[{"_id":"6190","author":[{"id":"3047D808-F248-11E8-B48F-1D18A9856A87","first_name":"Marko","full_name":"Roblek, Marko","last_name":"Roblek","orcid":"0000-0001-9588-1389"},{"first_name":"Darya","last_name":"Protsyuk","full_name":"Protsyuk, Darya"},{"first_name":"Paul F.","full_name":"Becker, Paul F.","last_name":"Becker"},{"full_name":"Stefanescu, Cristina","last_name":"Stefanescu","first_name":"Cristina"},{"first_name":"Christian","last_name":"Gorzelanny","full_name":"Gorzelanny, Christian"},{"last_name":"Glaus Garzon","full_name":"Glaus Garzon, Jesus F.","first_name":"Jesus F."},{"last_name":"Knopfova","full_name":"Knopfova, Lucia","first_name":"Lucia"},{"first_name":"Mathias","full_name":"Heikenwalder, Mathias","last_name":"Heikenwalder"},{"full_name":"Luckow, Bruno","last_name":"Luckow","first_name":"Bruno"},{"last_name":"Schneider","full_name":"Schneider, Stefan W.","first_name":"Stefan W."},{"full_name":"Borsig, Lubor","last_name":"Borsig","first_name":"Lubor"}],"title":"CCL2 is a vascular permeability factor inducing CCR2-dependent endothelial retraction during lung metastasis","doi":"10.1158/1541-7786.MCR-18-0530","issue":"3","abstract":[{"lang":"eng","text":"Increased levels of the chemokine CCL2 in cancer patients are associated with poor prognosis. Experimental evidence suggests that CCL2 correlates with inflammatory monocyte recruitment and induction of vascular activation, but the functionality remains open. Here, we show that endothelial Ccr2 facilitates pulmonary metastasis using an endothelial-specific Ccr2-deficient mouse model (Ccr2ecKO). Similar levels of circulating monocytes and equal leukocyte recruitment to metastatic lesions of Ccr2ecKO and Ccr2fl/fl littermates were observed. The absence of endothelial Ccr2 strongly reduced pulmonary metastasis, while the primary tumor growth was unaffected. Despite a comparable cytokine milieu in Ccr2ecKO and Ccr2fl/fl littermates the absence of vascular permeability induction was observed only in Ccr2ecKO mice. CCL2 stimulation of pulmonary endothelial cells resulted in increased phosphorylation of MLC2, endothelial cell retraction, and vascular leakiness that was blocked by an addition of a CCR2 inhibitor. These data demonstrate that endothelial CCR2 expression is required for tumor cell extravasation and pulmonary metastasis.\r\n\r\nImplications: The findings provide mechanistic insight into how CCL2–CCR2 signaling in endothelial cells promotes their activation through myosin light chain phosphorylation, resulting in endothelial retraction and enhanced tumor cell migration and metastasis."}],"publication_identifier":{"eissn":["15573125"],"issn":["15417786"]},"status":"public","publication_status":"published","month":"03","pmid":1,"day":"01","citation":{"apa":"Roblek, M., Protsyuk, D., Becker, P. F., Stefanescu, C., Gorzelanny, C., Glaus Garzon, J. F., … Borsig, L. (2019). CCL2 is a vascular permeability factor inducing CCR2-dependent endothelial retraction during lung metastasis. <i>Molecular Cancer Research</i>. AACR. <a href=\"https://doi.org/10.1158/1541-7786.MCR-18-0530\">https://doi.org/10.1158/1541-7786.MCR-18-0530</a>","ieee":"M. Roblek <i>et al.</i>, “CCL2 is a vascular permeability factor inducing CCR2-dependent endothelial retraction during lung metastasis,” <i>Molecular Cancer Research</i>, vol. 17, no. 3. AACR, pp. 783–793, 2019.","short":"M. Roblek, D. Protsyuk, P.F. Becker, C. Stefanescu, C. Gorzelanny, J.F. Glaus Garzon, L. Knopfova, M. Heikenwalder, B. Luckow, S.W. Schneider, L. Borsig, Molecular Cancer Research 17 (2019) 783–793.","ama":"Roblek M, Protsyuk D, Becker PF, et al. CCL2 is a vascular permeability factor inducing CCR2-dependent endothelial retraction during lung metastasis. <i>Molecular Cancer Research</i>. 2019;17(3):783-793. doi:<a href=\"https://doi.org/10.1158/1541-7786.MCR-18-0530\">10.1158/1541-7786.MCR-18-0530</a>","ista":"Roblek M, Protsyuk D, Becker PF, Stefanescu C, Gorzelanny C, Glaus Garzon JF, Knopfova L, Heikenwalder M, Luckow B, Schneider SW, Borsig L. 2019. CCL2 is a vascular permeability factor inducing CCR2-dependent endothelial retraction during lung metastasis. Molecular Cancer Research. 17(3), 783–793.","mla":"Roblek, Marko, et al. “CCL2 Is a Vascular Permeability Factor Inducing CCR2-Dependent Endothelial Retraction during Lung Metastasis.” <i>Molecular Cancer Research</i>, vol. 17, no. 3, AACR, 2019, pp. 783–93, doi:<a href=\"https://doi.org/10.1158/1541-7786.MCR-18-0530\">10.1158/1541-7786.MCR-18-0530</a>.","chicago":"Roblek, Marko, Darya Protsyuk, Paul F. Becker, Cristina Stefanescu, Christian Gorzelanny, Jesus F. Glaus Garzon, Lucia Knopfova, et al. “CCL2 Is a Vascular Permeability Factor Inducing CCR2-Dependent Endothelial Retraction during Lung Metastasis.” <i>Molecular Cancer Research</i>. AACR, 2019. <a href=\"https://doi.org/10.1158/1541-7786.MCR-18-0530\">https://doi.org/10.1158/1541-7786.MCR-18-0530</a>."},"oa_version":"Published Version","volume":17,"article_processing_charge":"No","oa":1,"year":"2019","date_updated":"2023-08-25T08:57:01Z","publication":"Molecular Cancer Research","article_type":"original","page":"783-793","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"DaSi"}],"scopus_import":"1","date_created":"2019-03-31T21:59:12Z","external_id":{"isi":["000460099800012"],"pmid":["30552233"]},"date_published":"2019-03-01T00:00:00Z","intvolume":"        17","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1158/1541-7786.MCR-18-0530"}],"publisher":"AACR","language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","isi":1},{"license":"https://creativecommons.org/licenses/by/4.0/","oa_version":"Published Version","citation":{"ista":"Recho P, Hallou A, Hannezo EB. 2019. Theory of mechanochemical patterning in biphasic biological tissues. Proceedings of the National Academy of Sciences of the United States of America. 116(12), 5344–5349.","ama":"Recho P, Hallou A, Hannezo EB. Theory of mechanochemical patterning in biphasic biological tissues. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2019;116(12):5344-5349. doi:<a href=\"https://doi.org/10.1073/pnas.1813255116\">10.1073/pnas.1813255116</a>","short":"P. Recho, A. Hallou, E.B. Hannezo, Proceedings of the National Academy of Sciences of the United States of America 116 (2019) 5344–5349.","ieee":"P. Recho, A. Hallou, and E. B. Hannezo, “Theory of mechanochemical patterning in biphasic biological tissues,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 116, no. 12. National Academy of Sciences, pp. 5344–5349, 2019.","apa":"Recho, P., Hallou, A., &#38; Hannezo, E. B. (2019). Theory of mechanochemical patterning in biphasic biological tissues. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.1813255116\">https://doi.org/10.1073/pnas.1813255116</a>","chicago":"Recho, Pierre, Adrien Hallou, and Edouard B Hannezo. “Theory of Mechanochemical Patterning in Biphasic Biological Tissues.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2019. <a href=\"https://doi.org/10.1073/pnas.1813255116\">https://doi.org/10.1073/pnas.1813255116</a>.","mla":"Recho, Pierre, et al. “Theory of Mechanochemical Patterning in Biphasic Biological Tissues.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 116, no. 12, National Academy of Sciences, 2019, pp. 5344–49, doi:<a href=\"https://doi.org/10.1073/pnas.1813255116\">10.1073/pnas.1813255116</a>."},"day":"19","pmid":1,"month":"03","ddc":["570"],"file_date_updated":"2020-07-14T12:47:23Z","has_accepted_license":"1","volume":116,"article_processing_charge":"No","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"file_id":"6193","date_created":"2019-04-03T14:10:30Z","access_level":"open_access","content_type":"application/pdf","checksum":"8b67eee0ea8e5db61583e4d485215258","date_updated":"2020-07-14T12:47:23Z","file_name":"2019_PNAS_Recho.pdf","relation":"main_file","creator":"dernst","file_size":3456045}],"abstract":[{"text":"The formation of self-organized patterns is key to the morphogenesis of multicellular organisms, although a comprehensive theory of biological pattern formation is still lacking. Here, we propose a minimal model combining tissue mechanics with morphogen turnover and transport to explore routes to patterning. Our active description couples morphogen reaction and diffusion, which impact cell differentiation and tissue mechanics, to a two-phase poroelastic rheology, where one tissue phase consists of a poroelastic cell network and the other one of a permeating extracellular fluid, which provides a feedback by actively transporting morphogens. While this model encompasses previous theories approximating tissues to inert monophasic media, such as Turing’s reaction–diffusion model, it overcomes some of their key limitations permitting pattern formation via any two-species biochemical kinetics due to mechanically induced cross-diffusion flows. Moreover, we describe a qualitatively different advection-driven Keller–Segel instability which allows for the formation of patterns with a single morphogen and whose fundamental mode pattern robustly scales with tissue size. We discuss the potential relevance of these findings for tissue morphogenesis.","lang":"eng"}],"issue":"12","doi":"10.1073/pnas.1813255116","title":"Theory of mechanochemical patterning in biphasic biological tissues","author":[{"full_name":"Recho, Pierre","last_name":"Recho","first_name":"Pierre"},{"first_name":"Adrien","full_name":"Hallou, Adrien","last_name":"Hallou"},{"orcid":"0000-0001-6005-1561","last_name":"Hannezo","full_name":"Hannezo, Edouard