[{"doi":"10.1093/pcp/pcaf008","type":"journal_article","article_processing_charge":"No","citation":{"ista":"Tang H, Chen L, Friml J. 2025. Auxin fluctuation and PIN polarization in moss leaf cell reprogramming. Plant and Cell Physiology., pcaf008.","mla":"Tang, Han, et al. “Auxin Fluctuation and PIN Polarization in Moss Leaf Cell Reprogramming.” <i>Plant and Cell Physiology</i>, pcaf008, Oxford University Press, 2025, doi:<a href=\"https://doi.org/10.1093/pcp/pcaf008\">10.1093/pcp/pcaf008</a>.","ama":"Tang H, Chen L, Friml J. Auxin fluctuation and PIN polarization in moss leaf cell reprogramming. <i>Plant and Cell Physiology</i>. 2025. doi:<a href=\"https://doi.org/10.1093/pcp/pcaf008\">10.1093/pcp/pcaf008</a>","short":"H. Tang, L. Chen, J. Friml, Plant and Cell Physiology (2025).","chicago":"Tang, Han, L Chen, and Jiří Friml. “Auxin Fluctuation and PIN Polarization in Moss Leaf Cell Reprogramming.” <i>Plant and Cell Physiology</i>. Oxford University Press, 2025. <a href=\"https://doi.org/10.1093/pcp/pcaf008\">https://doi.org/10.1093/pcp/pcaf008</a>.","ieee":"H. Tang, L. Chen, and J. Friml, “Auxin fluctuation and PIN polarization in moss leaf cell reprogramming.,” <i>Plant and Cell Physiology</i>. Oxford University Press, 2025.","apa":"Tang, H., Chen, L., &#38; Friml, J. (2025). Auxin fluctuation and PIN polarization in moss leaf cell reprogramming. <i>Plant and Cell Physiology</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/pcp/pcaf008\">https://doi.org/10.1093/pcp/pcaf008</a>"},"language":[{"iso":"eng"}],"status":"public","publication_status":"published","publication":"Plant and Cell Physiology","ec_funded":1,"corr_author":"1","date_created":"2025-03-19T09:44:19Z","author":[{"last_name":"Tang","orcid":"0000-0001-6152-6637","id":"19BDF720-25A0-11EA-AC6E-928F3DDC885E","first_name":"Han","full_name":"Tang, Han"},{"full_name":"Chen, L","first_name":"L","last_name":"Chen"},{"last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří","full_name":"Friml, Jiří"}],"publication_identifier":{"issn":["0032-0781"],"eissn":["1471-9053"]},"date_published":"2025-03-05T00:00:00Z","day":"05","publisher":"Oxford University Press","quality_controlled":"1","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","isi":1,"pmid":1,"year":"2025","acknowledgement":"The authors sincerely thank Dr Barbara Kloeckener Gruissem’s time and efforts in critical reading and constructive advice on the manuscript. The authors gratefully acknowledge Dr. Eva Sundberg for generously providing transgenic plants to support this study.\r\nThis work was supported by the European Research Council Advanced Grant (ETAP-742985 to H.T. and J.F.) and the Taiwan National Science and Technology Council (NSTC 112-2311-B-005-008 to H.T. and L.-H.C.).","oa_version":"None","external_id":{"pmid":["39829340"],"isi":["001436802900001"]},"date_updated":"2025-09-30T11:05:55Z","department":[{"_id":"JiFr"}],"_id":"19420","title":"Auxin fluctuation and PIN polarization in moss leaf cell reprogramming.","project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","call_identifier":"H2020"}],"OA_type":"closed access","month":"03","article_type":"original","abstract":[{"text":"Auxin and its PIN-FORMED (PIN) exporters are essential for tissue repair and regeneration in flowering plants. To gain insight into the evolution of this mechanism, we investigated their roles in leaves excised from Physcomitrium patens, a bryophyte known for its remarkable cell reprogramming capacity. We used various approaches to manipulate auxin levels, including exogenous application, pharmacological manipulations, and auxin biosynthesis mutants. We observed no significant effect on the rate of cell reprogramming. Rather, our analysis of auxin dynamics revealed a decrease in auxin levels upon excision, which was followed by a local increase before the reprogramming process began. Mutant analysis revealed that PpPINs are required for effective cell reprogramming, and endogenously expressed PpPINA-GFP accumulates polarly at sites that will develop into future filamentous stem cells. In addition, hyperpolarized PpPINA variants carrying mutated phosphorylation sites showed a marked delay in reprogramming, whereas endogenous or nonpolar versions do not have this effect. These results underscore that both the levels and the polarity of PpPINA are important for efficient cell reprogramming. Overall, these findings highlight the pivotal role of PIN polarity in plant regeneration. Furthermore, they suggest that understanding polarity mechanisms could have broader implications for improving regenerative processes across various plant species.","lang":"eng"}],"article_number":"pcaf008","scopus_import":"1"},{"date_published":"2025-04-24T00:00:00Z","day":"24","author":[{"id":"83c96512-15b2-11ec-abd3-b7eede36184f","last_name":"Chen","first_name":"Huihuang","full_name":"Chen, Huihuang"},{"orcid":"0000-0001-5187-8401","id":"44B04502-A9ED-11E9-B6FC-583AE6697425","last_name":"Qi","full_name":"Qi, Linlin","first_name":"Linlin"},{"id":"5c243f41-03f3-11ec-841c-96faf48a7ef9","last_name":"Zou","first_name":"Minxia","full_name":"Zou, Minxia"},{"id":"a8198a14-1ffe-11ee-8b67-d2bdff9d9178","last_name":"Lu","full_name":"Lu, Mengting","first_name":"Mengting"},{"full_name":"Kwiatkowski, M","first_name":"M","last_name":"Kwiatkowski"},{"last_name":"Pei","id":"98605edc-6ce7-11ee-95f3-cc16b866efcd","first_name":"Yuanrong","full_name":"Pei, Yuanrong"},{"full_name":"Jaworski, K","first_name":"K","last_name":"Jaworski"},{"first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml"}],"corr_author":"1","date_created":"2025-03-19T09:44:39Z","related_material":{"link":[{"relation":"press_release","url":"https://ista.ac.at/en/news/updating-the-textbook/","description":"News on ISTA website"}],"record":[{"relation":"dissertation_contains","id":"19478","status":"public"}]},"publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"ddc":["580"],"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"PlanS_conform":"1","publication_status":"published","OA_place":"publisher","license":"https://creativecommons.org/licenses/by/4.0/","publication":"Nature","type":"journal_article","doi":"10.1038/s41586-025-08669-w","status":"public","language":[{"iso":"eng"}],"article_processing_charge":"Yes (via OA deal)","citation":{"chicago":"Chen, Huihuang, Linlin Qi, Minxia Zou, Mengting Lu, M Kwiatkowski, Yuanrong Pei, K Jaworski, and Jiří Friml. “TIR1-Produced CAMP as a Second Messenger in Transcriptional Auxin Signalling.” <i>Nature</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41586-025-08669-w\">https://doi.org/10.1038/s41586-025-08669-w</a>.","short":"H. Chen, L. Qi, M. Zou, M. Lu, M. Kwiatkowski, Y. Pei, K. Jaworski, J. Friml, Nature 640 (2025) 1011–1016.","apa":"Chen, H., Qi, L., Zou, M., Lu, M., Kwiatkowski, M., Pei, Y., … Friml, J. (2025). TIR1-produced cAMP as a second messenger in transcriptional auxin signalling. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-025-08669-w\">https://doi.org/10.1038/s41586-025-08669-w</a>","ieee":"H. Chen <i>et al.</i>, “TIR1-produced cAMP as a second messenger in transcriptional auxin signalling,” <i>Nature</i>, vol. 640. Springer Nature, pp. 1011–1016, 2025.","mla":"Chen, Huihuang, et al. “TIR1-Produced CAMP as a Second Messenger in Transcriptional Auxin Signalling.” <i>Nature</i>, vol. 640, Springer Nature, 2025, pp. 1011–16, doi:<a href=\"https://doi.org/10.1038/s41586-025-08669-w\">10.1038/s41586-025-08669-w</a>.","ista":"Chen H, Qi L, Zou M, Lu M, Kwiatkowski M, Pei Y, Jaworski K, Friml J. 2025. TIR1-produced cAMP as a second messenger in transcriptional auxin signalling. Nature. 640, 1011–1016.","ama":"Chen H, Qi L, Zou M, et al. TIR1-produced cAMP as a second messenger in transcriptional auxin signalling. <i>Nature</i>. 2025;640:1011-1016. doi:<a href=\"https://doi.org/10.1038/s41586-025-08669-w\">10.1038/s41586-025-08669-w</a>"},"abstract":[{"lang":"eng","text":"The phytohormone auxin (Aux) is a principal endogenous developmental signal in plants. It mediates transcriptional reprogramming by a well-established canonical signalling mechanism. TIR1/AFB auxin receptors are F-box subunits of an ubiquitin ligase complex; after auxin perception, they associate with Aux/IAA transcriptional repressors and ubiquitinate them for degradation, thus enabling the activation of auxin response factor (ARF) transcription factors1,2,3. Here we revise this paradigm by showing that without TIR1 adenylate cyclase (AC) activity4, auxin-induced degradation of Aux/IAAs is not sufficient to mediate the transcriptional auxin response. Abolishing the TIR1 AC activity does not affect auxin-induced degradation of Aux/IAAs but renders TIR1 non-functional in mediating transcriptional reprogramming and auxin-regulated development, including shoot, root, root hair growth and lateral root formation. Transgenic plants show that local cAMP production in the vicinity of the Aux/IAA–ARF complex by unrelated AC enzymes bypasses the need for auxin perception and is sufficient to induce ARF-mediated transcription. These discoveries revise the canonical model of auxin signalling and establish TIR1/AFB-produced cAMP as a second messenger essential for transcriptional reprograming."}],"file":[{"checksum":"f5f18081003e7a1b8e372ecb7da82e7d","file_name":"2025_Nature_Chen.pdf","creator":"dernst","content_type":"application/pdf","access_level":"open_access","file_id":"20132","date_updated":"2025-08-05T12:29:35Z","date_created":"2025-08-05T12:29:35Z","success":1,"relation":"main_file","file_size":13549245}],"intvolume":"       640","article_type":"original","month":"04","has_accepted_license":"1","_id":"19421","title":"TIR1-produced cAMP as a second messenger in transcriptional auxin signalling","department":[{"_id":"JiFr"}],"date_updated":"2026-04-28T13:42:45Z","page":"1011-1016","volume":640,"oa":1,"OA_type":"hybrid","project":[{"grant_number":"P37051","name":"Guanylate cyclase activity of TIR1/AFBs auxin receptors","_id":"7bcece63-9f16-11ee-852c-ae94e099eeb6"}],"oa_version":"Published Version","acknowledgement":"We are grateful to J. Callis and H.-Q. Yang for sharing materials and to M. Estelle and S. Kepinski for inspiring discussions. This research was supported by the Laboratory Support Facility, the Plant Facility and the Imaging and Optics Facility of the Institute of Science and Technology Austria. This project has received funding from the European Research Council (101142681 CYNIPS) and Austrian Science Fund (P 37051-B). L.Q. was supported by the National Natural Science Foundation of China (grant no. 32470327). M.Z. was supported by the Interdisciplinary Project Committee of the Institute of Science and Technology Austria, and Y.P. was supported by an EMBO Postdoctoral Fellowship (ALTF 38-2023). Open access funding provided by Institute of Science and Technology (IST Austria).","external_id":{"pmid":["40044868"],"isi":["001437493900001"]},"quality_controlled":"1","file_date_updated":"2025-08-05T12:29:35Z","publisher":"Springer Nature","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"year":"2025","pmid":1,"isi":1,"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd"},{"author":[{"first_name":"G","full_name":"Jia, G","last_name":"Jia"},{"first_name":"G","full_name":"Chen, G","last_name":"Chen"},{"full_name":"Zhang, Z","first_name":"Z","last_name":"Zhang"},{"last_name":"Tian","first_name":"C","full_name":"Tian, C"},{"last_name":"Wang","first_name":"Y","full_name":"Wang, Y"},{"last_name":"Luo","full_name":"Luo, J","first_name":"J"},{"last_name":"Zhang","first_name":"K","full_name":"Zhang, K"},{"first_name":"X","full_name":"Zhao, X","last_name":"Zhao"},{"first_name":"X","full_name":"Zhao, X","last_name":"Zhao"},{"last_name":"Li","first_name":"Z","full_name":"Li, Z"},{"first_name":"L","full_name":"Sun, L","last_name":"Sun"},{"first_name":"W","full_name":"Yang, W","last_name":"Yang"},{"last_name":"Guo","full_name":"Guo, Y","first_name":"Y"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"last_name":"Gong","full_name":"Gong, Z","first_name":"Z"},{"last_name":"Zhang","first_name":"J","full_name":"Zhang, J"}],"date_created":"2025-03-19T09:44:55Z","publication_identifier":{"issn":["2055-0278"]},"ddc":["580"],"date_published":"2025-03-05T00:00:00Z","day":"05","doi":"10.1038/s41477-025-01934-w","type":"journal_article","status":"public","language":[{"iso":"eng"}],"article_processing_charge":"No","citation":{"ista":"Jia G, Chen G, Zhang Z, Tian C, Wang Y, Luo J, Zhang K, Zhao X, Zhao X, Li Z, Sun L, Yang W, Guo Y, Friml J, Gong Z, Zhang J. 2025. Ferredoxin-mediated mechanism for efficient nitrogen utilization in maize. Nature Plants. 11, 5207.","mla":"Jia, G., et al. “Ferredoxin-Mediated Mechanism for Efficient Nitrogen Utilization in Maize.” <i>Nature Plants</i>, vol. 11, 5207, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1038/s41477-025-01934-w\">10.1038/s41477-025-01934-w</a>.","ama":"Jia G, Chen G, Zhang Z, et al. Ferredoxin-mediated mechanism for efficient nitrogen utilization in maize. <i>Nature Plants</i>. 2025;11. doi:<a href=\"https://doi.org/10.1038/s41477-025-01934-w\">10.1038/s41477-025-01934-w</a>","short":"G. Jia, G. Chen, Z. Zhang, C. Tian, Y. Wang, J. Luo, K. Zhang, X. Zhao, X. Zhao, Z. Li, L. Sun, W. Yang, Y. Guo, J. Friml, Z. Gong, J. Zhang, Nature Plants 11 (2025).","chicago":"Jia, G, G Chen, Z Zhang, C Tian, Y Wang, J Luo, K Zhang, et al. “Ferredoxin-Mediated Mechanism for Efficient Nitrogen Utilization in Maize.” <i>Nature Plants</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41477-025-01934-w\">https://doi.org/10.1038/s41477-025-01934-w</a>.","ieee":"G. Jia <i>et al.