developmental auxin responses, discuss current challenges, and provide our perspectives on future directions involving the integration of the control of protein phosphorylation into the molecular auxin network."}],"day":"04","doi":"10.1016/j.molp.2020.11.004","external_id":{"isi":["000605359400014"],"pmid":["33186755"]},"isi":1,"year":"2021","citation":{"short":"S. Tan, C. Luschnig, J. Friml, Molecular Plant 14 (2021) 151–165.","mla":"Tan, Shutang, et al. “Pho-View of Auxin: Reversible Protein Phosphorylation in Auxin Biosynthesis, Transport and Signaling.” <i>Molecular Plant</i>, vol. 14, no. 1, Elsevier, 2021, pp. 151–65, doi:<a href=\"https://doi.org/10.1016/j.molp.2020.11.004\">10.1016/j.molp.2020.11.004</a>.","ista":"Tan S, Luschnig C, Friml J. 2021. Pho-view of auxin: Reversible protein phosphorylation in auxin biosynthesis, transport and signaling. Molecular Plant. 14(1), 151–165.","ama":"Tan S, Luschnig C, Friml J. Pho-view of auxin: Reversible protein phosphorylation in auxin biosynthesis, transport and signaling. <i>Molecular Plant</i>. 2021;14(1):151-165. doi:<a href=\"https://doi.org/10.1016/j.molp.2020.11.004\">10.1016/j.molp.2020.11.004</a>","apa":"Tan, S., Luschnig, C., &#38; Friml, J. (2021). Pho-view of auxin: Reversible protein phosphorylation in auxin biosynthesis, transport and signaling. <i>Molecular Plant</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.molp.2020.11.004\">https://doi.org/10.1016/j.molp.2020.11.004</a>","chicago":"Tan, Shutang, Christian Luschnig, and Jiří Friml. “Pho-View of Auxin: Reversible Protein Phosphorylation in Auxin Biosynthesis, Transport and Signaling.” <i>Molecular Plant</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.molp.2020.11.004\">https://doi.org/10.1016/j.molp.2020.11.004</a>.","ieee":"S. Tan, C. Luschnig, and J. Friml, “Pho-view of auxin: Reversible protein phosphorylation in auxin biosynthesis, transport and signaling,” <i>Molecular Plant</i>, vol. 14, no. 1. Elsevier, pp. 151–165, 2021."},"date_updated":"2023-08-04T11:21:13Z","ddc":["580"],"volume":14,"acknowledgement":"This work was supported by the European Union’s Horizon 2020 Program (ERC grant agreement no. 742985 to J.F.). S.T. was funded by a European Molecular Biology Organization (EMBO) long-term postdoctoral fellowship (ALTF 723-2015). C.L. is supported by the Austrian Science Fund (FWF; P 31493).","intvolume":"        14","title":"Pho-view of auxin: Reversible protein phosphorylation in auxin biosynthesis, transport and signaling","department":[{"_id":"JiFr"}],"article_processing_charge":"No","date_created":"2021-01-03T23:01:23Z","publication_status":"published","issue":"1","author":[{"first_name":"Shutang","last_name":"Tan","orcid":"0000-0002-0471-8285","full_name":"Tan, Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Luschnig, Christian","first_name":"Christian","last_name":"Luschnig"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml"}],"scopus_import":"1","_id":"8992","pmid":1,"article_type":"original","publisher":"Elsevier","file_date_updated":"2021-01-07T14:03:53Z","quality_controlled":"1","ec_funded":1,"page":"151-165","oa":1,"publication_identifier":{"eissn":["17529867"],"issn":["16742052"]},"type":"journal_article","date_published":"2021-01-04T00:00:00Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","file":[{"file_id":"8995","creator":"dernst","success":1,"access_level":"open_access","relation":"main_file","date_updated":"2021-01-07T14:03:53Z","file_name":"2020_MolecularPlant_Tan.pdf","content_type":"application/pdf","date_created":"2021-01-07T14:03:53Z","file_size":871088,"checksum":"917e60e57092f22e16beac70b1775ea6"}],"month":"01","project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"_id":"256FEF10-B435-11E9-9278-68D0E5697425","grant_number":"723-2015","name":"Long Term Fellowship"}],"oa_version":"Published Version","has_accepted_license":"1","publication":"Molecular Plant","language":[{"iso":"eng"}]},{"volume":118,"acknowledgement":"This work was supported by Austrian Science Fund Grant FWF P21533-B20 (to L.A.); German Research Foundation Grant DFG HA3468/6-1 (to U.Z.H.); and European Research Council Grant 742985 (to J.F.). We thank Herta Steinkellner and Alexandra Castilho for N. benthamiana plants, Fabian Nagelreiter for statistical advice, Lanassa Bassukas for help with [ɣ32P]-\r\nATP assays, and Josef Penninger for providing access to mass spectrometry instruments at the Vienna BioCenter Core Facilities. We thank PNAS reviewers for the many comments and suggestions that helped to improve this manuscript.","year":"2021","citation":{"ista":"Abas L, Kolb M, Stadlmann J, Janacek DP, Lukic K, Schwechheimer C, Sazanov LA, Mach L, Friml J, Hammes UZ. 2021. Naphthylphthalamic acid associates with and inhibits PIN auxin transporters. PNAS. 118(1), e2020857118.","short":"L. Abas, M. Kolb, J. Stadlmann, D.P. Janacek, K. Lukic, C. Schwechheimer, L.A. Sazanov, L. Mach, J. Friml, U.Z. Hammes, PNAS 118 (2021).","mla":"Abas, Lindy, et al. “Naphthylphthalamic Acid Associates with and Inhibits PIN Auxin Transporters.” <i>PNAS</i>, vol. 118, no. 1, e2020857118, National Academy of Sciences, 2021, doi:<a href=\"https://doi.org/10.1073/pnas.2020857118\">10.1073/pnas.2020857118</a>.","ieee":"L. Abas <i>et al.</i>, “Naphthylphthalamic acid associates with and inhibits PIN auxin transporters,” <i>PNAS</i>, vol. 118, no. 1. National Academy of Sciences, 2021.","chicago":"Abas, Lindy, Martina Kolb, Johannes Stadlmann, Dorina P. Janacek, Kristina Lukic, Claus Schwechheimer, Leonid A Sazanov, Lukas Mach, Jiří Friml, and Ulrich Z. Hammes. “Naphthylphthalamic Acid Associates with and Inhibits PIN Auxin Transporters.” <i>PNAS</i>. National Academy of Sciences, 2021. <a href=\"https://doi.org/10.1073/pnas.2020857118\">https://doi.org/10.1073/pnas.2020857118</a>.","ama":"Abas L, Kolb M, Stadlmann J, et al. Naphthylphthalamic acid associates with and inhibits PIN auxin transporters. <i>PNAS</i>. 2021;118(1). doi:<a href=\"https://doi.org/10.1073/pnas.2020857118\">10.1073/pnas.2020857118</a>","apa":"Abas, L., Kolb, M., Stadlmann, J., Janacek, D. P., Lukic, K., Schwechheimer, C., … Hammes, U. Z. (2021). Naphthylphthalamic acid associates with and inhibits PIN auxin transporters. <i>PNAS</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2020857118\">https://doi.org/10.1073/pnas.2020857118</a>"},"date_updated":"2023-08-07T13:29:23Z","external_id":{"pmid":["33443187"],"isi":["000607270100073"]},"isi":1,"day":"05","doi":"10.1073/pnas.2020857118","abstract":[{"text":"N-1-naphthylphthalamic acid (NPA) is a key inhibitor of directional (polar) transport of the hormone auxin in plants. For decades, it has been a pivotal tool in elucidating the unique polar auxin transport-based processes underlying plant growth and development. Its exact mode of action has long been sought after and is still being debated, with prevailing mechanistic schemes describing only indirect connections between NPA and the main transporters responsible for directional transport, namely PIN auxin exporters. Here we present data supporting a model in which NPA associates with PINs in a more direct manner than hitherto postulated. We show that NPA inhibits PIN activity in a heterologous oocyte system and that expression of NPA-sensitive PINs in plant, yeast, and oocyte membranes leads to specific saturable NPA binding. We thus propose that PINs are a bona fide NPA target. This offers a straightforward molecular basis for NPA inhibition of PIN-dependent auxin transport and a logical parsimonious explanation for the known physiological effects of NPA on plant growth, as well as an alternative hypothesis to interpret past and future results. We also introduce PIN dimerization and describe an effect of NPA on this, suggesting that NPA binding could be exploited to gain insights into structural aspects of PINs related to their transport mechanism.","lang":"eng"}],"ec_funded":1,"quality_controlled":"1","publisher":"National Academy of Sciences","article_type":"original","scopus_import":"1","_id":"8993","pmid":1,"issue":"1","author":[{"full_name":"Abas, Lindy","first_name":"Lindy","last_name":"Abas"},{"full_name":"Kolb, Martina","first_name":"Martina","last_name":"Kolb"},{"first_name":"Johannes","last_name":"Stadlmann","full_name":"Stadlmann, Johannes"},{"first_name":"Dorina P.","last_name":"Janacek","full_name":"Janacek, Dorina P."},{"id":"2B04DB84-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1581-881X","full_name":"Lukic, Kristina","first_name":"Kristina","last_name":"Lukic"},{"last_name":"Schwechheimer","first_name":"Claus","full_name":"Schwechheimer, Claus"},{"first_name":"Leonid A","last_name":"Sazanov","orcid":"0000-0002-0977-7989","full_name":"Sazanov, Leonid A","id":"338D39FE-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Mach, Lukas","first_name":"Lukas","last_name":"Mach"},{"first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Hammes, Ulrich Z.","first_name":"Ulrich Z.","last_name":"Hammes"}],"department":[{"_id":"JiFr"},{"_id":"LeSa"}],"date_created":"2021-01-03T23:01:23Z","article_processing_charge":"No","publication_status":"published","intvolume":"       118","title":"Naphthylphthalamic acid associates with and inhibits PIN auxin transporters","main_file_link":[{"url":"https://doi.org/10.1073/pnas.2020857118","open_access":"1"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","related_material":{"link":[{"relation":"erratum","url":"https://doi.org/10.1073/pnas.2102232118"}]},"type":"journal_article","date_published":"2021-01-05T00:00:00Z","publication_identifier":{"eissn":["10916490"],"issn":["00278424"]},"oa":1,"language":[{"iso":"eng"}],"publication":"PNAS","project":[{"grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"oa_version":"Published Version","article_number":"e2020857118","month":"01"},{"_id":"14988","has_accepted_license":"1","author":[{"id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843","full_name":"Johnson, Alexander J","first_name":"Alexander J","last_name":"Johnson"}],"oa_version":"Published Version","date_created":"2024-02-14T14:13:48Z","article_processing_charge":"No","department":[{"_id":"JiFr"}],"title":"Raw data from Johnson et al, PNAS, 2021","month":"12","publisher":"Zenodo","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_updated":"2024-02-19T11:06:09Z","year":"2021","citation":{"short":"A.J. Johnson, (2021).","mla":"Johnson, Alexander J. <i>Raw Data from Johnson et Al, PNAS, 2021</i>. Zenodo, 2021, doi:<a href=\"https://doi.org/10.5281/ZENODO.5747100\">10.5281/ZENODO.5747100</a>.","ista":"Johnson AJ. 2021. Raw data from Johnson et al, PNAS, 2021, Zenodo, <a href=\"https://doi.org/10.5281/ZENODO.5747100\">10.5281/ZENODO.5747100</a>.","ama":"Johnson AJ. Raw data from Johnson et al, PNAS, 2021. 2021. doi:<a href=\"https://doi.org/10.5281/ZENODO.5747100\">10.5281/ZENODO.5747100</a>","apa":"Johnson, A. J. (2021). Raw data from Johnson et al, PNAS, 2021. Zenodo. <a href=\"https://doi.org/10.5281/ZENODO.5747100\">https://doi.org/10.5281/ZENODO.5747100</a>","chicago":"Johnson, Alexander J. “Raw Data from Johnson et Al, PNAS, 2021.” Zenodo, 2021. <a href=\"https://doi.org/10.5281/ZENODO.5747100\">https://doi.org/10.5281/ZENODO.5747100</a>.","ieee":"A. J. Johnson, “Raw data from Johnson et al, PNAS, 2021.” Zenodo, 2021."