B","first_name":"Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87"}],"_id":"6191","publication_status":"published","status":"public","publication_identifier":{"eissn":["10916490"],"issn":["00278424"]},"project":[{"name":"Active mechano-chemical description of the cell cytoskeleton","call_identifier":"FWF","grant_number":"P31639","_id":"268294B6-B435-11E9-9278-68D0E5697425"}],"date_published":"2019-03-19T00:00:00Z","external_id":{"pmid":["30819884"],"isi":["000461679000027"]},"date_created":"2019-03-31T21:59:13Z","scopus_import":"1","department":[{"_id":"EdHa"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"publisher":"National Academy of Sciences","intvolume":"       116","year":"2019","oa":1,"related_material":{"link":[{"url":"www.pnas.org/lookup/suppl/doi:10.1073/pnas.1813255116/-/DCSupplemental","relation":"supplementary_material"}]},"page":"5344-5349","publication":"Proceedings of the National Academy of Sciences of the United States of America","date_updated":"2023-08-25T08:57:30Z"},{"publication_identifier":{"issn":["0036-8075"],"eissn":["1095-9203"]},"project":[{"grant_number":"281511","_id":"257A4776-B435-11E9-9278-68D0E5697425","name":"Memory-related information processing in neuronal circuits of the hippocampus and entorhinal cortex","call_identifier":"FP7"},{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","call_identifier":"H2020","name":"International IST Doctoral Program"}],"status":"public","publication_status":"published","ec_funded":1,"title":"The entorhinal cognitive map is attracted to goals","author":[{"first_name":"Charlotte N.","id":"3FC06552-F248-11E8-B48F-1D18A9856A87","last_name":"Boccara","full_name":"Boccara, Charlotte N.","orcid":"0000-0001-7237-5109"},{"orcid":"0000-0001-8849-6570","full_name":"Nardin, Michele","last_name":"Nardin","id":"30BD0376-F248-11E8-B48F-1D18A9856A87","first_name":"Michele"},{"orcid":"0000-0001-9439-3148","id":"39AF1E74-F248-11E8-B48F-1D18A9856A87","first_name":"Federico","full_name":"Stella, Federico","last_name":"Stella"},{"last_name":"O'Neill","full_name":"O'Neill, Joseph","first_name":"Joseph","id":"426376DC-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Csicsvari","full_name":"Csicsvari, Jozsef L","first_name":"Jozsef L","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5193-4036"}],"_id":"6194","abstract":[{"text":"Grid cells with their rigid hexagonal firing fields are thought to provide an invariant metric to the hippocampal cognitive map, yet environmental geometrical features have recently been shown to distort the grid structure. Given that the hippocampal role goes beyond space, we tested the influence of nonspatial information on the grid organization. We trained rats to daily learn three new reward locations on a cheeseboard maze while recording from the medial entorhinal cortex and the hippocampal CA1 region. Many grid fields moved toward goal location, leading to long-lasting deformations of the entorhinal map. Therefore, distortions in the grid structure contribute to goal representation during both learning and recall, which demonstrates that grid cells participate in mnemonic coding and do not merely provide a simple metric of space.","lang":"eng"}],"issue":"6434","doi":"10.1126/science.aav4837","file":[{"file_name":"2019_Science_Boccara.pdf","file_size":9045923,"relation":"main_file","creator":"dernst","date_updated":"2020-07-14T12:47:23Z","access_level":"open_access","content_type":"application/pdf","checksum":"5e6b16742cde10a560cfaf2130764da1","file_id":"7826","date_created":"2020-05-14T09:11:10Z"}],"has_accepted_license":"1","article_processing_charge":"No","volume":363,"citation":{"chicago":"Boccara, Charlotte N., Michele Nardin, Federico Stella, Joseph O’Neill, and Jozsef L Csicsvari. “The Entorhinal Cognitive Map Is Attracted to Goals.” <i>Science</i>. American Association for the Advancement of Science, 2019. <a href=\"https://doi.org/10.1126/science.aav4837\">https://doi.org/10.1126/science.aav4837</a>.","mla":"Boccara, Charlotte N., et al. “The Entorhinal Cognitive Map Is Attracted to Goals.” <i>Science</i>, vol. 363, no. 6434, American Association for the Advancement of Science, 2019, pp. 1443–47, doi:<a href=\"https://doi.org/10.1126/science.aav4837\">10.1126/science.aav4837</a>.","apa":"Boccara, C. N., Nardin, M., Stella, F., O’Neill, J., &#38; Csicsvari, J. L. (2019). The entorhinal cognitive map is attracted to goals. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.aav4837\">https://doi.org/10.1126/science.aav4837</a>","ieee":"C. N. Boccara, M. Nardin, F. Stella, J. O’Neill, and J. L. Csicsvari, “The entorhinal cognitive map is attracted to goals,” <i>Science</i>, vol. 363, no. 6434. American Association for the Advancement of Science, pp. 1443–1447, 2019.","ista":"Boccara CN, Nardin M, Stella F, O’Neill J, Csicsvari JL. 2019. The entorhinal cognitive map is attracted to goals. Science. 363(6434), 1443–1447.","short":"C.N. Boccara, M. Nardin, F. Stella, J. O’Neill, J.L. Csicsvari, Science 363 (2019) 1443–1447.","ama":"Boccara CN, Nardin M, Stella F, O’Neill J, Csicsvari JL. The entorhinal cognitive map is attracted to goals. <i>Science</i>. 2019;363(6434):1443-1447. doi:<a href=\"https://doi.org/10.1126/science.aav4837\">10.1126/science.aav4837</a>"},"day":"29","file_date_updated":"2020-07-14T12:47:23Z","month":"03","ddc":["570"],"oa_version":"Submitted Version","publication":"Science","date_updated":"2024-03-25T23:30:09Z","related_material":{"record":[{"id":"6062","relation":"popular_science","status":"public"},{"relation":"dissertation_contains","status":"public","id":"11932"}],"link":[{"url":"https://ist.ac.at/en/news/grid-cells-create-treasure-map-in-rat-brain/","description":"News on IST Homepage","relation":"press_release"}]},"page":"1443-1447","article_type":"original","oa":1,"year":"2019","publisher":"American Association for the Advancement of Science","intvolume":"       363","isi":1,"type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"department":[{"_id":"JoCs"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","external_id":{"isi":["000462738000034"]},"date_published":"2019-03-29T00:00:00Z","date_created":"2019-04-04T08:39:30Z","scopus_import":"1"},{"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"BjHo"}],"scopus_import":"1","date_created":"2019-04-07T21:59:14Z","external_id":{"isi":["000462606100001"],"arxiv":["1807.05357"]},"date_published":"2019-05-25T00:00:00Z","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1807.05357"}],"intvolume":"       867","publisher":"Cambridge University Press","language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","isi":1,"oa":1,"year":"2019","date_updated":"2024-03-25T23:30:20Z","publication":"Journal of Fluid Mechanics","page":"934-948","related_material":{"record":[{"id":"7258","status":"public","relation":"dissertation_contains"}],"link":[{"relation":"supplementary_material","url":"https://doi.org/10.1017/jfm.2019.191"}]},"month":"05","day":"25","citation":{"apa":"Scarselli, D., Kühnen, J., &#38; Hof, B. (2019). Relaminarising pipe flow by wall movement. <i>Journal of Fluid Mechanics</i>. Cambridge University Press. <a href=\"https://doi.org/10.1017/jfm.2019.191\">https://doi.org/10.1017/jfm.2019.191</a>","ieee":"D. Scarselli, J. Kühnen, and B. Hof, “Relaminarising pipe flow by wall movement,” <i>Journal of Fluid Mechanics</i>, vol. 867. Cambridge University Press, pp. 934–948, 2019.","ista":"Scarselli D, Kühnen J, Hof B. 2019. Relaminarising pipe flow by wall movement. Journal of Fluid Mechanics. 867, 934–948.","short":"D. Scarselli, J. Kühnen, B. Hof, Journal of Fluid Mechanics 867 (2019) 934–948.","ama":"Scarselli D, Kühnen J, Hof B. Relaminarising pipe flow by wall movement. <i>Journal of Fluid Mechanics</i>. 2019;867:934-948. doi:<a href=\"https://doi.org/10.1017/jfm.2019.191\">10.1017/jfm.2019.191</a>","chicago":"Scarselli, Davide, Jakob Kühnen, and Björn Hof. “Relaminarising Pipe Flow by Wall Movement.” <i>Journal of Fluid Mechanics</i>. Cambridge University Press, 2019. <a href=\"https://doi.org/10.1017/jfm.2019.191\">https://doi.org/10.1017/jfm.2019.191</a>.","mla":"Scarselli, Davide, et al. “Relaminarising Pipe Flow by Wall Movement.” <i>Journal of Fluid Mechanics</i>, vol. 867, Cambridge University Press, 2019, pp. 934–48, doi:<a href=\"https://doi.org/10.1017/jfm.2019.191\">10.1017/jfm.2019.191</a>."},"oa_version":"Preprint","arxiv":1,"article_processing_charge":"No","volume":867,"_id":"6228","author":[{"orcid":"0000-0001-5227-4271","full_name":"Scarselli, Davide","last_name":"Scarselli","id":"40315C30-F248-11E8-B48F-1D18A9856A87","first_name":"Davide"},{"id":"3A47AE32-F248-11E8-B48F-1D18A9856A87","first_name":"Jakob","full_name":"Kühnen, Jakob","last_name":"Kühnen","orcid":"0000-0003-4312-0179"},{"first_name":"Björn","id":"3A374330-F248-11E8-B48F-1D18A9856A87","last_name":"Hof","full_name":"Hof, Björn","orcid":"0000-0003-2057-2754"}],"title":"Relaminarising pipe flow by wall movement","doi":"10.1017/jfm.2019.191","abstract":[{"lang":"eng","text":"Following  the  recent  observation  that  turbulent  pipe  flow  can  be  relaminarised  bya  relatively  simple  modification  of  the  mean  velocity  profile,  we  here  carry  out  aquantitative  experimental  investigation  of  this  phenomenon.  Our  study  confirms  thata  flat  velocity  profile  leads  to  a  collapse  of  turbulence  and  in  order  to  achieve  theblunted  profile  shape,  we  employ  a  moving  pipe  segment  that  is  briefly  and  rapidlyshifted  in  the  streamwise  direction.  The  relaminarisation  threshold  and  the  minimumshift  length  and  speeds  are  determined  as  a  function  of  Reynolds  number.  