</i>, “Ferredoxin-mediated mechanism for efficient nitrogen utilization in maize,” <i>Nature Plants</i>, vol. 11. Springer Nature, 2025.","apa":"Jia, G., Chen, G., Zhang, Z., Tian, C., Wang, Y., Luo, J., … Zhang, J. (2025). Ferredoxin-mediated mechanism for efficient nitrogen utilization in maize. <i>Nature Plants</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41477-025-01934-w\">https://doi.org/10.1038/s41477-025-01934-w</a>"},"OA_place":"repository","publication_status":"published","publication":"Nature Plants","date_updated":"2025-11-12T07:52:06Z","department":[{"_id":"JiFr"}],"title":"Ferredoxin-mediated mechanism for efficient nitrogen utilization in maize","_id":"19422","volume":11,"oa":1,"OA_type":"green","file":[{"creator":"dernst","content_type":"application/pdf","access_level":"open_access","checksum":"caeaf1a8bc3e1435e8c995d1d9df5390","file_name":"2025_NaturePlants_Jia_submitted.pdf","file_size":2714177,"file_id":"20634","date_updated":"2025-11-12T07:50:45Z","date_created":"2025-11-12T07:50:45Z","relation":"main_file","success":1}],"abstract":[{"text":"Nitrogen (N) is an essential macronutrient for plant development and, ultimately, yield. Identifying the genetic components and mechanisms underlying N use efficiency in maize (Zea mays L.) is thus of great importance. Nitrate (NO3−) is the preferred inorganic N source in maize. Here we performed a genome-wide association study of shoot NO3− accumulation in maize seedlings grown under low-NO3− conditions, identifying the ferredoxin family gene ZmFd4 as a major contributor to this trait. ZmFd4 interacts and co-localizes with nitrite reductases (ZmNiRs) in chloroplasts to promote their enzymatic activity. Furthermore, ZmFd4 forms a high-affinity heterodimer with its closest paralogue, ZmFd9, in a NO3−-sensitive manner. Although ZmFd4 exerts similar biochemical functions as ZmFd9, ZmFd4 and ZmFd9 interaction limits their ability to associate with ZmNiRs and stimulate their activity. Knockout lines for ZmFd4 with decreased NO3− contents exhibit more efficient NO3− assimilation, and field experiments show consistently improved N utilization and grain yield under N-deficient conditions. Our work thus provides molecular and mechanistic insights into the natural variation in N utilization, instrumental for genetic improvement of yield in maize and, potentially, in other crops.","lang":"eng"}],"has_accepted_license":"1","month":"03","intvolume":"        11","article_type":"original","article_number":"5207","scopus_import":"1","quality_controlled":"1","file_date_updated":"2025-11-12T07:50:45Z","publisher":"Springer Nature","pmid":1,"isi":1,"year":"2025","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We thank X. Yang for providing published inbred lines and helping with data analysis; and S. Huang, C. Jiang, G. Bi, C. Liu and S. Zhang for helpful discussions. The transgenic maize lines were generated by the Center for Crop Functional Genomics and Molecular Breeding of China Agricultural University. This work was supported by grants from the National Key Research and Development Program of China (2021YFF1000500 to J.Z.), the National Natural Science Foundation of China (32170265 and 32441022 to J.Z.), the Chinese Universities Scientific Fund (2024TC084 to J.Z.), the Pinduoduo-China Agricultural University Research Fund (PC2024B01005 to J.Z.), the Hainan Provincial Natural Science Foundation of China (323CXTD379 to J.Z.), and the Central Guidance on Local Science and Technology Development Fund of Shanxi Province (YDZJSX2024D040 to C.T. and J.Z.).","oa_version":"Submitted Version","external_id":{"pmid":["40044942"],"isi":["001437953800001"]}},{"OA_place":"publisher","publication_status":"published","publication":"New Phytologist","type":"journal_article","doi":"10.1111/nph.70019","citation":{"ieee":"K. Kurtović <i>et al.</i>, “The role of indole-3-acetic acid and characterization of PIN transporters in complex streptophyte alga Chara braunii,” <i>New Phytologist</i>, vol. 246, no. 3. Wiley, pp. 1066–1083, 2025.","apa":"Kurtović, K., Vosolsobě, S., Nedvěd, D., Müller, K., Dobrev, P., Schmidt, V., … Petrášek, J. (2025). The role of indole-3-acetic acid and characterization of PIN transporters in complex streptophyte alga Chara braunii. <i>New Phytologist</i>. Wiley. <a href=\"https://doi.org/10.1111/nph.70019\">https://doi.org/10.1111/nph.70019</a>","short":"K. Kurtović, S. Vosolsobě, D. Nedvěd, K. Müller, P. Dobrev, V. Schmidt, P. Piszczek, A. Kuhn, A. Smoljan, T. Fisher, D. Weijers, J. Friml, J. Bowman, J. Petrášek, New Phytologist 246 (2025) 1066–1083.","chicago":"Kurtović, K, S Vosolsobě, D Nedvěd, K Müller, PI Dobrev, V Schmidt, P Piszczek, et al. “The Role of Indole-3-Acetic Acid and Characterization of PIN Transporters in Complex Streptophyte Alga Chara Braunii.” <i>New Phytologist</i>. Wiley, 2025. <a href=\"https://doi.org/10.1111/nph.70019\">https://doi.org/10.1111/nph.70019</a>.","ama":"Kurtović K, Vosolsobě S, Nedvěd D, et al. The role of indole-3-acetic acid and characterization of PIN transporters in complex streptophyte alga Chara braunii. <i>New Phytologist</i>. 2025;246(3):1066-1083. doi:<a href=\"https://doi.org/10.1111/nph.70019\">10.1111/nph.70019</a>","ista":"Kurtović K, Vosolsobě S, Nedvěd D, Müller K, Dobrev P, Schmidt V, Piszczek P, Kuhn A, Smoljan A, Fisher T, Weijers D, Friml J, Bowman J, Petrášek J. 2025. The role of indole-3-acetic acid and characterization of PIN transporters in complex streptophyte alga Chara braunii. New Phytologist. 246(3), 1066–1083.","mla":"Kurtović, K., et al. “The Role of Indole-3-Acetic Acid and Characterization of PIN Transporters in Complex Streptophyte Alga Chara Braunii.” <i>New Phytologist</i>, vol. 246, no. 3, Wiley, 2025, pp. 1066–83, doi:<a href=\"https://doi.org/10.1111/nph.70019\">10.1111/nph.70019</a>."},"article_processing_charge":"Yes (via OA deal)","language":[{"iso":"eng"}],"status":"public","date_published":"2025-05-01T00:00:00Z","issue":"3","day":"01","date_created":"2025-03-19T09:45:11Z","author":[{"full_name":"Kurtović, K","first_name":"K","last_name":"Kurtović"},{"last_name":"Vosolsobě","full_name":"Vosolsobě, S","first_name":"S"},{"last_name":"Nedvěd","full_name":"Nedvěd, D","first_name":"D"},{"last_name":"Müller","first_name":"K","full_name":"Müller, K"},{"last_name":"Dobrev","full_name":"Dobrev, PI","first_name":"PI"},{"last_name":"Schmidt","full_name":"Schmidt, V","first_name":"V"},{"full_name":"Piszczek, P","first_name":"P","last_name":"Piszczek"},{"full_name":"Kuhn, A","first_name":"A","last_name":"Kuhn"},{"first_name":"Adrijana","full_name":"Smoljan, Adrijana","id":"cced8a85-223e-11ed-af04-b0596c55053b","last_name":"Smoljan"},{"first_name":"TJ","full_name":"Fisher, TJ","last_name":"Fisher"},{"last_name":"Weijers","first_name":"D","full_name":"Weijers, D"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"last_name":"Bowman","full_name":"Bowman, JL","first_name":"JL"},{"last_name":"Petrášek","first_name":"J","full_name":"Petrášek, J"}],"ddc":["580"],"publication_identifier":{"issn":["1469-8137"]},"oa_version":"Published Version","acknowledgement":"This work was supported by funding from the Czech Science Foundation project no. 20-13587S to JP and SV, Charles University Grant Agency projects no. 289523 to KK and no. 393422 to VS, a DOC fellowship of the Austrian Academy of Sciences to AS, and the Austrian Science Fund (FWF): I 6123-B to JF. The authors acknowledge the Imaging Facility of the Institute of Experimental Botany AS CR supported by the MEYS CR (LM2023050 Czech-BioImaging), the Czech Academy of Sciences and IEB AS CR, and Viničná Microscopy Core Facility cofinanced by the Czech-BioImaging large RI project LM2023050. Computational resources were provided by the e-INFRA CZ project (ID:90254), supported by the MEYS CR. The authors would like to thank Ilse Foissner and Margit Höftberger for discussing details of immunostaining protocol, Katarzyna Retzer and Jan Martinek for help with western blots, Anna Kampová for help with phosphoproteome sampling, Anja Holzhausen and MadLAnd for providing Chara braunii strain S276, and Roman Skokan for valuable discussion. Open access publishing facilitated by Univerzita Karlova, as part of the Wiley - CzechELib agreement.","external_id":{"isi":["001438711600001"],"pmid":["40047465"]},"file_date_updated":"2025-04-16T08:03:36Z","publisher":"Wiley","quality_controlled":"1","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2025","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"pmid":1,"isi":1,"article_type":"original","intvolume":"       246","month":"05","has_accepted_license":"1","abstract":[{"lang":"eng","text":"Auxin, indole-3-acetic acid (IAA), is a key phytohormone with diverse morphogenic roles in land plants, but its function and transport mechanisms in algae remain poorly understood. We therefore aimed to explore the role of IAA in a complex, streptophyte algae Chara braunii.\r\nHere, we described novel responses of C. braunii to IAA and characterized two homologs of PIN auxin efflux carriers: CbPINa and CbPINc. We determined their localization in C. braunii using epitope-specific antibodies and tested their function in heterologous land plant models. Further, using phosphoproteomic analysis, we identified IAA-induced phosphorylation events.\r\nThe thallus regeneration assay showed that IAA promotes thallus elongation and side branch development. Immunolocalization of CbPINa and CbPINc confirmed their presence on the plasma membrane of vegetative and generative cells of C. braunii. However, functional assays in tobacco BY-2 cells demonstrated that CbPINa affects auxin transport, whereas CbPINc does not. The IAA is effective in the acceleration of cytoplasmic streaming and the phosphorylation of evolutionary conserved targets such as homolog of RAF-like kinase.\r\nThese findings suggest that, although canonical PIN-mediated auxin transport mechanisms might not be fully conserved in Chara, IAA is involved in morphogenesis and fast signaling processes."}],"file":[{"file_size":12841729,"success":1,"date_created":"2025-04-16T08:03:36Z","relation":"main_file","file_id":"19571","date_updated":"2025-04-16T08:03:36Z","content_type":"application/pdf","access_level":"open_access","creator":"dernst","checksum":"861c9bf47e7a7766ed03e6d85bd4f6dc","file_name":"2025_NewPhytologist_Kurtovic.pdf"}],"scopus_import":"1","_id":"19423","title":"The role of indole-3-acetic acid and characterization of PIN transporters in complex streptophyte alga Chara braunii","department":[{"_id":"JiFr"}],"date_updated":"2025-09-30T11:11:18Z","OA_type":"hybrid","project":[{"_id":"bd76d395-d553-11ed-ba76-f678c14f9033","name":"Peptide receptors for auxin canalization in Arabidopsis","grant_number":"I06123"}],"volume":246,"page":"1066-1083","oa":1},{"scopus_import":"1","file":[{"checksum":"8225c1899bb2f39f9a1707cc0697a052","file_name":"2025_NaturePlants_deRoij.pdf","creator":"dernst","content_type":"application/pdf","access_level":"open_access","file_id":"20882","date_updated":"2025-12-30T07:28:09Z","relation":"main_file","date_created":"2025-12-30T07:28:09Z","success":1,"file_size":7062474}],"abstract":[{"text":"In land plants, the signalling molecule auxin profoundly controls growth and development, chiefly through a transcriptional response system. The auxin response is mediated by modulating the activity of DNA-binding auxin response factor (ARF) proteins. The concentrations and stoichiometry of the competing A- and B-class ARFs define cells’ capacity for auxin response. In the minimal auxin response system of the liverwort Marchantia polymorpha, both A- and B-ARFs are unstable, but the underlying mechanisms, developmental relevance and evolutionary history of this instability are unknown. Here we identify a minimal motif that is necessary for MpARF2 (B-class) degradation and show that it is critical for development and the auxin response. Through comparative analysis and motif swaps among all ARF classes in extant algae and land plants, we infer that the emergence of ARF instability probably occurred in the ancestor of the A- and B-ARF clades and, therefore, preceded or coincided with the origin of the auxin response system.","lang":"eng"}],"month":"04","has_accepted_license":"1","intvolume":"        11","article_type":"letter_note","oa":1,"volume":11,"page":"717-724","OA_type":"hybrid","department":[{"_id":"JiFr"}],"date_updated":"2025-12-30T07:28:49Z","_id":"19601","title":"ARF degradation defines a deeply conserved step in auxin response","external_id":{"pmid":["40216983"]},"acknowledgement":"We thank S. Woudenberg, S. Valk and J. Rienstra for help and advice, A. Kuhn for comments on the paper and M. Prigge and M. Estelle for helpful discussions. This work was supported by a grant from Netherlands Organization for Scientific Research (NWO; OCENW.M20.031 to J.W.B.), a Marie Skłodowska-Curie Individual Fellowship (H2020-MSCA-IF-2020 contract number to J.H.G.) and a research grant from the Human Frontiers Research Program (HFSP; grant RGP0015/2022 to D.W.).","oa_version":"Published Version","pmid":1,"year":"2025","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","quality_controlled":"1","publisher":"Springer Nature","file_date_updated":"2025-12-30T07:28:09Z","day":"11","date_published":"2025-04-11T00:00:00Z","publication_identifier":{"eissn":["2055-0278"]},"ddc":["580"],"author":[{"first_name":"Martijn","full_name":"De Roij, Martijn","last_name":"De Roij"},{"last_name":"Hernández García","full_name":"Hernández García, Jorge","first_name":"Jorge"},{"last_name":"Das","id":"b08969a4-f2a5-11ed-b6c4-ff0f10b7d0be","first_name":"Shubhajit","full_name":"Das, Shubhajit"},{"full_name":"Borst, Jan Willem","first_name":"Jan Willem","last_name":"Borst"},{"first_name":"Dolf","full_name":"Weijers, Dolf","last_name":"Weijers"}],"date_created":"2025-04-20T22:01:28Z","publication":"Nature Plants","OA_place":"publisher","publication_status":"published","status":"public","citation":{"apa":"De Roij, M., Hernández García, J., Das, S., Borst, J. W., &#38; Weijers, D. (2025). ARF degradation defines a deeply conserved step in auxin response. <i>Nature Plants</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41477-025-01975-1\">https://doi.org/10.1038/s41477-025-01975-1</a>","ieee":"M. De Roij, J. Hernández García, S. Das, J. W. Borst, and D. Weijers, “ARF degradation defines a deeply conserved step in auxin response,” <i>Nature Plants</i>, vol. 11. Springer Nature, pp. 717–724, 2025.","chicago":"De Roij, Martijn, Jorge Hernández García, Shubhajit Das, Jan Willem Borst, and Dolf Weijers. “ARF Degradation Defines a Deeply Conserved Step in Auxin Response.” <i>Nature Plants</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41477-025-01975-1\">https://doi.org/10.1038/s41477-025-01975-1</a>.","short":"M. De Roij, J. Hernández García, S. Das, J.W. Borst, D. Weijers, Nature Plants 11 (2025) 717–724.","ama":"De Roij M, Hernández García J, Das S, Borst JW, Weijers D. ARF degradation defines a deeply conserved step in auxin response. <i>Nature Plants</i>. 