},"date_published":"2021-12-01T00:00:00Z","type":"research_data_reference","doi":"10.5281/ZENODO.5747100","day":"01","abstract":[{"lang":"eng","text":"Raw data generated from the publication - The TPLATE complex mediates membrane bending during plant clathrin-mediated endocytosis by Johnson et al., 2021 In PNAS"}],"oa":1,"main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.5747100"}],"ddc":["580"],"related_material":{"record":[{"relation":"used_in_publication","id":"9887","status":"public"}]},"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"article_type":"original","publisher":"Embo Press","file_date_updated":"2021-02-11T12:28:29Z","quality_controlled":"1","intvolume":"        40","title":"Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport","date_created":"2021-01-17T23:01:12Z","article_processing_charge":"Yes (via OA deal)","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"publication_status":"published","issue":"3","author":[{"orcid":"0000-0002-5503-4983","full_name":"Ötvös, Krisztina","first_name":"Krisztina","last_name":"Ötvös","id":"29B901B0-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Marconi, Marco","first_name":"Marco","last_name":"Marconi"},{"full_name":"Vega, Andrea","first_name":"Andrea","last_name":"Vega"},{"first_name":"Jose","last_name":"O’Brien","full_name":"O’Brien, Jose"},{"id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","full_name":"Johnson, Alexander J","orcid":"0000-0002-2739-8843","last_name":"Johnson","first_name":"Alexander J"},{"full_name":"Abualia, Rashed","orcid":"0000-0002-9357-9415","last_name":"Abualia","first_name":"Rashed","id":"4827E134-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Antonielli","first_name":"Livio","full_name":"Antonielli, Livio"},{"id":"310A8E3E-F248-11E8-B48F-1D18A9856A87","full_name":"Montesinos López, Juan C","orcid":"0000-0001-9179-6099","last_name":"Montesinos López","first_name":"Juan C"},{"id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","first_name":"Yuzhou","last_name":"Zhang","orcid":"0000-0003-2627-6956","full_name":"Zhang, Yuzhou"},{"last_name":"Tan","first_name":"Shutang","full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Cuesta","first_name":"Candela","full_name":"Cuesta, Candela","orcid":"0000-0003-1923-2410","id":"33A3C818-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Artner","first_name":"Christina","full_name":"Artner, Christina","id":"45DF286A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Bouguyon","first_name":"Eleonore","full_name":"Bouguyon, Eleonore"},{"full_name":"Gojon, Alain","last_name":"Gojon","first_name":"Alain"},{"first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Gutiérrez","first_name":"Rodrigo A.","full_name":"Gutiérrez, Rodrigo A."},{"orcid":"0000-0001-7263-0560","full_name":"Wabnik, Krzysztof T","first_name":"Krzysztof T","last_name":"Wabnik","id":"4DE369A4-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Eva","last_name":"Benková","orcid":"0000-0002-8510-9739","full_name":"Benková, Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"}],"scopus_import":"1","_id":"9010","pmid":1,"ddc":["580"],"volume":40,"acknowledgement":"We acknowledge Gergely Molnar for critical reading of the manuscript, Alexander Johnson for language editing and Yulija Salanenka for technical assistance. Work in the Benkova laboratory was supported by the Austrian Science Fund (FWF01_I1774S) to KO, RA and EB. Work in the Benkova laboratory was supported by the Austrian Science Fund (FWF01_I1774S) to KO, RA and EB and by the DOC Fellowship Programme of the AustrianAcademy of Sciences (25008) to C.A. Work in the Wabnik laboratory was supported by the Programa de Atraccion de Talento 2017 (Comunidad deMadrid, 2017-T1/BIO-5654 to K.W.), Severo Ochoa Programme for Centres of Excellence in R&D from the Agencia Estatal de Investigacion of Spain (grantSEV-2016-0672 (2017-2021) to K.W. via the CBGP) and Programa Estatal de Generacion del Conocimiento y Fortalecimiento Científico y Tecnologico del Sistema de I+D+I 2019 (PGC2018-093387-A-I00) from MICIU (to K.W.). M.M.was supported by a postdoctoral contract associated to SEV-2016-0672.We acknowledge the Bioimaging Facility in IST-Austria and the Advanced Microscopy Facility of the Vienna Bio Center Core Facilities, member of the Vienna Bio Center Austria, for use of the OMX v43D SIM microscope. AJ was supported by the Austrian Science Fund (FWF): I03630 to J.F","abstract":[{"lang":"eng","text":"Availability of the essential macronutrient nitrogen in soil plays a critical role in plant growth, development, and impacts agricultural productivity. Plants have evolved different strategies for sensing and responding to heterogeneous nitrogen distribution. Modulation of root system architecture, including primary root growth and branching, is among the most essential plant adaptions to ensure adequate nitrogen acquisition. However, the immediate molecular pathways coordinating the adjustment of root growth in response to distinct nitrogen sources, such as nitrate or ammonium, are poorly understood. Here, we show that growth as manifested by cell division and elongation is synchronized by coordinated auxin flux between two adjacent outer tissue layers of the root. This coordination is achieved by nitrate‐dependent dephosphorylation of the PIN2 auxin efflux carrier at a previously uncharacterized phosphorylation site, leading to subsequent PIN2 lateralization and thereby regulating auxin flow between adjacent tissues. A dynamic computer model based on our experimental data successfully recapitulates experimental observations. Our study provides mechanistic insights broadening our understanding of root growth mechanisms in dynamic environments."}],"day":"01","doi":"10.15252/embj.2020106862","external_id":{"isi":["000604645600001"],"pmid":[" 33399250"]},"isi":1,"citation":{"mla":"Ötvös, Krisztina, et al. “Modulation of Plant Root Growth by Nitrogen Source-Defined Regulation of Polar Auxin Transport.” <i>EMBO Journal</i>, vol. 40, no. 3, e106862, Embo Press, 2021, doi:<a href=\"https://doi.org/10.15252/embj.2020106862\">10.15252/embj.2020106862</a>.","short":"K. Ötvös, M. Marconi, A. Vega, J. O’Brien, A.J. Johnson, R. Abualia, L. Antonielli, J.C. Montesinos López, Y. Zhang, S. Tan, C. Cuesta, C. Artner, E. Bouguyon, A. Gojon, J. Friml, R.A. Gutiérrez, K.T. Wabnik, E. Benková, EMBO Journal 40 (2021).","ista":"Ötvös K, Marconi M, Vega A, O’Brien J, Johnson AJ, Abualia R, Antonielli L, Montesinos López JC, Zhang Y, Tan S, Cuesta C, Artner C, Bouguyon E, Gojon A, Friml J, Gutiérrez RA, Wabnik KT, Benková E. 2021. Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport. EMBO Journal. 40(3), e106862.","ama":"Ötvös K, Marconi M, Vega A, et al. Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport. <i>EMBO Journal</i>. 2021;40(3). doi:<a href=\"https://doi.org/10.15252/embj.2020106862\">10.15252/embj.2020106862</a>","apa":"Ötvös, K., Marconi, M., Vega, A., O’Brien, J., Johnson, A. J., Abualia, R., … Benková, E. (2021). Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport. <i>EMBO Journal</i>. Embo Press. <a href=\"https://doi.org/10.15252/embj.2020106862\">https://doi.org/10.15252/embj.2020106862</a>","ieee":"K. Ötvös <i>et al.</i>, “Modulation of plant root growth by nitrogen source-defined regulation of polar auxin transport,” <i>EMBO Journal</i>, vol. 40, no. 3. Embo Press, 2021.","chicago":"Ötvös, Krisztina, Marco Marconi, Andrea Vega, Jose O’Brien, Alexander J Johnson, Rashed Abualia, Livio Antonielli, et al. “Modulation of Plant Root Growth by Nitrogen Source-Defined Regulation of Polar Auxin Transport.” <i>EMBO Journal</i>. Embo Press, 2021. <a href=\"https://doi.org/10.15252/embj.2020106862\">https://doi.org/10.15252/embj.2020106862</a>."},"year":"2021","date_updated":"2024-03-25T23:30:22Z","language":[{"iso":"eng"}],"article_number":"e106862","month":"02","project":[{"_id":"2542D156-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"I 1774-B16","name":"Hormone cross-talk drives nutrient dependent plant development"},{"name":"Hormonal regulation of plant adaptive responses to environmental signals","_id":"2685A872-B435-11E9-9278-68D0E5697425"},{"grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"acknowledged_ssus":[{"_id":"Bio"}],"oa_version":"Published Version","has_accepted_license":"1","publication":"EMBO Journal","status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/a-plants-way-to-its-favorite-food/"}],"record":[{"id":"10303","relation":"dissertation_contains","status":"public"}]},"file":[{"file_size":2358617,"checksum":"dc55c900f3b061d6c2790b8813d759a3","date_created":"2021-02-11T12:28:29Z","file_name":"2021_Embo_Otvos.pdf","content_type":"application/pdf","date_updated":"2021-02-11T12:28:29Z","success":1,"relation":"main_file","access_level":"open_access","creator":"dernst","file_id":"9110"}],"oa":1,"publication_identifier":{"issn":["02614189"],"eissn":["14602075"]},"type":"journal_article","date_published":"2021-02-01T00:00:00Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"}},{"language":[{"iso":"eng"}],"oa_version":"Submitted Version","month":"06","publication":"Plant, Cell & Environment","has_accepted_license":"1","file":[{"relation":"main_file","access_level":"open_access","success":1,"file_id":"14481","creator":"amally","date_created":"2023-11-02T17:02:11Z","file_size":8437528,"checksum":"a812418fede076741c9c4dc07f317068","date_updated":"2023-11-02T17:02:11Z","content_type":"application/pdf","file_name":"Zhao PlantCellEnv 2021_accepted.pdf"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","publication_identifier":{"eissn":["1365-3040"],"issn":["0140-7791"]},"oa":1,"date_published":"2021-06-01T00:00:00Z","type":"journal_article","publisher":"Wiley","article_type":"original","page":"1846-1857","quality_controlled":"1","file_date_updated":"2023-11-02T17:02:11Z","publication_status":"published","date_created":"2021-02-24T10:07:21Z","department":[{"_id":"JiFr"}],"article_processing_charge":"No","title":"INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance","intvolume":"        44","_id":"9189","pmid":1,"scopus_import":"1","author":[{"last_name":"Zhao","first_name":"Y","full_name":"Zhao, Y"},{"full_name":"Wu, L","first_name":"L","last_name":"Wu"},{"full_name":"Fu, Q","last_name":"Fu","first_name":"Q"},{"last_name":"Wang","first_name":"D","full_name":"Wang, D"},{"full_name":"Li, J","first_name":"J","last_name":"Li"},{"full_name":"Yao, B","last_name":"Yao","first_name":"B"},{"full_name":"Yu, S","last_name":"Yu","first_name":"S"},{"first_name":"L","last_name":"Jiang","full_name":"Jiang, L"},{"full_name":"Qian, J","last_name":"Qian","first_name":"J"},{"first_name":"X","last_name":"Zhou","full_name":"Zhou, X"},{"full_name":"Han, L","last_name":"Han","first_name":"L"},{"full_name":"Zhao, S","last_name":"Zhao","first_name":"S"},{"last_name":"Ma","first_name":"C","full_name":"Ma, C"},{"full_name":"Zhang, Y","first_name":"Y","last_name":"Zhang"},{"full_name":"Luo, C","first_name":"C","last_name":"Luo"},{"full_name":"Dong, Q","first_name":"Q","last_name":"Dong"},{"first_name":"S","last_name":"Li","full_name":"Li, S"},{"full_name":"Zhang, L","last_name":"Zhang","first_name":"L"},{"first_name":"X","last_name":"Jiang","full_name":"Jiang, X"},{"full_name":"Li, Y","first_name":"Y","last_name":"Li"},{"last_name":"Luo","first_name":"H","full_name":"Luo, H"},{"last_name":"Li","first_name":"K","full_name":"Li, K"},{"full_name":"Yang, J","first_name":"J","last_name":"Yang"},{"full_name":"Luo, Q","first_name":"Q","last_name":"Luo"},{"full_name":"Li, L","first_name":"L","last_name":"Li"},{"last_name":"Peng","first_name":"S","full_name":"Peng, S"},{"full_name":"Huang, H","first_name":"H","last_name":"Huang"},{"last_name":"Zuo","first_name":"Z","full_name":"Zuo, Z"},{"last_name":"Liu","first_name":"C","full_name":"Liu, C"},{"first_name":"L","last_name":"Wang","full_name":"Wang, L"},{"last_name":"Li","first_name":"C","full_name":"Li, C"},{"first_name":"X","last_name":"He","full_name":"He, X"},{"last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Du, Y","last_name":"Du","first_name":"Y"}],"issue":"6","volume":44,"ddc":["580"],"doi":"10.1111/pce.14029","day":"01","abstract":[{"text":"Transposable