--- OA_place: repository _id: '21360' acknowledged_ssus: - _id: LifeSc - _id: Bio acknowledgement: "I would like to acknowledge the Austrian Academy of Sciences (ÖAW) and European\r\nResearch Executive Agency (REA) for funding my research (DOC ÖAW Fellowship\r\n26130, Horizon Europe BOLERO Project 101060393). " alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Stefan full_name: Riegler, Stefan id: FF6018E0-D806-11E9-8E43-0B14E6697425 last_name: Riegler orcid: 0000-0003-3413-1343 citation: ama: 'Riegler S. Root system plasticity under nutrient limitation : Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species. 2026. doi:10.15479/AT-ISTA-21360' apa: 'Riegler, S. (2026). Root system plasticity under nutrient limitation : Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21360' chicago: 'Riegler, Stefan. “Root System Plasticity under Nutrient Limitation : Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21360.' ieee: 'S. Riegler, “Root system plasticity under nutrient limitation : Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species,” Institute of Science and Technology Austria, 2026.' ista: 'Riegler S. 2026. Root system plasticity under nutrient limitation : Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea  species. Institute of Science and Technology Austria.' mla: 'Riegler, Stefan. Root System Plasticity under Nutrient Limitation : Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-21360.' short: 'S. Riegler, Root System Plasticity under Nutrient Limitation : Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species, Institute of Science and Technology Austria, 2026.' corr_author: '1' date_created: 2026-02-27T09:08:14Z date_published: 2026-02-26T00:00:00Z date_updated: 2026-03-09T12:20:56Z day: '26' ddc: - '570' - '575' - '583' degree_awarded: PhD department: - _id: GradSch - _id: EvBe doi: 10.15479/AT-ISTA-21360 file: - access_level: closed checksum: 2f1f44e8536c2538f94a440217452c9f content_type: application/x-zip-compressed creator: sriegler date_created: 2026-03-02T10:59:50Z date_updated: 2026-03-02T10:59:50Z file_id: '21386' file_name: 2026_Riegler_Stefan_Thesis.zip file_size: 31430022 relation: source_file - access_level: closed checksum: 2e8dc39640bc26ae5684c944c619719b content_type: application/pdf creator: sriegler date_created: 2026-03-02T10:59:49Z date_updated: 2026-03-02T10:59:49Z embargo: 2027-02-27 embargo_to: open_access file_id: '21387' file_name: 2026_Riegler_Stefan_Thesis.pdf file_size: 11635090 relation: main_file file_date_updated: 2026-03-02T10:59:50Z has_accepted_license: '1' language: - iso: eng license: https://creativecommons.org/licenses/by-sa/4.0/ month: '02' oa_version: Published Version page: '185' project: - _id: 34afa094-11ca-11ed-8bc3-a375845a59fb grant_number: '101060393' name: Breeding for coffee and cocoa root resilience in low input farming systems based on improved rootstocks publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '21363' relation: research_data status: public status: public supervisor: - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 title: 'Root system plasticity under nutrient limitation : Investigating hormonal and molecular drivers in Arabidopsis thaliana and Coffea species' tmp: image: /images/cc_by_sa.png legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0) short: CC BY-SA (4.0) type: dissertation user_id: 8b945eb4-e2f2-11eb-945a-df72226e66a9 year: '2026' ... --- _id: '21363' abstract: - lang: eng text: The data contains information on coffee differential gene expression as well as co-expression and trait correlations in two separate experiments. First, contrasting nitrogen supply, second, intra- and interspecific grafting. article_processing_charge: No author: - first_name: Stefan full_name: Riegler, Stefan id: FF6018E0-D806-11E9-8E43-0B14E6697425 last_name: Riegler orcid: 0000-0003-3413-1343 citation: ama: 'Riegler S. Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species. 2026. doi:10.15479/AT-ISTA-21363' apa: 'Riegler, S. (2026). Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-21363' chicago: 'Riegler, Stefan. “Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species.” Institute of Science and Technology Austria, 2026. https://doi.org/10.15479/AT-ISTA-21363.' ieee: 'S. Riegler, “Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species.” Institute of Science and Technology Austria, 2026.' ista: 'Riegler S. 2026. Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea  species, Institute of Science and Technology Austria, 10.15479/AT-ISTA-21363.' mla: 'Riegler, Stefan. Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis Thaliana and Coffea  Species. Institute of Science and Technology Austria, 2026, doi:10.15479/AT-ISTA-21363.' short: S. Riegler, (2026). contributor: - contributor_type: supervisor first_name: Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 corr_author: '1' date_created: 2026-02-27T09:18:41Z date_published: 2026-02-27T00:00:00Z date_updated: 2026-03-09T12:20:56Z day: '27' ddc: - '575' department: - _id: GradSch - _id: EvBe doi: 10.15479/AT-ISTA-21363 file: - access_level: closed checksum: de9145fa166a28c588b5184a2d3d4fee content_type: application/vnd.openxmlformats-officedocument.spreadsheetml.sheet creator: sriegler date_created: 2026-02-27T09:11:33Z date_updated: 2026-02-27T09:11:33Z embargo: 2027-02-27 embargo_to: open_access file_id: '21364' file_name: SupplementaryTables.xlsx file_size: 63749444 relation: main_file - access_level: closed checksum: ce1f163551c96cee45943a8ea29720b6 content_type: text/plain creator: sriegler date_created: 2026-02-27T09:13:11Z date_updated: 2026-02-27T09:13:11Z embargo: 2027-02-27 embargo_to: open_access file_id: '21365' file_name: ReadMe.txt file_size: 124 relation: main_file file_date_updated: 2026-02-27T09:13:11Z has_accepted_license: '1' month: '02' oa_version: None publisher: Institute of Science and Technology Austria related_material: record: - id: '21360' relation: used_in_publication status: public status: public title: 'Thesis Data for Root System Plasticity under Nutrient Limitation: Investigating Hormonal and Molecular Drivers in Arabidopsis thaliana and Coffea species' tmp: image: /images/cc_by_sa.png legal_code_url: https://creativecommons.org/licenses/by-sa/4.0/legalcode name: Creative Commons Attribution-ShareAlike 4.0 International Public License (CC BY-SA 4.0) short: CC BY-SA (4.0) type: research_data user_id: 68b8ca59-c5b3-11ee-8790-cd641c68093d year: '2026' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold PlanS_conform: '1' _id: '20080' abstract: - lang: eng text: "Introduction: Acid-growth theory has been postulated in the 70s to explain the rapid elongation of plant cells in response to the hormone auxin. More recently, it has been demonstrated that activation of the proton ATPs pump (H+-ATPs) promoting acidification of the apoplast is the principal mechanism by which auxin and other hormones such as brassinosteroids (BR) induce cell elongation. Despite these advances, the impact of this acidification on the mechanical properties of the cell wall remained largely unexplored.\r\n\r\nMethods: Here, we use elongation assays of Arabidopsis thaliana hypocotyls and Atomic Force Microscopy (AFM) to correlate hormone-induced tissue elongation and local changes in cell wall mechanical properties. Furthermore, employing transgenic lines over-expressing Pectin Methyl Esterase (PME), along with calcium chelators, we investigate the effect of pectin modification in hormone-driven cell elongation.\r\n\r\nResults: We demonstrate that acidification of apoplast is necessary and sufficient to induce cell elongation through promoting cell wall softening. Moreover, we show that enhanced PME activity can induce both cell wall softening or stiffening in extracellular calcium dependent-manner and that tight control of PME activity is required for proper hypocotyl elongation.\r\n\r\nDiscussion: Our results confirm a dual role of PME in plant cell elongation. However, further investigation is needed to assess the status of pectin following short- or long-term PME treatments in order to determine if pectin methyl-esterification might promote its degradation as well as the role of PME inhibitors upon PME induction." acknowledged_ssus: - _id: Bio - _id: LifeSc - _id: E-Lib acknowledgement: "The author(s) declare that financial support was received for the research and/or publication of this article. This work was supported by grants from the European Research Council (Starting Independent Research Grant ERC-2007-Stg- 207362-HCPO to EB) and MG was recipient of an IST Interdisciplinary project (IC1022IPC03).\r\nWe acknowledge Jaume F. Martı́nez Garcı́a for phyAphyB mutant seeds. We acknowledge CF Nanobiotechnology of CIISB, Instruct-CZ Centre, supported by MEYS CR (LM2018127). We gratefully acknowledge support by the Scientific Service Units at ISTA, including the Imaging and Optics and Lab Support facilities and Library. We thank Stefan Riegler for the efforts to establish immunodetection method." article_number: '1612366' article_processing_charge: Yes article_type: original author: - first_name: Marçal full_name: Gallemi, Marçal id: 460C6802-F248-11E8-B48F-1D18A9856A87 last_name: Gallemi orcid: 0000-0003-4675-6893 - first_name: Juan C full_name: Montesinos López, Juan C id: 310A8E3E-F248-11E8-B48F-1D18A9856A87 last_name: Montesinos López orcid: 0000-0001-9179-6099 - first_name: Nikola full_name: Zarevski, Nikola id: 18e95355-e05a-11ea-a9c0-8fba1b89e83a last_name: Zarevski - first_name: Jan full_name: Pribyl, Jan last_name: Pribyl - first_name: Petr full_name: Skládal, Petr last_name: Skládal - first_name: Edouard B full_name: Hannezo, Edouard B id: 3A9DB764-F248-11E8-B48F-1D18A9856A87 last_name: Hannezo orcid: 0000-0001-6005-1561 - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 citation: ama: Gallemi M, Montesinos López JC, Zarevski N, et al. Dual role of pectin methyl esterase activity in the regulation of plant cell wall biophysical properties. Frontiers in Plant Science. 2025;16. doi:10.3389/fpls.2025.1612366 apa: Gallemi, M., Montesinos López, J. C., Zarevski, N., Pribyl, J., Skládal, P., Hannezo, E. B., & Benková, E. (2025). Dual role of pectin methyl esterase activity in the regulation of plant cell wall biophysical properties. Frontiers in Plant Science. Frontiers Media. https://doi.org/10.3389/fpls.2025.1612366 chicago: Gallemi, Marçal, Juan C Montesinos López, Nikola Zarevski, Jan Pribyl, Petr Skládal, Edouard B Hannezo, and Eva Benková. “Dual Role of Pectin Methyl Esterase Activity in the Regulation of Plant Cell Wall Biophysical Properties.” Frontiers in Plant Science. Frontiers Media, 2025. https://doi.org/10.3389/fpls.2025.1612366. ieee: M. Gallemi et al., “Dual role of pectin methyl esterase activity in the regulation of plant cell wall biophysical properties,” Frontiers in Plant Science, vol. 16. Frontiers Media, 2025. ista: Gallemi M, Montesinos López JC, Zarevski N, Pribyl J, Skládal P, Hannezo EB, Benková E. 2025. Dual role of pectin methyl esterase activity in the regulation of plant cell wall biophysical properties. Frontiers in Plant Science. 