2025;11:717-724. doi:<a href=\"https://doi.org/10.1038/s41477-025-01975-1\">10.1038/s41477-025-01975-1</a>","mla":"De Roij, Martijn, et al. “ARF Degradation Defines a Deeply Conserved Step in Auxin Response.” <i>Nature Plants</i>, vol. 11, Springer Nature, 2025, pp. 717–24, doi:<a href=\"https://doi.org/10.1038/s41477-025-01975-1\">10.1038/s41477-025-01975-1</a>.","ista":"De Roij M, Hernández García J, Das S, Borst JW, Weijers D. 2025. ARF degradation defines a deeply conserved step in auxin response. Nature Plants. 11, 717–724."},"article_processing_charge":"Yes (in subscription journal)","language":[{"iso":"eng"}],"doi":"10.1038/s41477-025-01975-1","type":"journal_article"},{"day":"20","date_published":"2025-05-20T00:00:00Z","issue":"20","ddc":["580"],"publication_identifier":{"eissn":["1091-6490"]},"related_material":{"link":[{"url":"https://ista.ac.at/en/news/how-roots-forage-for-water/","description":"News on ISTA website","relation":"press_release"}]},"date_created":"2025-05-25T22:16:43Z","corr_author":"1","author":[{"first_name":"Yuzhou","full_name":"Zhang, Yuzhou","orcid":"0000-0003-2627-6956","id":"3B6137F2-F248-11E8-B48F-1D18A9856A87","last_name":"Zhang"},{"full_name":"Bao, Zhulatai","first_name":"Zhulatai","last_name":"Bao"},{"full_name":"Smoljan, Adrijana","first_name":"Adrijana","id":"cced8a85-223e-11ed-af04-b0596c55053b","last_name":"Smoljan"},{"first_name":"Yifan","full_name":"Liu, Yifan","last_name":"Liu"},{"full_name":"Wang, Huihui","first_name":"Huihui","last_name":"Wang"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"publication":"Proceedings of the National Academy of Sciences","ec_funded":1,"OA_place":"publisher","publication_status":"published","article_processing_charge":"Yes (in subscription journal)","language":[{"iso":"eng"}],"citation":{"apa":"Zhang, Y., Bao, Z., Smoljan, A., Liu, Y., Wang, H., &#38; Friml, J. (2025). Foraging for water by MIZ1-mediated antagonism between root gravitropism and hydrotropism. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2427315122\">https://doi.org/10.1073/pnas.2427315122</a>","ieee":"Y. Zhang, Z. Bao, A. Smoljan, Y. Liu, H. Wang, and J. Friml, “Foraging for water by MIZ1-mediated antagonism between root gravitropism and hydrotropism,” <i>Proceedings of the National Academy of Sciences</i>, vol. 122, no. 20. National Academy of Sciences, 2025.","chicago":"Zhang, Yuzhou, Zhulatai Bao, Adrijana Smoljan, Yifan Liu, Huihui Wang, and Jiří Friml. “Foraging for Water by MIZ1-Mediated Antagonism between Root Gravitropism and Hydrotropism.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2025. <a href=\"https://doi.org/10.1073/pnas.2427315122\">https://doi.org/10.1073/pnas.2427315122</a>.","short":"Y. Zhang, Z. Bao, A. Smoljan, Y. Liu, H. Wang, J. Friml, Proceedings of the National Academy of Sciences 122 (2025).","ama":"Zhang Y, Bao Z, Smoljan A, Liu Y, Wang H, Friml J. Foraging for water by MIZ1-mediated antagonism between root gravitropism and hydrotropism. <i>Proceedings of the National Academy of Sciences</i>. 2025;122(20). doi:<a href=\"https://doi.org/10.1073/pnas.2427315122\">10.1073/pnas.2427315122</a>","mla":"Zhang, Yuzhou, et al. “Foraging for Water by MIZ1-Mediated Antagonism between Root Gravitropism and Hydrotropism.” <i>Proceedings of the National Academy of Sciences</i>, vol. 122, no. 20, e2427315122, National Academy of Sciences, 2025, doi:<a href=\"https://doi.org/10.1073/pnas.2427315122\">10.1073/pnas.2427315122</a>.","ista":"Zhang Y, Bao Z, Smoljan A, Liu Y, Wang H, Friml J. 2025. Foraging for water by MIZ1-mediated antagonism between root gravitropism and hydrotropism. Proceedings of the National Academy of Sciences. 122(20), e2427315122."},"status":"public","doi":"10.1073/pnas.2427315122","APC_amount":"5937,40 EUR","type":"journal_article","article_number":"e2427315122","scopus_import":"1","has_accepted_license":"1","month":"05","article_type":"original","intvolume":"       122","file":[{"access_level":"open_access","content_type":"application/pdf","creator":"dernst","file_name":"2025_PNAS_Zhang.pdf","checksum":"f70ff35054561b27a463ba279d1795dc","file_size":8266672,"success":1,"relation":"main_file","date_created":"2025-05-28T08:04:50Z","date_updated":"2025-05-28T08:04:50Z","file_id":"19750"}],"abstract":[{"lang":"eng","text":"Root system integrates multiple environmental cues, chiefly gravity and soil humidity, to anchor plants in soil and forage for water. While the mechanism of auxin-mediated root gravitropism is comparably well-understood, the root’s capability to grow toward moist soil for water uptake and drought avoidance, termed root hydrotropism, remains largely mysterious. Here, we provide key insights into the mechanism of hydrotropic growth and assign a role to the master regulator of hydrotropism, MIZU-KUSSEI 1 (MIZ1). We show that efficient hydrotropism requires the attenuation of antagonistically acting gravitropism, which is inhibited under drought conditions. Drought stress interferes with subcellular trafficking and the lateral mobility of PIN auxin transporters, which are polarly localized at the root cell plasma membranes. This leads to defects in PIN2 polarity and gravity-induced polarization of PIN3, ultimately inhibiting gravity-induced auxin redistribution and root bending. The miz1 mutant is defective in all these regulations, and in support of MIZ1’s action on PINs, pin mutations rescue the hydrotropic defects in the miz1 mutant. These observations identify a mechanism for how drought via MIZ1 attenuates gravitropism to promote root hydrotropism for efficient water foraging under drought conditions."}],"project":[{"call_identifier":"H2020","grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425","name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630"}],"OA_type":"hybrid","volume":122,"oa":1,"department":[{"_id":"JiFr"}],"date_updated":"2026-05-20T08:34:21Z","_id":"19728","title":"Foraging for water by MIZ1-mediated antagonism between root gravitropism and hydrotropism","external_id":{"pmid":["40372432"],"isi":["001496347500001"]},"acknowledgement":"This work was supported by the European Union’s Horizon 2020 research and innovation Programme (European Research Council grant agreement number 742985), Austrian Science Fund (FWF, grant number I 3630-B25), (Institute of Science and Technology Austria) Fellow program, the Qin Chuangyuan High-level Innovation and Entrepreneurship Talent Program (QCYRCXM-2022-237), the Fundamental Research Funds for Northwest A&F University and partly supported by the open funds of the State Key Laboratory of Plant Environmental Resilience (SKLPERKF2416). We also thank the Teaching and Research Core Facility at the College of Life Sciences, Northwest A&F University, particularly Dr. Ningjuan Fan for technical assistance.","oa_version":"Published Version","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pmid":1,"isi":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"year":"2025","publisher":"National Academy of Sciences","file_date_updated":"2025-05-28T08:04:50Z","quality_controlled":"1"},{"article_type":"review","month":"05","abstract":[{"lang":"eng","text":"The phytohormone auxin is a major signal coordinating growth and development in plants. The variety of its effects arises from its ability to form local auxin maxima and gradients within tissues, generated through directional cell-to-cell transport and elaborate metabolic control. These auxin distribution patterns instruct cells in a context-dependent manner to undergo predefined developmental transitions. In this Review, we discuss advances in auxin action at the level of homeostasis and signalling. We highlight key insights into the structural basis of PIN-mediated intercellular auxin transport and explore two novel non-transcriptional auxin signalling mechanisms: one involving intracellular Ca2+ transients and another involving cell-surface auxin perception that mediates global, ultrafast phosphorylation. Furthermore, we examine emerging evidence indicating the involvement of cyclic adenosine monophosphate as a second messenger in the transcriptional auxin response. Together, these recent developments in auxin research have profoundly deepened our understanding of the complex and diverse activities of auxin in plant growth and development."}],"article_number":"e113018","scopus_import":"1","title":"Mechanisms of auxin action in plant growth and development","_id":"19736","department":[{"_id":"JiFr"}],"date_updated":"2025-09-30T12:41:30Z","OA_type":"closed access","oa_version":"None","external_id":{"pmid":["40389696"],"isi":["001490500500001"]},"publisher":"Springer Nature","quality_controlled":"1","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2025","isi":1,"pmid":1,"date_published":"2025-05-19T00:00:00Z","day":"19","date_created":"2025-05-25T22:16:57Z","corr_author":"1","author":[{"last_name":"Vanneste","first_name":"Steffen","full_name":"Vanneste, Steffen"},{"last_name":"Pei","id":"98605edc-6ce7-11ee-95f3-cc16b866efcd","first_name":"Yuanrong","full_name":"Pei, Yuanrong"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"publication_identifier":{"eissn":["1471-0080"],"issn":["1471-0072"]},"publication_status":"published","publication":"Nature Reviews Molecular Cell Biology","type":"journal_article","doi":"10.1038/s41580-025-00851-2","citation":{"ama":"Vanneste S, Pei Y, Friml J. Mechanisms of auxin action in plant growth and development. <i>Nature Reviews Molecular Cell Biology</i>. 2025. doi:<a href=\"https://doi.org/10.1038/s41580-025-00851-2\">10.1038/s41580-025-00851-2</a>","mla":"Vanneste, Steffen, et al. “Mechanisms of Auxin Action in Plant Growth and Development.” <i>Nature Reviews Molecular Cell Biology</i>, e113018, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1038/s41580-025-00851-2\">10.1038/s41580-025-00851-2</a>.","ista":"Vanneste S, Pei Y, Friml J. 2025. Mechanisms of auxin action in plant growth and development. Nature Reviews Molecular Cell Biology., e113018.","apa":"Vanneste, S., Pei, Y., &#38; Friml, J. (2025). Mechanisms of auxin action in plant growth and development. <i>Nature Reviews Molecular Cell Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41580-025-00851-2\">https://doi.org/10.1038/s41580-025-00851-2</a>","ieee":"S. Vanneste, Y. Pei, and J. Friml, “Mechanisms of auxin action in plant growth and development,” <i>Nature Reviews Molecular Cell Biology</i>. Springer Nature, 2025.","chicago":"Vanneste, Steffen, Yuanrong Pei, and Jiří Friml. “Mechanisms of Auxin Action in Plant Growth and Development.” <i>Nature Reviews Molecular Cell Biology</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41580-025-00851-2\">https://doi.org/10.1038/s41580-025-00851-2</a>.","short":"S. Vanneste, Y. Pei, J. Friml, Nature Reviews Molecular Cell Biology (2025)."},"language":[{"iso":"eng"}],"article_processing_charge":"No","status":"public"},{"day":"22","issue":"7","date_published":"2025-07-22T00:00:00Z","publication_identifier":{"eissn":["2211-1247"],"issn":["2639-1856"]},"ddc":["580"],"author":[{"full_name":"Guan, Bin","first_name":"Bin","id":"56aad729-cca2-11ed-a45a-9b4138991a48","last_name":"Guan"},{"last_name":"Xie","first_name":"Ke Xuan","full_name":"Xie, Ke Xuan"},{"last_name":"Du","first_name":"Xin Qiao","full_name":"Du, Xin Qiao"},{"first_name":"Yu Xuan","full_name":"Bai, Yu Xuan","last_name":"Bai"},{"last_name":"Hao","first_name":"Peng Chao","full_name":"Hao, Peng Chao"},{"last_name":"Lin","full_name":"Lin, Wen Hui","first_name":"Wen Hui"},{"last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","first_name":"Jiří"},{"full_name":"Xue, Hong Wei","first_name":"Hong Wei","last_name":"Xue"}],"date_created":"2025-07-20T22:02:01Z","license":"https://creativecommons.org/licenses/by-nc/4.0/","publication":"Cell Reports","OA_place":"publisher","publication_status":"published","status":"public","article_processing_charge":"Yes (in subscription journal)","language":[{"iso":"eng"}],"citation":{"chicago":"Guan, Bin, Ke Xuan Xie, Xin Qiao Du, Yu Xuan Bai, Peng Chao Hao, Wen Hui Lin, Jiří Friml, and Hong Wei Xue. “Arabidopsis Phospholipase Dζ2 Facilitates Vacuolar Acidification and Autophagy under Phosphorus Starvation by Interacting with VATD.” <i>Cell Reports</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.celrep.2025.116024\">https://doi.org/10.1016/j.celrep.2025.116024</a>.","short":"B. Guan, K.X. Xie, X.Q. Du, Y.X. Bai, P.C. Hao, W.H. Lin, J. Friml, H.W. Xue, Cell Reports 44 (2025).","apa":"Guan, B., Xie, K. X., Du, X. Q., Bai, Y. X., Hao, P. C., Lin, W. H., … Xue, H. W. (2025). Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD. <i>Cell Reports</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.celrep.2025.116024\">https://doi.org/10.1016/j.celrep.2025.116024</a>","ieee":"B. Guan <i>et al.</i>, “Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD,” <i>Cell Reports</i>, vol. 44, no. 7. Elsevier, 2025.","mla":"Guan, Bin, et al. “Arabidopsis Phospholipase Dζ2 Facilitates Vacuolar Acidification and Autophagy under Phosphorus Starvation by Interacting with VATD.” <i>Cell Reports</i>, vol. 44, no. 7, 116024, Elsevier, 2025, doi:<a href=\"https://doi.org/10.1016/j.celrep.2025.116024\">10.1016/j.celrep.2025.116024</a>.","ista":"Guan B, Xie KX, Du XQ, Bai YX, Hao PC, Lin WH, Friml J, Xue HW. 2025. Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD. Cell Reports. 44(7), 116024.","ama":"Guan B, Xie KX, Du XQ, et al. Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD. <i>Cell Reports</i>. 2025;44(7). doi:<a href=\"https://doi.org/10.1016/j.celrep.2025.116024\">10.1016/j.celrep.2025.116024</a>"},"type":"journal_article","doi":"10.1016/j.celrep.2025.116024","article_number":"116024","scopus_import":"1","abstract":[{"lang":"eng","text":"Vacuolar acidification is crucial for the homeostasis of intracellular pH and the recycling of proteins and nutrients in cells, thereby playing important roles in various physiological processes related to vacuolar function. The key factors regulating vacuolar acidification and underlying mechanisms remain unclear. Here, we report that Arabidopsis phospholipase Dζ2 (PLDζ2) promotes the acidification of the vacuolar lumen to stimulate autophagic degradation under phosphorus deficiency. The pldζ2 mutant massively accumulates autophagic structures while exhibiting premature leaf senescence under nutrient starvation. Impaired autophagic flux, lytic vacuole morphology, and lytic degradation in pldζ2 indicate that PLDζ2 regulates autophagy by affecting the vacuolar function. PLDζ2 locates in both tonoplast and cytoplasm. Genetic, structural, and biochemical studies demonstrate that PLDζ2 directly interacts with vacuolar-type ATPase (V-ATPase) subunit D (VATD) to promote vacuolar acidification and autophagy under phosphorus starvation. These findings reveal the importance of V-ATPase and vacuolar pH in autophagic activity and provide clues in elucidating the regulatory mechanism of vacuolar acidification."