elements exist widely throughout plant genomes and play important roles in plant evolution. Auxin is an important regulator that is traditionally associated with root development and drought stress adaptation. The DEEPER ROOTING 1 (DRO1) gene is a key component of rice drought avoidance. Here, we identified a transposon that acts as an autonomous auxin‐responsive promoter and its presence at specific genome positions conveys physiological adaptations related to drought avoidance. Rice varieties with high and auxin‐mediated transcription of DRO1 in the root tip show deeper and longer root phenotypes and are thus better adapted to drought. The INDITTO2 transposon contains an auxin response element and displays auxin‐responsive promoter activity; it is thus able to convey auxin regulation of transcription to genes in its proximity. In the rice Acuce, which displays DRO1‐mediated drought adaptation, the INDITTO2 transposon was found to be inserted at the promoter region of the DRO1 locus. Transgenesis‐based insertion of the INDITTO2 transposon into the DRO1 promoter of the non‐adapted rice variety Nipponbare was sufficient to promote its drought avoidance. Our data identify an example of how transposons can act as promoters and convey hormonal regulation to nearby loci, improving plant fitness in response to different abiotic stresses.","lang":"eng"}],"date_updated":"2023-11-07T08:18:36Z","year":"2021","citation":{"short":"Y. Zhao, L. Wu, Q. Fu, D. Wang, J. Li, B. Yao, S. Yu, L. Jiang, J. Qian, X. Zhou, L. Han, S. Zhao, C. Ma, Y. Zhang, C. Luo, Q. Dong, S. Li, L. Zhang, X. Jiang, Y. Li, H. Luo, K. Li, J. Yang, Q. Luo, L. Li, S. Peng, H. Huang, Z. Zuo, C. Liu, L. Wang, C. Li, X. He, J. Friml, Y. Du, Plant, Cell &#38; Environment 44 (2021) 1846–1857.","mla":"Zhao, Y., et al. “INDITTO2 Transposon Conveys Auxin-Mediated DRO1 Transcription for Rice Drought Avoidance.” <i>Plant, Cell &#38; Environment</i>, vol. 44, no. 6, Wiley, 2021, pp. 1846–57, doi:<a href=\"https://doi.org/10.1111/pce.14029\">10.1111/pce.14029</a>.","ista":"Zhao Y, Wu L, Fu Q, Wang D, Li J, Yao B, Yu S, Jiang L, Qian J, Zhou X, Han L, Zhao S, Ma C, Zhang Y, Luo C, Dong Q, Li S, Zhang L, Jiang X, Li Y, Luo H, Li K, Yang J, Luo Q, Li L, Peng S, Huang H, Zuo Z, Liu C, Wang L, Li C, He X, Friml J, Du Y. 2021. INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance. Plant, Cell &#38; Environment. 44(6), 1846–1857.","ama":"Zhao Y, Wu L, Fu Q, et al. INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance. <i>Plant, Cell &#38; Environment</i>. 2021;44(6):1846-1857. doi:<a href=\"https://doi.org/10.1111/pce.14029\">10.1111/pce.14029</a>","apa":"Zhao, Y., Wu, L., Fu, Q., Wang, D., Li, J., Yao, B., … Du, Y. (2021). INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance. <i>Plant, Cell &#38; Environment</i>. Wiley. <a href=\"https://doi.org/10.1111/pce.14029\">https://doi.org/10.1111/pce.14029</a>","ieee":"Y. Zhao <i>et al.</i>, “INDITTO2 transposon conveys auxin-mediated DRO1 transcription for rice drought avoidance,” <i>Plant, Cell &#38; Environment</i>, vol. 44, no. 6. Wiley, pp. 1846–1857, 2021.","chicago":"Zhao, Y, L Wu, Q Fu, D Wang, J Li, B Yao, S Yu, et al. “INDITTO2 Transposon Conveys Auxin-Mediated DRO1 Transcription for Rice Drought Avoidance.” <i>Plant, Cell &#38; Environment</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/pce.14029\">https://doi.org/10.1111/pce.14029</a>."},"isi":1,"external_id":{"isi":["000625398600001"],"pmid":["33576018"]}},{"quality_controlled":"1","file_date_updated":"2021-03-22T11:18:58Z","publisher":"Springer Nature","article_type":"original","scopus_import":"1","_id":"9254","pmid":1,"author":[{"full_name":"Hu, Yangjie","last_name":"Hu","first_name":"Yangjie"},{"last_name":"Omary","first_name":"Moutasem","full_name":"Omary, Moutasem"},{"full_name":"Hu, Yun","first_name":"Yun","last_name":"Hu"},{"first_name":"Ohad","last_name":"Doron","full_name":"Doron, Ohad"},{"first_name":"Lukas","last_name":"Hörmayer","full_name":"Hörmayer, Lukas","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Chen, Qingguo","last_name":"Chen","first_name":"Qingguo"},{"full_name":"Megides, Or","last_name":"Megides","first_name":"Or"},{"last_name":"Chekli","first_name":"Ori","full_name":"Chekli, Ori"},{"last_name":"Ding","first_name":"Zhaojun","full_name":"Ding, Zhaojun"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml"},{"full_name":"Zhao, Yunde","first_name":"Yunde","last_name":"Zhao"},{"first_name":"Ilan","last_name":"Tsarfaty","full_name":"Tsarfaty, Ilan"},{"full_name":"Shani, Eilon","last_name":"Shani","first_name":"Eilon"}],"department":[{"_id":"JiFr"}],"article_processing_charge":"No","date_created":"2021-03-21T23:01:19Z","publication_status":"published","intvolume":"        12","title":"Cell kinetics of auxin transport and activity in Arabidopsis root growth and skewing","volume":12,"acknowledgement":"This work was supported by grants from the Israel Science Foundation (2378/19 to E.S.), the Joint NSFC-ISF Research Grant (3419/20 to E.S. and Z.D.), the Human Frontier Science Program (HFSP—LIY000540/2020 to E.S.), the European Research Council Starting Grant (757683- RobustHormoneTrans to E.S.), PBC postdoctoral fellowships (to Y.H. and M.O.), NIH (GM114660 to Y.Z.), Breast Cancer Research Foundation (BCRF to I.T.).","ddc":["580"],"year":"2021","citation":{"ista":"Hu Y, Omary M, Hu Y, Doron O, Hörmayer L, Chen Q, Megides O, Chekli O, Ding Z, Friml J, Zhao Y, Tsarfaty I, Shani E. 2021. Cell kinetics of auxin transport and activity in Arabidopsis root growth and skewing. Nature Communications. 12, 1657.","short":"Y. Hu, M. Omary, Y. Hu, O. Doron, L. Hörmayer, Q. Chen, O. Megides, O. Chekli, Z. Ding, J. Friml, Y. Zhao, I. Tsarfaty, E. Shani, Nature Communications 12 (2021).","mla":"Hu, Yangjie, et al. “Cell Kinetics of Auxin Transport and Activity in Arabidopsis Root Growth and Skewing.” <i>Nature Communications</i>, vol. 12, 1657, Springer Nature, 2021, doi:<a href=\"https://doi.org/10.1038/s41467-021-21802-3\">10.1038/s41467-021-21802-3</a>.","ieee":"Y. Hu <i>et al.</i>, “Cell kinetics of auxin transport and activity in Arabidopsis root growth and skewing,” <i>Nature Communications</i>, vol. 12. Springer Nature, 2021.","chicago":"Hu, Yangjie, Moutasem Omary, Yun Hu, Ohad Doron, Lukas Hörmayer, Qingguo Chen, Or Megides, et al. “Cell Kinetics of Auxin Transport and Activity in Arabidopsis Root Growth and Skewing.” <i>Nature Communications</i>. Springer Nature, 2021. <a href=\"https://doi.org/10.1038/s41467-021-21802-3\">https://doi.org/10.1038/s41467-021-21802-3</a>.","apa":"Hu, Y., Omary, M., Hu, Y., Doron, O., Hörmayer, L., Chen, Q., … Shani, E. (2021). Cell kinetics of auxin transport and activity in Arabidopsis root growth and skewing. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-021-21802-3\">https://doi.org/10.1038/s41467-021-21802-3</a>","ama":"Hu Y, Omary M, Hu Y, et al. Cell kinetics of auxin transport and activity in Arabidopsis root growth and skewing. <i>Nature Communications</i>. 2021;12. doi:<a href=\"https://doi.org/10.1038/s41467-021-21802-3\">10.1038/s41467-021-21802-3</a>"},"date_updated":"2023-08-07T14:17:55Z","external_id":{"pmid":["33712581"],"isi":["000630419400048"]},"isi":1,"day":"12","doi":"10.1038/s41467-021-21802-3","abstract":[{"lang":"eng","text":"Auxin is a key regulator of plant growth and development. Local auxin biosynthesis and intercellular transport generates regional gradients in the root that are instructive for processes such as specification of developmental zones that maintain root growth and tropic responses. Here we present a toolbox to study auxin-mediated root development that features: (i) the ability to control auxin synthesis with high spatio-temporal resolution and (ii) single-cell nucleus tracking and morphokinetic analysis infrastructure. Integration of these two features enables cutting-edge analysis of root development at single-cell resolution based on morphokinetic parameters under normal growth conditions and during cell-type-specific induction of auxin biosynthesis. We show directional auxin flow in the root and refine the contributions of key players in this process. In addition, we determine the quantitative kinetics of Arabidopsis root meristem skewing, which depends on local auxin gradients but does not require PIN2 and AUX1 auxin transporter activities. Beyond the mechanistic insights into root development, the tools developed here will enable biologists to study kinetics and morphology of various critical processes at the single cell-level in whole organisms."}],"language":[{"iso":"eng"}],"has_accepted_license":"1","publication":"Nature Communications","oa_version":"Published Version","article_number":"1657","month":"03","file":[{"relation":"main_file","access_level":"open_access","success":1,"creator":"dernst","file_id":"9275","file_size":8602096,"checksum":"e1022f3aee349853ded2b2b3e092362d","date_created":"2021-03-22T11:18:58Z","content_type":"application/pdf","file_name":"2021_NatureComm_Hu.pdf","date_updated":"2021-03-22T11:18:58Z"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"type":"journal_article","date_published":"2021-03-12T00:00:00Z","publication_identifier":{"eissn":["20411723"]},"oa":1},{"oa":1,"publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"date_published":"2021-06-01T00:00:00Z","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"status":"public","related_material":{"link":[{"relation":"erratum","url":"10.1093/plphys/kiab380"}],"record":[{"id":"11626","relation":"dissertation_contains","status":"public"},{"status":"public","id":"10083","relation":"dissertation_contains"}]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"file_id":"10273","creator":"cziletti","access_level":"open_access","success":1,"relation":"main_file","date_updated":"2021-11-11T15:07:51Z","file_name":"2021_PlantPhysio_Narasimhan.pdf","content_type":"application/pdf","date_created":"2021-11-11T15:07:51Z","file_size":2289127,"checksum":"532bb9469d3b665907f06df8c383eade"}],"month":"06","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"Bio"}],"oa_version":"Published Version","project":[{"call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985"},{"name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"publication":"Plant Physiology","has_accepted_license":"1","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"The phytohormone auxin and its directional transport through tissues are intensively studied. However, a mechanistic understanding of auxin-mediated feedback on endocytosis and polar distribution of PIN auxin transporters remains limited due to contradictory observations and interpretations. Here, we used state-of-the-art methods to reexamine the\r\nauxin effects on PIN endocytic trafficking. We used high auxin concentrations or longer treatments versus lower concentrations and shorter treatments of natural (IAA) and synthetic (NAA) auxins to distinguish between specific and nonspecific effects. Longer treatments of both auxins interfere with Brefeldin A-mediated intracellular PIN2 accumulation and also with general aggregation of endomembrane compartments. NAA treatment decreased the internalization of the endocytic tracer dye, FM4-64; however, NAA treatment also affected the number, distribution, and compartment identity of the early endosome/trans-Golgi network (EE/TGN), rendering the FM4-64 endocytic assays at high NAA concentrations unreliable. To circumvent these nonspecific effects of NAA and IAA affecting the endomembrane system, we opted for alternative approaches visualizing the endocytic events directly at the plasma membrane (PM). Using Total Internal Reflection Fluorescence (TIRF) microscopy, we saw no significant effects of IAA or NAA treatments on the incidence and dynamics of clathrin foci, implying that these treatments do not affect the overall endocytosis rate. However, both NAA and IAA at low concentrations rapidly and specifically promoted endocytosis of photo-converted PIN2 from the PM. These analyses identify a specific effect of NAA and IAA on PIN2 endocytosis, thus contributing to its\r\npolarity maintenance and furthermore illustrate that high auxin levels have nonspecific effects on trafficking and endomembrane compartments. "}],"doi":"10.1093/plphys/kiab134","day":"01","isi":1,"external_id":{"pmid":["33734402"],"isi":["000671555900031"]},"date_updated":"2024-10-29T10:22:43Z","citation":{"ieee":"M. Narasimhan <i>et al.