16, 1612366. mla: Gallemi, Marçal, et al. “Dual Role of Pectin Methyl Esterase Activity in the Regulation of Plant Cell Wall Biophysical Properties.” Frontiers in Plant Science, vol. 16, 1612366, Frontiers Media, 2025, doi:10.3389/fpls.2025.1612366. short: M. Gallemi, J.C. Montesinos López, N. Zarevski, J. Pribyl, P. Skládal, E.B. Hannezo, E. Benková, Frontiers in Plant Science 16 (2025). corr_author: '1' date_created: 2025-07-27T22:01:26Z date_published: 2025-07-04T00:00:00Z date_updated: 2025-09-30T14:08:22Z day: '04' ddc: - '580' department: - _id: EdHa - _id: EvBe - _id: CaGu doi: 10.3389/fpls.2025.1612366 ec_funded: 1 external_id: isi: - '001530690900001' pmid: - '40688689' file: - access_level: open_access checksum: 9e6b8b53ba56d4a24a9bd91cf6d2dc58 content_type: application/pdf creator: dernst date_created: 2025-07-31T07:28:54Z date_updated: 2025-07-31T07:28:54Z file_id: '20093' file_name: 2025_FrontiersPlantSc_Gallemi.pdf file_size: 3665187 relation: main_file success: 1 file_date_updated: 2025-07-31T07:28:54Z has_accepted_license: '1' intvolume: ' 16' isi: 1 language: - iso: eng license: https://creativecommons.org/licenses/by/4.0/ month: '07' oa: 1 oa_version: Published Version pmid: 1 project: - _id: 253FCA6A-B435-11E9-9278-68D0E5697425 call_identifier: FP7 grant_number: '207362' name: Hormonal cross-talk in plant organogenesis publication: Frontiers in Plant Science publication_identifier: eissn: - 1664-462X publication_status: published publisher: Frontiers Media quality_controlled: '1' scopus_import: '1' status: public title: Dual role of pectin methyl esterase activity in the regulation of plant cell wall biophysical properties tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 16 year: '2025' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold PlanS_conform: '1' _id: '20664' abstract: - lang: eng text: Conference travel contributes to the climate footprint of academic research. Here, we provide a quantitative estimate of the carbon emissions associated with conference attendance by analyzing travel data from participants of 10 international conferences in the field of magnetic resonance, namely EUROMAR, ENC and ICMRBS. We find that attending a EUROMAR conference produces, on average, more than 1 t CO2 eq.. For the analyzed conferences outside Europe, the corresponding value is about 2–3 times higher, on average, with intercontinental trips amounting to up to 5 t. We compare these conference-related emissions to other activities associated with research and show that conference travel is a substantial portion of the total climate footprint of a researcher in magnetic resonance. We explore several strategies to reduce these emissions, including the impact of selecting conference venues more strategically and the possibility of decentralized conferences. Through a detailed comparison of train versus air travel – accounting for both direct and infrastructure-related emissions – we demonstrate that train travel offers considerable carbon savings. These data may provide a basis for strategic choices of future conferences in the field and for individuals deciding on their conference attendance. acknowledgement: 'First and foremost, we are grateful to the conference organizers who have provided data, either in the form of tables or by pointing us to abstract books. We thank the reviewers and the handling editor (Gottfried Otting) for the careful reading and suggestions. This project emerged from an interactive course about energy and climate, held at IST Austria by Jeroen Dobbelaere, Georgios Katsaros and Paul Schanda. We are grateful to ISTA''s Graduate School for enabling this interdisciplinary course and to all participating students. We thank the following persons for discussions and/or comments about the manuscript: Helene Van Melckebeke, Mei Hong, Jeff Hoch, Gottfried Otting and Matthias Ernst. For the preparation of the manuscript, AI tools have been used, namely for finding relevant literature (ChatGPT) and for correcting the text (Writefull, within Overleaf LaTeX).' article_processing_charge: Yes article_type: original author: - first_name: Lucky full_name: Kapoor, Lucky id: 84b9700b-15b2-11ec-abd3-831089e67615 last_name: Kapoor orcid: 0000-0001-8319-2148 - first_name: Natalia full_name: Ruzickova, Natalia id: D2761128-D73D-11E9-A1BF-BA0DE6697425 last_name: Ruzickova - first_name: Predrag full_name: Zivadinovic, Predrag id: 68AA0E5A-AFDA-11E9-9994-141DE6697425 last_name: Zivadinovic - first_name: Valentin full_name: Leitner, Valentin id: 4c665ce3-0016-11ec-bea0-e44de7a4fa3d last_name: Leitner - first_name: Maria A full_name: Sisak, Maria A id: 44A03D04-AEA4-11E9-B225-EA2DE6697425 last_name: Sisak - first_name: Cecelia N full_name: Mweka, Cecelia N id: 2a69ab4b-896a-11ed-bdf8-cb8641cf2b21 last_name: Mweka - first_name: Jeroen A full_name: Dobbelaere, Jeroen A id: c15a5412-de82-11ed-b809-8dc1aa996e40 last_name: Dobbelaere - first_name: Georgios full_name: Katsaros, Georgios id: 38DB5788-F248-11E8-B48F-1D18A9856A87 last_name: Katsaros orcid: 0000-0001-8342-202X - first_name: Paul full_name: Schanda, Paul id: 7B541462-FAF6-11E9-A490-E8DFE5697425 last_name: Schanda orcid: 0000-0002-9350-7606 citation: ama: 'Kapoor L, Ruzickova N, Zivadinovic P, et al. Quantifying the carbon footprint of conference travel: The case of NMR meetings. Magnetic Resonance. 2025;6(2):243-256. doi:10.5194/mr-6-243-2025' apa: 'Kapoor, L., Ruzickova, N., Zivadinovic, P., Leitner, V., Sisak, M. A., Mweka, C. N., … Schanda, P. (2025). Quantifying the carbon footprint of conference travel: The case of NMR meetings. Magnetic Resonance. Copernicus Publications. https://doi.org/10.5194/mr-6-243-2025' chicago: 'Kapoor, Lucky, Natalia Ruzickova, Predrag Zivadinovic, Valentin Leitner, Maria A Sisak, Cecelia N Mweka, Jeroen A Dobbelaere, Georgios Katsaros, and Paul Schanda. “Quantifying the Carbon Footprint of Conference Travel: The Case of NMR Meetings.” Magnetic Resonance. Copernicus Publications, 2025. https://doi.org/10.5194/mr-6-243-2025.' ieee: 'L. Kapoor et al., “Quantifying the carbon footprint of conference travel: The case of NMR meetings,” Magnetic Resonance, vol. 6, no. 2. Copernicus Publications, pp. 243–256, 2025.' ista: 'Kapoor L, Ruzickova N, Zivadinovic P, Leitner V, Sisak MA, Mweka CN, Dobbelaere JA, Katsaros G, Schanda P. 2025. Quantifying the carbon footprint of conference travel: The case of NMR meetings. Magnetic Resonance. 6(2), 243–256.' mla: 'Kapoor, Lucky, et al. “Quantifying the Carbon Footprint of Conference Travel: The Case of NMR Meetings.” Magnetic Resonance, vol. 6, no. 2, Copernicus Publications, 2025, pp. 243–56, doi:10.5194/mr-6-243-2025.' short: L. Kapoor, N. Ruzickova, P. Zivadinovic, V. Leitner, M.A. Sisak, C.N. Mweka, J.A. Dobbelaere, G. Katsaros, P. Schanda, Magnetic Resonance 6 (2025) 243–256. corr_author: '1' date_created: 2025-11-23T23:01:39Z date_published: 2025-11-10T00:00:00Z date_updated: 2025-11-24T08:31:34Z day: '10' ddc: - '000' department: - _id: JoFi - _id: GaTk - _id: JoCs - _id: EvBe - _id: TaHa - _id: GradSch - _id: GeKa - _id: PaSc doi: 10.5194/mr-6-243-2025 file: - access_level: open_access checksum: c63dd47b0e77f9451821436bb77d27c9 content_type: application/pdf creator: dernst date_created: 2025-11-24T08:25:19Z date_updated: 2025-11-24T08:25:19Z file_id: '20672' file_name: 2025_MagneticResonance_Kapoor.pdf file_size: 3081399 relation: main_file success: 1 file_date_updated: 2025-11-24T08:25:19Z has_accepted_license: '1' intvolume: ' 6' issue: '2' language: - iso: eng month: '11' oa: 1 oa_version: Published Version page: 243-256 publication: Magnetic Resonance publication_identifier: eissn: - 2699-0016 publication_status: published publisher: Copernicus Publications quality_controlled: '1' related_material: record: - id: '20242' relation: research_data status: public scopus_import: '1' status: public title: 'Quantifying the carbon footprint of conference travel: The case of NMR meetings' tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 6 year: '2025' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '19003' abstract: - lang: eng text: 'Super-resolution methods provide far better spatial resolution than the optical diffraction limit of about half the wavelength of light (∼200-300 nm). Nevertheless, they have yet to attain widespread use in plants, largely due to plants’ challenging optical properties. Expansion microscopy improves effective resolution by isotropically increasing the physical distances between sample structures while preserving relative spatial arrangements and clearing the sample. However, its application to plants has been hindered by the rigid, mechanically cohesive structure of plant tissues. Here, we report on whole-mount expansion microscopy of thale cress (Arabidopsis thaliana) root tissues (PlantEx), achieving a four-fold resolution increase over conventional microscopy. Our results highlight the microtubule cytoskeleton organization and interaction between molecularly defined cellular constituents. Combining PlantEx with stimulated emission depletion (STED) microscopy, we increase nanoscale resolution and visualize the complex organization of subcellular organelles from intact tissues by example of the densely packed COPI-coated vesicles associated with the Golgi apparatus and put these into a cellular structural context. Our results show that expansion microscopy can be applied to increase effective imaging resolution in Arabidopsis root specimens. ' acknowledged_ssus: - _id: Bio - _id: LifeSc - _id: E-Lib - _id: M-Shop acknowledgement: "We gratefully acknowledge support by the Scientific Service Units at ISTA, including the Imaging and Optics and Lab Support facilities and the mechanical workshop and Library. We thank Philipp Velicky for STED microscope alignment.\r\nThis project has received funding from the European Research Council under the Horizon 2020 Framework Programme (grant agreement No 742985, J.F.). It has also received funding from the Horizon 2020 Framework Programme under the Marie Skłodowska-Curie Grant Agreement No. 665385 (M.G.). S.T. has received funding as an ISTplus Fellow from the Horizon 2020 Framework Programme under Marie Skłodowska-Curie grant agreement no. 754411 and from EMBO via a Long-Term Fellowship (grant number ALTF 679-2018). M.R.T. received funding from the Austrian Academy of Sciences with DOC fellowship no. 26137. The project has further received funding from the Austrian Science Fund, via grant DK W1232 (M.R.T., N.A.D., and J.G.D). W.J. received a postdoctoral fellowship from the Human Frontier Science Program (LT000557/2018). The funders had no role in study design, data collection and analysis, decision to publish or preparation of the manuscript." article_number: koaf006 article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Michelle C full_name: Gallei, Michelle C id: 35A03822-F248-11E8-B48F-1D18A9856A87 last_name: Gallei orcid: 0000-0003-1286-7368 - first_name: Sven M full_name: Truckenbrodt, Sven M id: 45812BD4-F248-11E8-B48F-1D18A9856A87 last_name: Truckenbrodt - first_name: Caroline full_name: Kreuzinger, Caroline id: 382077BA-F248-11E8-B48F-1D18A9856A87 last_name: Kreuzinger - first_name: Syamala full_name: Inumella, Syamala id: F8660870-D756-11E9-98C5-34DFE5697425 last_name: Inumella orcid: 0009-0002-5890-120X - first_name: Vitali full_name: Vistunou, Vitali id: 7e146587-8972-11ed-ae7b-d7a32ea86a81 last_name: Vistunou - first_name: Christoph M full_name: Sommer, Christoph M id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87 last_name: Sommer orcid: 0000-0003-1216-9105 - first_name: Mojtaba full_name: Tavakoli, Mojtaba id: 3A0A06F4-F248-11E8-B48F-1D18A9856A87 last_name: Tavakoli orcid: 0000-0002-7667-6854 - first_name: Nathalie full_name: Agudelo Duenas, Nathalie id: 40E7F008-F248-11E8-B48F-1D18A9856A87 last_name: Agudelo Duenas - first_name: Jakob full_name: Vorlaufer, Jakob id: 937696FA-C996-11E9-8C7C-CF13E6697425 last_name: Vorlaufer orcid: 0009-0000-7590-3501 - first_name: Wiebke full_name: Jahr, Wiebke id: 425C1CE8-F248-11E8-B48F-1D18A9856A87 last_name: Jahr - first_name: Marek full_name: Randuch, Marek id: 6ac4636d-15b2-11ec-abd3-fb8df79972ae last_name: Randuch - first_name: Alexander J full_name: Johnson, Alexander J id: 46A62C3A-F248-11E8-B48F-1D18A9856A87 last_name: Johnson orcid: 0000-0002-2739-8843 - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 citation: ama: Gallei MC, Truckenbrodt SM, Kreuzinger C, et al. Super-resolution expansion microscopy in plant roots. The Plant Cell. 2025;37(4). doi:10.1093/plcell/koaf006 apa: Gallei, M. C., Truckenbrodt, S. M., Kreuzinger, C., Inumella, S., Vistunou, V., Sommer, C. M., … Danzl, J. G. (2025). Super-resolution expansion microscopy in plant roots. The Plant Cell. Oxford University Press. https://doi.org/10.1093/plcell/koaf006 chicago: Gallei, Michelle C, Sven M Truckenbrodt, Caroline Kreuzinger, Syamala Inumella, Vitali Vistunou, Christoph M Sommer, Mojtaba Tavakoli, et al. “Super-Resolution Expansion Microscopy in Plant Roots.” The Plant Cell. Oxford University Press, 2025. https://doi.org/10.1093/plcell/koaf006. ieee: M. C. Gallei et al., “Super-resolution expansion microscopy in plant roots,” The Plant Cell, vol. 37, no. 4. Oxford University Press, 2025. ista: Gallei MC, Truckenbrodt SM, Kreuzinger C, Inumella S, Vistunou V, Sommer CM, Tavakoli M, Agudelo Duenas N, Vorlaufer J, Jahr W, Randuch M, Johnson AJ, Benková E, Friml J, Danzl JG. 2025. Super-resolution expansion microscopy in plant roots. The Plant Cell. 37(4), koaf006. mla: Gallei, Michelle C., et al. “Super-Resolution Expansion Microscopy in Plant Roots.” The Plant Cell, vol. 37, no. 4, koaf006, Oxford University Press, 2025, doi:10.1093/plcell/koaf006. short: M.C. Gallei, S.M. Truckenbrodt, C. Kreuzinger, S. Inumella, V. Vistunou, C.M. Sommer, M. Tavakoli, N. Agudelo Duenas, J. Vorlaufer, W. Jahr, M. Randuch, A.J. Johnson, E. Benková, J. Friml, J.G. Danzl, The Plant Cell 37 (2025). corr_author: '1' date_created: 2025-02-05T06:52:06Z date_published: 2025-04-01T00:00:00Z date_updated: 2025-10-08T08:43:56Z day: '01' ddc: - '580' department: - _id: EvBe - _id: JoDa - _id: JiFr doi: 10.1093/plcell/koaf006 ec_funded: 1 external_id: isi: - '001462763100001' pmid: - '39792900' file: - access_level: open_access checksum: 9d3f8218ff37a29f29c48a7bbe831bd3 content_type: application/pdf creator: dernst date_created: 2025-07-31T07:03:43Z date_updated: 2025-07-31T07:03:43Z file_id: '20092' file_name: 2025_PlantCell_Gallei.pdf file_size: 53904111 relation: main_file success: 1 file_date_updated: 2025-07-31T07:03:43Z has_accepted_license: '1' intvolume: ' 37' isi: 1 issue: '4' language: - iso: eng month: '04' oa: 1 oa_version: Published Version pmid: 1 project: - _id: 261099A6-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '742985' name: Tracing Evolution of Auxin Transport and Polarity in Plants - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships - _id: 269B5B22-B435-11E9-9278-68D0E5697425 grant_number: ALTF 679-2018 name: UltraX - achieving sub-nanometer resolution in light microscopy using iterative X10 microscopy in combination with nanobodies and STED - _id: 6285a163-2b32-11ec-9570-8e204ca2dba5 grant_number: '26137' name: Studying Organelle Structure and Function at Nanoscale Resolution with Expansion Microscopy - _id: 26AA4EF2-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: W1232-B24 name: Molecular Drug Targets publication: The Plant Cell publication_identifier: eissn: - 1532-298X issn: - 1040-4651 publication_status: published publisher: Oxford University Press quality_controlled: '1' related_material: record: - id: '18689' relation: earlier_version status: public - id: '18837' relation: research_data status: public scopus_import: '1' status: public title: Super-resolution expansion microscopy in plant roots tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 37 year: '2025' ... --- OA_type: closed access _id: '19594' abstract: - lang: eng text: In this issue of Developmental Cell, Lee et al. identify a pivotal role for glutathione (GSH) in plant regeneration, a vital biological process enabling plants to regrow tissues and organs after injury. Applying single-cell RNA sequencing (scRNA-seq) and live imaging, the authors demonstrate that GSH, released upon tissue damage, accelerates cell-cycle transitions, particularly shortening the G1 phase, thereby facilitating efficient organ regeneration. article_processing_charge: No article_type: letter_note author: - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 citation: ama: 'Benková E. Unlocking plant regeneration: The role for glutathione. Developmental Cell. 2025;60(8):1137-1139. doi:10.1016/j.devcel.2025.03.012' apa: 'Benková, E. (2025). Unlocking plant regeneration: The role for glutathione. Developmental Cell. Elsevier. https://doi.org/10.1016/j.devcel.2025.03.012' chicago: 'Benková, Eva. “Unlocking Plant Regeneration: The Role for Glutathione.” Developmental Cell. Elsevier, 2025. https://doi.org/10.1016/j.devcel.2025.03.012.' ieee: 'E. Benková, “Unlocking plant regeneration: The role for glutathione,” Developmental Cell, vol. 60, no. 8. Elsevier, pp. 1137–1139, 2025.' ista: 'Benková E. 2025. Unlocking plant regeneration: The role for glutathione. Developmental Cell. 60(8), 1137–1139.' mla: 'Benková, Eva. “Unlocking Plant Regeneration: The Role for Glutathione.” Developmental Cell, vol. 60, no. 8, Elsevier, 2025, pp. 1137–39, doi:10.1016/j.devcel.2025.03.012.' short: E. Benková, Developmental Cell 60 (2025) 1137–1139. corr_author: '1' date_created: 2025-04-20T22:01:28Z date_published: 2025-04-21T00:00:00Z date_updated: 2025-09-30T12:07:36Z day: '21' department: - _id: EvBe doi: 10.1016/j.devcel.2025.03.012 external_id: isi: - '001477400800001' pmid: - '40262524' intvolume: ' 60' isi: 1 issue: '8' language: - iso: eng month: '04' oa_version: None page: 1137-1139 pmid: 1 publication: Developmental Cell publication_identifier: eissn: - 1878-1551 issn: - 1534-5807 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: 'Unlocking plant regeneration: The role for glutathione' type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 60 year: '2025' ... --- OA_embargo: '12' OA_place: publisher _id: '19722' acknowledged_ssus: - _id: Bio - _id: LifeSc acknowledgement: Special thanks to the Plant Facility. alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Syamala full_name: Inumella, Syamala id: F8660870-D756-11E9-98C5-34DFE5697425 last_name: Inumella orcid: 0009-0002-5890-120X citation: ama: Inumella S. Molecular mechanisms of microtubule reorganization in elongating root epidermal cells. 2025. doi:10.15479/AT-ISTA-19722 apa: Inumella, S. (2025). Molecular mechanisms of microtubule reorganization in elongating root epidermal cells. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-19722 chicago: Inumella, Syamala. “Molecular Mechanisms of Microtubule Reorganization in Elongating Root Epidermal Cells.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-19722. ieee: S. Inumella, “Molecular mechanisms of microtubule reorganization in elongating root epidermal cells,” Institute of Science and Technology Austria, 2025. ista: Inumella S. 2025. Molecular mechanisms of microtubule reorganization in elongating root epidermal cells. Institute of Science and Technology Austria. mla: Inumella, Syamala. Molecular Mechanisms of Microtubule Reorganization in Elongating Root Epidermal Cells. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-19722. short: S. Inumella, Molecular Mechanisms of Microtubule Reorganization in Elongating Root Epidermal Cells, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-05-23T15:21:29Z date_published: 2025-05-23T00:00:00Z date_updated: 2026-04-07T11:47:52Z day: '23' ddc: - '580' degree_awarded: PhD department: - _id: GradSch - _id: EvBe doi: 10.15479/AT-ISTA-19722 file: - access_level: closed checksum: 847ec70b2e40f50e0ddc7b8da201d52c content_type: application/pdf creator: sinumell date_created: 2025-05-28T11:59:11Z date_updated: 2025-05-28T11:59:11Z embargo: 2026-05-23 embargo_to: open_access file_id: '19757' file_name: Final Thesis_Syamala Inumella.pdf file_size: 8292363 relation: main_file - access_level: closed checksum: 17cdffdae13a5f65bdad9c84e9e0e3bd content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document creator: sinumell date_created: 2025-05-28T11:59:11Z date_updated: 2025-05-28T11:59:11Z file_id: '19758' file_name: Final Thesis_Syamala Inumella.docx file_size: 7145703 relation: source_file file_date_updated: 2025-05-28T11:59:11Z has_accepted_license: '1' language: - iso: eng month: '05' oa_version: Published Version page: '113' publication_identifier: isbn: - 978-3-99078-059-6 issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria status: public supervisor: - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 title: Molecular mechanisms of microtubule reorganization in elongating root epidermal cells type: dissertation user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd year: '2025' ... --- OA_place: repository OA_type: green _id: '19398' abstract: - lang: eng 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. acknowledged_ssus: - _id: Bio - _id: LifeSc 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. article_processing_charge: No author: - first_name: Aline full_name: Monzer, Aline id: 2DB5D88C-D7B3-11E9-B8FD-7907E6697425 last_name: Monzer - first_name: Ewa full_name: Mazur, Ewa last_name: Mazur - first_name: Lesia full_name: Rodriguez Solovey, Lesia id: 3922B506-F248-11E8-B48F-1D18A9856A87 last_name: Rodriguez Solovey orcid: 0000-0002-7244-7237 - first_name: Michelle C full_name: Gallei, Michelle C id: 35A03822-F248-11E8-B48F-1D18A9856A87 last_name: Gallei orcid: 0000-0003-1286-7368 - first_name: Minxia full_name: Zou, Minxia id: 5c243f41-03f3-11ec-841c-96faf48a7ef9 last_name: Zou - first_name: Michael full_name: Smejkal, Michael id: 79a5a1be-04a3-11f0-ba18-a1730e0b58e9 last_name: Smejkal - first_name: Ema full_name: Cervenova, Ema id: 9f185b95-04a3-11f0-8245-f5e32eeb470f last_name: Cervenova - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 citation: ama: Monzer A, Mazur E, Rodriguez Solovey L, et al. TMK interacting network of receptor like kinases for auxin canalization and beyond. bioRxiv. doi:10.1101/2025.02.28.640727 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. bioRxiv. Cold Spring Harbor Laboratory. https://doi.org/10.1101/2025.02.28.640727 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.” BioRxiv. Cold Spring Harbor Laboratory, n.d. https://doi.org/10.1101/2025.02.28.640727. ieee: A. Monzer et al., “TMK interacting network of receptor like kinases for auxin canalization and beyond,” bioRxiv. Cold Spring Harbor Laboratory. 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, 10.1101/2025.02.28.640727. mla: Monzer, Aline, et al. “TMK Interacting Network of Receptor like Kinases for Auxin Canalization and Beyond.” BioRxiv, Cold Spring Harbor Laboratory, doi:10.1101/2025.02.28.640727. short: A. Monzer, E. Mazur, L. Rodriguez Solovey, M.C. Gallei, M. Zou, M. Smejkal, E. Cervenova, J. Friml, BioRxiv (n.d.). corr_author: '1' date_created: 2025-03-12T14:28:53Z date_published: 2025-03-02T00:00:00Z date_updated: 2026-04-07T11:48:31Z day: '02' department: - _id: GradSch - _id: JiFr - _id: EvBe doi: 10.1101/2025.02.28.640727 has_accepted_license: '1' language: - iso: eng license: https://creativecommons.org/licenses/by-nc-nd/4.0/ main_file_link: - open_access: '1' url: https://doi.org/10.1101/2025.02.28.640727 month: '03' oa: 1 oa_version: Published Version publication: bioRxiv publication_status: draft publisher: Cold Spring Harbor Laboratory related_material: record: - id: '19395' relation: dissertation_contains status: public status: public title: TMK interacting network of receptor like kinases for auxin canalization and beyond tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2025' ... --- OA_place: publisher _id: '20117' acknowledged_ssus: - _id: Bio - _id: LifeSc - _id: PreCl acknowledgement: "I would also like to acknowledge the invaluable assistance provided by the Plant\r\nFacility, Imaging & Optics Facility, and the Lab Support Facility. The technical support and\r\nresources offered by these facilities were indispensable to the successful completion of my\r\nexperiments." alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: Yiqun full_name: Wang, Yiqun id: 82F537F2-B517-11E9-84D7-6433E6697425 last_name: Wang citation: ama: Wang Y. The role of dynamin related protein 2A in cytokinin regulated plant growth and development. 