}],"file":[{"creator":"dernst","content_type":"application/pdf","access_level":"open_access","checksum":"ee03deee47a084b0295251dc49470ad4","file_name":"2025_CellReports_Guan.pdf","file_size":37708120,"file_id":"20067","date_updated":"2025-07-22T08:52:17Z","relation":"main_file","success":1,"date_created":"2025-07-22T08:52:17Z"}],"intvolume":"        44","article_type":"original","month":"07","has_accepted_license":"1","volume":44,"oa":1,"OA_type":"hybrid","title":"Arabidopsis phospholipase Dζ2 facilitates vacuolar acidification and autophagy under phosphorus starvation by interacting with VATD","_id":"20029","date_updated":"2025-09-30T14:05:28Z","department":[{"_id":"JiFr"}],"external_id":{"isi":["001533244800001"],"pmid":["40668679"]},"oa_version":"Published Version","acknowledgement":"The study was supported by National Natural Science Foundation of China (NSFC, 92354301, 32230011, 32200274, and 91954206). The computations were run on the Siyuan-1 cluster supported by the Center for High-Performance Computing at Shanghai Jiao Tong University.","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)"},"year":"2025","pmid":1,"isi":1,"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","quality_controlled":"1","publisher":"Elsevier","file_date_updated":"2025-07-22T08:52:17Z"},{"quality_controlled":"1","publisher":"Oxford University Press","isi":1,"pmid":1,"year":"2025","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","acknowledgement":"This research was supported by FONDECYT grants 1170950 and 1211311 and by ANID PhD fellowship 2020-21201663 to PhD student CO-N. The microscopes used in this work were funded by grants FONDEQUIP #EQM 140019 and #EQM12-0003 at the Advanced Microscopy Unit of the Biology Department, Faculty of Science, University of Chile.\r\nWe thank Jiri Friml for donating the XVE»AUXILIN-LIKE2 (AX2) line to support our research. We wish to acknowledge the active and helpful discussion of all the members of the LNM team and the Plant Molecular Biology Centre at Universidad de Chile.","oa_version":"None","external_id":{"isi":["001482869200001"],"pmid":["40056424"]},"date_updated":"2025-09-30T14:04:16Z","department":[{"_id":"JiFr"}],"_id":"20031","title":"The configuration of the vacuole is driven by clathrin-mediated trafficking in root cells of Arabidopsis thaliana","page":"2700-2714","volume":76,"OA_type":"closed access","abstract":[{"text":"The central vacuole is a multifunctional organelle with the most significant occupancy in a differentiated plant cell. Plants depend on the function of the vacuole for critical development, growth, and environmental responses. As the cell expands, the vacuole changes shape and size, increasing its membrane and luminal content. The set of these events is called the vacuolar configuration process, which has not been well described. Our research highlights the impact of plasma membrane internalization on vacuole morphology during the vacuolar configuration process. We observed a direct correlation between differential endocytosis rates and the enrichment of vacuolar membranous structures. Chemical and genetic interference with clathrin-mediated endocytosis (CME) revealed that it is required for the vacuolar configuration of growing root cells. The contribution of CME to the vacuole configuration process co-occurs with the induction of post-trans-Golgi network (TGN)/early endosome (EE) trafficking with the participation of the Rab GTPases ARA6 and ARA7. Our results show that the CME plays an active role during vacuole configuration, most probably carrying the material that allows the establishment of the vacuole in elongating cells. Since membrane trafficking through the EE/TGN is required to reach the vacuole, additional players must be defined.","lang":"eng"}],"month":"07","intvolume":"        76","article_type":"original","scopus_import":"1","doi":"10.1093/jxb/eraf084","type":"journal_article","status":"public","language":[{"iso":"eng"}],"article_processing_charge":"No","citation":{"mla":"Osorio-Navarro, Claudio, et al. “The Configuration of the Vacuole Is Driven by Clathrin-Mediated Trafficking in Root Cells of Arabidopsis Thaliana.” <i>Journal of Experimental Botany</i>, vol. 76, no. 10, Oxford University Press, 2025, pp. 2700–14, doi:<a href=\"https://doi.org/10.1093/jxb/eraf084\">10.1093/jxb/eraf084</a>.","ista":"Osorio-Navarro C, Neira-Valenzuela G, Sierra P, Adamowski M, Toledo J, Norambuena L. 2025. The configuration of the vacuole is driven by clathrin-mediated trafficking in root cells of Arabidopsis thaliana. Journal of Experimental Botany. 76(10), 2700–2714.","ama":"Osorio-Navarro C, Neira-Valenzuela G, Sierra P, Adamowski M, Toledo J, Norambuena L. The configuration of the vacuole is driven by clathrin-mediated trafficking in root cells of Arabidopsis thaliana. <i>Journal of Experimental Botany</i>. 2025;76(10):2700-2714. doi:<a href=\"https://doi.org/10.1093/jxb/eraf084\">10.1093/jxb/eraf084</a>","chicago":"Osorio-Navarro, Claudio, Gabriel Neira-Valenzuela, Paula Sierra, Maciek Adamowski, Jorge Toledo, and Lorena Norambuena. “The Configuration of the Vacuole Is Driven by Clathrin-Mediated Trafficking in Root Cells of Arabidopsis Thaliana.” <i>Journal of Experimental Botany</i>. Oxford University Press, 2025. <a href=\"https://doi.org/10.1093/jxb/eraf084\">https://doi.org/10.1093/jxb/eraf084</a>.","short":"C. Osorio-Navarro, G. Neira-Valenzuela, P. Sierra, M. Adamowski, J. Toledo, L. Norambuena, Journal of Experimental Botany 76 (2025) 2700–2714.","apa":"Osorio-Navarro, C., Neira-Valenzuela, G., Sierra, P., Adamowski, M., Toledo, J., &#38; Norambuena, L. (2025). The configuration of the vacuole is driven by clathrin-mediated trafficking in root cells of Arabidopsis thaliana. <i>Journal of Experimental Botany</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/jxb/eraf084\">https://doi.org/10.1093/jxb/eraf084</a>","ieee":"C. Osorio-Navarro, G. Neira-Valenzuela, P. Sierra, M. Adamowski, J. Toledo, and L. Norambuena, “The configuration of the vacuole is driven by clathrin-mediated trafficking in root cells of Arabidopsis thaliana,” <i>Journal of Experimental Botany</i>, vol. 76, no. 10. Oxford University Press, pp. 2700–2714, 2025."},"publication_status":"published","publication":"Journal of Experimental Botany","author":[{"last_name":"Osorio-Navarro","first_name":"Claudio","full_name":"Osorio-Navarro, Claudio"},{"first_name":"Gabriel","full_name":"Neira-Valenzuela, Gabriel","last_name":"Neira-Valenzuela"},{"first_name":"Paula","full_name":"Sierra, Paula","last_name":"Sierra"},{"last_name":"Adamowski","id":"45F536D2-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6463-5257","first_name":"Maciek","full_name":"Adamowski, Maciek"},{"full_name":"Toledo, Jorge","first_name":"Jorge","last_name":"Toledo"},{"last_name":"Norambuena","full_name":"Norambuena, Lorena","first_name":"Lorena"}],"date_created":"2025-07-20T22:02:01Z","publication_identifier":{"eissn":["1460-2431"],"issn":["0022-0957"]},"issue":"10","date_published":"2025-07-02T00:00:00Z","day":"02"},{"publication":"Cell Reports","publication_status":"published","OA_place":"publisher","status":"public","language":[{"iso":"eng"}],"citation":{"mla":"Xu, Faqing, et al. “Germin-like Protein 1 Interacts with Proteasome Regulator 1 to Regulate Auxin Signaling by Controlling Aux/IAA Homeostasis.” <i>Cell Reports</i>, vol. 44, no. 8, 116056, Elsevier, 2025, doi:<a href=\"https://doi.org/10.1016/j.celrep.2025.116056\">10.1016/j.celrep.2025.116056</a>.","ista":"Xu F, Yu Y, Guan B, Xu T, Xu Z, Xue H. 2025. Germin-like protein 1 interacts with proteasome regulator 1 to regulate auxin signaling by controlling Aux/IAA homeostasis. Cell Reports. 44(8), 116056.","ama":"Xu F, Yu Y, Guan B, Xu T, Xu Z, Xue H. Germin-like protein 1 interacts with proteasome regulator 1 to regulate auxin signaling by controlling Aux/IAA homeostasis. <i>Cell Reports</i>. 2025;44(8). doi:<a href=\"https://doi.org/10.1016/j.celrep.2025.116056\">10.1016/j.celrep.2025.116056</a>","chicago":"Xu, Faqing, Yongqiang Yu, Bin Guan, Tongda Xu, Zhihong Xu, and Hongwei Xue. “Germin-like Protein 1 Interacts with Proteasome Regulator 1 to Regulate Auxin Signaling by Controlling Aux/IAA Homeostasis.” <i>Cell Reports</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.celrep.2025.116056\">https://doi.org/10.1016/j.celrep.2025.116056</a>.","short":"F. Xu, Y. Yu, B. Guan, T. Xu, Z. Xu, H. Xue, Cell Reports 44 (2025).","apa":"Xu, F., Yu, Y., Guan, B., Xu, T., Xu, Z., &#38; Xue, H. (2025). Germin-like protein 1 interacts with proteasome regulator 1 to regulate auxin signaling by controlling Aux/IAA homeostasis. <i>Cell Reports</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.celrep.2025.116056\">https://doi.org/10.1016/j.celrep.2025.116056</a>","ieee":"F. Xu, Y. Yu, B. Guan, T. Xu, Z. Xu, and H. Xue, “Germin-like protein 1 interacts with proteasome regulator 1 to regulate auxin signaling by controlling Aux/IAA homeostasis,” <i>Cell Reports</i>, vol. 44, no. 8. Elsevier, 2025."},"article_processing_charge":"Yes","doi":"10.1016/j.celrep.2025.116056","type":"journal_article","day":"24","issue":"8","date_published":"2025-07-24T00:00:00Z","publication_identifier":{"eissn":["2211-1247"]},"ddc":["580"],"author":[{"full_name":"Xu, Faqing","first_name":"Faqing","last_name":"Xu"},{"first_name":"Yongqiang","full_name":"Yu, Yongqiang","last_name":"Yu"},{"first_name":"Bin","full_name":"Guan, Bin","last_name":"Guan","id":"56aad729-cca2-11ed-a45a-9b4138991a48"},{"last_name":"Xu","first_name":"Tongda","full_name":"Xu, Tongda"},{"full_name":"Xu, Zhihong","first_name":"Zhihong","last_name":"Xu"},{"last_name":"Xue","full_name":"Xue, Hongwei","first_name":"Hongwei"}],"date_created":"2025-08-04T13:39:11Z","external_id":{"pmid":["40714631"],"isi":["001542038500001"]},"acknowledgement":"The study was supported by the National Natural Science Foundation of China (NSFC; 32230011, 91954206, and 31721001). We thank Dr. Deli Lin (Shanghai Jiao Tong University) for kind help with the laser confocal microscope observation and the Arabidopsis Biological Resource Center (ABRC) for providing T-DNA insertional mutants.","oa_version":"Published Version","isi":1,"pmid":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)"},"year":"2025","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","quality_controlled":"1","publisher":"Elsevier","file_date_updated":"2025-08-05T06:15:09Z","article_number":"116056","scopus_import":"1","file":[{"file_size":24178018,"success":1,"date_created":"2025-08-05T06:15:09Z","relation":"main_file","date_updated":"2025-08-05T06:15:09Z","file_id":"20120","access_level":"open_access","content_type":"application/pdf","creator":"dernst","file_name":"2025_CellReports_Xu.pdf","checksum":"3c43e040a4a7a65ec67ae1d2bb81261a"}],"DOAJ_listed":"1","abstract":[{"lang":"eng","text":"Auxin regulates various aspects of plant growth and development by modulating the transcription of target genes through the degradation of auxin/indole-3-acetic acid (Aux/IAA) repressors via the 26S proteasome. Proteasome regulator 1 (PTRE1), a positive regulator of proteasome activity, has been implicated in auxin-mediated proteasome suppression; however, the mechanism by which auxin modulates PTRE1 function remains unclear. Here, we demonstrate that auxin promotes the interaction between germin-like protein 1 (GLP1) and PTRE1, facilitating PTRE1 retention at the plasma membrane. The relocation of PTRE1 results in reduced nuclear 26S proteasome activity, and thus the attenuated Aux/IAA degradation and altered Aux/IAA homeostasis, ultimately resulting in suppressed auxin-mediated transcriptional regulation. Our findings uncover a previously uncharacterized regulatory axis in auxin signaling that controls Aux/IAA protein stability, functioning alongside the TIR1- and TRANSMEMBRANE KINASE 1 (TMK1)-mediated pathways, and highlight the coordination of auxin signaling from the cell surface to the nucleus via auxin-induced PTRE1 relocation, which fine-tunes Aux/IAA protein homeostasis and auxin responses."}],"has_accepted_license":"1","month":"07","article_type":"original","intvolume":"        44","volume":44,"oa":1,"OA_type":"gold","date_updated":"2025-09-30T14:13:45Z","department":[{"_id":"JiFr"}],"_id":"20116","title":"Germin-like protein 1 interacts with proteasome regulator 1 to regulate auxin signaling by controlling Aux/IAA homeostasis"},{"corr_author":"1","date_created":"2025-08-17T22:01:36Z","author":[{"first_name":"David","full_name":"Babic, David","id":"db566d23-f6e0-11ea-865d-e6f270e968e7","last_name":"Babic"},{"last_name":"Abualia","id":"4827E134-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9357-9415","first_name":"Rashed","full_name":"Abualia, Rashed"},{"full_name":"Fiedler, Lukas","first_name":"Lukas","last_name":"Fiedler","id":"7c417475-8972-11ed-ae7b-8b674ca26986"},{"orcid":"0000-0001-5187-8401","id":"44B04502-A9ED-11E9-B6FC-583AE6697425","last_name":"Qi","full_name":"Qi, Linlin","first_name":"Linlin"},{"full_name":"Tellier, Frédérique","first_name":"Frédérique","last_name":"Tellier"},{"full_name":"Smoljan, Adrijana","first_name":"Adrijana","last_name":"Smoljan","id":"cced8a85-223e-11ed-af04-b0596c55053b"},{"full_name":"Rakusova, Hana","first_name":"Hana","last_name":"Rakusova","id":"4CAAA450-78D2-11EA-8E57-B40A396E08BA"},{"id":"3CDB6F94-F248-11E8-B48F-1D18A9856A87","last_name":"Valošek","first_name":"Petr","full_name":"Valošek, Petr"},{"first_name":"Huibin","full_name":"Han, Huibin","id":"31435098-F248-11E8-B48F-1D18A9856A87","last_name":"Han"},{"id":"38F4F166-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8510-9739","last_name":"Benková","full_name":"Benková, Eva","first_name":"Eva"},{"last_name":"Faure","first_name":"Jean Denis","full_name":"Faure, Jean Denis"},{"last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří"}],"ddc":["580"],"publication_identifier":{"issn":["0960-7412"],"eissn":["1365-313X"]},"related_material":{"record":[{"relation":"dissertation_contains","id":"20362","status":"public"}]},"date_published":"2025-08-01T00:00:00Z","issue":"3","day":"01","doi":"10.1111/tpj.70396","type":"journal_article","citation":{"ama":"Babic D, Abualia R, Fiedler L, et al. Biosynthesis of very long-chain fatty acids is required for Arabidopsis auxin-mediated embryonic and post-embryonic development. <i>Plant Journal</i>. 