Althoughturbulence  is  still  active  after  the  acceleration  phase,  the  modulated  profile  possessesa  severely  decreased  lift-up  potential  as  measured  by  transient  growth.  As  shown,this  results  in  an  exponential  decay  of  fluctuations  and  the  flow  relaminarises.  Whilethis  method  can  be  easily  applied  at  low  to  moderate  flow  speeds,  the  minimumstreamwise  length  over  which  the  acceleration  needs  to  act  increases  linearly  with  theReynolds  number."}],"project":[{"call_identifier":"FP7","name":"Decoding the complexity of turbulence at its origin","grant_number":"306589","_id":"25152F3A-B435-11E9-9278-68D0E5697425"},{"grant_number":"737549","_id":"25104D44-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Eliminating turbulence in oil pipelines"}],"publication_identifier":{"issn":["00221120"],"eissn":["14697645"]},"ec_funded":1,"publication_status":"published","status":"public"},{"year":"2019","oa":1,"related_material":{"link":[{"url":"https://ist.ac.at/en/news/body-height-bmi-disease-risk-co/","description":"News on IST Homepage","relation":"press_release"}]},"article_number":"e45380","publication":"eLife","date_updated":"2023-08-25T08:59:38Z","external_id":{"isi":["000461988300001"]},"date_published":"2019-03-21T00:00:00Z","date_created":"2019-04-07T21:59:15Z","scopus_import":"1","department":[{"_id":"NiBa"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","isi":1,"quality_controlled":"1","language":[{"iso":"eng"}],"type":"journal_article","publisher":"eLife Sciences Publications","intvolume":"         8","abstract":[{"lang":"eng","text":"Great care is needed when interpreting claims about the genetic basis of human variation based on data from genome-wide association studies."}],"doi":"10.7554/eLife.45380","title":"Why structure matters","author":[{"first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240"},{"first_name":"Joachim","full_name":"Hermisson, Joachim","last_name":"Hermisson"},{"last_name":"Nordborg","full_name":"Nordborg, Magnus","first_name":"Magnus"}],"_id":"6230","status":"public","publication_status":"published","publication_identifier":{"eissn":["2050084X"]},"oa_version":"Published Version","citation":{"mla":"Barton, Nicholas H., et al. “Why Structure Matters.” <i>ELife</i>, vol. 8, e45380, eLife Sciences Publications, 2019, doi:<a href=\"https://doi.org/10.7554/eLife.45380\">10.7554/eLife.45380</a>.","chicago":"Barton, Nicholas H, Joachim Hermisson, and Magnus Nordborg. “Why Structure Matters.” <i>ELife</i>. eLife Sciences Publications, 2019. <a href=\"https://doi.org/10.7554/eLife.45380\">https://doi.org/10.7554/eLife.45380</a>.","ama":"Barton NH, Hermisson J, Nordborg M. Why structure matters. <i>eLife</i>. 2019;8. doi:<a href=\"https://doi.org/10.7554/eLife.45380\">10.7554/eLife.45380</a>","short":"N.H. Barton, J. Hermisson, M. Nordborg, ELife 8 (2019).","ista":"Barton NH, Hermisson J, Nordborg M. 2019. Why structure matters. eLife. 8, e45380.","apa":"Barton, N. H., Hermisson, J., &#38; Nordborg, M. (2019). Why structure matters. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.45380\">https://doi.org/10.7554/eLife.45380</a>","ieee":"N. H. Barton, J. Hermisson, and M. Nordborg, “Why structure matters,” <i>eLife</i>, vol. 8. eLife Sciences Publications, 2019."},"day":"21","month":"03","ddc":["570"],"file_date_updated":"2020-07-14T12:47:24Z","has_accepted_license":"1","article_processing_charge":"No","volume":8,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"date_created":"2019-04-11T11:43:38Z","file_id":"6293","date_updated":"2020-07-14T12:47:24Z","checksum":"130d7544b57df4a6787e1263c2d7ea43","content_type":"application/pdf","access_level":"open_access","file_size":298466,"creator":"dernst","relation":"main_file","file_name":"2019_eLife_Barton.pdf"}]},{"_id":"6232","author":[{"first_name":"Mate","id":"44ECEDF2-F248-11E8-B48F-1D18A9856A87","last_name":"Gerencser","full_name":"Gerencser, Mate"}],"title":"Boundary regularity of stochastic PDEs","doi":"10.1214/18-AOP1272","issue":"2","abstract":[{"text":"The boundary behaviour of solutions of stochastic PDEs with Dirichlet boundary conditions can be surprisingly—and in a sense, arbitrarily—bad: as shown by Krylov[ SIAM J. Math. Anal.34(2003) 1167–1182], for any α>0 one can find a simple 1-dimensional constant coefficient linear equation whose solution at the boundary is not α-Hölder continuous.We obtain a positive counterpart of this: under some mild regularity assumptions on the coefficients, solutions of semilinear SPDEs on C1 domains are proved to be α-Hölder continuous up to the boundary with some α>0.","lang":"eng"}],"publication_identifier":{"issn":["00911798"]},"status":"public","publication_status":"published","month":"03","day":"01","citation":{"chicago":"Gerencser, Mate. “Boundary Regularity of Stochastic PDEs.” <i>Annals of Probability</i>. Institute of Mathematical Statistics, 2019. <a href=\"https://doi.org/10.1214/18-AOP1272\">https://doi.org/10.1214/18-AOP1272</a>.","mla":"Gerencser, Mate. “Boundary Regularity of Stochastic PDEs.” <i>Annals of Probability</i>, vol. 47, no. 2, Institute of Mathematical Statistics, 2019, pp. 804–34, doi:<a href=\"https://doi.org/10.1214/18-AOP1272\">10.1214/18-AOP1272</a>.","ama":"Gerencser M. Boundary regularity of stochastic PDEs. <i>Annals of Probability</i>. 2019;47(2):804-834. doi:<a href=\"https://doi.org/10.1214/18-AOP1272\">10.1214/18-AOP1272</a>","short":"M. Gerencser, Annals of Probability 47 (2019) 804–834.","ista":"Gerencser M. 2019. Boundary regularity of stochastic PDEs. Annals of Probability. 47(2), 804–834.","ieee":"M. Gerencser, “Boundary regularity of stochastic PDEs,” <i>Annals of Probability</i>, vol. 47, no. 2. Institute of Mathematical Statistics, pp. 804–834, 2019.","apa":"Gerencser, M. (2019). Boundary regularity of stochastic PDEs. <i>Annals of Probability</i>. Institute of Mathematical Statistics. <a href=\"https://doi.org/10.1214/18-AOP1272\">https://doi.org/10.1214/18-AOP1272</a>"},"oa_version":"Preprint","arxiv":1,"article_processing_charge":"No","volume":47,"oa":1,"year":"2019","date_updated":"2023-08-25T08:59:11Z","publication":"Annals of Probability","page":"804-834","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"JaMa"}],"scopus_import":"1","date_created":"2019-04-07T21:59:15Z","date_published":"2019-03-01T00:00:00Z","external_id":{"arxiv":["1705.05364"],"isi":["000459681900005"]},"intvolume":"        47","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1705.05364"}],"publisher":"Institute of Mathematical Statistics","type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"isi":1},{"oa_version":"Preprint","day":"01","citation":{"apa":"Alt, J., Erdös, L., Krüger, T. H., &#38; Nemish, Y. (2019). Location of the spectrum of Kronecker random matrices. <i>Annales de l’institut Henri Poincare</i>. Institut Henri Poincaré. <a href=\"https://doi.org/10.1214/18-AIHP894\">https://doi.org/10.1214/18-AIHP894</a>","ieee":"J. Alt, L. Erdös, T. H. Krüger, and Y. Nemish, “Location of the spectrum of Kronecker random matrices,” <i>Annales de l’institut Henri Poincare</i>, vol. 55, no. 2. Institut Henri Poincaré, pp. 661–696, 2019.","ista":"Alt J, Erdös L, Krüger TH, Nemish Y. 2019. Location of the spectrum of Kronecker random matrices. Annales de l’institut Henri Poincare. 55(2), 661–696.","short":"J. Alt, L. Erdös, T.H. Krüger, Y. Nemish, Annales de l’institut Henri Poincare 55 (2019) 661–696.","ama":"Alt J, Erdös L, Krüger TH, Nemish Y. Location of the spectrum of Kronecker random matrices. <i>Annales de l’institut Henri Poincare</i>. 2019;55(2):661-696. doi:<a href=\"https://doi.org/10.1214/18-AIHP894\">10.1214/18-AIHP894</a>","chicago":"Alt, Johannes, László Erdös, Torben H Krüger, and Yuriy Nemish. “Location of the Spectrum of Kronecker Random Matrices.” <i>Annales de l’institut Henri Poincare</i>. Institut Henri Poincaré, 2019. <a href=\"https://doi.org/10.1214/18-AIHP894\">https://doi.org/10.1214/18-AIHP894</a>.","mla":"Alt, Johannes, et al. “Location of the Spectrum of Kronecker Random Matrices.” <i>Annales de l’institut Henri Poincare</i>, vol. 55, no. 2, Institut Henri Poincaré, 2019, pp. 661–96, doi:<a href=\"https://doi.org/10.1214/18-AIHP894\">10.1214/18-AIHP894</a>."},"month":"05","volume":55,"article_processing_charge":"No","arxiv":1,"issue":"2","abstract":[{"lang":"eng","text":"For a general class of large non-Hermitian random block matrices X we prove that there are no eigenvalues away from a deterministic set with very high probability. This set is obtained from the Dyson equation of the Hermitization of X as the self-consistent approximation of the pseudospectrum. We demonstrate that the analysis of the matrix Dyson equation from (Probab. Theory Related Fields (2018)) offers a unified treatment of many structured matrix ensembles."