</i>, “Systematic analysis of specific and nonspecific auxin effects on endocytosis and trafficking,” <i>Plant Physiology</i>, vol. 186, no. 2. Oxford University Press, pp. 1122–1142, 2021.","chicago":"Narasimhan, Madhumitha, Michelle C Gallei, Shutang Tan, Alexander J Johnson, Inge Verstraeten, Lanxin Li, Lesia Rodriguez Solovey, et al. “Systematic Analysis of Specific and Nonspecific Auxin Effects on Endocytosis and Trafficking.” <i>Plant Physiology</i>. Oxford University Press, 2021. <a href=\"https://doi.org/10.1093/plphys/kiab134\">https://doi.org/10.1093/plphys/kiab134</a>.","apa":"Narasimhan, M., Gallei, M. C., Tan, S., Johnson, A. J., Verstraeten, I., Li, L., … Friml, J. (2021). Systematic analysis of specific and nonspecific auxin effects on endocytosis and trafficking. <i>Plant Physiology</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/plphys/kiab134\">https://doi.org/10.1093/plphys/kiab134</a>","ama":"Narasimhan M, Gallei MC, Tan S, et al. Systematic analysis of specific and nonspecific auxin effects on endocytosis and trafficking. <i>Plant Physiology</i>. 2021;186(2):1122–1142. doi:<a href=\"https://doi.org/10.1093/plphys/kiab134\">10.1093/plphys/kiab134</a>","ista":"Narasimhan M, Gallei MC, Tan S, Johnson AJ, Verstraeten I, Li L, Rodriguez Solovey L, Han H, Himschoot E, Wang R, Vanneste S, Sánchez-Simarro J, Aniento F, Adamowski M, Friml J. 2021. Systematic analysis of specific and nonspecific auxin effects on endocytosis and trafficking. Plant Physiology. 186(2), 1122–1142.","mla":"Narasimhan, Madhumitha, et al. “Systematic Analysis of Specific and Nonspecific Auxin Effects on Endocytosis and Trafficking.” <i>Plant Physiology</i>, vol. 186, no. 2, Oxford University Press, 2021, pp. 1122–1142, doi:<a href=\"https://doi.org/10.1093/plphys/kiab134\">10.1093/plphys/kiab134</a>.","short":"M. Narasimhan, M.C. Gallei, S. Tan, A.J. Johnson, I. Verstraeten, L. Li, L. Rodriguez Solovey, H. Han, E. Himschoot, R. Wang, S. Vanneste, J. Sánchez-Simarro, F. Aniento, M. Adamowski, J. Friml, Plant Physiology 186 (2021) 1122–1142."},"year":"2021","ddc":["580"],"volume":186,"acknowledgement":"We thank Ivan Kulik for developing the Chip’n’Dale apparatus with Lanxin Li; the IST machine shop and the Bioimaging facility for their excellent support; Matouš Glanc and Matyáš Fendrych for their valuable discussions and help; Barbara Casillas-Perez for her help with statistics. This project has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (grant agreement No 742985). A.J. is supported by funding from the Austrian Science Fund (FWF): I3630B25 to J.F. ","title":"Systematic analysis of specific and nonspecific auxin effects on endocytosis and trafficking","intvolume":"       186","publication_status":"published","date_created":"2021-03-26T12:08:38Z","department":[{"_id":"JiFr"}],"article_processing_charge":"Yes (in subscription journal)","author":[{"id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","full_name":"Narasimhan, Madhumitha","orcid":"0000-0002-8600-0671","last_name":"Narasimhan","first_name":"Madhumitha"},{"first_name":"Michelle C","last_name":"Gallei","orcid":"0000-0003-1286-7368","full_name":"Gallei, Michelle C","id":"35A03822-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Tan","first_name":"Shutang","full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","full_name":"Johnson, Alexander J","orcid":"0000-0002-2739-8843","last_name":"Johnson","first_name":"Alexander J"},{"full_name":"Verstraeten, Inge","orcid":"0000-0001-7241-2328","last_name":"Verstraeten","first_name":"Inge","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87"},{"id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","last_name":"Li","first_name":"Lanxin","full_name":"Li, Lanxin","orcid":"0000-0002-5607-272X"},{"full_name":"Rodriguez Solovey, Lesia","orcid":"0000-0002-7244-7237","last_name":"Rodriguez Solovey","first_name":"Lesia","id":"3922B506-F248-11E8-B48F-1D18A9856A87"},{"id":"31435098-F248-11E8-B48F-1D18A9856A87","full_name":"Han, Huibin","last_name":"Han","first_name":"Huibin"},{"last_name":"Himschoot","first_name":"E","full_name":"Himschoot, E"},{"last_name":"Wang","first_name":"R","full_name":"Wang, R"},{"last_name":"Vanneste","first_name":"S","full_name":"Vanneste, S"},{"last_name":"Sánchez-Simarro","first_name":"J","full_name":"Sánchez-Simarro, J"},{"last_name":"Aniento","first_name":"F","full_name":"Aniento, F"},{"id":"45F536D2-F248-11E8-B48F-1D18A9856A87","full_name":"Adamowski, Maciek","orcid":"0000-0001-6463-5257","last_name":"Adamowski","first_name":"Maciek"},{"first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"issue":"2","_id":"9287","pmid":1,"article_type":"original","publisher":"Oxford University Press","file_date_updated":"2021-11-11T15:07:51Z","page":"1122–1142","ec_funded":1,"quality_controlled":"1"},{"volume":230,"external_id":{"isi":["000639552400001"],"pmid":["33728703"]},"isi":1,"citation":{"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.","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>","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>."},"year":"2021","date_updated":"2023-09-05T15:46:55Z","abstract":[{"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.","lang":"eng"}],"day":"17","doi":"10.1111/nph.17349","quality_controlled":"1","page":"2275-2291","article_type":"original","publisher":"Wiley","issue":"6","author":[{"last_name":"El Houari","first_name":"I","full_name":"El Houari, I"},{"last_name":"Van Beirs","first_name":"C","full_name":"Van Beirs, C"},{"full_name":"Arents, HE","last_name":"Arents","first_name":"HE"},{"full_name":"Han, Huibin","first_name":"Huibin","last_name":"Han","id":"31435098-F248-11E8-B48F-1D18A9856A87"},{"first_name":"A","last_name":"Chanoca","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"},{"first_name":"W","last_name":"Steenackers","full_name":"Steenackers, W"},{"full_name":"Quareshy, M","first_name":"M","last_name":"Quareshy"},{"full_name":"Napier, R","first_name":"R","last_name":"Napier"},{"full_name":"Beeckman, T","first_name":"T","last_name":"Beeckman"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"De Rybel","first_name":"B","full_name":"De Rybel, B"},{"full_name":"Boerjan, W","last_name":"Boerjan","first_name":"W"},{"full_name":"Vanholme, B","first_name":"B","last_name":"Vanholme"}],"scopus_import":"1","pmid":1,"_id":"9288","intvolume":"       230","title":"Seedling developmental defects upon blocking CINNAMATE-4-HYDROXYLASE are caused by perturbations in auxin transport","department":[{"_id":"JiFr"}],"date_created":"2021-03-26T12:09:01Z","article_processing_charge":"No","publication_status":"published","status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","main_file_link":[{"url":"https://biblio.ugent.be/publication/8703799/file/8703800.pdf","open_access":"1"}],"type":"journal_article","date_published":"2021-03-17T00:00:00Z","oa":1,"publication_identifier":{"issn":["0028-646x"],"eissn":["1469-8137"]},"language":[{"iso":"eng"}],"publication":"New Phytologist","month":"03","oa_version":"Published Version"},{"publication":"Current Biology","has_accepted_license":"1","month":"03","acknowledged_ssus":[{"_id":"Bio"}],"oa_version":"Published Version","project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"language":[{"iso":"eng"}],"date_published":"2021-03-10T00:00:00Z","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"oa":1,"publication_identifier":{"issn":["0960-9822"],"eissn":["1879-0445"]},"status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"access_level":"open_access","success":1,"relation":"main_file","file_id":"9303","creator":"dernst","date_created":"2021-04-01T10:53:42Z","file_size":4324371,"checksum":"b1723040ecfd8c81194185472eb62546","date_updated":"2021-04-01T10:53:42Z","file_name":"2021_CurrentBiology_Glanc.pdf","content_type":"application/pdf"}],"author":[{"id":"1AE1EA24-02D0-11E9-9BAA-DAF4881429F2","orcid":"0000-0003-0619-7783","full_name":"Glanc, Matous","first_name":"Matous","last_name":"Glanc"},{"full_name":"Van Gelderen, K","last_name":"Van Gelderen","first_name":"K"},{"last_name":"Hörmayer","first_name":"Lukas","full_name":"Hörmayer, Lukas","orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87"},{"id":"2DE75584-F248-11E8-B48F-1D18A9856A87","last_name":"Tan","first_name":"Shutang","full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285"},{"full_name":"Naramoto, S","last_name":"Naramoto","first_name":"S"},{"id":"61A66458-47E9-11EA-85BA-8AEAAF14E49A","orcid":"0000-0001-7048-4627","full_name":"Zhang, Xixi","first_name":"Xixi","last_name":"Zhang"},{"last_name":"Domjan","first_name":"David","full_name":"Domjan, David","orcid":"0000-0003-2267-106X","id":"C684CD7A-257E-11EA-9B6F-D8588B4F947F"},{"first_name":"L","last_name":"Vcelarova","full_name":"Vcelarova, L"},{"first_name":"Robert","last_name":"Hauschild","orcid":"0000-0001-9843-3522","full_name":"Hauschild, Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Johnson","first_name":"Alexander J","full_name":"Johnson, Alexander J","orcid":"0000-0002-2739-8843","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"de Koning, E","first_name":"E","last_name":"de Koning"},{"full_name":"van Dop, M","last_name":"van Dop","first_name":"M"},{"full_name":"Rademacher, E","first_name":"E","last_name":"Rademacher"},{"full_name":"Janson, S","first_name":"S","last_name":"Janson"},{"last_name":"Wei","first_name":"X","full_name":"Wei, X"},{"id":"34F1AF46-F248-11E8-B48F-1D18A9856A87","full_name":"Molnar, Gergely","first_name":"Gergely","last_name":"Molnar"},{"id":"43905548-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9767-8699","full_name":"Fendrych, Matyas","first_name":"Matyas","last_name":"Fendrych"},{"full_name":"De Rybel, B","last_name":"De Rybel","first_name":"B"},{"last_name":"Offringa","first_name":"R","full_name":"Offringa, R"},{"full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","last_name":"Friml","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"issue":"9","_id":"9290","pmid":1,"title":"AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells","intvolume":"        31","publication_status":"published","date_created":"2021-03-26T12:09:33Z","article_processing_charge":"No","department":[{"_id":"JiFr"}],"file_date_updated":"2021-04-01T10:53:42Z","page":"1918-1930","ec_funded":1,"quality_controlled":"1","article_type":"original","publisher":"Elsevier","isi":1,"external_id":{"pmid":["33705718"],"isi":["000653077800004"]},"date_updated":"2023-09-05T13:03:34Z","year":"2021","citation":{"apa":"Glanc, M., Van Gelderen, K., Hörmayer, L., Tan, S., Naramoto, S., Zhang, X., … Friml, J. (2021). AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. <i>Current Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cub.2021.02.028\">https://doi.org/10.1016/j.cub.2021.02.028</a>","ama":"Glanc M, Van Gelderen K, Hörmayer L, et al. AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. <i>Current Biology</i>. 