2025;123(3). doi:<a href=\"https://doi.org/10.1111/tpj.70396\">10.1111/tpj.70396</a>","mla":"Babic, David, et al. “Biosynthesis of Very Long-Chain Fatty Acids Is Required for Arabidopsis Auxin-Mediated Embryonic and Post-Embryonic Development.” <i>Plant Journal</i>, vol. 123, no. 3, e70396, Wiley, 2025, doi:<a href=\"https://doi.org/10.1111/tpj.70396\">10.1111/tpj.70396</a>.","ista":"Babic D, Abualia R, Fiedler L, Qi L, Tellier F, Smoljan A, Rakusova H, Valošek P, Han H, Benková E, Faure JD, Friml J. 2025. Biosynthesis of very long-chain fatty acids is required for Arabidopsis auxin-mediated embryonic and post-embryonic development. Plant Journal. 123(3), e70396.","apa":"Babic, D., Abualia, R., Fiedler, L., Qi, L., Tellier, F., Smoljan, A., … Friml, J. (2025). Biosynthesis of very long-chain fatty acids is required for Arabidopsis auxin-mediated embryonic and post-embryonic development. <i>Plant Journal</i>. Wiley. <a href=\"https://doi.org/10.1111/tpj.70396\">https://doi.org/10.1111/tpj.70396</a>","ieee":"D. Babic <i>et al.</i>, “Biosynthesis of very long-chain fatty acids is required for Arabidopsis auxin-mediated embryonic and post-embryonic development,” <i>Plant Journal</i>, vol. 123, no. 3. Wiley, 2025.","chicago":"Babic, David, Rashed Abualia, Lukas Fiedler, Linlin Qi, Frédérique Tellier, Adrijana Smoljan, Hana Rakusova, et al. “Biosynthesis of Very Long-Chain Fatty Acids Is Required for Arabidopsis Auxin-Mediated Embryonic and Post-Embryonic Development.” <i>Plant Journal</i>. Wiley, 2025. <a href=\"https://doi.org/10.1111/tpj.70396\">https://doi.org/10.1111/tpj.70396</a>.","short":"D. Babic, R. Abualia, L. Fiedler, L. Qi, F. Tellier, A. Smoljan, H. Rakusova, P. Valošek, H. Han, E. Benková, J.D. Faure, J. Friml, Plant Journal 123 (2025)."},"article_processing_charge":"Yes (via OA deal)","language":[{"iso":"eng"}],"status":"public","OA_place":"publisher","publication_status":"published","PlanS_conform":"1","acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"},{"_id":"LifeSc"}],"publication":"Plant Journal","department":[{"_id":"EvBe"},{"_id":"JiFr"},{"_id":"GradSch"}],"date_updated":"2026-04-07T11:52:02Z","title":"Biosynthesis of very long-chain fatty acids is required for Arabidopsis auxin-mediated embryonic and post-embryonic development","_id":"20187","project":[{"_id":"bd76d395-d553-11ed-ba76-f678c14f9033","name":"Peptide receptors for auxin canalization in Arabidopsis","grant_number":"I06123"}],"OA_type":"hybrid","volume":123,"oa":1,"has_accepted_license":"1","month":"08","intvolume":"       123","article_type":"original","file":[{"content_type":"application/pdf","access_level":"open_access","creator":"dernst","checksum":"1cdc3341d2d23101abca72521f1f23cb","file_name":"2025_PlantJournal_Babic.pdf","file_size":5791111,"relation":"main_file","success":1,"date_created":"2025-09-01T14:09:31Z","file_id":"20264","date_updated":"2025-09-01T14:09:31Z"}],"abstract":[{"lang":"eng","text":"Very long-chain fatty acids (VLCFAs), being constituents of different types of lipids, are critical factors in plant development, presumably due to their impact on the endomembrane system. The VLCFAs are synthesized in the endoplasmic reticulum by a heterotetrameric enzymatic complex including β-ketoacyl CoA reductase 1 (KCR1), whose mutant is lethal. Here, we describe the ectopic shoot meristems (esm) mutant, a viable kcr1 allele presumably affecting surface properties of the KCR1 protein. This kcr1-2 mutant shows reduced fatty acyl elongation that impacts VLCFAs. The kcr1-2 plants show severe defects during different stages of development, which all correlate with defects in polar localization and subcellular trafficking of PIN auxin transporters and resulting asymmetric auxin distribution. Detailed analysis of KCR1 expression and patterning defects in kcr1-2 suggests that KCR1 plays a role in delineating boundaries around meristematic and specialized differentiating tissues, including root and shoot meristems, initiating lateral roots, lateral root primordia, and trichomes. In these contexts, KCR1-produced VLCFAs may act in a non-cell-autonomous manner. Viable kcr1-2 represents a useful tool to study VLCFA roles in plant development and highlights VLCFAs as critical developmental factors at the interface of cell polarity and tissue development."}],"article_number":"e70396","scopus_import":"1","file_date_updated":"2025-09-01T14:09:31Z","publisher":"Wiley","quality_controlled":"1","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","pmid":1,"isi":1,"year":"2025","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"acknowledgement":"We gratefully acknowledge the Imaging and Optics, Electron Microscopy (especially Vanessa Zheden for technical assistance) and Life Science (in particular Dorota Jaworska) facilities at ISTA for their continuous support. Authors would like to thank Michelle Gallei for advice during the generation of the transgenic lines; Zuzana Gelová for advice with DR5rev::GFP analyses; Ivan Kulich for help and advice on trichome imaging; Aline Monzer for generous help with hypocotyl and root analyses; Shutang Tan for help with the NGS data analysis; and Milan Župunski for advice on abiotic stress experiments. We would like to thank Dolf Weijers for the SOSEKI (SOK) marker line seeds. This work has benefited from the support of IJPB's Plant Observatory platforms P0-Chem.\r\n\r\nThis work was supported by Austrian Science Fund (FWF) (I 6123-B) and Science and Technology Department of Jiangxi Province (20223BCJ25037) to Huibin Han. The IJPB benefits from the support of Saclay Plant Sciences-SPS (ANR-17-EUR-0007).","oa_version":"Published Version","external_id":{"pmid":["40782342"],"isi":["001547884300001"]}},{"degree_awarded":"PhD","month":"09","has_accepted_license":"1","file":[{"content_type":"application/pdf","access_level":"closed","creator":"dbabic","embargo":"2026-09-25","embargo_to":"open_access","checksum":"5ecf274281a54a41e0288bc79edf7492","file_name":"2025_David_Babic_Thesis.pdf","file_size":7501548,"date_created":"2025-09-24T13:43:14Z","relation":"main_file","file_id":"20388","date_updated":"2025-09-26T07:29:11Z"},{"file_name":"Thesis_Babic_draft.docx","checksum":"2703e548390de0a1af7a707137e8ab3b","creator":"dbabic","access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_updated":"2025-09-26T07:29:11Z","file_id":"20389","date_created":"2025-09-24T13:43:14Z","relation":"source_file","file_size":23206052}],"page":"116","supervisor":[{"last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","first_name":"Jiří"},{"full_name":"Benková, Eva","first_name":"Eva","last_name":"Benková","orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87"}],"title":"Mechanisms of auxin-mediated early embryogenesis in Arabidopsis thaliana","_id":"20362","department":[{"_id":"GradSch"},{"_id":"JiFr"},{"_id":"EvBe"}],"date_updated":"2026-04-07T11:52:02Z","oa_version":"Published Version","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"year":"2025","publisher":"Institute of Science and Technology Austria","file_date_updated":"2025-09-26T07:29:11Z","day":"18","date_published":"2025-09-18T00:00:00Z","ddc":["580"],"alternative_title":["ISTA Thesis"],"related_material":{"record":[{"relation":"part_of_dissertation","id":"20187","status":"public"}]},"publication_identifier":{"issn":["2663-337X"]},"corr_author":"1","date_created":"2025-09-17T13:28:01Z","author":[{"last_name":"Babic","id":"db566d23-f6e0-11ea-865d-e6f270e968e7","full_name":"Babic, David","first_name":"David"}],"OA_place":"publisher","publication_status":"published","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"language":[{"iso":"eng"}],"citation":{"chicago":"Babic, David. “Mechanisms of Auxin-Mediated Early Embryogenesis in Arabidopsis Thaliana.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20362\">https://doi.org/10.15479/AT-ISTA-20362</a>.","short":"D. Babic, Mechanisms of Auxin-Mediated Early Embryogenesis in Arabidopsis Thaliana, Institute of Science and Technology Austria, 2025.","apa":"Babic, D. (2025). <i>Mechanisms of auxin-mediated early embryogenesis in Arabidopsis thaliana</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20362\">https://doi.org/10.15479/AT-ISTA-20362</a>","ieee":"D. Babic, “Mechanisms of auxin-mediated early embryogenesis in Arabidopsis thaliana,” Institute of Science and Technology Austria, 2025.","mla":"Babic, David. <i>Mechanisms of Auxin-Mediated Early Embryogenesis in Arabidopsis Thaliana</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20362\">10.15479/AT-ISTA-20362</a>.","ista":"Babic D. 2025. Mechanisms of auxin-mediated early embryogenesis in Arabidopsis thaliana. Institute of Science and Technology Austria.","ama":"Babic D. Mechanisms of auxin-mediated early embryogenesis in Arabidopsis thaliana. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20362\">10.15479/AT-ISTA-20362</a>"},"article_processing_charge":"No","status":"public","type":"dissertation","doi":"10.15479/AT-ISTA-20362"},{"month":"09","has_accepted_license":"1","article_type":"original","intvolume":"       122","file":[{"content_type":"application/pdf","access_level":"open_access","creator":"dernst","checksum":"38b723a909bf321d7ee537c9d064aa25","file_name":"2025_PNAS_Sheng.pdf","file_size":2667764,"relation":"main_file","success":1,"date_created":"2025-11-24T13:48:09Z","file_id":"20681","date_updated":"2025-11-24T13:48:09Z"}],"abstract":[{"lang":"eng","text":"Plants have evolved sophisticated mechanisms to adapt to environmental changes, with root gravitropism playing a pivotal role in nutrient and water acquisition. Our study reveals that SnRK2 kinases (SnRK2.2 and SnRK2.3) are critical regulators of root gravitropism through their direct phosphorylation of the auxin transporter PIN2 at S259. We demonstrate that SnRK2s-mediated phosphorylation modulates both the polar localization and transport activity of PIN2. Importantly, SnRK2s function antagonistically to the AGCVIII kinase PID, which phosphorylates PIN2 at a distinct site (S258), establishing a regulatory balance essential for adaptive root growth. Structural modeling and phosphorylation assays further suggest that SnRK2s-mediated phosphorylation at S259 sterically hinders access of PID to S258, providing a mechanistic basis for their antagonistic relationship. These findings uncover a novel regulatory mechanism, by which plants fine-tune root developmental programs to adapt to environmental stimuli, highlighting the evolutionary significance of multilayered kinase-mediated regulation in plant adaptation."}],"scopus_import":"1","date_updated":"2026-02-16T12:32:51Z","department":[{"_id":"JiFr"}],"title":"Antagonistic SnRK2 and PID kinases' action on auxin transport-mediated root gravitropism","_id":"20635","project":[{"grant_number":"I06123","_id":"bd76d395-d553-11ed-ba76-f678c14f9033","name":"Peptide receptors for auxin canalization in Arabidopsis"}],"OA_type":"hybrid","oa":1,"page":"e2512274122","volume":122,"acknowledgement":"This research was funded by Biological Breeding-National Science and Technology Major Project (2023ZD0407201), China Postdoctoral Science Foundation (2024M763575), China Agricultural University Fund (2025RC042), Chinese Universities Scientific Fund (2024RC031), and Austrian Science Fund (FWF; I 6123-B).","oa_version":"Published Version","external_id":{"isi":["001589177800001"],"pmid":["40986351"]},"file_date_updated":"2025-11-24T13:48:09Z","publisher":"National Academy of Sciences","quality_controlled":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pmid":1,"isi":1,"year":"2025","tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"date_published":"2025-09-23T00:00:00Z","issue":"39","day":"23","date_created":"2025-11-12T10:03:20Z","author":[{"last_name":"Sheng","full_name":"Sheng, F","first_name":"F"},{"full_name":"Gao, Y","first_name":"Y","last_name":"Gao"},{"last_name":"Wang","first_name":"Y","full_name":"Wang, Y"},{"first_name":"Y","full_name":"Li, Y","last_name":"Li"},{"last_name":"Zhang","first_name":"JA","full_name":"Zhang, JA"},{"full_name":"Zhang, Z","first_name":"Z","last_name":"Zhang"},{"last_name":"Qin","first_name":"X","full_name":"Qin, X"},{"last_name":"Zhang","full_name":"Zhang, S","first_name":"S"},{"last_name":"Song","first_name":"W","full_name":"Song, W"},{"first_name":"J","full_name":"Li, J","last_name":"Li"},{"full_name":"Guo, Y","first_name":"Y","last_name":"Guo"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří"},{"first_name":"Z","full_name":"Gong, Z","last_name":"Gong"},{"full_name":"Zhang, Q","first_name":"Q","last_name":"Zhang"},{"first_name":"J","full_name":"Zhang, J","last_name":"Zhang"}],"ddc":["580"],"publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"publication_status":"published","OA_place":"publisher","PlanS_conform":"1","publication":"Proceedings of the National Academy of Sciences","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","doi":"10.1073/pnas.2512274122","type":"journal_article","article_processing_charge":"Yes (in subscription journal)","citation":{"ieee":"F. Sheng <i>et al.</i>, “Antagonistic SnRK2 and PID kinases’ action on auxin transport-mediated root gravitropism,” <i>Proceedings of the National Academy of Sciences</i>, vol. 122, no. 39. National Academy of Sciences, p. e2512274122, 2025.","apa":"Sheng, F., Gao, Y., Wang, Y., Li, Y., Zhang, J., Zhang, Z., … Zhang, J. (2025). Antagonistic SnRK2 and PID kinases’ action on auxin transport-mediated root gravitropism. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2512274122\">https://doi.org/10.1073/pnas.2512274122</a>","short":"F. Sheng, Y. Gao, Y. Wang, Y. Li, J. Zhang, Z. Zhang, X. Qin, S. Zhang, W. Song, J. Li, Y. Guo, J. Friml, Z. Gong, Q. Zhang, J. Zhang, Proceedings of the National Academy of Sciences 122 (2025) e2512274122.","chicago":"Sheng, F, Y Gao, Y Wang, Y Li, JA Zhang, Z Zhang, X Qin, et al. “Antagonistic SnRK2 and PID Kinases’ Action on Auxin Transport-Mediated Root Gravitropism.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2025. <a href=\"https://doi.org/10.1073/pnas.2512274122\">https://doi.org/10.1073/pnas.2512274122</a>.","ama":"Sheng F, Gao Y, Wang Y, et al. Antagonistic SnRK2 and PID kinases’ action on auxin transport-mediated root gravitropism. <i>Proceedings of the National Academy of Sciences</i>. 2025;122(39):e2512274122. doi:<a href=\"https://doi.org/10.1073/pnas.2512274122\">10.1073/pnas.2512274122</a>","ista":"Sheng F, Gao Y, Wang Y, Li Y, Zhang J, Zhang Z, Qin X, Zhang S, Song W, Li J, Guo Y, Friml J, Gong Z, Zhang Q, Zhang J. 2025. Antagonistic SnRK2 and PID kinases’ action on auxin transport-mediated root gravitropism. Proceedings of the National Academy of Sciences. 122(39), e2512274122.","mla":"Sheng, F., et al. “Antagonistic SnRK2 and PID Kinases’ Action on Auxin Transport-Mediated Root Gravitropism.” <i>Proceedings of the National Academy of Sciences</i>, vol. 122, no. 39, National Academy of Sciences, 2025, p. e2512274122, doi:<a href=\"https://doi.org/10.1073/pnas.2512274122\">10.1073/pnas.2512274122</a>."},"language":[{"iso":"eng"}],"status":"public"},{"external_id":{"pmid":["41218119"]},"oa_version":"Published Version","acknowledgement":"This study was funded by the BBSRC (grant no. BB/N010124/1) and Leverhulme Foundation (grant no. RPG-2018-137) to M.D.B. and S.K., a Fully Funded International Research Scholarship awarded to K.S.-F., and by NASA (grant no. 80NSSC21K0585) to C.W.","year":"2025","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"pmid":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","quality_controlled":"1","file_date_updated":"2025-11-24T09:48:44Z","publisher":"National Academy of Sciences","scopus_import":"1","abstract":[{"text":"Gravitropism, the patterning of postembryonic growth in relation to the gravity vector, allows plants to optimize the use of limited and nonhomogenous resources in their immediate environment. Since the current model of root gravitropism has not been able to integrate all aspects of the response (perception, response, and behavior), research on gravitropism has been dominated by different theories attempting to conceptualize each aspect individually. In this work, we sought to reevaluate all the main components of the root graviresponse through the lens of angle dependence. We show angle dependence in Cholodny–Went-based auxin asymmetry and growth response, which we tracked back to angle-dependent variation in PIN asymmetry and statolith sedimentation in the columella. Thanks to this approach, we were able to suggest distinct roles for PINs and columella cell tiers, and a potential function for auxin vertical flux through the columella. Our findings provide a unifying framework to further explore the mechanisms that regulate angle-dependent gravitropic response, with major implications of time-dependent features of root graviresponse.","lang":"eng"}],"file":[{"relation":"main_file","success":1,"date_created":"2025-11-24T09:48:44Z","file_id":"20676","date_updated":"2025-11-24T09:48:44Z","file_size":1394055,"checksum":"5e1c37dddc5db8fbd0128db4a54c4f6b","file_name":"2025_PNAS_Roychoudhry.pdf","content_type":"application/pdf","access_level":"open_access","creator":"dernst"}],"intvolume":"       122","article_type":"original","has_accepted_license":"1","month":"11","oa":1,"volume":122,"page":"e2506400122","OA_type":"hybrid","title":"Angle dependence as a unifying feature of root graviresponse modules","_id":"20663","date_updated":"2026-02-16T12:31:31Z","department":[{"_id":"JiFr"}],"publication":"Proceedings of the National Academy of Sciences","PlanS_conform":"1","OA_place":"publisher","publication_status":"published","status":"public","citation":{"apa":"Roychoudhry, S., Sageman-Furnas, K., Taylor, H. J., Showpnil, I., Wolverton, C., Friml, J., … Kepinski, S. (2025). Angle dependence as a unifying feature of root graviresponse modules. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2506400122\">https://doi.org/10.1073/pnas.2506400122</a>","ieee":"S. Roychoudhry <i>et al.</i>, “Angle dependence as a unifying feature of root graviresponse modules,” <i>Proceedings of the National Academy of Sciences</i>, vol. 122, no. 46. National Academy of Sciences, p. e2506400122, 2025.","chicago":"Roychoudhry, Suruchi, Katelyn Sageman-Furnas, Harry J. Taylor, Iftekhar Showpnil, Chris Wolverton, Jiří Friml, Marta Del Bianco, and Stefan Kepinski. “Angle Dependence as a Unifying Feature of Root Graviresponse Modules.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2025. <a href=\"https://doi.org/10.1073/pnas.2506400122\">https://doi.org/10.1073/pnas.2506400122</a>.","short":"S. Roychoudhry, K. Sageman-Furnas, H.J. Taylor, I. Showpnil, C. Wolverton, J. Friml, M.D. Bianco, S. Kepinski, Proceedings of the National Academy of Sciences 122 (2025) e2506400122.","ama":"Roychoudhry S, Sageman-Furnas K, Taylor HJ, et al. Angle dependence as a unifying feature of root graviresponse modules. <i>Proceedings of the National Academy of Sciences</i>. 2025;122(46):e2506400122. doi:<a href=\"https://doi.org/10.1073/pnas.2506400122\">10.1073/pnas.2506400122</a>","mla":"Roychoudhry, Suruchi, et al. “Angle Dependence as a Unifying Feature of Root Graviresponse Modules.” <i>Proceedings of the National Academy of Sciences</i>, vol. 122, no. 46, National Academy of Sciences, 2025, p. e2506400122, doi:<a href=\"https://doi.org/10.1073/pnas.2506400122\">10.1073/pnas.2506400122</a>.","ista":"Roychoudhry S, Sageman-Furnas K, Taylor HJ, Showpnil I, Wolverton C, Friml J, Bianco MD, Kepinski S. 2025. Angle dependence as a unifying feature of root graviresponse modules. Proceedings of the National Academy of Sciences. 122(46), e2506400122."},"language":[{"iso":"eng"}],"article_processing_charge":"Yes (in subscription journal)","type":"journal_article","doi":"10.1073/pnas.2506400122","day":"18","issue":"46","date_published":"2025-11-18T00:00:00Z","publication_identifier":{"eissn":["1091-6490"]},"ddc":["580"],"author":[{"last_name":"Roychoudhry","full_name":"Roychoudhry, Suruchi","first_name":"Suruchi"},{"first_name":"Katelyn","full_name":"Sageman-Furnas, Katelyn","last_name":"Sageman-Furnas"},{"full_name":"Taylor, Harry J.","first_name":"Harry J.","last_name":"Taylor"},{"full_name":"Showpnil, Iftekhar","first_name":"Iftekhar","last_name":"Showpnil"},{"last_name":"Wolverton","full_name":"Wolverton, Chris","first_name":"Chris"},{"first_name":"Jiří","full_name":"Friml, Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Marta Del","full_name":"Bianco, Marta Del","last_name":"Bianco"},{"last_name":"Kepinski","first_name":"Stefan","full_name":"Kepinski, Stefan"}],"date_created":"2025-11-23T23:01:38Z"},{"language":[{"iso":"eng"}],"article_processing_charge":"Yes (via OA deal)","citation":{"mla":"Rodriguez Solovey, Lesia, et al. “ABP1/ABL3-TMK1 Cell-Surface Auxin Signaling Targets PIN2-Mediated Auxin Fluxes for Root Gravitropism.” <i>Cell</i>, vol. 188, no. 22, Elsevier, 2025, p. 6138–6150.e17, doi:<a href=\"https://doi.org/10.1016/j.cell.2025.08.026\">10.1016/j.cell.2025.08.026</a>.","ista":"Rodriguez Solovey L, Fiedler L, Zou M, Giannini C, Monzer A, Vladimirtsev D, Randuch M, Yu Y, Gelová Z, Verstraeten I, Hajny J, Chen M, Tan S, Hörmayer L, Li L, Marques-Bueno MM, Quddoos Z, Molnar G, Kulich I, Jaillais Y, Friml J. 2025. ABP1/ABL3-TMK1 cell-surface auxin signaling targets PIN2-mediated auxin fluxes for root gravitropism. Cell. 188(22), 6138–6150.e17.","ama":"Rodriguez Solovey L, Fiedler L, Zou M, et al. ABP1/ABL3-TMK1 cell-surface auxin signaling targets PIN2-mediated auxin fluxes for root gravitropism. <i>Cell</i>. 2025;188(22):6138-6150.e17. doi:<a href=\"https://doi.org/10.1016/j.cell.2025.08.026\">10.1016/j.cell.2025.08.026</a>","chicago":"Rodriguez Solovey, Lesia, Lukas Fiedler, Minxia Zou, Caterina Giannini, Aline Monzer, Dmitrii Vladimirtsev, Marek Randuch, et al. “ABP1/ABL3-TMK1 Cell-Surface Auxin Signaling Targets PIN2-Mediated Auxin Fluxes for Root Gravitropism.” <i>Cell</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.cell.2025.08.026\">https://doi.org/10.1016/j.cell.2025.08.026</a>.","short":"L. Rodriguez Solovey, L. Fiedler, M. Zou, C. Giannini, A. Monzer, D. Vladimirtsev, M. Randuch, Y. Yu, Z. Gelová, I. Verstraeten, J. Hajny, M. Chen, S. Tan, L. Hörmayer, L. Li, M.M. Marques-Bueno, Z. Quddoos, G. Molnar, I. Kulich, Y. Jaillais, J. Friml, Cell 188 (2025) 6138–6150.e17.","apa":"Rodriguez Solovey, L., Fiedler, L., Zou, M., Giannini, C., Monzer, A., Vladimirtsev, D., … Friml, J. (2025). ABP1/ABL3-TMK1 cell-surface auxin signaling targets PIN2-mediated auxin fluxes for root gravitropism. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2025.08.026\">https://doi.org/10.1016/j.cell.2025.08.026</a>","ieee":"L. Rodriguez Solovey <i>et al.</i>, “ABP1/ABL3-TMK1 cell-surface auxin signaling targets PIN2-mediated auxin fluxes for root gravitropism,” <i>Cell</i>, vol. 188, no. 22. Elsevier, p. 6138–6150.e17, 2025."},"status":"public","doi":"10.1016/j.cell.2025.08.026","type":"journal_article","publication":"Cell","ec_funded":1,"OA_place":"publisher","publication_status":"published","PlanS_conform":"1","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"ddc":["580"],"publication_identifier":{"issn":["0092-8674"]},"related_material":{"record":[{"relation":"earlier_version","id":"19399","status":"public"}]},"corr_author":"1","date_created":"2025-11-19T09:44:31Z","author":[{"full_name":"Rodriguez Solovey, Lesia","first_name":"Lesia","orcid":"0000-0002-7244-7237","id":"3922B506-F248-11E8-B48F-1D18A9856A87","last_name":"Rodriguez Solovey"},{"first_name":"Lukas","full_name":"Fiedler, Lukas","id":"7c417475-8972-11ed-ae7b-8b674ca26986","last_name":"Fiedler"},{"last_name":"Zou","id":"5c243f41-03f3-11ec-841c-96faf48a7ef9","first_name":"Minxia","full_name":"Zou, Minxia"},{"last_name":"Giannini","id":"e3fdddd5-f6e0-11ea-865d-ca99ee6367f4","first_name":"Caterina","full_name":"Giannini, Caterina"},{"last_name":"Monzer","id":"2DB5D88C-D7B3-11E9-B8FD-7907E6697425","first_name":"Aline","full_name":"Monzer, Aline"},{"first_name":"Dmitrii","full_name":"Vladimirtsev, Dmitrii","id":"60466724-5355-11ee-ae5a-fa55e8f99c3d","last_name":"Vladimirtsev"},{"id":"6ac4636d-15b2-11ec-abd3-fb8df79972ae","last_name":"Randuch","full_name":"Randuch, Marek","first_name":"Marek"},{"first_name":"Yongfan","full_name":"Yu, Yongfan","last_name":"Yu"},{"last_name":"Gelová","orcid":"0000-0003-4783-1752","id":"0AE74790-0E0B-11E9-ABC7-1ACFE5697425","full_name":"Gelová, Zuzana","first_name":"Zuzana"},{"full_name":"Verstraeten, Inge","first_name":"Inge","orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","last_name":"Verstraeten"},{"last_name":"Hajny","orcid":"0000-0003-2140-7195","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","full_name":"Hajny, Jakub","first_name":"Jakub"},{"first_name":"Meng","full_name":"Chen, Meng","last_name":"Chen"},{"id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","last_name":"Tan","full_name":"Tan, Shutang","first_name":"Shutang"},{"last_name":"Hörmayer","orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","full_name":"Hörmayer, Lukas","first_name":"Lukas"},{"first_name":"Lanxin","full_name":"Li, Lanxin","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X","last_name":"Li"},{"last_name":"Marques-Bueno","first_name":"Maria Mar","full_name":"Marques-Bueno, Maria Mar"},{"first_name":"Zainab","full_name":"Quddoos, Zainab","last_name":"Quddoos","id":"32ff3c64-04a0-11f0-a50f-d0c45bfac466"},{"first_name":"Gergely","full_name":"Molnar, Gergely","last_name":"Molnar","id":"34F1AF46-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Ivan","full_name":"Kulich, Ivan","id":"57a1567c-8314-11eb-9063-c9ddc3451a54","last_name":"Kulich"},{"last_name":"Jaillais","first_name":"Yvon","full_name":"Jaillais, Yvon"},{"full_name":"Friml, Jiří","first_name":"Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"day":"30","date_published":"2025-10-30T00:00:00Z","issue":"22","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","pmid":1,"isi":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"year":"2025","publisher":"Elsevier","file_date_updated":"2025-11-24T10:55:18Z","quality_controlled":"1","external_id":{"pmid":["41043433"],"isi":["001616077900005"]},"acknowledgement":"We gratefully acknowledge Tongda Xu for experimental, material, and conceptual support. We thank William Gray for providing material, Nataliia Gnyliukh and Ema Cervenova for help with manuscript preparation, and Julia Schmid for help with cloning. We thank Dolf Weijers, Mark Roosjen, and Andre Kuhn for discussions and support with phospho-proteomic analyses. We thank the Bioimaging and Life Science facilities at the Institute of Science and Technology Austria (ISTA) for their excellent service and assistance. The research leading to these results has received funding from the European Union (ERC, CYNIPS, 101142681) and Austrian Science Fund (FWF; I 6123-B) to J.F., and Y.J. was funded by ERC no. 3363360-APPL under FP/2007-2013. L.R. was supported by the FP7-PEOPLE-2011-COFUND ISTFELLOW program (IC1023FELL01) and the European Molecular Biology Organization (EMBO) long-term postdoctoral fellowship (ALTF 985-2016). S.T. was supported by the National Natural Science Foundation of China (32321001, 32570366). The work of J.H. was supported by the project JG_2024_003 implemented within the Palacký University Young Researcher Grant.","oa_version":"Published Version","project":[{"grant_number":"101142681","_id":"8f347782-16d5-11f0-9cad-8c19706ee739","name":"Cyclic nucleotides as second messengers in plants"},{"name":"Peptide receptors for auxin canalization in Arabidopsis","_id":"bd76d395-d553-11ed-ba76-f678c14f9033","grant_number":"I06123"},{"grant_number":"ALTF 985-2016","_id":"26060676-B435-11E9-9278-68D0E5697425","name":"Cell surface receptor complexes for auxin signaling in plants"},{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734"}],"OA_type":"hybrid","volume":188,"page":"6138-6150.e17","oa":1,"department":[{"_id":"JiFr"},{"_id":"XiFe"}],"date_updated":"2026-07-06T12:51:13Z","title":"ABP1/ABL3-TMK1 cell-surface auxin signaling targets PIN2-mediated auxin fluxes for root gravitropism","_id":"20656","month":"10","has_accepted_license":"1","article_type":"original","intvolume":"       188","file":[{"content_type":"application/pdf","access_level":"open_access","creator":"dernst","checksum":"8ac396a0806ad7f2e4e7a0c1eed712ce","file_name":"2025_Cell_Rodriguez.pdf","file_size":17825465,"relation":"main_file","date_created":"2025-11-24T10:55:18Z","success":1,"file_id":"20679","date_updated":"2025-11-24T10:55:18Z"}],"abstract":[{"lang":"eng","text":"Phytohormone auxin and its directional transport mediate much of the remarkably plastic development of higher plants. Positive feedback between auxin signaling and transport is a prerequisite for (1) self-organizing processes, including vascular tissue formation, and (2) directional growth responses such as gravitropism. Here, we identify a mechanism by which auxin signaling directly targets PIN auxin transporters. Via the cell-surface AUXIN-BINDING PROTEIN1 (ABP1)-TRANSMEMBRANE KINASE 1 (TMK1) receptor module, auxin rapidly induces phosphorylation and thus stabilization of PIN2. Following gravistimulation, initial auxin asymmetry activates autophosphorylation of the TMK1 kinase. This induces TMK1 interaction with and phosphorylation of PIN2, stabilizing PIN2 at the lower root side, thus reinforcing asymmetric auxin flow for root bending. Upstream of TMK1 in this regulation, ABP1 acts redundantly with the root-expressed ABP1-LIKE 3 (ABL3) auxin receptor. Such positive feedback between cell-surface auxin signaling and PIN-mediated polar auxin transport is fundamental for robust root gravitropism and presumably for other self-organizing developmental phenomena."