2025. doi:10.15479/AT-ISTA-20117 apa: Wang, Y. (2025). The role of dynamin related protein 2A in cytokinin regulated plant growth and development. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20117 chicago: Wang, Yiqun. “The Role of Dynamin Related Protein 2A in Cytokinin Regulated Plant Growth and Development.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20117. ieee: Y. Wang, “The role of dynamin related protein 2A in cytokinin regulated plant growth and development,” Institute of Science and Technology Austria, 2025. ista: Wang Y. 2025. The role of dynamin related protein 2A in cytokinin regulated plant growth and development. Institute of Science and Technology Austria. mla: Wang, Yiqun. The Role of Dynamin Related Protein 2A in Cytokinin Regulated Plant Growth and Development. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20117. short: Y. Wang, The Role of Dynamin Related Protein 2A in Cytokinin Regulated Plant Growth and Development, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-08-04T15:24:21Z date_published: 2025-08-04T00:00:00Z date_updated: 2026-04-07T11:49:34Z day: '04' ddc: - '580' degree_awarded: PhD department: - _id: GradSch - _id: EvBe doi: 10.15479/AT-ISTA-20117 file: - access_level: closed checksum: 36b87c17d12c7bf5955d6d812acb8d77 content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document creator: yiqwang date_created: 2025-08-22T08:22:10Z date_updated: 2025-08-22T08:53:46Z file_id: '20209' file_name: 2025_Wang_Yiqun_Thesis.docx file_size: 25798848 relation: source_file - access_level: closed checksum: 8d7a2383f66377da675d379ec30ea0fe content_type: application/pdf creator: yiqwang date_created: 2025-08-22T10:32:30Z date_updated: 2025-09-03T09:36:52Z embargo: 2026-09-03 embargo_to: open_access file_id: '20211' file_name: 2025_Wang_Yiqun_Thesis.pdf file_size: 12628313 relation: main_file file_date_updated: 2025-09-03T09:36:52Z has_accepted_license: '1' language: - iso: eng month: '08' oa_version: Published Version page: '108' publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '18063' relation: part_of_dissertation status: public status: public supervisor: - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 title: The role of dynamin related protein 2A in cytokinin regulated plant growth and development type: dissertation user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd year: '2025' ... --- OA_place: publisher OA_type: hybrid PlanS_conform: '1' _id: '20187' 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. acknowledged_ssus: - _id: Bio - _id: EM-Fac - _id: LifeSc 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)." article_number: e70396 article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: David full_name: Babic, David id: db566d23-f6e0-11ea-865d-e6f270e968e7 last_name: Babic - first_name: Rashed full_name: Abualia, Rashed id: 4827E134-F248-11E8-B48F-1D18A9856A87 last_name: Abualia orcid: 0000-0002-9357-9415 - first_name: Lukas full_name: Fiedler, Lukas id: 7c417475-8972-11ed-ae7b-8b674ca26986 last_name: Fiedler - first_name: Linlin full_name: Qi, Linlin id: 44B04502-A9ED-11E9-B6FC-583AE6697425 last_name: Qi orcid: 0000-0001-5187-8401 - first_name: Frédérique full_name: Tellier, Frédérique last_name: Tellier - first_name: Adrijana full_name: Smoljan, Adrijana id: cced8a85-223e-11ed-af04-b0596c55053b last_name: Smoljan - first_name: Hana full_name: Rakusova, Hana id: 4CAAA450-78D2-11EA-8E57-B40A396E08BA last_name: Rakusova - first_name: Petr full_name: Valošek, Petr id: 3CDB6F94-F248-11E8-B48F-1D18A9856A87 last_name: Valošek - first_name: Huibin full_name: Han, Huibin id: 31435098-F248-11E8-B48F-1D18A9856A87 last_name: Han - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: Jean Denis full_name: Faure, Jean Denis last_name: Faure - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 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. Plant Journal. 2025;123(3). doi:10.1111/tpj.70396 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. Plant Journal. Wiley. https://doi.org/10.1111/tpj.70396 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.” Plant Journal. Wiley, 2025. https://doi.org/10.1111/tpj.70396. ieee: D. Babic et al., “Biosynthesis of very long-chain fatty acids is required for Arabidopsis auxin-mediated embryonic and post-embryonic development,” Plant Journal, vol. 123, no. 3. Wiley, 2025. 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. mla: Babic, David, et al. “Biosynthesis of Very Long-Chain Fatty Acids Is Required for Arabidopsis Auxin-Mediated Embryonic and Post-Embryonic Development.” Plant Journal, vol. 123, no. 3, e70396, Wiley, 2025, doi:10.1111/tpj.70396. 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). corr_author: '1' date_created: 2025-08-17T22:01:36Z date_published: 2025-08-01T00:00:00Z date_updated: 2026-04-07T11:52:02Z day: '01' ddc: - '580' department: - _id: EvBe - _id: JiFr - _id: GradSch doi: 10.1111/tpj.70396 external_id: isi: - '001547884300001' pmid: - '40782342' file: - access_level: open_access checksum: 1cdc3341d2d23101abca72521f1f23cb content_type: application/pdf creator: dernst date_created: 2025-09-01T14:09:31Z date_updated: 2025-09-01T14:09:31Z file_id: '20264' file_name: 2025_PlantJournal_Babic.pdf file_size: 5791111 relation: main_file success: 1 file_date_updated: 2025-09-01T14:09:31Z has_accepted_license: '1' intvolume: ' 123' isi: 1 issue: '3' language: - iso: eng month: '08' oa: 1 oa_version: Published Version pmid: 1 project: - _id: bd76d395-d553-11ed-ba76-f678c14f9033 grant_number: I06123 name: Peptide receptors for auxin canalization in Arabidopsis publication: Plant Journal publication_identifier: eissn: - 1365-313X issn: - 0960-7412 publication_status: published publisher: Wiley quality_controlled: '1' related_material: record: - id: '20362' relation: dissertation_contains status: public scopus_import: '1' status: public title: Biosynthesis of very long-chain fatty acids is required for Arabidopsis auxin-mediated embryonic and post-embryonic development tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 123 year: '2025' ... --- OA_place: publisher _id: '20362' acknowledged_ssus: - _id: Bio - _id: LifeSc alternative_title: - ISTA Thesis article_processing_charge: No author: - first_name: David full_name: Babic, David id: db566d23-f6e0-11ea-865d-e6f270e968e7 last_name: Babic citation: ama: Babic D. Mechanisms of auxin-mediated early embryogenesis in Arabidopsis thaliana. 2025. doi:10.15479/AT-ISTA-20362 apa: Babic, D. (2025). Mechanisms of auxin-mediated early embryogenesis in Arabidopsis thaliana. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20362 chicago: Babic, David. “Mechanisms of Auxin-Mediated Early Embryogenesis in Arabidopsis Thaliana.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20362. ieee: D. Babic, “Mechanisms of auxin-mediated early embryogenesis in Arabidopsis thaliana,” Institute of Science and Technology Austria, 2025. ista: Babic D. 2025. Mechanisms of auxin-mediated early embryogenesis in Arabidopsis thaliana. Institute of Science and Technology Austria. mla: Babic, David. Mechanisms of Auxin-Mediated Early Embryogenesis in Arabidopsis Thaliana. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20362. short: D. Babic, Mechanisms of Auxin-Mediated Early Embryogenesis in Arabidopsis Thaliana, Institute of Science and Technology Austria, 2025. corr_author: '1' date_created: 2025-09-17T13:28:01Z date_published: 2025-09-18T00:00:00Z date_updated: 2026-04-07T11:52:02Z day: '18' ddc: - '580' degree_awarded: PhD department: - _id: GradSch - _id: JiFr - _id: EvBe doi: 10.15479/AT-ISTA-20362 file: - access_level: closed checksum: 5ecf274281a54a41e0288bc79edf7492 content_type: application/pdf creator: dbabic date_created: 2025-09-24T13:43:14Z date_updated: 2025-09-26T07:29:11Z embargo: 2026-09-25 embargo_to: open_access file_id: '20388' file_name: 2025_David_Babic_Thesis.pdf file_size: 7501548 relation: main_file - access_level: closed checksum: 2703e548390de0a1af7a707137e8ab3b content_type: application/vnd.openxmlformats-officedocument.wordprocessingml.document creator: dbabic date_created: 2025-09-24T13:43:14Z date_updated: 2025-09-26T07:29:11Z file_id: '20389' file_name: Thesis_Babic_draft.docx file_size: 23206052 relation: source_file file_date_updated: 2025-09-26T07:29:11Z has_accepted_license: '1' language: - iso: eng month: '09' oa_version: Published Version page: '116' publication_identifier: issn: - 2663-337X publication_status: published publisher: Institute of Science and Technology Austria related_material: record: - id: '20187' relation: part_of_dissertation status: public status: public supervisor: - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 title: Mechanisms of auxin-mediated early embryogenesis in Arabidopsis thaliana tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: dissertation user_id: ba8df636-2132-11f1-aed0-ed93e2281fdd year: '2025' ... --- OA_place: publisher OA_type: hybrid _id: '18596' abstract: - lang: eng text: Hormone perception and signaling pathways have a fundamental regulatory function in the physiological processes of plants. Cytokinins, a class of plant hormones, regulate cell division and meristem maintenance. The cytokinin signaling pathway is well established in the model plant Arabidopsis thaliana. Several negative feedback mechanisms, tightly controlling cytokinin signaling output, have been described previously. In this study, we identified a new feedback mechanism executed through alternative splicing of the cytokinin receptor AHK4/CRE1. A novel splicing variant named CRE1int7 results from seventh intron retention, introducing a premature termination codon in the transcript. We showed that CRE1int7 is translated in planta into a truncated receptor lacking the C-terminal receiver domain essential for signal transduction. CRE1int7 can bind cytokinin but cannot activate the downstream cascade. We present a novel negative feedback mechanism of the cytokinin signaling pathway, facilitated by a decoy receptor that can inactivate canonical cytokinin receptors via dimerization and compete with them for ligand binding. Ensuring proper plant growth and development requires precise control of the cytokinin signaling pathway at several levels. CRE1int7 represents a so-far unknown mechanism for fine-tuning the cytokinin signaling pathway in Arabidopsis. acknowledged_ssus: - _id: Bio - _id: LifeSc acknowledgement: We dedicate this paper to the deceased Petr Galuszka for his inspiration and support of our project. We thank Prof. Peter Hedden for constructive criticism of the manuscript and English editing. No conflict of interest is declared. article_processing_charge: Yes (in subscription journal) article_type: original author: - first_name: Michaela full_name: Králová, Michaela last_name: Králová - first_name: Ivona full_name: Kubalová, Ivona last_name: Kubalová - first_name: Jakub full_name: Hajný, Jakub last_name: Hajný - first_name: Karolina full_name: Kubiasova, Karolina id: 946011F4-3E71-11EA-860B-C7A73DDC885E last_name: Kubiasova orcid: 0000-0001-5630-9419 - first_name: Karolína full_name: Vagaská, Karolína last_name: Vagaská - first_name: Zengxiang full_name: Ge, Zengxiang id: f43371a3-09ff-11eb-8013-bd0c6a2f6de8 last_name: Ge orcid: 0000-0001-9381-3577 - first_name: Michelle C full_name: Gallei, Michelle C id: 35A03822-F248-11E8-B48F-1D18A9856A87 last_name: Gallei orcid: 0000-0003-1286-7368 - first_name: Hana full_name: Semerádová, Hana id: 42FE702E-F248-11E8-B48F-1D18A9856A87 last_name: Semerádová - first_name: Anna full_name: Kuchařová, Anna last_name: Kuchařová - first_name: Martin full_name: Hönig, Martin last_name: Hönig - first_name: Aline full_name: Monzer, Aline id: 2DB5D88C-D7B3-11E9-B8FD-7907E6697425 last_name: Monzer - first_name: Martin full_name: Kovačik, Martin last_name: Kovačik - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Ondřej full_name: Novák, Ondřej last_name: Novák - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: Yoshihisa full_name: Ikeda, Yoshihisa last_name: Ikeda - first_name: David full_name: Zalabák, David last_name: Zalabák citation: ama: Králová M, Kubalová I, Hajný J, et al. A decoy receptor derived from alternative splicing fine-tunes cytokinin signaling in Arabidopsis. Molecular Plant. 