}],"doi":"10.1214/18-AIHP894","author":[{"first_name":"Johannes","id":"36D3D8B6-F248-11E8-B48F-1D18A9856A87","last_name":"Alt","full_name":"Alt, Johannes"},{"orcid":"0000-0001-5366-9603","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","first_name":"László","full_name":"Erdös, László","last_name":"Erdös"},{"last_name":"Krüger","full_name":"Krüger, Torben H","first_name":"Torben H","id":"3020C786-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4821-3297"},{"first_name":"Yuriy","id":"4D902E6A-F248-11E8-B48F-1D18A9856A87","last_name":"Nemish","full_name":"Nemish, Yuriy","orcid":"0000-0002-7327-856X"}],"title":"Location of the spectrum of Kronecker random matrices","_id":"6240","publication_status":"published","status":"public","ec_funded":1,"publication_identifier":{"issn":["0246-0203"]},"project":[{"call_identifier":"FP7","name":"Random matrices, universality and disordered quantum systems","grant_number":"338804","_id":"258DCDE6-B435-11E9-9278-68D0E5697425"}],"external_id":{"isi":["000467793600003"],"arxiv":["1706.08343"]},"date_published":"2019-05-01T00:00:00Z","scopus_import":"1","date_created":"2019-04-08T14:05:04Z","department":[{"_id":"LaEr"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","isi":1,"quality_controlled":"1","type":"journal_article","language":[{"iso":"eng"}],"main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1706.08343"}],"intvolume":"        55","publisher":"Institut Henri Poincaré","year":"2019","oa":1,"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"149"}]},"page":"661-696","publication":"Annales de l'institut Henri Poincare","date_updated":"2023-10-17T12:20:20Z"},{"year":"2019","oa":1,"page":"240-243","article_type":"original","related_material":{"link":[{"description":"News on IST Homepage","url":"https://ist.ac.at/en/news/newly-discovered-mechanism-of-plant-hormone-auxin-acts-the-opposite-way/","relation":"press_release"}]},"date_updated":"2023-09-05T14:58:41Z","publication":"Nature","date_created":"2019-04-09T08:37:05Z","scopus_import":"1","date_published":"2019-04-11T00:00:00Z","external_id":{"pmid":["30944466"],"isi":["000464412700050"]},"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","department":[{"_id":"JiFr"}],"quality_controlled":"1","language":[{"iso":"eng"}],"type":"journal_article","isi":1,"publisher":"Springer Nature","intvolume":"       568","doi":"10.1038/s41586-019-1069-7","abstract":[{"lang":"eng","text":"The plant hormone auxin has crucial roles in almost all aspects of plant growth and development. Concentrations of auxin vary across different tissues, mediating distinct developmental outcomes and contributing to the functional diversity of auxin. However, the mechanisms that underlie these activities are poorly understood. Here we identify an auxin signalling mechanism, which acts in parallel to the canonical auxin pathway based on the transport inhibitor response1 (TIR1) and other auxin receptor F-box (AFB) family proteins (TIR1/AFB receptors)1,2, that translates levels of cellular auxin to mediate differential growth during apical-hook development. This signalling mechanism operates at the concave side of the apical hook, and involves auxin-mediated C-terminal cleavage of transmembrane kinase 1 (TMK1). The cytosolic and nucleus-translocated C terminus of TMK1 specifically interacts with and phosphorylates two non-canonical transcriptional repressors of the auxin or indole-3-acetic acid (Aux/IAA) family (IAA32 and IAA34), thereby regulating ARF transcription factors. In contrast to the degradation of Aux/IAA transcriptional repressors in the canonical pathway, the newly identified mechanism stabilizes the non-canonical IAA32 and IAA34 transcriptional repressors to regulate gene expression and ultimately inhibit growth. The auxin–TMK1 signalling pathway originates at the cell surface, is triggered by high levels of auxin and shares a partially overlapping set of transcription factors with the TIR1/AFB signalling pathway. This allows distinct interpretations of different concentrations of cellular auxin, and thus enables this versatile signalling molecule to mediate complex developmental outcomes."}],"_id":"6259","title":"TMK1-mediated auxin signalling regulates differential growth of the apical hook","author":[{"first_name":"Min","last_name":"Cao","full_name":"Cao, Min"},{"first_name":"Rong","last_name":"Chen","full_name":"Chen, Rong"},{"full_name":"Li, Pan","last_name":"Li","first_name":"Pan"},{"full_name":"Yu, Yongqiang","last_name":"Yu","first_name":"Yongqiang"},{"last_name":"Zheng","full_name":"Zheng, Rui","first_name":"Rui"},{"full_name":"Ge, Danfeng","last_name":"Ge","first_name":"Danfeng"},{"first_name":"Wei","full_name":"Zheng, Wei","last_name":"Zheng"},{"first_name":"Xuhui","last_name":"Wang","full_name":"Wang, Xuhui"},{"first_name":"Yangtao","full_name":"Gu, Yangtao","last_name":"Gu"},{"orcid":"0000-0003-4783-1752","id":"0AE74790-0E0B-11E9-ABC7-1ACFE5697425","first_name":"Zuzana","full_name":"Gelová, Zuzana","last_name":"Gelová"},{"last_name":"Friml","full_name":"Friml, Jiří","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"full_name":"Zhang, Heng","last_name":"Zhang","first_name":"Heng"},{"first_name":"Renyi","last_name":"Liu","full_name":"Liu, Renyi"},{"first_name":"Jun","full_name":"He, Jun","last_name":"He"},{"first_name":"Tongda","full_name":"Xu, Tongda","last_name":"Xu"}],"ec_funded":1,"publication_status":"published","status":"public","project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"}],"publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"oa_version":"Submitted Version","month":"04","pmid":1,"file_date_updated":"2020-11-13T07:37:41Z","ddc":["580"],"citation":{"ieee":"M. Cao <i>et al.</i>, “TMK1-mediated auxin signalling regulates differential growth of the apical hook,” <i>Nature</i>, vol. 568. Springer Nature, pp. 240–243, 2019.","apa":"Cao, M., Chen, R., Li, P., Yu, Y., Zheng, R., Ge, D., … Xu, T. (2019). TMK1-mediated auxin signalling regulates differential growth of the apical hook. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-019-1069-7\">https://doi.org/10.1038/s41586-019-1069-7</a>","ista":"Cao M, Chen R, Li P, Yu Y, Zheng R, Ge D, Zheng W, Wang X, Gu Y, Gelová Z, Friml J, Zhang H, Liu R, He J, Xu T. 2019. TMK1-mediated auxin signalling regulates differential growth of the apical hook. Nature. 568, 240–243.","ama":"Cao M, Chen R, Li P, et al. TMK1-mediated auxin signalling regulates differential growth of the apical hook. <i>Nature</i>. 2019;568:240-243. doi:<a href=\"https://doi.org/10.1038/s41586-019-1069-7\">10.1038/s41586-019-1069-7</a>","short":"M. Cao, R. Chen, P. Li, Y. Yu, R. Zheng, D. Ge, W. Zheng, X. Wang, Y. Gu, Z. Gelová, J. Friml, H. Zhang, R. Liu, J. He, T. Xu, Nature 568 (2019) 240–243.","mla":"Cao, Min, et al. “TMK1-Mediated Auxin Signalling Regulates Differential Growth of the Apical Hook.” <i>Nature</i>, vol. 568, Springer Nature, 2019, pp. 240–43, doi:<a href=\"https://doi.org/10.1038/s41586-019-1069-7\">10.1038/s41586-019-1069-7</a>.","chicago":"Cao, Min, Rong Chen, Pan Li, Yongqiang Yu, Rui Zheng, Danfeng Ge, Wei Zheng, et al. “TMK1-Mediated Auxin Signalling Regulates Differential Growth of the Apical Hook.” <i>Nature</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1038/s41586-019-1069-7\">https://doi.org/10.1038/s41586-019-1069-7</a>."},"day":"11","article_processing_charge":"No","volume":568,"has_accepted_license":"1","file":[{"file_id":"8751","date_created":"2020-11-13T07:37:41Z","file_name":"2019_Nature _Cao_accepted.pdf","relation":"main_file","file_size":4321328,"creator":"dernst","access_level":"open_access","content_type":"application/pdf","checksum":"6b84ab602a34382cf0340a37a1378c75","success":1,"date_updated":"2020-11-13T07:37:41Z"}]},{"author":[{"first_name":"A","full_name":"Oochi, A","last_name":"Oochi"},{"full_name":"Hajny, Jakub","last_name":"Hajny","id":"4800CC20-F248-11E8-B48F-1D18A9856A87","first_name":"Jakub","orcid":"0000-0003-2140-7195"},{"first_name":"K","full_name":"Fukui, K","last_name":"Fukui"},{"full_name":"Nakao, Y","last_name":"Nakao","first_name":"Y"},{"last_name":"Gallei","full_name":"Gallei, Michelle C","first_name":"Michelle C","id":"35A03822-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1286-7368"},{"full_name":"Quareshy, M","last_name":"Quareshy","first_name":"M"},{"first_name":"K","full_name":"Takahashi, K","last_name":"Takahashi"},{"last_name":"Kinoshita","full_name":"Kinoshita, T","first_name":"T"},{"full_name":"Harborough, SR","last_name":"Harborough","first_name":"SR"},{"first_name":"S","full_name":"Kepinski, S","last_name":"Kepinski"},{"first_name":"H","last_name":"Kasahara","full_name":"Kasahara, H"},{"last_name":"Napier","full_name":"Napier, RM","first_name":"RM"},{"orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří","last_name":"Friml"},{"last_name":"Hayashi","full_name":"Hayashi, KI","first_name":"KI"}],"title":"Pinstatic acid promotes auxin transport by inhibiting PIN internalization","_id":"6260","issue":"2","abstract":[{"text":"Polar auxin transport plays a pivotal role in plant growth and development. PIN auxin efflux carriers regulate directional auxin movement by establishing local auxin maxima, minima, and gradients that drive multiple developmental processes and responses to environmental signals. Auxin has been proposed to modulate its own transport by regulating subcellular PIN trafficking via processes such as clathrin-mediated PIN endocytosis and constitutive recycling. Here, we further investigated the mechanisms by which auxin affects PIN trafficking by screening auxin analogs and identified pinstatic acid (PISA) as a positive modulator of polar auxin transport in Arabidopsis thaliana. PISA had an auxin-like effect on hypocotyl elongation and adventitious root formation via positive regulation of auxin transport. PISA did not activate SCFTIR1/AFB signaling and yet induced PIN accumulation at the cell surface by inhibiting PIN internalization from the plasma membrane. This work demonstrates PISA to be a promising chemical tool to dissect the regulatory mechanisms behind subcellular PIN trafficking and auxin transport.","lang":"eng"}],"doi":"10.1104/pp.19.00201","publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"project":[{"call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"}],"status":"public","publication_status":"published","acknowledgement":"We thank Dr. H. Fukaki (University of Kobe), Dr. R. Offringa (Leiden University), Dr. Jianwei Pan (Zhejiang Normal University), and Dr. M. Estelle (University of California at San Diego) for providing mutants and transgenic line seeds.