}]},{"date_published":"2025-09-19T00:00:00Z","day":"19","keyword":["Auxin Signaling","Plant Development"],"author":[{"id":"e3fdddd5-f6e0-11ea-865d-ca99ee6367f4","last_name":"Giannini","first_name":"Caterina","full_name":"Giannini, Caterina"}],"corr_author":"1","date_created":"2025-09-19T12:23:38Z","related_material":{"record":[{"relation":"part_of_dissertation","id":"12291","status":"public"},{"relation":"part_of_dissertation","id":"19399","status":"public"}]},"publication_identifier":{"issn":["2663-337X"]},"ddc":["580"],"alternative_title":["ISTA Thesis"],"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"OA_place":"publisher","publication_status":"published","type":"dissertation","doi":"10.15479/AT-ISTA-20364","status":"public","language":[{"iso":"eng"}],"citation":{"chicago":"Giannini, Caterina. “Nuclear and Cell Surface Auxin Signaling in A. Thaliana Developmental Transitions.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20364\">https://doi.org/10.15479/AT-ISTA-20364</a>.","short":"C. Giannini, Nuclear and Cell Surface Auxin Signaling in A. Thaliana Developmental Transitions, Institute of Science and Technology Austria, 2025.","apa":"Giannini, C. (2025). <i>Nuclear and cell surface auxin signaling in A. thaliana developmental transitions</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20364\">https://doi.org/10.15479/AT-ISTA-20364</a>","ieee":"C. Giannini, “Nuclear and cell surface auxin signaling in A. thaliana developmental transitions,” Institute of Science and Technology Austria, 2025.","mla":"Giannini, Caterina. <i>Nuclear and Cell Surface Auxin Signaling in A. Thaliana Developmental Transitions</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20364\">10.15479/AT-ISTA-20364</a>.","ista":"Giannini C. 2025. Nuclear and cell surface auxin signaling in A. thaliana developmental transitions. Institute of Science and Technology Austria.","ama":"Giannini C. Nuclear and cell surface auxin signaling in A. thaliana developmental transitions. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20364\">10.15479/AT-ISTA-20364</a>"},"article_processing_charge":"No","file":[{"access_level":"closed","content_type":"application/pdf","embargo":"2026-09-30","creator":"cgiannin","embargo_to":"open_access","file_name":"2025_Giannini_Caterina_Thesis...pdf","checksum":"536ba1701453b0b2346be14c046b2911","file_size":14278965,"relation":"main_file","date_created":"2025-09-24T14:46:34Z","date_updated":"2025-09-30T14:31:29Z","file_id":"20390"},{"file_size":24499022,"relation":"source_file","date_created":"2025-09-24T14:46:35Z","file_id":"20391","date_updated":"2025-09-24T14:46:35Z","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","access_level":"closed","creator":"cgiannin","checksum":"192f55262f2da2ea0a59d9c23a1b8573","file_name":"2025_Giannini_Caterina_Thesis...docx"}],"month":"09","has_accepted_license":"1","degree_awarded":"PhD","title":"Nuclear and cell surface auxin signaling in A. thaliana developmental transitions","_id":"20364","date_updated":"2026-07-06T12:51:13Z","department":[{"_id":"GradSch"},{"_id":"JiFr"},{"_id":"MaLo"}],"supervisor":[{"last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","first_name":"Jiří"}],"page":"151","oa_version":"Published Version","acknowledgement":"Plant Facility,\r\nProtein Service Facility","file_date_updated":"2025-09-30T14:31:29Z","publisher":"Institute of Science and Technology Austria","year":"2025","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd"},{"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"OA_place":"publisher","publication_status":"published","ec_funded":1,"doi":"10.15479/AT-ISTA-19478","type":"dissertation","status":"public","language":[{"iso":"eng"}],"article_processing_charge":"No","citation":{"ieee":"H. Chen, “The cAMP second messenger in auxin signalling,” Institute of Science and Technology Austria, 2025.","apa":"Chen, H. (2025). <i>The cAMP second messenger in auxin signalling</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19478\">https://doi.org/10.15479/AT-ISTA-19478</a>","short":"H. Chen, The CAMP Second Messenger in Auxin Signalling, Institute of Science and Technology Austria, 2025.","chicago":"Chen, Huihuang. “The CAMP Second Messenger in Auxin Signalling.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19478\">https://doi.org/10.15479/AT-ISTA-19478</a>.","ama":"Chen H. The cAMP second messenger in auxin signalling. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19478\">10.15479/AT-ISTA-19478</a>","ista":"Chen H. 2025. The cAMP second messenger in auxin signalling. Institute of Science and Technology Austria.","mla":"Chen, Huihuang. <i>The CAMP Second Messenger in Auxin Signalling</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19478\">10.15479/AT-ISTA-19478</a>."},"date_published":"2025-04-04T00:00:00Z","day":"04","author":[{"full_name":"Chen, Huihuang","first_name":"Huihuang","last_name":"Chen","id":"83c96512-15b2-11ec-abd3-b7eede36184f"}],"corr_author":"1","date_created":"2025-04-04T07:48:24Z","publication_identifier":{"issn":["2663-337X"]},"related_material":{"record":[{"id":"19421","relation":"part_of_dissertation","status":"public"},{"status":"public","id":"13212","relation":"part_of_dissertation"}]},"alternative_title":["ISTA Thesis"],"ddc":["580"],"acknowledgement":"This project was funded by the European Research Council Advanced Grant (ETAP-742985),\r\nEuropean Research Council (ERC; 101142681 CYNIPS), Austrian Science Fund (FWF; P\r\n37051-B).","oa_version":"Published Version","publisher":"Institute of Science and Technology Austria","file_date_updated":"2025-04-09T13:53:38Z","year":"2025","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file":[{"content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","access_level":"closed","creator":"hchen","checksum":"b154973663a1bba505683faab7ae5ead","file_name":"Thesis_0403_Huihuang.docx","file_size":16344814,"relation":"source_file","date_created":"2025-04-08T08:00:07Z","file_id":"19526","date_updated":"2025-04-08T08:22:37Z"},{"date_created":"2025-04-08T08:00:06Z","relation":"main_file","file_id":"19527","date_updated":"2025-04-09T13:53:38Z","file_size":8482147,"embargo_to":"local","checksum":"0099565f024388830c125ec17375c1a0","file_name":"Thesis_0406_PDFA_Huihuang_1.pdf","content_type":"application/pdf","access_level":"closed","embargo":"2026-10-08","creator":"hchen"}],"month":"04","has_accepted_license":"1","degree_awarded":"PhD","date_updated":"2026-07-06T12:58:58Z","department":[{"_id":"GradSch"},{"_id":"JiFr"}],"_id":"19478","title":"The cAMP second messenger in auxin signalling","supervisor":[{"last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","first_name":"Jiří"}],"page":"118","project":[{"grant_number":"742985","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"name":"Guanylate cyclase activity of TIR1/AFBs auxin receptors","_id":"7bcece63-9f16-11ee-852c-ae94e099eeb6","grant_number":"P37051"},{"name":"Cyclic nucleotides as second messengers in plants","_id":"8f347782-16d5-11f0-9cad-8c19706ee739","grant_number":"101142681"}]},{"publication_status":"published","OA_place":"publisher","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"doi_confirm":"1","type":"dissertation","doi":"10.15479/AT-ISTA-19395","language":[{"iso":"eng"}],"citation":{"short":"A. Monzer, Cell-Surface Auxin Signaling: Linking Molecular Pathways to Plant Development, Institute of Science and Technology Austria, 2025.","chicago":"Monzer, Aline. “Cell-Surface Auxin Signaling: Linking Molecular Pathways to Plant Development.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19395\">https://doi.org/10.15479/AT-ISTA-19395</a>.","ieee":"A. Monzer, “Cell-surface auxin signaling: Linking molecular pathways to plant development,” Institute of Science and Technology Austria, 2025.","apa":"Monzer, A. (2025). <i>Cell-surface auxin signaling: Linking molecular pathways to plant development</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19395\">https://doi.org/10.15479/AT-ISTA-19395</a>","ista":"Monzer A. 2025. Cell-surface auxin signaling: Linking molecular pathways to plant development. Institute of Science and Technology Austria.","mla":"Monzer, Aline. <i>Cell-Surface Auxin Signaling: Linking Molecular Pathways to Plant Development</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19395\">10.15479/AT-ISTA-19395</a>.","ama":"Monzer A. Cell-surface auxin signaling: Linking molecular pathways to plant development. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19395\">10.15479/AT-ISTA-19395</a>"},"article_processing_charge":"No","status":"public","date_published":"2025-03-13T00:00:00Z","day":"13","date_created":"2025-03-12T14:25:42Z","corr_author":"1","author":[{"full_name":"Monzer, Aline","first_name":"Aline","id":"2DB5D88C-D7B3-11E9-B8FD-7907E6697425","last_name":"Monzer"}],"ddc":["580"],"alternative_title":["ISTA Thesis"],"related_material":{"record":[{"id":"12291","relation":"part_of_dissertation","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"14826"},{"status":"public","id":"19399","relation":"part_of_dissertation"},{"status":"public","id":"19398","relation":"part_of_dissertation"}]},"publication_identifier":{"eisbn":["978-3-99078-054-1"],"eissn":["2663-337X"]},"oa_version":"Published Version","acknowledgement":"I would like to acknowledge the facilities at ISTA, particularly LSF, IOF, and, of course, the plant facility, for providing the necessary resources for my research.","publisher":"Institute of Science and Technology Austria","file_date_updated":"2025-04-01T07:55:27Z","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","year":"2025","has_accepted_license":"1","month":"03","abstract":[{"lang":"eng","text":"Plant growth and development rely significantly on phytohormones, with auxin serving as a master regulator, orchestrating processes from embryogenesis to organogenesis, vascular patterning, and environmental adaptation. Since its conceptual proposition by Charles Darwin in 1880 as an endogenous chemical signal influencing phototropism in grass, auxin has captivated scientists seeking to understand how such a small molecule exerts a profound influence on plant development.\r\nOne particularly fascinating aspect of auxin function is its ability to self-organize its transport. Through a feedback mechanism between auxin perception and directional transport—primarily mediated by PIN auxin transporters—auxin establishes narrow transport channels. This phenomenon, known as auxin canalization, is fundamental to vascular formation, regeneration, and other key developmental processes. Despite advances in our understanding, driven by experimental studies and computational models, auxin canalization remains an enigma, with many unanswered questions.\r\nLike other hormones, auxin functions through intricate signaling pathways. It operates through at least two distinct signaling mechanisms: the well-characterized canonical pathway and the less understood non-canonical pathway. While significant progress has been made in elucidating the canonical pathway, the non-canonical mechanisms remain less defined and require further investigation.\r\nIn this study, we revisit the non-canonical auxin signaling pathway mediated by the cell-surface complex Auxin Binding Protein 1-Transmembrane Kinase 1 (ABP1-TMK1), with a particular focus on its downstream phosphorylation events. We reveal that this auxin-mediated phosphorylation is conserved across the green lineage, underscoring its fundamental role in plant development. We explore key phosphorylation targets, particularly PIN2, which is essential for root gravitropism. To further understand TMK1’s role in diverse developmental processes, we identified and investigated its interactors as potential co-receptors or regulatory components within its signaling network.\r\nGiven the previously established role of ABP1-TMK1 in auxin canalization, we sought to further investigate this process and identified several TMK1 interactors also involved in this intricate mechanism.\r\nThese findings provide new insights into the complex regulation of auxin canalization, highlighting a broader and more interconnected signaling framework than previously understood."