2024;17(12):1850-1865. doi:10.1016/j.molp.2024.11.001 apa: Králová, M., Kubalová, I., Hajný, J., Kubiasova, K., Vagaská, K., Ge, Z., … Zalabák, D. (2024). A decoy receptor derived from alternative splicing fine-tunes cytokinin signaling in Arabidopsis. Molecular Plant. Elsevier. https://doi.org/10.1016/j.molp.2024.11.001 chicago: Králová, Michaela, Ivona Kubalová, Jakub Hajný, Karolina Kubiasova, Karolína Vagaská, Zengxiang Ge, Michelle C Gallei, et al. “A Decoy Receptor Derived from Alternative Splicing Fine-Tunes Cytokinin Signaling in Arabidopsis.” Molecular Plant. Elsevier, 2024. https://doi.org/10.1016/j.molp.2024.11.001. ieee: M. Králová et al., “A decoy receptor derived from alternative splicing fine-tunes cytokinin signaling in Arabidopsis,” Molecular Plant, vol. 17, no. 12. Elsevier, pp. 1850–1865, 2024. ista: Králová M, Kubalová I, Hajný J, Kubiasova K, Vagaská K, Ge Z, Gallei MC, Semerádová H, Kuchařová A, Hönig M, Monzer A, Kovačik M, Friml J, Novák O, Benková E, Ikeda Y, Zalabák D. 2024. A decoy receptor derived from alternative splicing fine-tunes cytokinin signaling in Arabidopsis. Molecular Plant. 17(12), 1850–1865. mla: Králová, Michaela, et al. “A Decoy Receptor Derived from Alternative Splicing Fine-Tunes Cytokinin Signaling in Arabidopsis.” Molecular Plant, vol. 17, no. 12, Elsevier, 2024, pp. 1850–65, doi:10.1016/j.molp.2024.11.001. short: M. Králová, I. Kubalová, J. Hajný, K. Kubiasova, K. Vagaská, Z. Ge, M.C. Gallei, H. Semerádová, A. Kuchařová, M. Hönig, A. Monzer, M. Kovačik, J. Friml, O. Novák, E. Benková, Y. Ikeda, D. Zalabák, Molecular Plant 17 (2024) 1850–1865. date_created: 2024-11-28T11:13:35Z date_published: 2024-12-02T00:00:00Z date_updated: 2025-09-08T14:46:45Z day: '02' ddc: - '580' department: - _id: JiFr - _id: EvBe doi: 10.1016/j.molp.2024.11.001 external_id: isi: - '001373778300001' pmid: - '39501563' file: - access_level: open_access checksum: a11feea4b1677df76b632eca04bfc1dd content_type: application/pdf creator: dernst date_created: 2024-12-03T11:08:09Z date_updated: 2024-12-03T11:08:09Z file_id: '18612' file_name: 2024_MolecularPlant_Kralova.pdf file_size: 3308945 relation: main_file success: 1 file_date_updated: 2024-12-03T11:08:09Z has_accepted_license: '1' intvolume: ' 17' isi: 1 issue: '12' language: - iso: eng month: '12' oa: 1 oa_version: Published Version page: 1850-1865 pmid: 1 publication: Molecular Plant publication_identifier: issn: - 1674-2052 publication_status: published publisher: Elsevier quality_controlled: '1' scopus_import: '1' status: public title: A decoy receptor derived from alternative splicing fine-tunes cytokinin signaling in Arabidopsis tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 17 year: '2024' ... --- _id: '14842' abstract: - lang: eng text: Eva Benkova received a PhD in Biophysics at the Institute of Biophysics of the Czech Academy of Sciences in 1998. After working as a postdoc at the Max Planck Institute in Cologne and the Center for Plant Molecular Biology (ZMBP) in Tübingen, she became a group leader at the Plant Systems Biology Department of the Vlaams Instituut voor Biotechnologie (VIB) in Gent. In 2012, she transitioned to an Assistant Professor position at the Institute of Science and Technology Austria (ISTA) where she was later promoted to Professor. Since 2021, she has served as the Dean of the ISTA Graduate School. As a plant developmental biologist, she focuses on unraveling the molecular mechanisms and principles that underlie hormonal interactions in plants. In her current work, she explores the intricate connections between hormones and regulatory pathways that mediate the perception of environmental stimuli, including abiotic stress and nitrate availability. article_processing_charge: No author: - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 citation: ama: Benková E. Eva Benkova. Vol 34. Elsevier; 2024:R3-R5. doi:10.1016/j.cub.2023.11.039 apa: Benková, E. (2024). Eva Benkova. Current Biology (Vol. 34, pp. R3–R5). Elsevier. https://doi.org/10.1016/j.cub.2023.11.039 chicago: Benková, Eva. Eva Benkova. Current Biology. Vol. 34. Elsevier, 2024. https://doi.org/10.1016/j.cub.2023.11.039. ieee: E. Benková, Eva Benkova, vol. 34, no. 1. Elsevier, 2024, pp. R3–R5. ista: Benková E. 2024. Eva Benkova, Elsevier,p. mla: Benková, Eva. “Eva Benkova.” Current Biology, vol. 34, no. 1, Elsevier, 2024, pp. R3–5, doi:10.1016/j.cub.2023.11.039. short: E. Benková, Eva Benkova, Elsevier, 2024. corr_author: '1' date_created: 2024-01-21T23:00:56Z date_published: 2024-01-08T00:00:00Z date_updated: 2025-01-28T06:49:44Z day: '08' department: - _id: EvBe doi: 10.1016/j.cub.2023.11.039 external_id: pmid: - '38194926' intvolume: ' 34' issue: '1' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1016/j.cub.2023.11.039 month: '01' oa: 1 oa_version: Published Version page: R3-R5 pmid: 1 publication: Current Biology publication_identifier: eissn: - 1879-0445 publication_status: published publisher: Elsevier quality_controlled: '1' status: public title: Eva Benkova type: other_academic_publication user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 34 year: '2024' ... --- _id: '15301' abstract: - lang: eng text: Plant morphogenesis relies exclusively on oriented cell expansion and division. Nonetheless, the mechanism(s) determining division plane orientation remain elusive. Here, we studied tissue healing after laser-assisted wounding in roots of Arabidopsis thaliana and uncovered how mechanical forces stabilize and reorient the microtubule cytoskeleton for the orientation of cell division. We identified that root tissue functions as an interconnected cell matrix, with a radial gradient of tissue extendibility causing predictable tissue deformation after wounding. This deformation causes instant redirection of expansion in the surrounding cells and reorientation of microtubule arrays, ultimately predicting cell division orientation. Microtubules are destabilized under low tension, whereas stretching of cells, either through wounding or external aspiration, immediately induces their polymerization. The higher microtubule abundance in the stretched cell parts leads to the reorientation of microtubule arrays and, ultimately, informs cell division planes. This provides a long-sought mechanism for flexible re-arrangement of cell divisions by mechanical forces for tissue reconstruction and plant architecture. acknowledged_ssus: - _id: Bio - _id: LifeSc acknowledgement: We are thankful to Simon Gilroy, Alexander Jones, and Lieven De Veylder for sharing published material. We thank the Imaging & Optics and Life Science Facilities at IST Austria, the Biooptics facility at GMI, and the Cellular Imaging Facility at DBMV UNIL for providing invaluable assistance. The research leading to these results has received funding from the European Research Council under the European Union's Seventh Framework Programme (FP7/2007-2013)/ERC grant agreement no. 742985, from the FWF under the stand-alone grant P29988, and from EMBO (ALTF 253-2023). article_processing_charge: Yes (via OA deal) article_type: original author: - first_name: Lukas full_name: Hörmayer, Lukas id: 2EEE7A2A-F248-11E8-B48F-1D18A9856A87 last_name: Hörmayer orcid: 0000-0001-8295-2926 - first_name: Juan C full_name: Montesinos López, Juan C id: 310A8E3E-F248-11E8-B48F-1D18A9856A87 last_name: Montesinos López orcid: 0000-0001-9179-6099 - first_name: N full_name: Trozzi, N last_name: Trozzi - first_name: Leonhard full_name: Spona, Leonhard id: b52391fb-f636-11ee-939c-8a8c47552e8a last_name: Spona - first_name: Saiko full_name: Yoshida, Saiko id: 2E46069C-F248-11E8-B48F-1D18A9856A87 last_name: Yoshida - first_name: Petra full_name: Marhavá, Petra id: 44E59624-F248-11E8-B48F-1D18A9856A87 last_name: Marhavá - first_name: Silvia full_name: Caballero Mancebo, Silvia id: 2F1E1758-F248-11E8-B48F-1D18A9856A87 last_name: Caballero Mancebo orcid: 0000-0002-5223-3346 - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: Carl-Philipp J full_name: Heisenberg, Carl-Philipp J id: 39427864-F248-11E8-B48F-1D18A9856A87 last_name: Heisenberg orcid: 0000-0002-0912-4566 - first_name: Y full_name: Dagdas, Y last_name: Dagdas - first_name: M full_name: Majda, M last_name: Majda - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 citation: ama: Hörmayer L, Montesinos López JC, Trozzi N, et al. Mechanical forces in plant tissue matrix orient cell divisions via microtubule stabilization. Developmental Cell. 2024;59(10):1333-1344.e4. doi:10.1016/j.devcel.2024.03.009 apa: Hörmayer, L., Montesinos López, J. C., Trozzi, N., Spona, L., Yoshida, S., Marhavá, P., … Friml, J. (2024). Mechanical forces in plant tissue matrix orient cell divisions via microtubule stabilization. Developmental Cell. Elsevier. https://doi.org/10.1016/j.devcel.2024.03.009 chicago: Hörmayer, Lukas, Juan C Montesinos López, N Trozzi, Leonhard Spona, Saiko Yoshida, Petra Marhavá, Silvia Caballero Mancebo, et al. “Mechanical Forces in Plant Tissue Matrix Orient Cell Divisions via Microtubule Stabilization.” Developmental Cell. Elsevier, 2024. https://doi.org/10.1016/j.devcel.2024.03.009. ieee: L. Hörmayer et al., “Mechanical forces in plant tissue matrix orient cell divisions via microtubule stabilization,” Developmental Cell, vol. 59, no. 10. Elsevier, p. 1333–1344.e4, 2024. ista: Hörmayer L, Montesinos López JC, Trozzi N, Spona L, Yoshida S, Marhavá P, Caballero Mancebo S, Benková E, Heisenberg C-PJ, Dagdas Y, Majda M, Friml J. 2024. Mechanical forces in plant tissue matrix orient cell divisions via microtubule stabilization. Developmental Cell. 59(10), 1333–1344.e4. mla: Hörmayer, Lukas, et al. “Mechanical Forces in Plant Tissue Matrix Orient Cell Divisions via Microtubule Stabilization.” Developmental Cell, vol. 59, no. 10, Elsevier, 2024, p. 1333–1344.e4, doi:10.1016/j.devcel.2024.03.009. short: L. Hörmayer, J.C. Montesinos López, N. Trozzi, L. Spona, S. Yoshida, P. Marhavá, S. Caballero Mancebo, E. Benková, C.