2021;31(9):1918-1930. doi:<a href=\"https://doi.org/10.1016/j.cub.2021.02.028\">10.1016/j.cub.2021.02.028</a>","ieee":"M. Glanc <i>et al.</i>, “AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells,” <i>Current Biology</i>, vol. 31, no. 9. Elsevier, pp. 1918–1930, 2021.","chicago":"Glanc, Matous, K Van Gelderen, Lukas Hörmayer, Shutang Tan, S Naramoto, Xixi Zhang, David Domjan, et al. “AGC Kinases and MAB4/MEL Proteins Maintain PIN Polarity by Limiting Lateral Diffusion in Plant Cells.” <i>Current Biology</i>. Elsevier, 2021. <a href=\"https://doi.org/10.1016/j.cub.2021.02.028\">https://doi.org/10.1016/j.cub.2021.02.028</a>.","mla":"Glanc, Matous, et al. “AGC Kinases and MAB4/MEL Proteins Maintain PIN Polarity by Limiting Lateral Diffusion in Plant Cells.” <i>Current Biology</i>, vol. 31, no. 9, Elsevier, 2021, pp. 1918–30, doi:<a href=\"https://doi.org/10.1016/j.cub.2021.02.028\">10.1016/j.cub.2021.02.028</a>.","short":"M. Glanc, K. Van Gelderen, L. Hörmayer, S. Tan, S. Naramoto, X. Zhang, D. Domjan, L. Vcelarova, R. Hauschild, A.J. Johnson, E. de Koning, M. van Dop, E. Rademacher, S. Janson, X. Wei, G. Molnar, M. Fendrych, B. De Rybel, R. Offringa, J. Friml, Current Biology 31 (2021) 1918–1930.","ista":"Glanc M, Van Gelderen K, Hörmayer L, Tan S, Naramoto S, Zhang X, Domjan D, Vcelarova L, Hauschild R, Johnson AJ, de Koning E, van Dop M, Rademacher E, Janson S, Wei X, Molnar G, Fendrych M, De Rybel B, Offringa R, Friml J. 2021. AGC kinases and MAB4/MEL proteins maintain PIN polarity by limiting lateral diffusion in plant cells. Current Biology. 31(9), 1918–1930."},"abstract":[{"lang":"eng","text":"Polar subcellular localization of the PIN exporters of the phytohormone auxin is a key determinant of directional, intercellular auxin transport and thus a central topic of both plant cell and developmental biology. Arabidopsis mutants lacking PID, a kinase that phosphorylates PINs, or the MAB4/MEL proteins of unknown molecular function display PIN polarity defects and phenocopy pin mutants, but mechanistic insights into how these factors convey PIN polarity are missing. Here, by combining protein biochemistry with quantitative live-cell imaging, we demonstrate that PINs, MAB4/MELs, and AGC kinases interact in the same complex at the plasma membrane. MAB4/MELs are recruited to the plasma membrane by the PINs and in concert with the AGC kinases maintain PIN polarity through limiting lateral diffusion-based escape of PINs from the polar domain. The PIN-MAB4/MEL-PID protein complex has self-reinforcing properties thanks to positive feedback between AGC kinase-mediated PIN phosphorylation and MAB4/MEL recruitment. We thus uncover the molecular mechanism by which AGC kinases and MAB4/MEL proteins regulate PIN localization and plant development."}],"doi":"10.1016/j.cub.2021.02.028","day":"10","ddc":["580"],"volume":31,"acknowledgement":"We acknowledge Ben Scheres, Christian Luschnig, and Claus Schwechheimer for sharing published material. We thank Monika Hrtyan and Dorota Jaworska at IST Austria and Gerda Lamers and Ward de Winter at IBL Netherlands for technical assistance; Corinna Hartinger, Jakub Hajný, Lesia Rodriguez, Mingyue Li, and Lindy Abas for experimental support; and the Bioimaging Facility at IST Austria and the Bioimaging Core at VIB for imaging support. We are grateful to Christian Luschnig, Lindy Abas, and Roman Pleskot for valuable discussions. We also acknowledge the EMBO for supporting M.G. with a long-term fellowship ( ALTF 1005-2019 ) during the finalization and revision of this manuscript in the laboratory of B.D.R., and we thank R. Pierik for allowing K.V.G. to work on this manuscript during a postdoc in his laboratory at Utrecht University. This work was supported by grants from the European Research Council under the European Union’s Seventh Framework Programme (ERC grant agreements 742985 to J.F., 714055 to B.D.R., and 803048 to M.F.), the Austrian Science Fund (FWF; I 3630-B25 to J.F.), Chemical Sciences (partly) financed by the Dutch Research Council (NWO-CW TOP 700.58.301 to R.O.), the Dutch Research Council (NWO-VICI 865.17.002 to R. Pierik), Grants-in-Aid from the Ministry of Education, Culture, Sports, Science and Technology, Japan (KAKENHI grant 17K17595 to S.N.), the Ministry of Education, Youth and Sports of the Czech Republic (MŠMT project NPUI-LO1417 ), and a China Scholarship Council (to X.W.)."},{"type":"journal_article","date_published":"2021-02-08T00:00:00Z","oa":1,"publication_identifier":{"eissn":["1554-8635"],"issn":["1554-8627"]},"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1080/15548627.2020.1797280"}],"publication":"Autophagy","month":"02","oa_version":"Published Version","language":[{"iso":"eng"}],"external_id":{"pmid":["33634751"],"isi":["000636121800001"]},"isi":1,"year":"2021","citation":{"short":"D.J. Klionsky, A.K. Abdel-Aziz, S. Abdelfatah, M. Abdellatif, A. Abdoli, S. Abel, H. Abeliovich, M.H. Abildgaard, Y.P. Abudu, A. Acevedo-Arozena, I.E. Adamopoulos, K. Adeli, T.E. Adolph, A. Adornetto, E. Aflaki, G. 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Tong, Autophagy 17 (2021) 1–382.","mla":"Klionsky, Daniel J., et al. “Guidelines for the Use and Interpretation of Assays for Monitoring Autophagy (4th Edition).” <i>Autophagy</i>, vol. 17, no. 1, Taylor &#38; Francis, 2021, pp. 1–382, doi:<a href=\"https://doi.org/10.1080/15548627.2020.1797280\">10.1080/15548627.2020.1797280</a>.","ista":"Klionsky DJ et al. 2021. Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition). Autophagy. 17(1), 1–382.","apa":"Klionsky, D. J., Abdel-Aziz, A. K., Abdelfatah, S., Abdellatif, M., Abdoli, A., Abel, S., … Tong, C. K. (2021). Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition). <i>Autophagy</i>. Taylor &#38; Francis. <a href=\"https://doi.org/10.1080/15548627.2020.1797280\">https://doi.org/10.1080/15548627.2020.1797280</a>","ama":"Klionsky DJ, Abdel-Aziz AK, Abdelfatah S, et al. Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition). <i>Autophagy</i>. 2021;17(1):1-382. doi:<a href=\"https://doi.org/10.1080/15548627.2020.1797280\">10.1080/15548627.2020.1797280</a>","ieee":"D. J. Klionsky <i>et al.</i>, “Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition),” <i>Autophagy</i>, vol. 17, no. 1. Taylor &#38; Francis, pp. 1–382, 2021.","chicago":"Klionsky, Daniel J., Amal Kamal Abdel-Aziz, Sara Abdelfatah, Mahmoud Abdellatif, Asghar Abdoli, Steffen Abel, Hagai Abeliovich, et al. “Guidelines for the Use and Interpretation of Assays for Monitoring Autophagy (4th Edition).” <i>Autophagy</i>. Taylor &#38; Francis, 2021. <a href=\"https://doi.org/10.1080/15548627.2020.1797280\">https://doi.org/10.1080/15548627.2020.1797280</a>."},"date_updated":"2023-10-16T09:43:56Z","abstract":[{"text":"In 2008, we published the first set of guidelines for standardizing research in autophagy. Since then, this topic has received increasing attention, and many scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Thus, it is important to formulate on a regular basis updated guidelines for monitoring autophagy in different organisms. Despite numerous reviews, there continues to be confusion regarding acceptable methods to evaluate autophagy, especially in multicellular eukaryotes. Here, we present a set of guidelines for investigators to select and interpret methods to examine autophagy and related processes, and for reviewers to provide realistic and reasonable critiques of reports that are focused on these processes. These guidelines are not meant to be a dogmatic set of rules, because the appropriateness of any assay largely depends on the question being asked and the system being used. Moreover, no individual assay is perfect for every situation, calling for the use of multiple techniques to properly monitor autophagy in each experimental setting. Finally, several core components of the autophagy machinery have been implicated in distinct autophagic processes (canonical and noncanonical autophagy), implying that genetic approaches to block autophagy should rely on targeting two or more autophagy-related genes that ideally participate in distinct steps of the pathway. Along similar lines, because multiple proteins involved in autophagy also regulate other cellular pathways including apoptosis, not all of them can be used as a specific marker for bona fide autophagic responses. Here, we critically discuss current methods of assessing autophagy and the information they can, or cannot, provide. Our ultimate goal is to encourage intellectual and technical innovation in the field. ","lang":"eng"}],"day":"08","doi":"10.1080/15548627.2020.1797280","acknowledgement":"This work was supported by the National Institute of General Medical Sciences [GM131919]. Due to space and other limitations, it is not possible to include all other sources of financial support.","volume":17,"issue":"1","author":[{"full_name":"Klionsky, Daniel J.","last_name":"Klionsky","first_name":"Daniel J."},{"full_name":"Abdel-Aziz, Amal Kamal","first_name":"Amal Kamal","last_name":"Abdel-Aziz"},{"full_name":"Abdelfatah, Sara","first_name":"Sara","last_name":"Abdelfatah"},{"full_name":"Abdellatif, Mahmoud","first_name":"Mahmoud","last_name":"Abdellatif"},{"full_name":"Abdoli, Asghar","first_name":"Asghar","last_name":"Abdoli"},{"last_name":"Abel","first_name":"Steffen","full_name":"Abel, Steffen"},{"full_name":"Abeliovich, Hagai","first_name":"Hagai","last_name":"Abeliovich"},{"last_name":"Abildgaard","first_name":"Marie H.","full_name":"Abildgaard, Marie H."},{"full_name":"Abudu, Yakubu Princely","last_name":"Abudu","first_name":"Yakubu Princely"},{"full_name":"Acevedo-Arozena, Abraham","last_name":"Acevedo-Arozena","first_name":"Abraham"},{"last_name":"Adamopoulos","first_name":"Iannis E.","full_name":"Adamopoulos, Iannis E."},{"full_name":"Adeli, Khosrow","first_name":"Khosrow","last_name":"Adeli"},{"full_name":"Adolph, Timon E.","first_name":"Timon E.","last_name":"Adolph"},{"full_name":"Adornetto, Annagrazia","last_name":"Adornetto","first_name":"Annagrazia"},{"last_name":"Aflaki","first_name":"Elma","full_name":"Aflaki, Elma"},{"last_name":"Agam","first_name":"Galila","full_name":"Agam, Galila"},{"last_name":"Agarwal","first_name":"Anupam","full_name":"Agarwal, Anupam"},{"full_name":"Aggarwal, Bharat B.","last_name":"Aggarwal","first_name":"Bharat B."},{"last_name":"Agnello","first_name":"Maria","full_name":"Agnello, Maria"},{"full_name":"Agostinis, Patrizia","first_name":"Patrizia","last_name":"Agostinis"},{"first_name":"Javed N.","last_name":"Agrewala","full_name":"Agrewala, Javed N."},{"full_name":"Agrotis, Alexander","first_name":"Alexander","last_name":"Agrotis"},{"full_name":"Aguilar, Patricia V.","first_name":"Patricia V.","last_name":"Aguilar"},{"full_name":"Ahmad, S. 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Charlie","first_name":"X. Charlie","last_name":"Dong"},{"full_name":"Kenchappa, Chandra Shekar","first_name":"Chandra Shekar","last_name":"Kenchappa"},{"first_name":"Zuguo","last_name":"Li","full_name":"Li, Zuguo"},{"full_name":"Lin, Yong","last_name":"Lin","first_name":"Yong"},{"first_name":"Shigeru","last_name":"Oshima","full_name":"Oshima, Shigeru"},{"first_name":"Yueguang","last_name":"Rong","full_name":"Rong, Yueguang"},{"last_name":"Sluimer","first_name":"Judith C.","full_name":"Sluimer, Judith C."