\r\nThis work was supported by the Ministry of Education, Culture, Sports, Science, and Technology (Grant-in-Aid for Scientific Research no. JP25114518 to K.H.), the Biotechnology and Biological Sciences Research Council (award no. BB/L009366/1 to R.N. and S.K.), and the European Union’s Horizon2020 program (European Research Council grant agreement no. 742985 to J.F.).","ec_funded":1,"day":"01","citation":{"chicago":"Oochi, A, Jakub Hajny, K Fukui, Y Nakao, Michelle C Gallei, M Quareshy, K Takahashi, et al. “Pinstatic Acid Promotes Auxin Transport by Inhibiting PIN Internalization.” <i>Plant Physiology</i>. ASPB, 2019. <a href=\"https://doi.org/10.1104/pp.19.00201\">https://doi.org/10.1104/pp.19.00201</a>.","mla":"Oochi, A., et al. “Pinstatic Acid Promotes Auxin Transport by Inhibiting PIN Internalization.” <i>Plant Physiology</i>, vol. 180, no. 2, ASPB, 2019, pp. 1152–65, doi:<a href=\"https://doi.org/10.1104/pp.19.00201\">10.1104/pp.19.00201</a>.","ama":"Oochi A, Hajny J, Fukui K, et al. Pinstatic acid promotes auxin transport by inhibiting PIN internalization. <i>Plant Physiology</i>. 2019;180(2):1152-1165. doi:<a href=\"https://doi.org/10.1104/pp.19.00201\">10.1104/pp.19.00201</a>","short":"A. Oochi, J. Hajny, K. Fukui, Y. Nakao, M.C. Gallei, M. Quareshy, K. Takahashi, T. Kinoshita, S. Harborough, S. Kepinski, H. Kasahara, R. Napier, J. Friml, K. Hayashi, Plant Physiology 180 (2019) 1152–1165.","ista":"Oochi A, Hajny J, Fukui K, Nakao Y, Gallei MC, Quareshy M, Takahashi K, Kinoshita T, Harborough S, Kepinski S, Kasahara H, Napier R, Friml J, Hayashi K. 2019. Pinstatic acid promotes auxin transport by inhibiting PIN internalization. Plant Physiology. 180(2), 1152–1165.","ieee":"A. Oochi <i>et al.</i>, “Pinstatic acid promotes auxin transport by inhibiting PIN internalization,” <i>Plant Physiology</i>, vol. 180, no. 2. ASPB, pp. 1152–1165, 2019.","apa":"Oochi, A., Hajny, J., Fukui, K., Nakao, Y., Gallei, M. C., Quareshy, M., … Hayashi, K. (2019). Pinstatic acid promotes auxin transport by inhibiting PIN internalization. <i>Plant Physiology</i>. ASPB. <a href=\"https://doi.org/10.1104/pp.19.00201\">https://doi.org/10.1104/pp.19.00201</a>"},"pmid":1,"month":"06","oa_version":"Published Version","volume":180,"article_processing_charge":"No","oa":1,"year":"2019","publication":"Plant Physiology","date_updated":"2024-03-25T23:30:21Z","related_material":{"record":[{"id":"11626","status":"public","relation":"dissertation_contains"},{"status":"public","relation":"dissertation_contains","id":"8822"}]},"article_type":"original","page":"1152-1165","department":[{"_id":"JiFr"}],"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","date_published":"2019-06-01T00:00:00Z","external_id":{"isi":["000470086100045"],"pmid":["30936248"]},"scopus_import":"1","date_created":"2019-04-09T08:38:20Z","intvolume":"       180","main_file_link":[{"url":"https://doi.org/10.1104/pp.19.00201","open_access":"1"}],"publisher":"ASPB","isi":1,"type":"journal_article","language":[{"iso":"eng"}],"quality_controlled":"1"},{"citation":{"mla":"Wang, Y., et al. “Nitrate Modulates the Differentiation of Root Distal Stem Cells.” <i>Plant Physiology</i>, vol. 180, no. 1, ASPB, 2019, pp. 22–25, doi:<a href=\"https://doi.org/10.1104/pp.18.01305\">10.1104/pp.18.01305</a>.","chicago":"Wang, Y, Z Gong, Jiří Friml, and J Zhang. “Nitrate Modulates the Differentiation of Root Distal Stem Cells.” <i>Plant Physiology</i>. ASPB, 2019. <a href=\"https://doi.org/10.1104/pp.18.01305\">https://doi.org/10.1104/pp.18.01305</a>.","ista":"Wang Y, Gong Z, Friml J, Zhang J. 2019. Nitrate modulates the differentiation of root distal stem cells. Plant Physiology. 180(1), 22–25.","ama":"Wang Y, Gong Z, Friml J, Zhang J. Nitrate modulates the differentiation of root distal stem cells. <i>Plant Physiology</i>. 2019;180(1):22-25. doi:<a href=\"https://doi.org/10.1104/pp.18.01305\">10.1104/pp.18.01305</a>","short":"Y. Wang, Z. Gong, J. Friml, J. Zhang, Plant Physiology 180 (2019) 22–25.","ieee":"Y. Wang, Z. Gong, J. Friml, and J. Zhang, “Nitrate modulates the differentiation of root distal stem cells,” <i>Plant Physiology</i>, vol. 180, no. 1. ASPB, pp. 22–25, 2019.","apa":"Wang, Y., Gong, Z., Friml, J., &#38; Zhang, J. (2019). Nitrate modulates the differentiation of root distal stem cells. <i>Plant Physiology</i>. ASPB. <a href=\"https://doi.org/10.1104/pp.18.01305\">https://doi.org/10.1104/pp.18.01305</a>"},"day":"01","pmid":1,"month":"05","oa_version":"Published Version","volume":180,"article_processing_charge":"No","title":"Nitrate modulates the differentiation of root distal stem cells","author":[{"full_name":"Wang, Y","last_name":"Wang","first_name":"Y"},{"first_name":"Z","last_name":"Gong","full_name":"Gong, Z"},{"last_name":"Friml","full_name":"Friml, Jiří","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"},{"first_name":"J","full_name":"Zhang, J","last_name":"Zhang"}],"_id":"6261","abstract":[{"lang":"eng","text":"Nitrate regulation of root stem cell activity is auxin-dependent."}],"issue":"1","doi":"10.1104/pp.18.01305","publication_identifier":{"issn":["0032-0889"],"eissn":["1532-2548"]},"status":"public","publication_status":"published","department":[{"_id":"JiFr"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_published":"2019-05-01T00:00:00Z","external_id":{"pmid":["30787134"],"isi":["000466860800010"]},"date_created":"2019-04-09T08:46:17Z","scopus_import":"1","publisher":"ASPB","intvolume":"       180","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1104/pp.18.01305"}],"isi":1,"language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","oa":1,"year":"2019","publication":"Plant Physiology","date_updated":"2023-08-25T10:10:23Z","page":"22-25","article_type":"letter_note"},{"publication":"The Plant Journal","date_updated":"2025-05-07T11:12:30Z","article_type":"original","page":"1048-1059","oa":1,"year":"2019","intvolume":"        98","publisher":"Wiley","isi":1,"language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","department":[{"_id":"JiFr"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","external_id":{"pmid":["30821050"],"isi":["000473644100008"]},"date_published":"2019-06-01T00:00:00Z","scopus_import":"1","date_created":"2019-04-09T08:46:44Z","publication_identifier":{"eissn":["1365-313x"],"issn":["0960-7412"]},"project":[{"name":"Polarity and subcellular dynamics in plants","call_identifier":"FP7","_id":"25716A02-B435-11E9-9278-68D0E5697425","grant_number":"282300"}],"publication_status":"published","status":"public","ec_funded":1,"author":[{"last_name":"Rakusová","full_name":"Rakusová, Hana","first_name":"Hana"},{"full_name":"Han, Huibin","last_name":"Han","id":"31435098-F248-11E8-B48F-1D18A9856A87","first_name":"Huibin"},{"id":"3CDB6F94-F248-11E8-B48F-1D18A9856A87","first_name":"Petr","full_name":"Valošek, Petr","last_name":"Valošek"},{"orcid":"0000-0002-8302-7596","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","full_name":"Friml, Jiří"}],"title":"Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls","_id":"6262","issue":"6","abstract":[{"text":"Gravitropism is an adaptive response that orients plant growth parallel to the gravity vector. Asymmetric\r\ndistribution of the phytohormone auxin is a necessary prerequisite to the tropic bending both in roots and\r\nshoots. During hypocotyl gravitropic response, the PIN3 auxin transporter polarizes within gravity-sensing\r\ncells to redirect intercellular auxin fluxes. First gravity-induced PIN3 polarization to the bottom cell mem-\r\nbranes leads to the auxin accumulation at the lower side of the organ, initiating bending and, later, auxin\r\nfeedback-mediated repolarization restores symmetric auxin distribution to terminate bending. Here, we per-\r\nformed a forward genetic screen to identify regulators of both PIN3 polarization events during gravitropic\r\nresponse. We searched for mutants with defective PIN3 polarizations based on easy-to-score morphological\r\noutputs of decreased or increased gravity-induced hypocotyl bending. We identified the number of\r\nhypocotyl reduced bending (hrb) and hypocotyl hyperbending (hhb) mutants, revealing that reduced bending corre-\r\nlated typically with defective gravity-induced PIN3 relocation whereas all analyzed hhb mutants showed\r\ndefects in the second, auxin-mediated PIN3 relocation. Next-generation sequencing-aided mutation map-\r\nping identified several candidate genes, including SCARECROW and ACTIN2, revealing roles of endodermis\r\nspecification and actin cytoskeleton in the respective gravity- and auxin-induced PIN polarization events.\r\nThe hypocotyl gravitropism screen thus promises to provide novel insights into mechanisms underlying cell\r\npolarity and plant adaptive development.","lang":"eng"}],"doi":"10.1111/tpj.14301","file":[{"date_created":"2019-04-15T09:38:43Z","file_id":"6304","date_updated":"2020-07-14T12:47:25Z","content_type":"application/pdf","checksum":"ad3b5e270b67ba2a45f894ce3be27920","access_level":"open_access","creator":"dernst","relation":"main_file","file_size":1383100,"file_name":"2019_PlantJournal_Rakusov.pdf"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","volume":98,"day":"01","citation":{"short":"H. Rakusová, H. Han, P. Valošek, J. Friml, The Plant Journal 98 (2019) 1048–1059.","ama":"Rakusová H, Han H, Valošek P, Friml J. Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls. <i>The Plant Journal</i>. 2019;98(6):1048-1059. doi:<a href=\"https://doi.org/10.1111/tpj.14301\">10.1111/tpj.14301</a>","ista":"Rakusová H, Han H, Valošek P, Friml J. 2019. Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls. The Plant Journal. 98(6), 1048–1059.","apa":"Rakusová, H., Han, H., Valošek, P., &#38; Friml, J. (2019). Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls. <i>The Plant Journal</i>. Wiley. <a href=\"https://doi.org/10.1111/tpj.14301\">https://doi.org/10.1111/tpj.14301</a>","ieee":"H. Rakusová, H. Han, P. Valošek, and J. Friml, “Genetic screen for factors mediating PIN polarization in gravistimulated Arabidopsis thaliana hypocotyls,” <i>The Plant Journal</i>, vol. 98, no. 6. Wiley, pp. 1048–1059, 2019.","mla":"Rakusová, Hana, et al. “Genetic Screen for Factors Mediating PIN Polarization in Gravistimulated Arabidopsis Thaliana Hypocotyls.” <i>The Plant Journal</i>, vol. 98, no. 6, Wiley, 2019, pp. 1048–59, doi:<a href=\"https://doi.org/10.1111/tpj.14301\">10.1111/tpj.14301</a>.","chicago":"Rakusová, Hana, Huibin Han, Petr Valošek, and Jiří Friml. “Genetic Screen for Factors Mediating PIN Polarization in Gravistimulated Arabidopsis Thaliana Hypocotyls.” <i>The Plant Journal</i>. Wiley, 2019. <a href=\"https://doi.org/10.1111/tpj.14301\">https://doi.org/10.1111/tpj.14301</a>."},"month":"06","pmid":1,"ddc":["580"],"file_date_updated":"2020-07-14T12:47:25Z","oa_version":"Published Version"},{"status":"public","publication_status":"published","publication_identifier":{"issn":["2663-337X"]},"doi":"10.15479/at:ista:th1075","abstract":[{"lang":"eng","text":"Clathrin-Mediated Endocytosis (CME) is an aspect of cellular trafficking that is constantly regulated for mediating developmental and physiological responses. The main aim of my thesis is to decipher the basic mechanisms of CME and post-endocytic trafficking in the whole multicellular organ systems of Arabidopsis. The first chapter of my thesis describes the search for new components involved in CME. Tandem affinity purification was conducted using CLC and its interacting partners were identified. Amongst the identified proteins were the Auxilin-likes1 and 2 (Axl1/2), putative uncoating factors, for which we made a full functional analysis. Over-expression of Axl1/2 causes extreme modifications in the dynamics of the machinery proteins and inhibition of endocytosis altogether. However the loss of function of the axl1/2 did not present any cellular or physiological phenotype, meaning Auxilin-likes do not form the major uncoating machinery. The second chapter of my thesis describes the establishment/utilisation of techniques to capture the dynamicity and the complexity of CME and post-endocytic trafficking. We have studied the development of endocytic pits at the PM – specifically, the mode of membrane remodeling during pit development and the role of actin in it, given plant cells possess high turgor pressure. Utilizing the improved z-resolution of TIRF and VAEM techniques, we captured the time-lapse of the endocytic events at the plasma membrane; and using particle detection software, we quantitatively analysed all the endocytic trajectories in an unbiased way to obtain the endocytic rate of the system. This together with the direct analysis of cargo internalisation from the PM provided an estimate on the endocytic potential of the cell. We also developed a methodology for ultrastructural analysis of different populations of Clathrin-Coated Structures (CCSs) in both PM and endomembranes in unroofed protoplasts. Structural analysis, together with the intensity profile of CCSs at the PM show that the mode of CCP development at the PM follows ‘Constant curvature model’; meaning that clathrin polymerisation energy is a major contributing factor of membrane remodeling. In addition, other analyses clearly show that actin is not required for membrane remodeling during invagination or any other step of CCP development, despite the prevalent high turgor pressure. However, actin is essential in orchestrating the post-endocytic trafficking of CCVs facilitating the EE formation. We also observed that the uncoating process post-endocytosis is not immediate; an alternative mechanism of uncoating – Sequential multi-step process – functions in the cell. Finally we also looked at one of the important physiological stimuli modulating the process – hormone, auxin. auxin has been known to influence CME before. We have made a detailed study on the concentration-time based effect of auxin on the machinery proteins, CCP development, and the specificity of cargoes endocytosed. To this end, we saw no general effect of auxin on CME at earlier time points. However, very low concentration of IAA, such as 50nM, accelerates endocytosis of specifically PIN2 through CME. Such a tight regulatory control with high specificity to PIN2 could be essential in modulating its polarity. "}],"_id":"6269","title":"Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants ","supervisor":[{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří","last_name":"Friml","orcid":"0000-0002-8302-7596"}],"author":[{"id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","first_name":"Madhumitha","full_name":"Narasimhan, Madhumitha","last_name":"Narasimhan","orcid":"0000-0002-8600-0671"}],"article_processing_charge":"No","has_accepted_license":"1","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY 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Version","ddc":["575"],"month":"02","file_date_updated":"2021-02-11T23:30:15Z","citation":{"chicago":"Narasimhan, Madhumitha. “Clathrin-Mediated Endocytosis, Post-Endocytic Trafficking and Their Regulatory Controls in Plants .” Institute of Science and Technology Austria, 2019. <a href=\"https://doi.org/10.15479/at:ista:th1075\">https://doi.org/10.15479/at:ista:th1075</a>.","mla":"Narasimhan, Madhumitha. <i>Clathrin-Mediated Endocytosis, Post-Endocytic Trafficking and Their Regulatory Controls in Plants </i>. Institute of Science and Technology Austria, 2019, doi:<a href=\"https://doi.org/10.15479/at:ista:th1075\">10.15479/at:ista:th1075</a>.","ista":"Narasimhan M. 2019. Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants . Institute of Science and Technology Austria.","short":"M. Narasimhan, Clathrin-Mediated Endocytosis, Post-Endocytic Trafficking and Their Regulatory Controls in Plants , Institute of Science and Technology Austria, 2019.","ama":"Narasimhan M. Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants . 2019. doi:<a href=\"https://doi.org/10.15479/at:ista:th1075\">10.15479/at:ista:th1075</a>","ieee":"M. Narasimhan, “Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants ,” Institute of Science and Technology Austria, 2019.","apa":"Narasimhan, M. (2019). <i>Clathrin-Mediated endocytosis, post-endocytic trafficking and their regulatory controls in plants </i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:th1075\">https://doi.org/10.15479/at:ista:th1075</a>"},"day":"04","page":"138","related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"412"}]},"date_updated":"2025-05-07T11:12:27Z","alternative_title":["ISTA Thesis"],"year":"2019","oa":1,"language":[{"iso":"eng"}],"type":"dissertation","publisher":"Institute of Science and Technology Austria","date_created":"2019-04-09T14:37:06Z","acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"}],"date_published":"2019-02-04T00:00:00Z","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","department":[{"_id":"JiFr"}]},{"date_updated":"2023-08-25T10:11:28Z","publication":"Matrix Biology","article_type":"original","page":"47-59","oa":1,"year":"2019","publisher":"Elsevier","language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"MaLo"}],"date_created":"2019-04-11T20:55:01Z","date_published":"2019-05-01T00:00:00Z","external_id":{"isi":["000468707600005"]},"publication_identifier":{"issn":["0945-053X"]},"publication_status":"published","status":"public","_id":"6297","author":[{"first_name":"Heather S.","full_name":"Davies, Heather S.","last_name":"Davies"},{"last_name":"Baranova","full_name":"Baranova, Natalia S.","first_name":"Natalia S.","id":"38661662-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-3086-9124"},{"last_name":"El Amri","full_name":"El Amri, Nouha","first_name":"Nouha"},{"full_name":"Coche-Guérente, Liliane","last_name":"Coche-Guérente","first_name":"Liliane"},{"full_name":"Verdier, Claude","last_name":"Verdier","first_name":"Claude"},{"last_name":"Bureau","full_name":"Bureau, Lionel","first_name":"Lionel"},{"full_name":"Richter, Ralf P.","last_name":"Richter","first_name":"Ralf P."},{"last_name":"Débarre","full_name":"Débarre, Delphine","first_name":"Delphine"}],"title":"An integrated assay to probe endothelial glycocalyx-blood cell interactions under flow in mechanically and biochemically well-defined environments","doi":"10.1016/j.matbio.2018.12.002","abstract":[{"lang":"eng","text":"Cell-cell and cell-glycocalyx interactions under flow are important for the behaviour of circulating cells in blood and lymphatic vessels. However, such interactions are not well understood due in part to a lack of tools to study them in defined environments. Here, we develop a versatile in vitro platform for the study of cell-glycocalyx interactions in well-defined physical and chemical settings under flow. Our approach is demonstrated with the interaction between hyaluronan (HA, a key component of the endothelial glycocalyx) and its cell receptor CD44. We generate HA brushes in situ within a microfluidic device, and demonstrate the tuning of their physical (thickness and softness) and chemical (density of CD44 binding sites) properties using characterisation with reflection interference contrast microscopy (RICM) and application of polymer theory. We highlight the interactions of HA brushes with CD44-displaying beads and cells under flow. Observations of CD44+ beads on a HA brush with RICM enabled the 3-dimensional trajectories to be generated, and revealed interactions in the form of stop and go phases with reduced rolling velocity and reduced distance between the bead and the HA brush, compared to uncoated beads. Combined RICM and bright-field microscopy of CD44+ AKR1 T-lymphocytes revealed complementary information about the dynamics of cell rolling and cell morphology, and highlighted the formation of tethers and slings, as they interacted with a HA brush under flow. This platform can readily incorporate more complex models of the glycocalyx, and should permit the study of how mechanical and biochemical factors are orchestrated to enable highly selective blood cell-vessel wall interactions under flow."