-P.J. Heisenberg, Y. Dagdas, M. Majda, J. Friml, Developmental Cell 59 (2024) 1333–1344.e4. corr_author: '1' date_created: 2024-04-08T12:07:57Z date_published: 2024-05-20T00:00:00Z date_updated: 2025-09-04T13:32:08Z day: '20' ddc: - '570' department: - _id: JiFr - _id: EvBe - _id: CaHe doi: 10.1016/j.devcel.2024.03.009 ec_funded: 1 external_id: isi: - '001301584600001' pmid: - '38579717' file: - access_level: open_access checksum: 22b374fb50a40d380b7686c84258d271 content_type: application/pdf creator: dernst date_created: 2024-08-20T11:22:16Z date_updated: 2024-08-20T11:22:16Z file_id: '17452' file_name: 2024_DevelopmentalCell_Hoermayer.pdf file_size: 5195262 relation: main_file success: 1 file_date_updated: 2024-08-20T11:22:16Z has_accepted_license: '1' intvolume: ' 59' isi: 1 issue: '10' language: - iso: eng month: '05' oa: 1 oa_version: Published Version page: 1333-1344.e4 pmid: 1 project: - _id: 261099A6-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '742985' name: Tracing Evolution of Auxin Transport and Polarity in Plants - _id: 262EF96E-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: P29988 name: RNA-directed DNA methylation in plant development publication: Developmental Cell publication_identifier: eissn: - 1878-1551 issn: - 1534-5807 publication_status: published publisher: Elsevier quality_controlled: '1' related_material: link: - description: News on ISTA website relation: press_release url: https://ista.ac.at/en/news/how-plants-heal-wounds/ scopus_import: '1' status: public title: Mechanical forces in plant tissue matrix orient cell divisions via microtubule stabilization tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 59 year: '2024' ... --- _id: '18063' abstract: - lang: eng text: The developmental plasticity of the root system plays an essential role in the adaptation of plants to the environment. Among many other signals, auxin and its directional, intercellular transport are critical in regulating root growth and development. In particular, the PIN-FORMED2 (PIN2) auxin exporter acts as a key regulator of root gravitropic growth. Multiple regulators have been reported to be involved in PIN2-mediated root growth; however, our information remains incomplete. Here, we identified ROWY Bro1-domain proteins as important regulators of PIN2 sorting control. Genetic analysis revealed that Arabidopsis rowy1 single mutants and higher-order rowy1 rowy2 rowy3 triple mutants presented a wavy root growth phenotype. Cell biological experiments revealed that ROWY1 and PIN2 colocalized to the apical side of the plasma membrane in the root epidermis and that ROWYs are required for correct PM targeting of PIN2. In addition, ROWYs also affected PIN3 protein abundance in the stele, suggesting the potential involvement of additional PIN transporters as well as other proteins. A global transcriptome analysis revealed that ROWY genes are involved in the Fe2+ availability perception pathway. This work establishes ROWYs as important novel regulators of root gravitropic growth by connecting micronutrient availability to the proper subcellular targeting of PIN auxin transporters. acknowledgement: We thank Drs. Erika Isono (University of Constance), Grégory Vert (University of Toulouse), and Liwen Jiang (The Chinese University of Hong Kong) for kindly sharing published Arabidopsis lines; Dr. Yuzhou Zhang (ISTA) for help with molecular cloning, and Drs. Melinda Abas (BOKU), Eugenia Russinova (Ghent University), and Zhaojun Ding (Shandong University) for valuable discussions. This work was supported by grants to S.T. from the National Natural Science Foundation of China (32321001), the USTC Research Funds of the Double First-Class Initiative (YD9100002016), the Research Funds from the Center for Advanced Interdisciplinary Science and Biomedicine of IHM, the Division of Life Sciences and Medicine, the University of Science and Technology of China (QYPY20220012), the Fundamental Research Funds for the Central Universities (WK9100000021), and start-up funding from the University of Science and Technology of China and the Chinese Academy of Sciences (GG9100007007, KY9100000026, KY9100000051, and KJ2070000079). J.S. was supported by the National Natural Science Foundation of China (31970181 and 32170342). J.F. was supported by Austrian Science Fund (FWF; projects I6123 and P37051-B). article_number: '1085' article_processing_charge: Yes article_type: original author: - first_name: Yakun full_name: Peng, Yakun last_name: Peng - first_name: Kangkang full_name: Ji, Kangkang last_name: Ji - first_name: Yanbo full_name: Mao, Yanbo last_name: Mao - first_name: Yiqun full_name: Wang, Yiqun id: 82F537F2-B517-11E9-84D7-6433E6697425 last_name: Wang - first_name: Barbara full_name: Korbei, Barbara last_name: Korbei - first_name: Christian full_name: Luschnig, Christian last_name: Luschnig - first_name: Jinbo full_name: Shen, Jinbo last_name: Shen - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Shutang full_name: Tan, Shutang id: 2DE75584-F248-11E8-B48F-1D18A9856A87 last_name: Tan orcid: 0000-0002-0471-8285 citation: ama: Peng Y, Ji K, Mao Y, et al. Polarly localized Bro1 domain proteins regulate PIN-FORMED abundance and root gravitropic growth in Arabidopsis. Communications Biology. 2024;7. doi:10.1038/s42003-024-06747-9 apa: Peng, Y., Ji, K., Mao, Y., Wang, Y., Korbei, B., Luschnig, C., … Tan, S. (2024). Polarly localized Bro1 domain proteins regulate PIN-FORMED abundance and root gravitropic growth in Arabidopsis. Communications Biology. Springer Nature. https://doi.org/10.1038/s42003-024-06747-9 chicago: Peng, Yakun, Kangkang Ji, Yanbo Mao, Yiqun Wang, Barbara Korbei, Christian Luschnig, Jinbo Shen, Eva Benková, Jiří Friml, and Shutang Tan. “Polarly Localized Bro1 Domain Proteins Regulate PIN-FORMED Abundance and Root Gravitropic Growth in Arabidopsis.” Communications Biology. Springer Nature, 2024. https://doi.org/10.1038/s42003-024-06747-9. ieee: Y. Peng et al., “Polarly localized Bro1 domain proteins regulate PIN-FORMED abundance and root gravitropic growth in Arabidopsis,” Communications Biology, vol. 7. Springer Nature, 2024. ista: Peng Y, Ji K, Mao Y, Wang Y, Korbei B, Luschnig C, Shen J, Benková E, Friml J, Tan S. 2024. Polarly localized Bro1 domain proteins regulate PIN-FORMED abundance and root gravitropic growth in Arabidopsis. Communications Biology. 7, 1085. mla: Peng, Yakun, et al. “Polarly Localized Bro1 Domain Proteins Regulate PIN-FORMED Abundance and Root Gravitropic Growth in Arabidopsis.” Communications Biology, vol. 7, 1085, Springer Nature, 2024, doi:10.1038/s42003-024-06747-9. short: Y. Peng, K. Ji, Y. Mao, Y. Wang, B. Korbei, C. Luschnig, J. Shen, E. Benková, J. Friml, S. Tan, Communications Biology 7 (2024). date_created: 2024-09-15T22:01:38Z date_published: 2024-09-04T00:00:00Z date_updated: 2026-04-07T11:49:33Z day: '04' ddc: - '570' department: - _id: EvBe - _id: JiFr doi: 10.1038/s42003-024-06747-9 external_id: isi: - '001306499600002' pmid: - '39232040' file: - access_level: open_access checksum: 7d66af41c90e73d1b8a375eb652a9561 content_type: application/pdf creator: dernst date_created: 2024-09-17T09:44:29Z date_updated: 2024-09-17T09:44:29Z file_id: '18084' file_name: 2024_CommBiology_Peng.pdf file_size: 7718758 relation: main_file success: 1 file_date_updated: 2024-09-17T09:44:29Z has_accepted_license: '1' intvolume: ' 7' isi: 1 language: - iso: eng month: '09' oa: 1 oa_version: Published Version pmid: 1 project: - _id: bd76d395-d553-11ed-ba76-f678c14f9033 grant_number: I06123 name: Peptide receptors for auxin canalization in Arabidopsis - _id: 7bcece63-9f16-11ee-852c-ae94e099eeb6 grant_number: P37051 name: Guanylate cyclase activity of TIR1/AFBs auxin receptors publication: Communications Biology publication_identifier: eissn: - 2399-3642 publication_status: published publisher: Springer Nature quality_controlled: '1' related_material: record: - id: '20117' relation: dissertation_contains status: public scopus_import: '1' status: public title: Polarly localized Bro1 domain proteins regulate PIN-FORMED abundance and root gravitropic growth in Arabidopsis tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 317138e5-6ab7-11ef-aa6d-ffef3953e345 volume: 7 year: '2024' ... --- OA_place: repository _id: '18689' abstract: - lang: eng text: Multiplexed fluorescence microscopy imaging is widely used in biomedical applications. However, simultaneous imaging of multiple fluorophores can result in spectral leaks and overlapping, which greatly degrades image quality and subsequent analysis. Existing popular spectral unmixing methods are mainly based on computational intensive linear models and the performance is heavily dependent on the reference spectra, which may greatly preclude its further applications. In this paper, we propose a deep learning-based blindly spectral unmixing method, termed AutoUnmix, to imitate the physical spectral mixing process. A tranfer learning framework is further devised to allow our AutoUnmix adapting to a variety of imaging systems without retraining the network. Our proposed method has demonstrated real-time unmixing capabilities, surpassing existing methods by up to 100-fold in terms of unmixing speed. We further validate the reconstruction performance on both synthetic datasets and biological samples. The unmixing results of AutoUnmix achieve a highest SSIM of 0.99 in both three- and four-color imaging, with nearly up to 20% higher than other popular unmixing methods. Due to the desirable property of data independency and superior blind unmixing performance, we believe AutoUnmix is a powerful tool to study the interaction process of different organelles labeled by multiple fluorophores. acknowledged_ssus: - _id: Bio - _id: LifeSc - _id: M-Shop - _id: E-Lib acknowledgement: "We gratefully acknowledge support by the Scientific Service Units at ISTA, including the Imaging and Optics and Lab Support facilities and the mechanical workshop and Library. We thank Philipp Velicky for STED microscope alignment.\r\n\r\nThis project has received funding from the Austrian Science Fund (FWF): I 3630-B25 (J.G.D) and the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (grant agreement No 742985, J.F.). It has also received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 665385. S.T. has received funding as an ISTplus Fellow from the European Union’s Horizon 2020 Research and Innovation Programme under Marie Skłodowska-Curie grant agreement no. 754411 and from an EMBO Long-Term Fellowship (grant number ALTF 679-2018). It has further received funding from the Austrian Science Fund (FWF) grant DK W1232 (M.T, N.A-D., J.G.D). W.J. received funding via a Human Frontier Science Program postdoctoral fellowship LT000557/2018.\r\n\r\nThe funders had no role in study design, data collection and analysis, decision to publish or preparation of the manuscript." article_processing_charge: No author: - first_name: Michelle C full_name: Gallei, Michelle C id: 35A03822-F248-11E8-B48F-1D18A9856A87 last_name: Gallei orcid: 0000-0003-1286-7368 - first_name: Sven M full_name: Truckenbrodt, Sven M id: 45812BD4-F248-11E8-B48F-1D18A9856A87 last_name: Truckenbrodt - first_name: Caroline full_name: Kreuzinger, Caroline id: 382077BA-F248-11E8-B48F-1D18A9856A87 last_name: Kreuzinger - first_name: Syamala full_name: Inumella, Syamala id: F8660870-D756-11E9-98C5-34DFE5697425 last_name: Inumella orcid: 0009-0002-5890-120X - first_name: Vitali full_name: Vistunou, Vitali id: 7e146587-8972-11ed-ae7b-d7a32ea86a81 last_name: Vistunou - first_name: Christoph M full_name: Sommer, Christoph M id: 4DF26D8C-F248-11E8-B48F-1D18A9856A87 last_name: Sommer orcid: 0000-0003-1216-9105 - first_name: Mojtaba full_name: Tavakoli, Mojtaba id: 3A0A06F4-F248-11E8-B48F-1D18A9856A87 last_name: Tavakoli orcid: 0000-0002-7667-6854 - first_name: Nathalie full_name: Agudelo Duenas, Nathalie id: 40E7F008-F248-11E8-B48F-1D18A9856A87 last_name: Agudelo Duenas - first_name: Jakob full_name: Vorlaufer, Jakob id: 937696FA-C996-11E9-8C7C-CF13E6697425 last_name: Vorlaufer orcid: 0009-0000-7590-3501 - first_name: Wiebke full_name: Jahr, Wiebke id: 425C1CE8-F248-11E8-B48F-1D18A9856A87 last_name: Jahr orcid: 0000-0003-0201-2315 - first_name: Marek full_name: Randuch, Marek id: 6ac4636d-15b2-11ec-abd3-fb8df79972ae last_name: Randuch - first_name: Alexander J full_name: Johnson, Alexander J id: 46A62C3A-F248-11E8-B48F-1D18A9856A87 last_name: Johnson orcid: 0000-0002-2739-8843 - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 - first_name: Jiří full_name: Friml, Jiří id: 4159519E-F248-11E8-B48F-1D18A9856A87 last_name: Friml orcid: 0000-0002-8302-7596 - first_name: Johann G full_name: Danzl, Johann G id: 