},{"full_name":"Stallings, Christina L.","first_name":"Christina L.","last_name":"Stallings"},{"full_name":"Tong, Chun Kit","last_name":"Tong","first_name":"Chun Kit"}],"scopus_import":"1","_id":"9298","pmid":1,"intvolume":"        17","title":"Guidelines for the use and interpretation of assays for monitoring autophagy (4th edition)","department":[{"_id":"JiFr"},{"_id":"CaHe"}],"date_created":"2021-03-28T22:01:44Z","article_processing_charge":"No","publication_status":"published","quality_controlled":"1","page":"1-382","article_type":"review","publisher":"Taylor & Francis"},{"page":"2003-2020","quality_controlled":"1","article_type":"original","publisher":"American Society of Plant Biologists","author":[{"full_name":"Kong, W","last_name":"Kong","first_name":"W"},{"full_name":"Tan, Shutang","orcid":"0000-0002-0471-8285","last_name":"Tan","first_name":"Shutang","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Zhao","first_name":"Q","full_name":"Zhao, Q"},{"full_name":"Lin, DL","last_name":"Lin","first_name":"DL"},{"full_name":"Xu, ZH","last_name":"Xu","first_name":"ZH"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596"},{"full_name":"Xue, HW","first_name":"HW","last_name":"Xue"}],"issue":"4","pmid":1,"_id":"9368","title":"mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth","intvolume":"       186","publication_status":"published","article_processing_charge":"No","date_created":"2021-05-03T13:28:20Z","department":[{"_id":"JiFr"}],"acknowledgement":"We gratefully acknowledge the Arabidopsis Biological Resource Centre (ABRC) for providing T-DNA insertional mutants, and Prof. Remko Offringa for sharing published seeds. We thank Yuchuan Liu (Shanghai OE Biotech Co., Ltd) for help with proteomics data analysis, Xixi Zhang (IST Austria) for providing the pDONR-P4P1r-mCherry plasmid, and Yao Xiao (Technical University of Munich), Alexander Johnson (IST Austria) and Hana Semeradova (IST Austria) for helpful discussions. The study was supported by National Natural Science Foundation of China (NSFC, 31721001, 91954206, to H.-W. X.), “Ten-Thousand Talent Program” (to H.-W. X.) and Collaborative Innovation Center of Crop Stress Biology, Henan Province, and Austrian Science Fund (FWF): I 3630-B25 (to J. F.). S.T. was funded by a European Molecular Biology Organization (EMBO) long-term postdoctoral fellowship (ALTF 723-2015).","volume":186,"isi":1,"external_id":{"isi":["000703922000025"],"pmid":["33930167"]},"date_updated":"2023-09-05T12:20:27Z","year":"2021","citation":{"apa":"Kong, W., Tan, S., Zhao, Q., Lin, D., Xu, Z., Friml, J., &#38; Xue, H. (2021). mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth. <i>Plant Physiology</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1093/plphys/kiab199\">https://doi.org/10.1093/plphys/kiab199</a>","ama":"Kong W, Tan S, Zhao Q, et al. mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth. <i>Plant Physiology</i>. 2021;186(4):2003-2020. doi:<a href=\"https://doi.org/10.1093/plphys/kiab199\">10.1093/plphys/kiab199</a>","ieee":"W. Kong <i>et al.</i>, “mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth,” <i>Plant Physiology</i>, vol. 186, no. 4. American Society of Plant Biologists, pp. 2003–2020, 2021.","chicago":"Kong, W, Shutang Tan, Q Zhao, DL Lin, ZH Xu, Jiří Friml, and HW Xue. “MRNA Surveillance Complex PELOTA-HBS1 Eegulates Phosphoinositide-Sependent Protein Kinase1 and Plant Growth.” <i>Plant Physiology</i>. American Society of Plant Biologists, 2021. <a href=\"https://doi.org/10.1093/plphys/kiab199\">https://doi.org/10.1093/plphys/kiab199</a>.","mla":"Kong, W., et al. “MRNA Surveillance Complex PELOTA-HBS1 Eegulates Phosphoinositide-Sependent Protein Kinase1 and Plant Growth.” <i>Plant Physiology</i>, vol. 186, no. 4, American Society of Plant Biologists, 2021, pp. 2003–20, doi:<a href=\"https://doi.org/10.1093/plphys/kiab199\">10.1093/plphys/kiab199</a>.","short":"W. Kong, S. Tan, Q. Zhao, D. Lin, Z. Xu, J. Friml, H. Xue, Plant Physiology 186 (2021) 2003–2020.","ista":"Kong W, Tan S, Zhao Q, Lin D, Xu Z, Friml J, Xue H. 2021. mRNA surveillance complex PELOTA-HBS1 eegulates phosphoinositide-sependent protein kinase1 and plant growth. Plant Physiology. 186(4), 2003–2020."},"abstract":[{"text":"The quality control system for messenger RNA (mRNA) is fundamental for cellular activities in eukaryotes. To elucidate the molecular mechanism of 3'-Phosphoinositide-Dependent Protein Kinase1 (PDK1), a master regulator that is essential throughout eukaryotic growth and development, we employed a forward genetic approach to screen for suppressors of the loss-of-function T-DNA insertion double mutant pdk1.1 pdk1.2 in Arabidopsis thaliana. Notably, the severe growth attenuation of pdk1.1 pdk1.2 was rescued by sop21 (suppressor of pdk1.1 pdk1.2), which harbours a loss-of-function mutation in PELOTA1 (PEL1). PEL1 is a homologue of mammalian PELOTA and yeast (Saccharomyces cerevisiae) DOM34p, which each form a heterodimeric complex with the GTPase HBS1 (HSP70 SUBFAMILY B SUPPRESSOR1, also called SUPERKILLER PROTEIN7, SKI7), a protein that is responsible for ribosomal rescue and thereby assures the quality and fidelity of mRNA molecules during translation. Genetic analysis further revealed that a dysfunctional PEL1-HBS1 complex failed to degrade the T-DNA-disrupted PDK1 transcripts, which were truncated but functional, and thus rescued the growth and developmental defects of pdk1.1 pdk1.2. Our studies demonstrated the functionality of a homologous PELOTA-HBS1 complex and identified its essential regulatory role in plants, providing insights into the mechanism of mRNA quality control.","lang":"eng"}],"doi":"10.1093/plphys/kiab199","day":"30","language":[{"iso":"eng"}],"publication":"Plant Physiology","month":"04","oa_version":"Published Version","project":[{"_id":"256FEF10-B435-11E9-9278-68D0E5697425","name":"Long Term Fellowship","grant_number":"723-2015"},{"_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","status":"public","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1093/plphys/kiab199"}],"date_published":"2021-04-30T00:00:00Z","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"oa":1,"publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]}},{"intvolume":"        33","title":"Synaptotagmins at the endoplasmic reticulum-plasma membrane contact sites maintain diacylglycerol homeostasis during abiotic stress","department":[{"_id":"JiFr"}],"date_created":"2021-06-02T13:13:58Z","article_processing_charge":"No","publication_status":"published","issue":"7","author":[{"last_name":"Ruiz-Lopez","first_name":"N","full_name":"Ruiz-Lopez, N"},{"full_name":"Pérez-Sancho, J","first_name":"J","last_name":"Pérez-Sancho"},{"last_name":"Esteban Del Valle","first_name":"A","full_name":"Esteban Del Valle, A"},{"last_name":"Haslam","first_name":"RP","full_name":"Haslam, RP"},{"last_name":"Vanneste","first_name":"S","full_name":"Vanneste, S"},{"first_name":"R","last_name":"Catalá","full_name":"Catalá, R"},{"full_name":"Perea-Resa, C","last_name":"Perea-Resa","first_name":"C"},{"full_name":"Van Damme, D","last_name":"Van Damme","first_name":"D"},{"first_name":"S","last_name":"García-Hernández","full_name":"García-Hernández, S"},{"first_name":"A","last_name":"Albert","full_name":"Albert, A"},{"first_name":"J","last_name":"Vallarino","full_name":"Vallarino, J"},{"full_name":"Lin, J","first_name":"J","last_name":"Lin"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596"},{"first_name":"AP","last_name":"Macho","full_name":"Macho, AP"},{"full_name":"Salinas, J","last_name":"Salinas","first_name":"J"},{"full_name":"Rosado, A","last_name":"Rosado","first_name":"A"},{"last_name":"Napier","first_name":"JA","full_name":"Napier, JA"},{"first_name":"V","last_name":"Amorim-Silva","full_name":"Amorim-Silva, V"},{"first_name":"MA","last_name":"Botella","full_name":"Botella, MA"}],"scopus_import":"1","_id":"9443","pmid":1,"article_type":"original","publisher":"American Society of Plant Biologists","file_date_updated":"2021-10-14T13:36:38Z","ec_funded":1,"quality_controlled":"1","page":"2431-2453","abstract":[{"lang":"eng","text":"Endoplasmic reticulum–plasma membrane contact sites (ER–PM CS) play fundamental roles in all eukaryotic cells. Arabidopsis thaliana mutants lacking the ER–PM protein tether synaptotagmin1 (SYT1) exhibit decreased PM integrity under multiple abiotic stresses, such as freezing, high salt, osmotic stress, and mechanical damage. Here, we show that, together with SYT1, the stress-induced SYT3 is an ER–PM tether that also functions in maintaining PM integrity. The ER–PM CS localization of SYT1 and SYT3 is dependent on PM phosphatidylinositol-4-phosphate and is regulated by abiotic stress. Lipidomic analysis revealed that cold stress increased the accumulation of diacylglycerol at the PM in a syt1/3 double mutant relative to wild-type while the levels of most glycerolipid species remain unchanged. In addition, the SYT1-green fluorescent protein fusion preferentially binds diacylglycerol in vivo with little affinity for polar glycerolipids. Our work uncovers a SYT-dependent mechanism of stress adaptation counteracting the detrimental accumulation of diacylglycerol at the PM produced during episodes of abiotic stress."}],"day":"01","doi":"10.1093/plcell/koab122","external_id":{"pmid":["33944955"],"isi":["000703938100026"]},"isi":1,"citation":{"ista":"Ruiz-Lopez N, Pérez-Sancho J, Esteban Del Valle A, Haslam R, Vanneste S, Catalá R, Perea-Resa C, Van Damme D, García-Hernández S, Albert A, Vallarino J, Lin J, Friml J, Macho A, Salinas J, Rosado A, Napier J, Amorim-Silva V, Botella M. 2021. Synaptotagmins at the endoplasmic reticulum-plasma membrane contact sites maintain diacylglycerol homeostasis during abiotic stress. Plant Cell. 33(7), 2431–2453.","short":"N. Ruiz-Lopez, J. Pérez-Sancho, A. Esteban Del Valle, R. Haslam, S. Vanneste, R. Catalá, C. Perea-Resa, D. Van Damme, S. García-Hernández, A. Albert, J. Vallarino, J. Lin, J. Friml, A. Macho, J. Salinas, A. Rosado, J. Napier, V. Amorim-Silva, M. Botella, Plant Cell 33 (2021) 2431–2453.","mla":"Ruiz-Lopez, N., et al. “Synaptotagmins at the Endoplasmic Reticulum-Plasma Membrane Contact Sites Maintain Diacylglycerol Homeostasis during Abiotic Stress.” <i>Plant Cell</i>, vol. 33, no. 7, American Society of Plant Biologists, 2021, pp. 2431–53, doi:<a href=\"https://doi.org/10.1093/plcell/koab122\">10.1093/plcell/koab122</a>.","ieee":"N. Ruiz-Lopez <i>et al.</i>, “Synaptotagmins at the endoplasmic reticulum-plasma membrane contact sites maintain diacylglycerol homeostasis during abiotic stress,” <i>Plant Cell</i>, vol. 33, no. 7. American Society of Plant Biologists, pp. 2431–2453, 2021.","chicago":"Ruiz-Lopez, N, J Pérez-Sancho, A Esteban Del Valle, RP Haslam, S Vanneste, R Catalá, C Perea-Resa, et al. “Synaptotagmins at the Endoplasmic Reticulum-Plasma Membrane Contact Sites Maintain Diacylglycerol Homeostasis during Abiotic Stress.” <i>Plant Cell</i>. American Society of Plant Biologists, 2021. <a href=\"https://doi.org/10.1093/plcell/koab122\">https://doi.org/10.1093/plcell/koab122</a>.","apa":"Ruiz-Lopez, N., Pérez-Sancho, J., Esteban Del Valle, A., Haslam, R., Vanneste, S., Catalá, R., … Botella, M. (2021). Synaptotagmins at the endoplasmic reticulum-plasma membrane contact sites maintain diacylglycerol homeostasis during abiotic stress. <i>Plant Cell</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1093/plcell/koab122\">https://doi.org/10.1093/plcell/koab122</a>","ama":"Ruiz-Lopez N, Pérez-Sancho J, Esteban Del Valle A, et al. Synaptotagmins at the endoplasmic reticulum-plasma membrane contact sites maintain diacylglycerol homeostasis during abiotic stress. <i>Plant Cell</i>. 