}],"file":[{"date_created":"2020-05-14T09:02:07Z","file_id":"7825","date_updated":"2020-07-14T12:47:27Z","checksum":"790878cd78bfc54a147ddcc7c8f286a0","content_type":"application/pdf","access_level":"open_access","file_size":4444339,"relation":"main_file","creator":"dernst","file_name":"2018_MatrixBiology_Davies.pdf"}],"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"volume":"78-79","article_processing_charge":"No","has_accepted_license":"1","month":"05","ddc":["570"],"file_date_updated":"2020-07-14T12:47:27Z","day":"01","citation":{"ama":"Davies HS, Baranova NS, El Amri N, et al. An integrated assay to probe endothelial glycocalyx-blood cell interactions under flow in mechanically and biochemically well-defined environments. <i>Matrix Biology</i>. 2019;78-79:47-59. doi:<a href=\"https://doi.org/10.1016/j.matbio.2018.12.002\">10.1016/j.matbio.2018.12.002</a>","ista":"Davies HS, Baranova NS, El Amri N, Coche-Guérente L, Verdier C, Bureau L, Richter RP, Débarre D. 2019. An integrated assay to probe endothelial glycocalyx-blood cell interactions under flow in mechanically and biochemically well-defined environments. Matrix Biology. 78–79, 47–59.","short":"H.S. Davies, N.S. Baranova, N. El Amri, L. Coche-Guérente, C. Verdier, L. Bureau, R.P. Richter, D. Débarre, Matrix Biology 78–79 (2019) 47–59.","apa":"Davies, H. S., Baranova, N. S., El Amri, N., Coche-Guérente, L., Verdier, C., Bureau, L., … Débarre, D. (2019). An integrated assay to probe endothelial glycocalyx-blood cell interactions under flow in mechanically and biochemically well-defined environments. <i>Matrix Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.matbio.2018.12.002\">https://doi.org/10.1016/j.matbio.2018.12.002</a>","ieee":"H. S. Davies <i>et al.</i>, “An integrated assay to probe endothelial glycocalyx-blood cell interactions under flow in mechanically and biochemically well-defined environments,” <i>Matrix Biology</i>, vol. 78–79. Elsevier, pp. 47–59, 2019.","mla":"Davies, Heather S., et al. “An Integrated Assay to Probe Endothelial Glycocalyx-Blood Cell Interactions under Flow in Mechanically and Biochemically Well-Defined Environments.” <i>Matrix Biology</i>, vol. 78–79, Elsevier, 2019, pp. 47–59, doi:<a href=\"https://doi.org/10.1016/j.matbio.2018.12.002\">10.1016/j.matbio.2018.12.002</a>.","chicago":"Davies, Heather S., Natalia S. Baranova, Nouha El Amri, Liliane Coche-Guérente, Claude Verdier, Lionel Bureau, Ralf P. Richter, and Delphine Débarre. “An Integrated Assay to Probe Endothelial Glycocalyx-Blood Cell Interactions under Flow in Mechanically and Biochemically Well-Defined Environments.” <i>Matrix Biology</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.matbio.2018.12.002\">https://doi.org/10.1016/j.matbio.2018.12.002</a>."},"oa_version":"Submitted Version","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/"},{"page":"920-940","publication":"Advances in Mathematics","date_updated":"2023-08-25T10:11:55Z","year":"2019","oa":1,"isi":1,"language":[{"iso":"eng"}],"quality_controlled":"1","type":"journal_article","intvolume":"       349","publisher":"Elsevier","date_published":"2019-06-20T00:00:00Z","external_id":{"isi":["000468857300025"],"arxiv":["1810.08426"]},"scopus_import":"1","date_created":"2019-04-16T09:13:25Z","department":[{"_id":"TiBr"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","publication_status":"published","publication_identifier":{"eissn":["10902082"],"issn":["00018708"]},"abstract":[{"text":"An asymptotic formula is established for the number of rational points of bounded anticanonical height which lie on a certain Zariskiopen subset of an arbitrary smooth biquadratic hypersurface in sufficiently many variables. The proof uses the Hardy–Littlewood circle method.","lang":"eng"}],"doi":"10.1016/j.aim.2019.04.031","author":[{"orcid":"0000-0002-8314-0177","first_name":"Timothy D","id":"35827D50-F248-11E8-B48F-1D18A9856A87","last_name":"Browning","full_name":"Browning, Timothy D"},{"first_name":"L.Q.","full_name":"Hu, L.Q.","last_name":"Hu"}],"title":"Counting rational points on biquadratic hypersurfaces","_id":"6310","has_accepted_license":"1","volume":349,"article_processing_charge":"No","arxiv":1,"file":[{"access_level":"open_access","content_type":"application/pdf","checksum":"a63594a3a91b4ba6e2a1b78b0720b3d0","date_updated":"2020-07-14T12:47:27Z","file_name":"wliqun.pdf","relation":"main_file","file_size":379158,"creator":"tbrownin","file_id":"6311","date_created":"2019-04-16T09:12:20Z"}],"oa_version":"Submitted Version","day":"20","citation":{"ista":"Browning TD, Hu LQ. 2019. Counting rational points on biquadratic hypersurfaces. Advances in Mathematics. 349, 920–940.","short":"T.D. Browning, L.Q. Hu, Advances in Mathematics 349 (2019) 920–940.","ama":"Browning TD, Hu LQ. Counting rational points on biquadratic hypersurfaces. <i>Advances in Mathematics</i>. 2019;349:920-940. doi:<a href=\"https://doi.org/10.1016/j.aim.2019.04.031\">10.1016/j.aim.2019.04.031</a>","ieee":"T. D. Browning and L. Q. Hu, “Counting rational points on biquadratic hypersurfaces,” <i>Advances in Mathematics</i>, vol. 349. Elsevier, pp. 920–940, 2019.","apa":"Browning, T. D., &#38; Hu, L. Q. (2019). Counting rational points on biquadratic hypersurfaces. <i>Advances in Mathematics</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.aim.2019.04.031\">https://doi.org/10.1016/j.aim.2019.04.031</a>","mla":"Browning, Timothy D., and L. Q. Hu. “Counting Rational Points on Biquadratic Hypersurfaces.” <i>Advances in Mathematics</i>, vol. 349, Elsevier, 2019, pp. 920–40, doi:<a href=\"https://doi.org/10.1016/j.aim.2019.04.031\">10.1016/j.aim.2019.04.031</a>.","chicago":"Browning, Timothy D, and L.Q. Hu. “Counting Rational Points on Biquadratic Hypersurfaces.” <i>Advances in Mathematics</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.aim.2019.04.031\">https://doi.org/10.1016/j.aim.2019.04.031</a>."},"month":"06","ddc":["512"],"file_date_updated":"2020-07-14T12:47:27Z"},{"department":[{"_id":"MiSi"},{"_id":"NanoFab"},{"_id":"Bio"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_published":"2019-04-25T00:00:00Z","external_id":{"pmid":["30944468"],"isi":["000465594200050"]},"date_created":"2019-04-17T06:52:28Z","acknowledged_ssus":[{"_id":"SSU"}],"scopus_import":"1","publisher":"Springer Nature","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7217284/","open_access":"1"}],"intvolume":"       568","isi":1,"quality_controlled":"1","type":"journal_article","language":[{"iso":"eng"}],"oa":1,"year":"2019","publication":"Nature","date_updated":"2024-03-25T23:30:22Z","related_material":{"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/leukocytes-use-their-nucleus-as-a-ruler-to-choose-path-of-least-resistance/"}],"record":[{"id":"14697","relation":"dissertation_contains","status":"public"},{"status":"public","relation":"dissertation_contains","id":"6891"}]},"page":"546-550","article_type":"letter_note","citation":{"ieee":"J. Renkawitz <i>et al.</i>, “Nuclear positioning facilitates amoeboid migration along the path of least resistance,” <i>Nature</i>, vol. 568. Springer Nature, pp. 546–550, 2019.","apa":"Renkawitz, J., Kopf, A., Stopp, J. A., de Vries, I., Driscoll, M. K., Merrin, J., … Sixt, M. K. (2019). Nuclear positioning facilitates amoeboid migration along the path of least resistance. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-019-1087-5\">https://doi.org/10.1038/s41586-019-1087-5</a>","ista":"Renkawitz J, Kopf A, Stopp JA, de Vries I, Driscoll MK, Merrin J, Hauschild R, Welf ES, Danuser G, Fiolka R, Sixt MK. 2019. Nuclear positioning facilitates amoeboid migration along the path of least resistance. Nature. 568, 546–550.","short":"J. Renkawitz, A. Kopf, J.A. Stopp, I. de Vries, M.K. Driscoll, J. Merrin, R. Hauschild, E.S. Welf, G. Danuser, R. Fiolka, M.K. Sixt, Nature 568 (2019) 546–550.","ama":"Renkawitz J, Kopf A, Stopp JA, et al. Nuclear positioning facilitates amoeboid migration along the path of least resistance. <i>Nature</i>. 2019;568:546-550. doi:<a href=\"https://doi.org/10.1038/s41586-019-1087-5\">10.1038/s41586-019-1087-5</a>","mla":"Renkawitz, Jörg, et al. “Nuclear Positioning Facilitates Amoeboid Migration along the Path of Least Resistance.” <i>Nature</i>, vol. 568, Springer Nature, 2019, pp. 546–50, doi:<a href=\"https://doi.org/10.1038/s41586-019-1087-5\">10.1038/s41586-019-1087-5</a>.","chicago":"Renkawitz, Jörg, Aglaja Kopf, Julian A Stopp, Ingrid de Vries, Meghan K. Driscoll, Jack Merrin, Robert Hauschild, et al. “Nuclear Positioning Facilitates Amoeboid Migration along the Path of Least Resistance.” <i>Nature</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1038/s41586-019-1087-5\">https://doi.org/10.1038/s41586-019-1087-5</a>."