42EFD3B6-F248-11E8-B48F-1D18A9856A87 last_name: Danzl orcid: 0000-0001-8559-3973 citation: ama: Gallei MC, Truckenbrodt SM, Kreuzinger C, et al. Super-resolution expansion microscopy in plant roots. bioRxiv. doi:10.1101/2024.02.21.581330 apa: Gallei, M. C., Truckenbrodt, S. M., Kreuzinger, C., Inumella, S., Vistunou, V., Sommer, C. M., … Danzl, J. G. (n.d.). Super-resolution expansion microscopy in plant roots. bioRxiv. https://doi.org/10.1101/2024.02.21.581330 chicago: Gallei, Michelle C, Sven M Truckenbrodt, Caroline Kreuzinger, Syamala Inumella, Vitali Vistunou, Christoph M Sommer, Mojtaba Tavakoli, et al. “Super-Resolution Expansion Microscopy in Plant Roots.” BioRxiv, n.d. https://doi.org/10.1101/2024.02.21.581330. ieee: M. C. Gallei et al., “Super-resolution expansion microscopy in plant roots,” bioRxiv. . ista: Gallei MC, Truckenbrodt SM, Kreuzinger C, Inumella S, Vistunou V, Sommer CM, Tavakoli M, Agudelo Duenas N, Vorlaufer J, Jahr W, Randuch M, Johnson AJ, Benková E, Friml J, Danzl JG. Super-resolution expansion microscopy in plant roots. bioRxiv, 10.1101/2024.02.21.581330. mla: Gallei, Michelle C., et al. “Super-Resolution Expansion Microscopy in Plant Roots.” BioRxiv, doi:10.1101/2024.02.21.581330. short: M.C. Gallei, S.M. Truckenbrodt, C. Kreuzinger, S. Inumella, V. Vistunou, C.M. Sommer, M. Tavakoli, N. Agudelo Duenas, J. Vorlaufer, W. Jahr, M. Randuch, A.J. Johnson, E. Benková, J. Friml, J.G. Danzl, BioRxiv (n.d.). corr_author: '1' date_created: 2024-12-19T12:28:00Z date_published: 2024-02-21T00:00:00Z date_updated: 2026-04-07T12:56:36Z day: '21' department: - _id: EvBe - _id: JoDa - _id: JiFr doi: 10.1101/2024.02.21.581330 ec_funded: 1 language: - iso: eng license: https://creativecommons.org/licenses/by-nc/4.0/ main_file_link: - open_access: '1' url: https://doi.org/10.1101/2024.02.21.581330 month: '02' oa: 1 oa_version: Preprint project: - _id: 261099A6-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '742985' name: Tracing Evolution of Auxin Transport and Polarity in Plants - _id: 2564DBCA-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '665385' name: International IST Doctoral Program - _id: 260C2330-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '754411' name: ISTplus - Postdoctoral Fellowships - _id: 26AA4EF2-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: W1232-B24 name: Molecular Drug Targets - _id: 269B5B22-B435-11E9-9278-68D0E5697425 grant_number: ALTF 679-2018 name: UltraX - achieving sub-nanometer resolution in light microscopy using iterative X10 microscopy in combination with nanobodies and STED publication: bioRxiv publication_status: draft related_material: record: - id: '19003' relation: later_version status: public - id: '18681' relation: dissertation_contains status: public status: public title: Super-resolution expansion microscopy in plant roots tmp: image: /images/cc_by_nc.png 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) short: CC BY-NC (4.0) type: preprint user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 year: '2024' ... --- OA_place: publisher OA_type: free access _id: '14082' abstract: - lang: eng text: Epithelial barrier function is commonly analyzed using transepithelial electrical resistance, which measures ion flux across a monolayer, or by adding traceable macromolecules and monitoring their passage across the monolayer. Although these methods measure changes in global barrier function, they lack the sensitivity needed to detect local or transient barrier breaches, and they do not reveal the location of barrier leaks. Therefore, we previously developed a method that we named the zinc-based ultrasensitive microscopic barrier assay (ZnUMBA), which overcomes these limitations, allowing for detection of local tight junction leaks with high spatiotemporal resolution. Here, we present expanded applications for ZnUMBA. ZnUMBA can be used in Xenopus embryos to measure the dynamics of barrier restoration and actin accumulation following laser injury. ZnUMBA can also be effectively utilized in developing zebrafish embryos as well as cultured monolayers of Madin–Darby canine kidney (MDCK) II epithelial cells. ZnUMBA is a powerful and flexible method that, with minimal optimization, can be applied to multiple systems to measure dynamic changes in barrier function with spatiotemporal precision. acknowledged_ssus: - _id: PreCl - _id: Bio acknowledgement: "The authors thank their respective lab members for feedback and helpful discussions. We thank the bioimaging and zebrafish facilities of IST Austria for their support.\r\nThis work was supported by the National Institutes of Health [R01GM112794 to A.L.M.], by Grants-in-Aid for Scientific Research from the Japan Society for the Promotion of Science [21K06156 to T.H.], by the Grant Program for Biomedical Engineering Research from the Nakatani Foundation for Advancement of Measuring Technologies in Biomedical Engineering [to T.H.] and by funding from the European Research Council [advanced grant 742573 to C.-P.H.]. " article_number: jcs260668 article_processing_charge: No article_type: original author: - first_name: Tomohito full_name: Higashi, Tomohito last_name: Higashi - first_name: Rachel E. full_name: Stephenson, Rachel E. last_name: Stephenson - first_name: Cornelia full_name: Schwayer, Cornelia id: 3436488C-F248-11E8-B48F-1D18A9856A87 last_name: Schwayer orcid: 0000-0001-5130-2226 - first_name: Karla full_name: Huljev, Karla id: 44C6F6A6-F248-11E8-B48F-1D18A9856A87 last_name: Huljev - first_name: Atsuko Y. full_name: Higashi, Atsuko Y. last_name: Higashi - first_name: Carl-Philipp J full_name: Heisenberg, Carl-Philipp J id: 39427864-F248-11E8-B48F-1D18A9856A87 last_name: Heisenberg orcid: 0000-0002-0912-4566 - first_name: Hideki full_name: Chiba, Hideki last_name: Chiba - first_name: Ann L. full_name: Miller, Ann L. last_name: Miller citation: ama: Higashi T, Stephenson RE, Schwayer C, et al. ZnUMBA - a live imaging method to detect local barrier breaches. Journal of Cell Science. 2023;136(15). doi:10.1242/jcs.260668 apa: Higashi, T., Stephenson, R. E., Schwayer, C., Huljev, K., Higashi, A. Y., Heisenberg, C.-P. J., … Miller, A. L. (2023). ZnUMBA - a live imaging method to detect local barrier breaches. Journal of Cell Science. The Company of Biologists. https://doi.org/10.1242/jcs.260668 chicago: Higashi, Tomohito, Rachel E. Stephenson, Cornelia Schwayer, Karla Huljev, Atsuko Y. Higashi, Carl-Philipp J Heisenberg, Hideki Chiba, and Ann L. Miller. “ZnUMBA - a Live Imaging Method to Detect Local Barrier Breaches.” Journal of Cell Science. The Company of Biologists, 2023. https://doi.org/10.1242/jcs.260668. ieee: T. Higashi et al., “ZnUMBA - a live imaging method to detect local barrier breaches,” Journal of Cell Science, vol. 136, no. 15. The Company of Biologists, 2023. ista: Higashi T, Stephenson RE, Schwayer C, Huljev K, Higashi AY, Heisenberg C-PJ, Chiba H, Miller AL. 2023. ZnUMBA - a live imaging method to detect local barrier breaches. Journal of Cell Science. 136(15), jcs260668. mla: Higashi, Tomohito, et al. “ZnUMBA - a Live Imaging Method to Detect Local Barrier Breaches.” Journal of Cell Science, vol. 136, no. 15, jcs260668, The Company of Biologists, 2023, doi:10.1242/jcs.260668. short: T. Higashi, R.E. Stephenson, C. Schwayer, K. Huljev, A.Y. Higashi, C.-P.J. Heisenberg, H. Chiba, A.L. Miller, Journal of Cell Science 136 (2023). date_created: 2023-08-20T22:01:13Z date_published: 2023-08-01T00:00:00Z date_updated: 2025-06-25T06:28:45Z day: '01' ddc: - '570' department: - _id: CaHe - _id: EvBe doi: 10.1242/jcs.260668 ec_funded: 1 external_id: isi: - '001070149000001' pmid: - '37461809' has_accepted_license: '1' intvolume: ' 136' isi: 1 issue: '15' language: - iso: eng main_file_link: - open_access: '1' url: https://doi.org/10.1242/jcs.260668 month: '08' oa: 1 oa_version: None pmid: 1 project: - _id: 260F1432-B435-11E9-9278-68D0E5697425 call_identifier: H2020 grant_number: '742573' name: Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation publication: Journal of Cell Science publication_identifier: eissn: - 1477-9137 issn: - 0021-9533 publication_status: published publisher: The Company of Biologists quality_controlled: '1' scopus_import: '1' status: public title: ZnUMBA - a live imaging method to detect local barrier breaches type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 136 year: '2023' ... --- _id: '13214' abstract: - lang: eng text: Nitrogen is an important macronutrient required for plant growth and development, thus directly impacting agricultural productivity. In recent years, numerous studies have shown that nitrogen-driven growth depends on pathways that control nitrate/nitrogen homeostasis and hormonal networks that act both locally and systemically to coordinate growth and development of plant organs. In this review, we will focus on recent advances in understanding the role of the plant hormones auxin and cytokinin and their crosstalk in nitrate-regulated growth and discuss the significance of novel findings and possible missing links. acknowledgement: 'This work was supported by the Austrian Academy of Sciences ÖAW: Doc fellowship (26130) to Stefan Riegler.' article_number: '1613' article_processing_charge: Yes article_type: review author: - first_name: R full_name: Abualia, R last_name: Abualia - first_name: Stefan full_name: Riegler, Stefan id: FF6018E0-D806-11E9-8E43-0B14E6697425 last_name: Riegler orcid: 0000-0003-3413-1343 - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 citation: ama: Abualia R, Riegler S, Benková E. Nitrate, auxin and cytokinin - a trio to tango. Cells. 2023;12(12). doi:10.3390/cells12121613 apa: Abualia, R., Riegler, S., & Benková, E. (2023). Nitrate, auxin and cytokinin - a trio to tango. Cells. MDPI. https://doi.org/10.3390/cells12121613 chicago: Abualia, R, Stefan Riegler, and Eva Benková. “Nitrate, Auxin and Cytokinin - a Trio to Tango.” Cells. MDPI, 2023. https://doi.org/10.3390/cells12121613. ieee: R. Abualia, S. Riegler, and E. Benková, “Nitrate, auxin and cytokinin - a trio to tango,” Cells, vol. 12, no. 12. MDPI, 2023. ista: Abualia R, Riegler S, Benková E. 2023. Nitrate, auxin and cytokinin - a trio to tango. Cells. 