2021;33(7):2431-2453. doi:<a href=\"https://doi.org/10.1093/plcell/koab122\">10.1093/plcell/koab122</a>"},"year":"2021","date_updated":"2023-08-08T13:54:32Z","ddc":["580"],"acknowledgement":"We would also like to thank Lothar Willmitzer for the lipidomic analysis at the Max Planck Institute of Molecular Plant Physiology (Potsdam, Germany). We thank Manuela Vega from SCI for her technical assistance in image analysis. We thank John R. Pearson and the Bionand Nanoimaging Unit, F. David Navas Fernández and the SCAI Imaging Facility and The Plant Cell Biology facility at the Shanghai Center for Plant Stress Biology for assistance with confocal microscopy. The FaFAH1 clone was a gift from Iraida Amaya Saavedra (IFAPA-Centro de Churriana, Málaga, Spain). The AHA3 antibody against the H+-ATPase was a gift from Ramón Serrano Salom (Instituto de Biología Molecular y Celular de Plantas, Valencia, Spain). The MAP-mTU2-SAC1 construct was provided by Yvon Jaillais (Laboratoire Reproduction et Développement des Plantes, Univ Lyon, France). The pGWB5 from the pGWB vector series, was provided by Tsuyoshi Nakagawa (Department of Molecular and Functional Genomics, Shimane University). We thank Plan Propio from the University of Málaga for financial support.\r\nFunding","volume":33,"month":"07","project":[{"grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"oa_version":"Published Version","has_accepted_license":"1","publication":"Plant Cell","language":[{"iso":"eng"}],"oa":1,"publication_identifier":{"eissn":["1532-298x"],"issn":["1040-4651"]},"type":"journal_article","date_published":"2021-07-01T00:00:00Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"date_updated":"2021-10-14T13:36:38Z","file_name":"2021_PlantCell_RuizLopez.pdf","content_type":"application/pdf","date_created":"2021-10-14T13:36:38Z","checksum":"22d596678d00310d793611864a6d0fcd","file_size":2952028,"file_id":"10141","creator":"cchlebak","relation":"main_file","success":1,"access_level":"open_access"}]},{"file":[{"access_level":"open_access","relation":"main_file","success":1,"file_id":"10105","creator":"kschuh","date_created":"2021-10-07T13:42:47Z","file_size":1939800,"checksum":"6422a6eb329b52d96279daaee0fcf189","date_updated":"2021-10-07T13:42:47Z","file_name":"2021_NewPhytologist_Han.pdf","content_type":"application/pdf"}],"status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_published":"2021-10-01T00:00:00Z","type":"journal_article","publication_identifier":{"issn":["0028-646x"],"eissn":["1469-8137"]},"oa":1,"language":[{"iso":"eng"}],"publication":"New Phytologist","has_accepted_license":"1","oa_version":"Published Version","project":[{"call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants"}],"month":"10","volume":232,"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).","ddc":["580"],"date_updated":"2023-08-10T14:02:41Z","year":"2021","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.","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>.","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>","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>","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.","short":"H. Han, M. Adamowski, L. Qi, S. Alotaibi, J. Friml, New Phytologist 232 (2021) 510–522.","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>."},"isi":1,"external_id":{"isi":["000680587100001"],"pmid":["34254313"]},"doi":"10.1111/nph.17617","day":"01","abstract":[{"lang":"eng","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."}],"page":"510-522","quality_controlled":"1","ec_funded":1,"file_date_updated":"2021-10-07T13:42:47Z","publisher":"Wiley","article_type":"original","_id":"9656","pmid":1,"scopus_import":"1","author":[{"id":"31435098-F248-11E8-B48F-1D18A9856A87","full_name":"Han, Huibin","last_name":"Han","first_name":"Huibin"},{"id":"45F536D2-F248-11E8-B48F-1D18A9856A87","last_name":"Adamowski","first_name":"Maciek","full_name":"Adamowski, Maciek","orcid":"0000-0001-6463-5257"},{"id":"44B04502-A9ED-11E9-B6FC-583AE6697425","last_name":"Qi","first_name":"Linlin","full_name":"Qi, Linlin","orcid":"0000-0001-5187-8401"},{"full_name":"Alotaibi, SS","first_name":"SS","last_name":"Alotaibi"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"issue":"2","publication_status":"published","date_created":"2021-07-14T15:29:14Z","article_processing_charge":"Yes (via OA deal)","department":[{"_id":"JiFr"}],"title":"PIN-mediated polar auxin transport regulations in plant tropic responses","intvolume":"       232"},{"oa":1,"publication_identifier":{"eissn":["1532-298x"],"issn":["1040-4651"]},"type":"journal_article","date_published":"2021-07-07T00:00:00Z","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","file":[{"creator":"cziletti","file_id":"9691","success":1,"relation":"main_file","access_level":"open_access","content_type":"application/pdf","file_name":"2021_PlantCell_Gao.pdf","date_updated":"2021-07-19T12:13:34Z","file_size":10566921,"checksum":"6715712ec306c321f0204c817b7f8ae7","date_created":"2021-07-19T12:13:34Z"}],"month":"07","oa_version":"Published Version","has_accepted_license":"1","publication":"Plant Cell","language":[{"iso":"eng"}],"abstract":[{"lang":"eng","text":"To overcome nitrogen deficiency, legume roots establish symbiotic interactions with nitrogen-fixing rhizobia that is fostered in specialized organs (nodules). Similar to other organs, nodule formation is determined by a local maximum of the phytohormone auxin at the primordium site. However, how auxin regulates nodule development remains poorly understood. Here, we found that in soybean, (Glycine max), dynamic auxin transport driven by PIN-FORMED (PIN) transporter GmPIN1 is involved in nodule primordium formation. GmPIN1 was specifically expressed in nodule primordium cells and GmPIN1 was polarly localized in these cells. Two nodulation regulators, (iso)flavonoids trigger expanded distribution of GmPIN1b to root cortical cells, and cytokinin rearranges GmPIN1b polarity. Gmpin1abc triple mutants generated with CRISPR-Cas9 showed impaired establishment of auxin maxima in nodule meristems and aberrant divisions in the nodule primordium cells. Moreover, overexpression of GmPIN1 suppressed nodule primordium initiation. GmPIN9d, an ortholog of Arabidopsis thaliana PIN2, acts together with GmPIN1 later in nodule development to acropetally transport auxin in vascular bundles, fine-tuning the auxin supply for nodule enlargement. Our findings reveal how PIN-dependent auxin transport modulates different aspects of soybean nodule development and suggest that establishment of auxin gradient is a prerequisite for the proper interaction between legumes and rhizobia."}],"day":"07","doi":"10.1093/plcell/koab183","external_id":{"isi":["000702165300012"],"pmid":["34240197"]},"isi":1,"citation":{"chicago":"Gao, Z, Z Chen, Y Cui, M Ke, H Xu, Q Xu, J Chen, et al. “GmPIN-Dependent Polar Auxin Transport Is Involved in Soybean Nodule Development.” <i>Plant Cell</i>. American Society of Plant Biologists, 2021. <a href=\"https://doi.org/10.1093/plcell/koab183\">https://doi.org/10.1093/plcell/koab183</a>.","ieee":"Z. Gao <i>et al.</i>, “GmPIN-dependent polar auxin transport is involved in soybean nodule development,” <i>Plant Cell</i>, vol. 33, no. 9. American Society of Plant Biologists, pp. 2981–3003, 2021.","ama":"Gao Z, Chen Z, Cui Y, et al. GmPIN-dependent polar auxin transport is involved in soybean nodule development. <i>Plant Cell</i>. 2021;33(9):2981–3003. doi:<a href=\"https://doi.org/10.1093/plcell/koab183\">10.1093/plcell/koab183</a>","apa":"Gao, Z., Chen, Z., Cui, Y., Ke, M., Xu, H., Xu, Q., … Chen, X. (2021). GmPIN-dependent polar auxin transport is involved in soybean nodule development. <i>Plant Cell</i>. American Society of Plant Biologists. <a href=\"https://doi.org/10.1093/plcell/koab183\">https://doi.org/10.1093/plcell/koab183</a>","ista":"Gao Z, Chen Z, Cui Y, Ke M, Xu H, Xu Q, Chen J, Li Y, Huang L, Zhao H, Huang D, Mai S, Xu T, Liu X, Li S, Guan Y, Yang W, Friml J, Petrášek J, Zhang J, Chen X. 2021. GmPIN-dependent polar auxin transport is involved in soybean nodule development. Plant Cell. 33(9), 2981–3003.","mla":"Gao, Z., et al. “GmPIN-Dependent Polar Auxin Transport Is Involved in Soybean Nodule Development.” <i>Plant Cell</i>, vol. 33, no. 9, American Society of Plant Biologists, 2021, pp. 2981–3003, doi:<a href=\"https://doi.org/10.1093/plcell/koab183\">10.1093/plcell/koab183</a>.","short":"Z. Gao, Z. Chen, Y. Cui, M. Ke, H. Xu, Q. Xu, J. Chen, Y. Li, L. Huang, H. Zhao, D. Huang, S. Mai, T. Xu, X. Liu, S. Li, Y. Guan, W. Yang, J. Friml, J. Petrášek, J. Zhang, X. Chen, Plant Cell 33 (2021) 2981–3003."},"year":"2021","date_updated":"2023-08-10T14:01:41Z","ddc":["580"],"volume":33,"intvolume":"        33","title":"GmPIN-dependent polar auxin transport is involved in soybean nodule development","date_created":"2021-07-14T15:32:43Z","article_processing_charge":"No","department":[{"_id":"JiFr"}],"publication_status":"published","issue":"9","author":[{"last_name":"Gao","first_name":"Z","full_name":"Gao, Z"},{"first_name":"Z","last_name":"Chen","full_name":"Chen, Z"},{"first_name":"Y","last_name":"Cui","full_name":"Cui, Y"},{"full_name":"Ke, M","last_name":"Ke","first_name":"M"},{"last_name":"Xu","first_name":"H","full_name":"Xu, H"},{"full_name":"Xu, Q","first_name":"Q","last_name":"Xu"},{"first_name":"J","last_name":"Chen","full_name":"Chen, J"},{"full_name":"Li, Y","first_name":"Y","last_name":"Li"},{"full_name":"Huang, L","first_name":"L","last_name":"Huang"},{"first_name":"H","last_name":"Zhao","full_name":"Zhao, H"},{"full_name":"Huang, D","last_name":"Huang","first_name":"D"},{"full_name":"Mai, S","first_name":"S","last_name":"Mai"},{"last_name":"Xu","first_name":"T","full_name":"Xu, T"},{"full_name":"Liu, X","last_name":"Liu","first_name":"X"},{"full_name":"Li, S","last_name":"Li","first_name":"S"},{"last_name":"Guan","first_name":"Y","full_name":"Guan, Y"},{"full_name":"Yang, W","first_name":"W","last_name":"Yang"},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Petrášek, J","last_name":"Petrášek","first_name":"J"},{"last_name":"Zhang","first_name":"J","full_name":"Zhang, J"},{"full_name":"Chen, X","last_name":"Chen","first_name":"X"}],"pmid":1,"_id":"9657","article_type":"original","publisher":"American Society of Plant Biologists","file_date_updated":"2021-07-19T12:13:34Z","quality_controlled":"1","page":"2981–3003"},{"article_type":"original","publisher":"MDPI","file_date_updated":"2021-09-16T09:07:06Z","ec_funded":1,"quality_controlled":"1","alternative_title":["Protein Phosphorylation and Cell Signaling in Plants"],"title":"The Arabidopsis root tip (phospho)proteomes at growth-promoting versus growth-repressing conditions reveal novel root growth regulators","intvolume":"        10","publication_status":"published","department":[{"_id":"JiFr"}],"date_created":"2021-09-14T11:36:20Z","article_processing_charge":"Yes","author":[{"full_name":"Nikonorova, N","first_name":"N","last_name":"Nikonorova"},{"last_name":"Murphy","first_name":"E","full_name":"Murphy, E"},{"last_name":"Fonseca de Lima","first_name":"CF","full_name":"Fonseca de Lima, CF"},{"full_name":"Zhu, S","first_name":"S","last_name":"Zhu"},{"last_name":"van de Cotte","first_name":"B","full_name":"van de Cotte, B"},{"last_name":"Vu","first_name":"LD","full_name":"Vu, LD"},{"full_name":"Balcerowicz, D","last_name":"Balcerowicz","first_name":"D"},{"id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","last_name":"Li","first_name":"Lanxin","full_name":"Li, Lanxin","orcid":"0000-0002-5607-272X"},{"full_name":"Kong, X","last_name":"Kong","first_name":"X"},{"full_name":"De Rop, G","last_name":"De Rop","first_name":"G"},{"last_name":"Beeckman","first_name":"T","full_name":"Beeckman, T"},{"last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Vissenberg, K","last_name":"Vissenberg","first_name":"K"},{"full_name":"Morris, PC","first_name":"PC","last_name":"Morris"},{"full_name":"Ding, Z","last_name":"Ding","first_name":"Z"},{"full_name":"De Smet, I","first_name":"I","last_name":"De Smet"}],"_id":"10015","pmid":1,"ddc":["575"],"volume":10,"acknowledgement":"We thank the Nottingham Stock Centre for seeds, Frank Van Breusegem for the phb3 mutant, and Herman Höfte for the the1 mutant. Open Access Funding by the Austrian Science Fund (FWF).","abstract":[{"lang":"eng","text":"Auxin plays a dual role in growth regulation and, depending on the tissue and concentration of the hormone, it can either promote or inhibit division and expansion processes in plants. Recent studies have revealed that, beyond transcriptional reprogramming, alternative auxincontrolled mechanisms regulate root growth. Here, we explored the impact of different concentrations of the synthetic auxin NAA that establish growth-promoting and -repressing conditions on the root tip proteome and phosphoproteome, generating a unique resource. From the phosphoproteome data, we pinpointed (novel) growth regulators, such as the RALF34-THE1 module. Our results, together with previously published studies, suggest that auxin, H+-ATPases, cell wall modifications and cell wall sensing receptor-like kinases are tightly embedded in a pathway regulating cell elongation. Furthermore, our study assigned a novel role to MKK2 as a regulator of primary root growth and a (potential) regulator of auxin biosynthesis and signalling, and suggests the importance of the MKK2\r\nThr31 phosphorylation site for growth regulation in the Arabidopsis root tip."