}],"file":[{"file_id":"19396","date_updated":"2025-03-12T14:14:49Z","relation":"main_file","success":1,"date_created":"2025-03-12T14:14:49Z","file_size":13119670,"checksum":"9a3dd03bb4ec6b9907a325c3c4e8a1d7","file_name":"Final Thesis Aline Monzer.pdf","creator":"amonzer","content_type":"application/pdf","access_level":"open_access"},{"file_name":"Thesis Aline.docx","checksum":"a353ce1ee2eabce37bca35499e76dbf1","creator":"amonzer","access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_updated":"2025-04-01T07:55:27Z","file_id":"19397","date_created":"2025-03-12T14:15:19Z","relation":"source_file","file_size":13774837}],"degree_awarded":"PhD","supervisor":[{"first_name":"Jiří","full_name":"Friml, Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"_id":"19395","title":"Cell-surface auxin signaling: Linking molecular pathways to plant development","department":[{"_id":"GradSch"},{"_id":"JiFr"}],"date_updated":"2026-08-14T09:33:46Z","page":"160","oa":1},{"author":[{"first_name":"Lesia","full_name":"Rodriguez Solovey, Lesia","last_name":"Rodriguez Solovey","orcid":"0000-0002-7244-7237","id":"3922B506-F248-11E8-B48F-1D18A9856A87"},{"id":"7c417475-8972-11ed-ae7b-8b674ca26986","last_name":"Fiedler","first_name":"Lukas","full_name":"Fiedler, Lukas"},{"full_name":"Zou, Minxia","first_name":"Minxia","last_name":"Zou","id":"5c243f41-03f3-11ec-841c-96faf48a7ef9"},{"first_name":"Caterina","full_name":"Giannini, Caterina","id":"e3fdddd5-f6e0-11ea-865d-ca99ee6367f4","last_name":"Giannini"},{"first_name":"Aline","full_name":"Monzer, Aline","last_name":"Monzer","id":"2DB5D88C-D7B3-11E9-B8FD-7907E6697425"},{"first_name":"Dmitrii","full_name":"Vladimirtsev, Dmitrii","id":"60466724-5355-11ee-ae5a-fa55e8f99c3d","last_name":"Vladimirtsev"},{"id":"6ac4636d-15b2-11ec-abd3-fb8df79972ae","last_name":"Randuch","full_name":"Randuch, Marek","first_name":"Marek"},{"last_name":"Yu","first_name":"Yongfan","full_name":"Yu, Yongfan"},{"full_name":"Gelová, Zuzana","first_name":"Zuzana","last_name":"Gelová","id":"0AE74790-0E0B-11E9-ABC7-1ACFE5697425","orcid":"0000-0003-4783-1752"},{"orcid":"0000-0001-7241-2328","id":"362BF7FE-F248-11E8-B48F-1D18A9856A87","last_name":"Verstraeten","first_name":"Inge","full_name":"Verstraeten, Inge"},{"first_name":"Jakub","full_name":"Hajny, Jakub","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2140-7195","last_name":"Hajny"},{"first_name":"Meng","full_name":"Chen, Meng","last_name":"Chen"},{"last_name":"Tan","id":"2DE75584-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0471-8285","first_name":"Shutang","full_name":"Tan, Shutang"},{"full_name":"Hörmayer, Lukas","first_name":"Lukas","last_name":"Hörmayer","orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Li, Lanxin","first_name":"Lanxin","last_name":"Li","id":"367EF8FA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5607-272X"},{"last_name":"Marques-Bueno","first_name":"Maria Mar","full_name":"Marques-Bueno, Maria Mar"},{"last_name":"Quddoos","id":"32ff3c64-04a0-11f0-a50f-d0c45bfac466","first_name":"Zainab","full_name":"Quddoos, Zainab"},{"last_name":"Molnar","id":"34F1AF46-F248-11E8-B48F-1D18A9856A87","full_name":"Molnar, Gergely","first_name":"Gergely"},{"last_name":"Xu","full_name":"Xu, Tongda","first_name":"Tongda"},{"last_name":"Kulich","id":"57a1567c-8314-11eb-9063-c9ddc3451a54","first_name":"Ivan","full_name":"Kulich, Ivan"},{"full_name":"Jaillais, Yvon","first_name":"Yvon","last_name":"Jaillais"},{"first_name":"Jiří","full_name":"Friml, Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87"}],"corr_author":"1","date_created":"2025-03-13T08:36:48Z","related_material":{"record":[{"status":"public","relation":"later_version","id":"20656"},{"id":"20364","relation":"dissertation_contains","status":"public"},{"id":"19395","relation":"dissertation_contains","status":"public"}]},"ddc":["580"],"date_published":"2025-02-20T00:00:00Z","day":"20","doi":"10.1101/2022.11.30.518503","type":"preprint","status":"public","article_processing_charge":"No","citation":{"mla":"Rodriguez Solovey, Lesia, et al. “ABP1/ABL3-TMK1 Cell-Surface Auxin Signaling Directly Targets PIN2-Mediated Auxin Fluxes for Root Gravitropism.” <i>BioRxiv</i>, doi:<a href=\"https://doi.org/10.1101/2022.11.30.518503\">10.1101/2022.11.30.518503</a>.","ista":"Rodriguez Solovey L, Fiedler L, Zou M, Giannini C, Monzer A, Vladimirtsev D, Randuch M, Yu Y, Gelová Z, Verstraeten I, Hajny J, Chen M, Tan S, Hörmayer L, Li L, Marques-Bueno MM, Quddoos Z, Molnar G, Xu T, Kulich I, Jaillais Y, Friml J. ABP1/ABL3-TMK1 cell-surface auxin signaling directly targets PIN2-mediated auxin fluxes for root gravitropism. bioRxiv, <a href=\"https://doi.org/10.1101/2022.11.30.518503\">10.1101/2022.11.30.518503</a>.","ama":"Rodriguez Solovey L, Fiedler L, Zou M, et al. ABP1/ABL3-TMK1 cell-surface auxin signaling directly targets PIN2-mediated auxin fluxes for root gravitropism. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2022.11.30.518503\">10.1101/2022.11.30.518503</a>","chicago":"Rodriguez Solovey, Lesia, Lukas Fiedler, Minxia Zou, Caterina Giannini, Aline Monzer, Dmitrii Vladimirtsev, Marek Randuch, et al. “ABP1/ABL3-TMK1 Cell-Surface Auxin Signaling Directly Targets PIN2-Mediated Auxin Fluxes for Root Gravitropism.” <i>BioRxiv</i>, n.d. <a href=\"https://doi.org/10.1101/2022.11.30.518503\">https://doi.org/10.1101/2022.11.30.518503</a>.","short":"L. Rodriguez Solovey, L. Fiedler, M. Zou, C. Giannini, A. Monzer, D. Vladimirtsev, M. Randuch, Y. Yu, Z. Gelová, I. Verstraeten, J. Hajny, M. Chen, S. Tan, L. Hörmayer, L. Li, M.M. Marques-Bueno, Z. Quddoos, G. Molnar, T. Xu, I. Kulich, Y. Jaillais, J. Friml, BioRxiv (n.d.).","apa":"Rodriguez Solovey, L., Fiedler, L., Zou, M., Giannini, C., Monzer, A., Vladimirtsev, D., … Friml, J. (n.d.). ABP1/ABL3-TMK1 cell-surface auxin signaling directly targets PIN2-mediated auxin fluxes for root gravitropism. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2022.11.30.518503\">https://doi.org/10.1101/2022.11.30.518503</a>","ieee":"L. Rodriguez Solovey <i>et al.</i>, “ABP1/ABL3-TMK1 cell-surface auxin signaling directly targets PIN2-mediated auxin fluxes for root gravitropism,” <i>bioRxiv</i>. ."},"language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"OA_place":"repository","publication_status":"draft","ec_funded":1,"publication":"bioRxiv","date_updated":"2026-08-14T09:33:45Z","department":[{"_id":"JiFr"},{"_id":"XiFe"}],"_id":"19399","title":"ABP1/ABL3-TMK1 cell-surface auxin signaling directly targets PIN2-mediated auxin fluxes for root gravitropism","oa":1,"project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985","call_identifier":"H2020"},{"call_identifier":"FWF","name":"Molecular mechanisms of endocytic cargo recognition in plants","_id":"26538374-B435-11E9-9278-68D0E5697425","grant_number":"I03630"},{"grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","call_identifier":"FP7"},{"_id":"26060676-B435-11E9-9278-68D0E5697425","name":"Cell surface receptor complexes for auxin signaling in plants","grant_number":"ALTF 985-2016"}],"OA_type":"green","abstract":[{"text":"Phytohormone auxin and its directional transport mediate much of the remarkably plastic development of higher plants. Positive feedback between auxin signaling and transport is a key prerequisite for (i) self-organizing processes including vascular tissue formation and (ii) directional growth responses such as gravitropism. Here we identify a mechanism, by which auxin signaling directly targets PIN auxin transporters. Via the cell-surface ABP1-TMK1 receptor module, auxin rapidly induces phosphorylation and thus stabilization of PIN2. Following gravistimulation, initial auxin asymmetry activates autophosphorylation of the TMK1 kinase. This induces TMK1 interaction with and phosphorylation of PIN2, stabilizing PIN2 at the lower root side, thus reinforcing asymmetric auxin flow for root bending. Upstream of TMK1 in this regulation, ABP1 acts redundantly with the root-expressed ABP1-LIKE auxin receptor ABL3. Such positive feedback between cell-surface auxin signaling and PIN-mediated polar auxin transport is fundamental for robust root gravitropism and presumably also for other self-organizing developmental phenomena.","lang":"eng"}],"month":"02","das_tickbox":"1","year":"2025","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We thank W. Gray for providing material; N. Gnyliukh and E. Cervenova for help with manuscript preparation; J. Schmid for help with cloning. We thank Dolf Weijers, Mark Roosjen, and Andre Kuhn for discussions and support with phospho-proteomic analyses. We thank the Bioimaging and Life Science facilities at ISTA for their excellent service and assistance. The research leading to these results 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): I3630-775 B25 to J.F; National Natural Science Foundation of China (Grant 32130010, 31422008), start-up funds from FAFU to T.X., Y.J. was funded by ERC no. 3363360-APPL under FP/2007-2013. L.R. was supported by FP7-PEOPLE-2011-COFUND ISTFELLOW program (IC1023FELL01) and the European Molecular Biology Organization (EMBO) long-term postdoctoral fellowship (ALTF 985- 2016). S.T. was supported by the National Natural Science Foundation of China (32321001).","oa_version":"Published Version","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/2022.11.30.518503"}]},{"status":"public","language":[{"iso":"eng"}],"citation":{"chicago":"Monzer, Aline, Ewa Mazur, Lesia Rodriguez Solovey, Michelle C Gallei, Minxia Zou, Michael Smejkal, Ema Cervenova, and Jiří Friml. “TMK Interacting Network of Receptor like Kinases for Auxin Canalization and Beyond.” <i>BioRxiv</i>, n.d. <a href=\"https://doi.org/10.1101/2025.02.28.640727\">https://doi.org/10.1101/2025.02.28.640727</a>.","short":"A. Monzer, E. Mazur, L. Rodriguez Solovey, M.C. Gallei, M. Zou, M. Smejkal, E. Cervenova, J. Friml, BioRxiv (n.d.).","apa":"Monzer, A., Mazur, E., Rodriguez Solovey, L., Gallei, M. C., Zou, M., Smejkal, M., … Friml, J. (n.d.). TMK interacting network of receptor like kinases for auxin canalization and beyond. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2025.02.28.640727\">https://doi.org/10.1101/2025.02.28.640727</a>","ieee":"A. Monzer <i>et al.</i>, “TMK interacting network of receptor like kinases for auxin canalization and beyond,” <i>bioRxiv</i>. .","mla":"Monzer, Aline, et al. “TMK Interacting Network of Receptor like Kinases for Auxin Canalization and Beyond.” <i>BioRxiv</i>, doi:<a href=\"https://doi.org/10.1101/2025.02.28.640727\">10.1101/2025.02.28.640727</a>.","ista":"Monzer A, Mazur E, Rodriguez Solovey L, Gallei MC, Zou M, Smejkal M, Cervenova E, Friml J. TMK interacting network of receptor like kinases for auxin canalization and beyond. bioRxiv, <a href=\"https://doi.org/10.1101/2025.02.28.640727\">10.1101/2025.02.28.640727</a>.","ama":"Monzer A, Mazur E, Rodriguez Solovey L, et al. TMK interacting network of receptor like kinases for auxin canalization and beyond. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2025.02.28.640727\">10.1101/2025.02.28.640727</a>"},"article_processing_charge":"No","type":"preprint","doi":"10.1101/2025.02.28.640727","publication":"bioRxiv","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"publication_status":"draft","OA_place":"repository","related_material":{"record":[{"relation":"dissertation_contains","id":"19395","status":"public"}]},"ddc":["580"],"author":[{"full_name":"Monzer, Aline","first_name":"Aline","id":"2DB5D88C-D7B3-11E9-B8FD-7907E6697425","last_name":"Monzer"},{"full_name":"Mazur, Ewa","first_name":"Ewa","last_name":"Mazur"},{"full_name":"Rodriguez Solovey, Lesia","first_name":"Lesia","orcid":"0000-0002-7244-7237","id":"3922B506-F248-11E8-B48F-1D18A9856A87","last_name":"Rodriguez Solovey"},{"id":"35A03822-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1286-7368","last_name":"Gallei","first_name":"Michelle C","full_name":"Gallei, Michelle C"},{"last_name":"Zou","id":"5c243f41-03f3-11ec-841c-96faf48a7ef9","full_name":"Zou, Minxia","first_name":"Minxia"},{"last_name":"Smejkal","id":"79a5a1be-04a3-11f0-ba18-a1730e0b58e9","full_name":"Smejkal, Michael","first_name":"Michael"},{"first_name":"Ema","full_name":"Cervenova, Ema","last_name":"Cervenova","id":"9f185b95-04a3-11f0-8245-f5e32eeb470f"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří","full_name":"Friml, Jiří"}],"date_created":"2025-03-12T14:28:53Z","corr_author":"1","day":"02","date_published":"2025-03-02T00:00:00Z","year":"2025","tmp":{"image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"url":"https://doi.org/10.1101/2025.02.28.640727","open_access":"1"}],"oa_version":"Published Version","acknowledgement":"We deeply appreciate M. Wrzaczek’s constructive input and insightful discussions, which significantly enriched this work. We thank L. Fiedler for helping with the heat map and for the discussions. We also thank the facilities at ISTA, the imaging and optics (IOF) and Lab Support (LSF) facilities for their service and assistance.","oa":1,"OA_type":"green","title":"TMK interacting network of receptor like kinases for auxin canalization and beyond","_id":"19398","date_updated":"2026-08-14T09:33:45Z","department":[{"_id":"GradSch"},{"_id":"JiFr"},{"_id":"EvBe"}],"abstract":[{"text":"Receptor-like kinases (RLKs), particularly the Transmembrane Kinase (TMK) family, play essential roles in signaling and development, with TMKs being key components of auxin perception and downstream phosphorylation events. While TMKs’ involvement in auxin canalization, a process essential for vasculature formation and regeneration, has been established, nonetheless, the additional signaling and regulatory partners remain poorly understood. In this study, we identify and characterize seven leucine-rich repeat RLKs (TINT1–TINT7) as novel interactors of TMK1, revealing their diverse evolutionary, structural, and functional characteristics. Our results show that TINTs interact with TMK1 and highlight their roles in regulating various developmental processes. Majority of TINTs contributes, together with TMK1, to auxin canalization, with TINT5 linking TMK1 to other canalization component CAMEL. Beyond canalization, we also establish the role of TINT-TMK1 interactions in processes such as stomatal movement and the hypocotyl’s gravitropic response. These findings suggest that TINTs, through their interaction with TMK1, are integral components of various signaling networks, contributing to both auxin canalization and broader plant development.","lang":"eng"}],"das_tickbox":"1","has_accepted_license":"1","month":"03"}]