12(12), 1613. mla: Abualia, R., et al. “Nitrate, Auxin and Cytokinin - a Trio to Tango.” Cells, vol. 12, no. 12, 1613, MDPI, 2023, doi:10.3390/cells12121613. short: R. Abualia, S. Riegler, E. Benková, Cells 12 (2023). corr_author: '1' date_created: 2023-07-12T07:41:25Z date_published: 2023-06-13T00:00:00Z date_updated: 2025-04-15T06:27:18Z day: '13' ddc: - '570' department: - _id: EvBe doi: 10.3390/cells12121613 external_id: isi: - '001017033600001' pmid: - '37371083' file: - access_level: open_access checksum: 6dc9df5f4f59fc27c509c275060354a5 content_type: application/pdf creator: alisjak date_created: 2023-07-12T10:01:54Z date_updated: 2023-07-12T10:01:54Z file_id: '13218' file_name: 2023_cells_Abualia.pdf file_size: 1066802 relation: main_file success: 1 file_date_updated: 2023-07-12T10:01:54Z has_accepted_license: '1' intvolume: ' 12' isi: 1 issue: '12' language: - iso: eng month: '06' oa: 1 oa_version: Published Version pmid: 1 project: - _id: 62883ed7-2b32-11ec-9570-93580204e56b grant_number: '26130' name: Functional asymmetry of medial habenula outputs in mice publication: Cells publication_identifier: issn: - 2073-4409 publication_status: published publisher: MDPI quality_controlled: '1' scopus_import: '1' status: public title: Nitrate, auxin and cytokinin - a trio to tango tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 3E5EF7F0-F248-11E8-B48F-1D18A9856A87 volume: 12 year: '2023' ... --- DOAJ_listed: '1' OA_place: publisher OA_type: gold _id: '18942' abstract: - lang: eng text: Photosynthesis is among the first processes negatively affected by environmental cues and its performance directly determines plant cell fitness and ultimately crop yield. Primarily sites of photosynthesis, chloroplasts are unique sites also for the biosynthesis of precursors of the growth regulator auxin and for sensing environmental stress, but their role in intracellular auxin homeostasis, vital for plant growth and survival in changing environments, remains poorly understood. Here, we identified two ATP-binding cassette (ABC) subfamily B transporters, ABCB28 and ABCB29, which export auxin across the chloroplast envelope to the cytosol in a concerted action in vivo. Moreover, we provide evidence for an auxin biosynthesis pathway in Arabidopsis thaliana chloroplasts. The overexpression of ABCB28 and ABCB29 influenced stomatal regulation and resulted in significantly improved water use efficiency and survival rates during salt and drought stresses. Our results suggest that chloroplast auxin production and transport contribute to stomata regulation for conserving water upon salt stress. ABCB28 and ABCB29 integrate photosynthesis and auxin signals and as such hold great potential to improve the adaptation potential of crops to environmental cues. article_number: '7' article_processing_charge: Yes article_type: original author: - first_name: Prashanth full_name: Tamizhselvan, Prashanth last_name: Tamizhselvan - first_name: Sharmila full_name: Madhavan, Sharmila last_name: Madhavan - first_name: Christian full_name: Constan-Aguilar, Christian last_name: Constan-Aguilar - first_name: Eman Ryad full_name: Elrefaay, Eman Ryad last_name: Elrefaay - first_name: Jie full_name: Liu, Jie last_name: Liu - first_name: Aleš full_name: Pěnčík, Aleš last_name: Pěnčík - first_name: Ondřej full_name: Novák, Ondřej last_name: Novák - first_name: Albert full_name: Cairó, Albert last_name: Cairó - first_name: Mónika full_name: Hrtyan, Mónika id: 45A71A74-F248-11E8-B48F-1D18A9856A87 last_name: Hrtyan - first_name: Markus full_name: Geisler, Markus last_name: Geisler - first_name: Vanesa Beatriz full_name: Tognetti, Vanesa Beatriz last_name: Tognetti citation: ama: Tamizhselvan P, Madhavan S, Constan-Aguilar C, et al. Chloroplast auxin efflux mediated by ABCB28 and ABCB29 fine-tunes salt and drought stress responses in Arabidopsis. Plants. 2023;13(1). doi:10.3390/plants13010007 apa: Tamizhselvan, P., Madhavan, S., Constan-Aguilar, C., Elrefaay, E. R., Liu, J., Pěnčík, A., … Tognetti, V. B. (2023). Chloroplast auxin efflux mediated by ABCB28 and ABCB29 fine-tunes salt and drought stress responses in Arabidopsis. Plants. MDPI. https://doi.org/10.3390/plants13010007 chicago: Tamizhselvan, Prashanth, Sharmila Madhavan, Christian Constan-Aguilar, Eman Ryad Elrefaay, Jie Liu, Aleš Pěnčík, Ondřej Novák, et al. “Chloroplast Auxin Efflux Mediated by ABCB28 and ABCB29 Fine-Tunes Salt and Drought Stress Responses in Arabidopsis.” Plants. MDPI, 2023. https://doi.org/10.3390/plants13010007. ieee: P. Tamizhselvan et al., “Chloroplast auxin efflux mediated by ABCB28 and ABCB29 fine-tunes salt and drought stress responses in Arabidopsis,” Plants, vol. 13, no. 1. MDPI, 2023. ista: Tamizhselvan P, Madhavan S, Constan-Aguilar C, Elrefaay ER, Liu J, Pěnčík A, Novák O, Cairó A, Hrtyan M, Geisler M, Tognetti VB. 2023. Chloroplast auxin efflux mediated by ABCB28 and ABCB29 fine-tunes salt and drought stress responses in Arabidopsis. Plants. 13(1), 7. mla: Tamizhselvan, Prashanth, et al. “Chloroplast Auxin Efflux Mediated by ABCB28 and ABCB29 Fine-Tunes Salt and Drought Stress Responses in Arabidopsis.” Plants, vol. 13, no. 1, 7, MDPI, 2023, doi:10.3390/plants13010007. short: P. Tamizhselvan, S. Madhavan, C. Constan-Aguilar, E.R. Elrefaay, J. Liu, A. Pěnčík, O. Novák, A. Cairó, M. Hrtyan, M. Geisler, V.B. Tognetti, Plants 13 (2023). date_created: 2025-01-29T09:03:56Z date_published: 2023-12-19T00:00:00Z date_updated: 2025-01-29T09:07:53Z day: '19' ddc: - '580' department: - _id: EvBe doi: 10.3390/plants13010007 external_id: pmid: - '38202315' file: - access_level: open_access checksum: 97efcefa8151d69343b0b641630c86ee content_type: application/pdf creator: dernst date_created: 2025-01-29T09:06:51Z date_updated: 2025-01-29T09:06:51Z file_id: '18943' file_name: 2023_Plants_Tamizhselvan.pdf file_size: 6231778 relation: main_file success: 1 file_date_updated: 2025-01-29T09:06:51Z has_accepted_license: '1' intvolume: ' 13' issue: '1' language: - iso: eng month: '12' oa: 1 oa_version: Published Version pmid: 1 publication: Plants publication_identifier: eissn: - 2223-7747 publication_status: published publisher: MDPI quality_controlled: '1' scopus_import: '1' status: public title: Chloroplast auxin efflux mediated by ABCB28 and ABCB29 fine-tunes salt and drought stress responses in Arabidopsis tmp: image: /images/cc_by.png legal_code_url: https://creativecommons.org/licenses/by/4.0/legalcode name: Creative Commons Attribution 4.0 International Public License (CC-BY 4.0) short: CC BY (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 13 year: '2023' ... --- _id: '11734' abstract: - lang: eng text: Mineral nutrition is one of the key environmental factors determining plant development and growth. Nitrate is the major form of macronutrient nitrogen that plants take up from the soil. Fluctuating availability or deficiency of this element severely limits plant growth and negatively affects crop production in the agricultural system. To cope with the heterogeneity of nitrate distribution in soil, plants evolved a complex regulatory mechanism that allows rapid adjustment of physiological and developmental processes to the status of this nutrient. The root, as a major exploitation organ that controls the uptake of nitrate to the plant body, acts as a regulatory hub that, according to nitrate availability, coordinates the growth and development of other plant organs. Here, we identified a regulatory framework, where cytokinin response factors (CRFs) play a central role as a molecular readout of the nitrate status in roots to guide shoot adaptive developmental response. We show that nitrate-driven activation of NLP7, a master regulator of nitrate response in plants, fine tunes biosynthesis of cytokinin in roots and its translocation to shoots where it enhances expression of CRFs. CRFs, through direct transcriptional regulation of PIN auxin transporters, promote the flow of auxin and thereby stimulate the development of shoot organs. acknowledged_ssus: - _id: Bio - _id: LifeSc acknowledgement: "We acknowledge Hana Semeradova, Juan Carlos Montesinos, Nicola Cavallari, Marc¸al Gallem\x03ı, Kaori Tabata, Andrej Hurn\x03y, and Sascha Waidmann for sharing materials; and Marina Borges Osorio for critical reading of the manuscript. Work in the E. Benkova laboratory was supported by the Austrian Science Fund (FWF01_I1774S) to K.O., R.A., and E. Benkova. We acknowledge the Bioimaging Facility and Life Science Facilities of the Institute of Science\r\nand Technology Austria. We give sincere thanks to Hana Martınkova and Petra Amakorova for their help with cytokinin analyses. This work was funded by the Czech Science Foundation (Project No. 19-00973S)." article_number: e2122460119 article_processing_charge: No article_type: original author: - first_name: Rashed full_name: Abualia, Rashed id: 4827E134-F248-11E8-B48F-1D18A9856A87 last_name: Abualia orcid: 0000-0002-9357-9415 - first_name: Krisztina full_name: Ötvös, Krisztina id: 29B901B0-F248-11E8-B48F-1D18A9856A87 last_name: Ötvös orcid: 0000-0002-5503-4983 - first_name: Ondřej full_name: Novák, Ondřej last_name: Novák - first_name: Eleonore full_name: Bouguyon, Eleonore last_name: Bouguyon - first_name: Kevin full_name: Domanegg, Kevin id: a24c7829-16e8-11ed-8527-c4d36ffb7539 last_name: Domanegg orcid: 0000-0002-1215-4264 - first_name: Anne full_name: Krapp, Anne last_name: Krapp - first_name: Philip full_name: Nacry, Philip last_name: Nacry - first_name: Alain full_name: Gojon, Alain last_name: Gojon - first_name: Benoit full_name: Lacombe, Benoit last_name: Lacombe - first_name: Eva full_name: Benková, Eva id: 38F4F166-F248-11E8-B48F-1D18A9856A87 last_name: Benková orcid: 0000-0002-8510-9739 citation: ama: Abualia R, Ötvös K, Novák O, et al. Molecular framework integrating nitrate sensing in root and auxin-guided shoot adaptive responses. Proceedings of the National Academy of Sciences of the United States of America. 2022;119(31). doi:10.1073/pnas.2122460119 apa: Abualia, R., Ötvös, K., Novák, O., Bouguyon, E., Domanegg, K., Krapp, A., … Benková, E. (2022). Molecular framework integrating nitrate sensing in root and auxin-guided shoot adaptive responses. Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences. https://doi.org/10.1073/pnas.2122460119 chicago: Abualia, Rashed, Krisztina Ötvös, Ondřej Novák, Eleonore Bouguyon, Kevin Domanegg, Anne Krapp, Philip Nacry, Alain Gojon, Benoit Lacombe, and Eva Benková. “Molecular Framework Integrating Nitrate Sensing in Root and Auxin-Guided Shoot Adaptive Responses.” Proceedings of the National Academy of Sciences of the United States of America. National Academy of Sciences, 2022. https://doi.org/10.1073/pnas.2122460119. ieee: R. Abualia et al., “Molecular framework integrating nitrate sensing in root and auxin-guided shoot adaptive responses,” Proceedings of the National Academy of Sciences of the United States of America, vol. 119, no. 31. National Academy of Sciences, 2022. ista: Abualia R, Ötvös K, Novák O, Bouguyon E, Domanegg K, Krapp A, Nacry P, Gojon A, Lacombe B, Benková E. 2022. Molecular framework integrating nitrate sensing in root and auxin-guided shoot adaptive responses. Proceedings of the National Academy of Sciences of the United States of America. 119(31), e2122460119. mla: Abualia, Rashed, et al. “Molecular Framework Integrating Nitrate Sensing in Root and Auxin-Guided Shoot Adaptive Responses.” Proceedings of the National Academy of Sciences of the United States of America, vol. 119, no. 31, e2122460119, National Academy of Sciences, 2022, doi:10.1073/pnas.2122460119. short: R. Abualia, K. Ötvös, O. Novák, E. Bouguyon, K. Domanegg, A. Krapp, P. Nacry, A. Gojon, B. Lacombe, E. Benková, Proceedings of the National Academy of Sciences of the United States of America 119 (2022). corr_author: '1' date_created: 2022-08-07T22:01:57Z date_published: 2022-07-25T00:00:00Z date_updated: 2025-05-14T11:00:29Z day: '25' ddc: - '570' department: - _id: EvBe doi: 10.1073/pnas.2122460119 external_id: isi: - '000881496900007' pmid: - '35878040' file: - access_level: open_access checksum: 6e97dedc281247fc3fe238a209f14af0 content_type: application/pdf creator: dernst date_created: 2022-08-08T07:09:58Z date_updated: 2022-08-08T07:09:58Z file_id: '11744' file_name: 2022_PNAS_Abualia.pdf file_size: 3092330 relation: main_file success: 1 file_date_updated: 2022-08-08T07:09:58Z has_accepted_license: '1' intvolume: ' 119' isi: 1 issue: '31' language: - iso: eng month: '07' oa: 1 oa_version: Published Version pmid: 1 project: - _id: 2542D156-B435-11E9-9278-68D0E5697425 call_identifier: FWF grant_number: I 1774-B16 name: Hormone cross-talk drives nutrient dependent plant development publication: Proceedings of the National Academy of Sciences of the United States of America publication_identifier: eissn: - 1091-6490 publication_status: published publisher: National Academy of Sciences quality_controlled: '1' scopus_import: '1' status: public title: Molecular framework integrating nitrate sensing in root and auxin-guided shoot adaptive responses tmp: image: /images/cc_by_nc_nd.png legal_code_url: https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode name: Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0) short: CC BY-NC-ND (4.0) type: journal_article user_id: 2DF688A6-F248-11E8-B48F-1D18A9856A87 volume: 119 year: '2022' ...