}],"doi":"10.3390/cells10071665","day":"02","isi":1,"external_id":{"pmid":["34359847"],"isi":["000676604700001"]},"date_updated":"2024-10-29T10:22:44Z","citation":{"mla":"Nikonorova, N., et al. “The Arabidopsis Root Tip (Phospho)Proteomes at Growth-Promoting versus Growth-Repressing Conditions Reveal Novel Root Growth Regulators.” <i>Cells</i>, vol. 10, 1665, MDPI, 2021, doi:<a href=\"https://doi.org/10.3390/cells10071665\">10.3390/cells10071665</a>.","short":"N. Nikonorova, E. Murphy, C. Fonseca de Lima, S. Zhu, B. van de Cotte, L. Vu, D. Balcerowicz, L. Li, X. Kong, G. De Rop, T. Beeckman, J. Friml, K. Vissenberg, P. Morris, Z. Ding, I. De Smet, Cells 10 (2021).","ista":"Nikonorova N, Murphy E, Fonseca de Lima C, Zhu S, van de Cotte B, Vu L, Balcerowicz D, Li L, Kong X, De Rop G, Beeckman T, Friml J, Vissenberg K, Morris P, Ding Z, De Smet I. 2021. The Arabidopsis root tip (phospho)proteomes at growth-promoting versus growth-repressing conditions reveal novel root growth regulators. Cells. 10, 1665.","ama":"Nikonorova N, Murphy E, Fonseca de Lima C, et al. The Arabidopsis root tip (phospho)proteomes at growth-promoting versus growth-repressing conditions reveal novel root growth regulators. <i>Cells</i>. 2021;10. doi:<a href=\"https://doi.org/10.3390/cells10071665\">10.3390/cells10071665</a>","apa":"Nikonorova, N., Murphy, E., Fonseca de Lima, C., Zhu, S., van de Cotte, B., Vu, L., … De Smet, I. (2021). The Arabidopsis root tip (phospho)proteomes at growth-promoting versus growth-repressing conditions reveal novel root growth regulators. <i>Cells</i>. MDPI. <a href=\"https://doi.org/10.3390/cells10071665\">https://doi.org/10.3390/cells10071665</a>","chicago":"Nikonorova, N, E Murphy, CF Fonseca de Lima, S Zhu, B van de Cotte, LD Vu, D Balcerowicz, et al. “The Arabidopsis Root Tip (Phospho)Proteomes at Growth-Promoting versus Growth-Repressing Conditions Reveal Novel Root Growth Regulators.” <i>Cells</i>. MDPI, 2021. <a href=\"https://doi.org/10.3390/cells10071665\">https://doi.org/10.3390/cells10071665</a>.","ieee":"N. Nikonorova <i>et al.</i>, “The Arabidopsis root tip (phospho)proteomes at growth-promoting versus growth-repressing conditions reveal novel root growth regulators,” <i>Cells</i>, vol. 10. MDPI, 2021."},"year":"2021","language":[{"iso":"eng"}],"keyword":["primary root","(phospho)proteomics","auxin","(receptor) kinase"],"month":"07","article_number":"1665 ","oa_version":"Published Version","project":[{"grant_number":"665385","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"call_identifier":"FWF","_id":"3AC91DDA-15DF-11EA-824D-93A3E7B544D1","name":"FWF Open Access Fund"}],"publication":"Cells","has_accepted_license":"1","related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"10083"}]},"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"creator":"cchlebak","file_id":"10021","success":1,"access_level":"open_access","relation":"main_file","file_name":"2021_Cells_Nikonorova.pdf","content_type":"application/pdf","date_updated":"2021-09-16T09:07:06Z","checksum":"2a9f534b9c2200e72e2cde95afaf4eed","file_size":2667848,"date_created":"2021-09-16T09:07:06Z"}],"oa":1,"publication_identifier":{"issn":["2073-4409"]},"date_published":"2021-07-02T00:00:00Z","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"}},{"has_accepted_license":"1","month":"10","oa_version":"Published Version","project":[{"grant_number":"665385","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"_id":"26B4D67E-B435-11E9-9278-68D0E5697425","grant_number":"25351","name":"A Case Study of Plant Growth Regulation: Molecular Mechanism of Auxin-mediated Rapid Growth Inhibition in Arabidopsis Root"}],"language":[{"iso":"eng"}],"date_published":"2021-10-06T00:00:00Z","type":"dissertation","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png"},"supervisor":[{"last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"oa":1,"publication_identifier":{"issn":["2663-337X"]},"status":"public","related_material":{"record":[{"relation":"part_of_dissertation","id":"442","status":"public"},{"relation":"part_of_dissertation","id":"8931","status":"public"},{"status":"public","id":"9287","relation":"part_of_dissertation"},{"status":"public","id":"8283","relation":"part_of_dissertation"},{"status":"public","id":"8986","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","id":"10015","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"10095"},{"id":"6627","relation":"part_of_dissertation","status":"public"}]},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","file":[{"date_updated":"2022-12-20T23:30:03Z","content_type":"application/pdf","file_name":"0._IST_Austria_Thesis_Lanxin_Li_1014_pdftron.pdf","date_created":"2021-10-14T08:00:07Z","embargo":"2022-10-14","checksum":"3b2f55b3b8ae05337a0dcc1cd8595b10","file_size":8616142,"file_id":"10138","creator":"cchlebak","access_level":"open_access","relation":"main_file"},{"file_id":"10139","creator":"cchlebak","access_level":"closed","relation":"source_file","date_updated":"2022-12-20T23:30:03Z","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_name":"0._IST_Austria_Thesis_Lanxin_Li_1014.docx","date_created":"2021-10-14T08:00:13Z","checksum":"f23ed258ca894f6aabf58b0c128bf242","file_size":15058499,"embargo_to":"open_access"}],"author":[{"last_name":"Li","first_name":"Lanxin","full_name":"Li, Lanxin"}],"_id":"10083","alternative_title":["ISTA Thesis"],"title":"Rapid cell growth regulation in Arabidopsis","publication_status":"published","date_created":"2021-10-04T13:33:10Z","department":[{"_id":"GradSch"},{"_id":"JiFr"}],"article_processing_charge":"No","file_date_updated":"2022-12-20T23:30:03Z","ec_funded":1,"publisher":"Institute of Science and Technology Austria","date_updated":"2025-05-07T11:12:33Z","citation":{"ama":"Li L. Rapid cell growth regulation in Arabidopsis. 2021. doi:<a href=\"https://doi.org/10.15479/at:ista:10083\">10.15479/at:ista:10083</a>","apa":"Li, L. (2021). <i>Rapid cell growth regulation in Arabidopsis</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:10083\">https://doi.org/10.15479/at:ista:10083</a>","chicago":"Li, Lanxin. “Rapid Cell Growth Regulation in Arabidopsis.” Institute of Science and Technology Austria, 2021. <a href=\"https://doi.org/10.15479/at:ista:10083\">https://doi.org/10.15479/at:ista:10083</a>.","ieee":"L. Li, “Rapid cell growth regulation in Arabidopsis,” Institute of Science and Technology Austria, 2021.","mla":"Li, Lanxin. <i>Rapid Cell Growth Regulation in Arabidopsis</i>. Institute of Science and Technology Austria, 2021, doi:<a href=\"https://doi.org/10.15479/at:ista:10083\">10.15479/at:ista:10083</a>.","short":"L. Li, Rapid Cell Growth Regulation in Arabidopsis, Institute of Science and Technology Austria, 2021.","ista":"Li L. 2021. Rapid cell growth regulation in Arabidopsis. Institute of Science and Technology Austria."},"year":"2021","abstract":[{"text":"Plant motions occur across a wide spectrum of timescales, ranging from seed dispersal through bursting (milliseconds) and stomatal opening (minutes) to long-term adaptation of gross architecture. Relatively fast motions include water-driven growth as exemplified by root cell expansion under abiotic/biotic stresses or during gravitropism. A showcase is a root growth inhibition in 30 seconds triggered by the phytohormone auxin. However, the cellular and molecular mechanisms are still largely unknown. This thesis covers the studies about this topic as follows. By taking advantage of microfluidics combined with live imaging, pharmaceutical tools, and transgenic lines, we examined the kinetics of and causal relationship among various auxininduced rapid cellular changes in root growth, apoplastic pH, cytosolic Ca2+, cortical microtubule (CMT) orientation, and vacuolar morphology. We revealed that CMT reorientation and vacuolar constriction are the consequence of growth itself instead of responding directly to auxin. In contrast, auxin induces apoplast alkalinization to rapidly inhibit root growth in 30 seconds. This auxin-triggered apoplast alkalinization results from rapid H+- influx that is contributed by Ca2+ inward channel CYCLIC NUCLEOTIDE-GATED CHANNEL 14 (CNGC14)-dependent Ca2+ signaling. To dissect which auxin signaling mediates the rapid apoplast alkalinization, we\r\ncombined microfluidics and genetic engineering to verify that TIR1/AFB receptors conduct a non-transcriptional regulation on Ca2+ and H+ -influx. This non-canonical pathway is mostly mediated by the cytosolic portion of TIR1/AFB. On the other hand, we uncovered, using biochemical and phospho-proteomic analysis, that auxin cell surface signaling component TRANSMEMBRANE KINASE 1 (TMK1) plays a negative role during auxin-trigger apoplast\r\nalkalinization and root growth inhibition through directly activating PM H+ -ATPases. Therefore, we discovered that PM H+ -ATPases counteract instead of mediate the auxintriggered rapid H+ -influx, and that TIR1/AFB and TMK1 regulate root growth antagonistically. This opposite effect of TIR1/AFB and TMK1 is consistent during auxin-induced hypocotyl elongation, leading us to explore the relation of two signaling pathways. Assisted with biochemistry and fluorescent imaging, we verified for the first time that TIR1/AFB and TMK1 can interact with each other. The ability of TIR1/AFB binding to membrane lipid provides a basis for the interaction of plasma membrane- and cytosol-localized proteins.\r\nBesides, transgenic analysis combined with genetic engineering and biochemistry showed that  vi\r\nthey do function in the same pathway. Particularly, auxin-induced TMK1 increase is TIR1/AFB dependent, suggesting TIR1/AFB regulation on TMK1. Conversely, TMK1 also regulates TIR1/AFB protein levels and thus auxin canonical signaling. To follow the study of rapid growth regulation, we analyzed another rapid growth regulator, signaling peptide RALF1. We showed that RALF1 also triggers a rapid and reversible growth inhibition caused by H + influx, highly resembling but not dependent on auxin. Besides, RALF1 promotes auxin biosynthesis by increasing expression of auxin biosynthesis enzyme YUCCAs and thus induces auxin signaling in ca. 1 hour, contributing to the sustained RALF1-triggered growth inhibition. These studies collectively contribute to understanding rapid regulation on plant cell\r\ngrowth, novel auxin signaling pathway as well as auxin-peptide crosstalk. ","lang":"eng"}],"degree_awarded":"PhD","doi":"10.15479/at:ista:10083","day":"06","ddc":["575"]}]