},"day":"25","month":"04","pmid":1,"oa_version":"Submitted Version","volume":568,"article_processing_charge":"No","title":"Nuclear positioning facilitates amoeboid migration along the path of least resistance","author":[{"orcid":"0000-0003-2856-3369","full_name":"Renkawitz, Jörg","last_name":"Renkawitz","id":"3F0587C8-F248-11E8-B48F-1D18A9856A87","first_name":"Jörg"},{"first_name":"Aglaja","id":"31DAC7B6-F248-11E8-B48F-1D18A9856A87","last_name":"Kopf","full_name":"Kopf, Aglaja","orcid":"0000-0002-2187-6656"},{"last_name":"Stopp","full_name":"Stopp, Julian A","first_name":"Julian A","id":"489E3F00-F248-11E8-B48F-1D18A9856A87"},{"last_name":"de Vries","full_name":"de Vries, Ingrid","first_name":"Ingrid","id":"4C7D837E-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Meghan K.","full_name":"Driscoll, Meghan K.","last_name":"Driscoll"},{"full_name":"Merrin, Jack","last_name":"Merrin","id":"4515C308-F248-11E8-B48F-1D18A9856A87","first_name":"Jack","orcid":"0000-0001-5145-4609"},{"first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","last_name":"Hauschild","full_name":"Hauschild, Robert","orcid":"0000-0001-9843-3522"},{"first_name":"Erik S.","full_name":"Welf, Erik S.","last_name":"Welf"},{"full_name":"Danuser, Gaudenz","last_name":"Danuser","first_name":"Gaudenz"},{"first_name":"Reto","last_name":"Fiolka","full_name":"Fiolka, Reto"},{"last_name":"Sixt","full_name":"Sixt, Michael K","first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6620-9179"}],"_id":"6328","abstract":[{"lang":"eng","text":"During metazoan development, immune surveillance and cancer dissemination, cells migrate in complex three-dimensional microenvironments1,2,3. These spaces are crowded by cells and extracellular matrix, generating mazes with differently sized gaps that are typically smaller than the diameter of the migrating cell4,5. Most mesenchymal and epithelial cells and some—but not all—cancer cells actively generate their migratory path using pericellular tissue proteolysis6. By contrast, amoeboid cells such as leukocytes use non-destructive strategies of locomotion7, raising the question how these extremely fast cells navigate through dense tissues. Here we reveal that leukocytes sample their immediate vicinity for large pore sizes, and are thereby able to choose the path of least resistance. This allows them to circumnavigate local obstacles while effectively following global directional cues such as chemotactic gradients. Pore-size discrimination is facilitated by frontward positioning of the nucleus, which enables the cells to use their bulkiest compartment as a mechanical gauge. Once the nucleus and the closely associated microtubule organizing centre pass the largest pore, cytoplasmic protrusions still lingering in smaller pores are retracted. These retractions are coordinated by dynamic microtubules; when microtubules are disrupted, migrating cells lose coherence and frequently fragment into migratory cytoplasmic pieces. As nuclear positioning in front of the microtubule organizing centre is a typical feature of amoeboid migration, our findings link the fundamental organization of cellular polarity to the strategy of locomotion."}],"doi":"10.1038/s41586-019-1087-5","project":[{"grant_number":"281556","_id":"25A603A2-B435-11E9-9278-68D0E5697425","name":"Cytoskeletal force generation and force transduction of migrating leukocytes (EU)","call_identifier":"FP7"},{"name":"Cellular navigation along spatial gradients","call_identifier":"H2020","_id":"25FE9508-B435-11E9-9278-68D0E5697425","grant_number":"724373"},{"_id":"265FAEBA-B435-11E9-9278-68D0E5697425","grant_number":"W01250-B20","call_identifier":"FWF","name":"Nano-Analytics of Cellular Systems"},{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","_id":"25681D80-B435-11E9-9278-68D0E5697425","grant_number":"291734"},{"_id":"25A48D24-B435-11E9-9278-68D0E5697425","grant_number":"ALTF 1396-2014","name":"Molecular and system level view of immune cell migration"}],"status":"public","publication_status":"published","ec_funded":1},{"status":"public","publication_status":"published","ec_funded":1,"project":[{"grant_number":"281511","_id":"257A4776-B435-11E9-9278-68D0E5697425","call_identifier":"FP7","name":"Memory-related information processing in neuronal circuits of the hippocampus and entorhinal cortex"},{"grant_number":"I03713","_id":"2654F984-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"Interneuro Plasticity During Spatial Learning"}],"abstract":[{"lang":"eng","text":"Hippocampal activity patterns representing movement trajectories are reactivated in immobility and sleep periods, a process associated with memory recall, consolidation, and decision making. It is thought that only fixed, behaviorally relevant patterns can be reactivated, which are stored across hippocampal synaptic connections. To test whether some generalized rules govern reactivation, we examined trajectory reactivation following non-stereotypical exploration of familiar open-field environments. We found that random trajectories of varying lengths and timescales were reactivated, resembling that of Brownian motion of particles. The animals’ behavioral trajectory did not follow Brownian diffusion demonstrating that the exact behavioral experience is not reactivated. Therefore, hippocampal circuits are able to generate random trajectories of any recently active map by following diffusion dynamics. This ability of hippocampal circuits to generate representations of all behavioral outcome combinations, experienced or not, may underlie a wide variety of hippocampal-dependent cognitive functions such as learning, generalization, and planning."}],"doi":"10.1016/j.neuron.2019.01.052","title":"Hippocampal reactivation of random trajectories resembling Brownian diffusion","author":[{"id":"39AF1E74-F248-11E8-B48F-1D18A9856A87","first_name":"Federico","full_name":"Stella, Federico","last_name":"Stella","orcid":"0000-0001-9439-3148"},{"id":"361CC00E-F248-11E8-B48F-1D18A9856A87","first_name":"Peter","full_name":"Baracskay, Peter","last_name":"Baracskay"},{"id":"426376DC-F248-11E8-B48F-1D18A9856A87","first_name":"Joseph","full_name":"O'Neill, Joseph","last_name":"O'Neill"},{"orcid":"0000-0002-5193-4036","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","first_name":"Jozsef L","full_name":"Csicsvari, Jozsef L","last_name":"Csicsvari"}],"_id":"6338","article_processing_charge":"No","volume":102,"oa_version":"Published Version","citation":{"ama":"Stella F, Baracskay P, O’Neill J, Csicsvari JL. Hippocampal reactivation of random trajectories resembling Brownian diffusion. <i>Neuron</i>. 2019;102:450-461. doi:<a href=\"https://doi.org/10.1016/j.neuron.2019.01.052\">10.1016/j.neuron.2019.01.052</a>","short":"F. Stella, P. Baracskay, J. O’Neill, J.L. Csicsvari, Neuron 102 (2019) 450–461.","ista":"Stella F, Baracskay P, O’Neill J, Csicsvari JL. 2019. Hippocampal reactivation of random trajectories resembling Brownian diffusion. Neuron. 102, 450–461.","apa":"Stella, F., Baracskay, P., O’Neill, J., &#38; Csicsvari, J. L. (2019). Hippocampal reactivation of random trajectories resembling Brownian diffusion. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2019.01.052\">https://doi.org/10.1016/j.neuron.2019.01.052</a>","ieee":"F. Stella, P. Baracskay, J. O’Neill, and J. L. Csicsvari, “Hippocampal reactivation of random trajectories resembling Brownian diffusion,” <i>Neuron</i>, vol. 102. Elsevier, pp. 450–461, 2019.","mla":"Stella, Federico, et al. “Hippocampal Reactivation of Random Trajectories Resembling Brownian Diffusion.” <i>Neuron</i>, vol. 102, Elsevier, 2019, pp. 450–61, doi:<a href=\"https://doi.org/10.1016/j.neuron.2019.01.052\">10.1016/j.neuron.2019.01.052</a>.","chicago":"Stella, Federico, Peter Baracskay, Joseph O’Neill, and Jozsef L Csicsvari. “Hippocampal Reactivation of Random Trajectories Resembling Brownian Diffusion.” <i>Neuron</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.neuron.2019.01.052\">https://doi.org/10.1016/j.neuron.2019.01.052</a>."},"day":"17","pmid":1,"month":"04","related_material":{"link":[{"url":"https://ist.ac.at/en/news/memories-of-movement-are-replayed-randomly-during-sleep/","description":"News on IST Homepage","relation":"press_release"}]},"page":"450-461","article_type":"original","publication":"Neuron","date_updated":"2023-08-25T10:13:07Z","year":"2019","oa":1,"isi":1,"type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"publisher":"Elsevier","intvolume":"       102","main_file_link":[{"url":"https://doi.org/10.1016/j.neuron.2019.01.052","open_access":"1"}],"date_published":"2019-04-17T00:00:00Z","external_id":{"pmid":["30819547"],"isi":["000465169700017"]},"date_created":"2019-04-17T08:28:59Z","scopus_import":"1","department":[{"_id":"JoCs"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8"},{"article_processing_charge":"No","volume":58,"month":"10","citation":{"ama":"Schur FK. Toward high-resolution in situ structural biology with cryo-electron tomography and subtomogram averaging. <i>Current Opinion in Structural Biology</i>. 2019;58(10):1-9. doi:<a href=\"https://doi.org/10.1016/j.sbi.2019.03.018\">10.1016/j.sbi.2019.03.018</a>","short":"F.K. Schur, Current Opinion in Structural Biology 58 (2019) 1–9.","ista":"Schur FK. 2019. Toward high-resolution in situ structural biology with cryo-electron tomography and subtomogram averaging. Current Opinion in Structural Biology. 58(10), 1–9.","ieee":"F. K. Schur, “Toward high-resolution in situ structural biology with cryo-electron tomography and subtomogram averaging,” <i>Current Opinion in Structural Biology</i>, vol. 58, no. 10. Elsevier, pp. 1–9, 2019.","apa":"Schur, F. K. (2019). Toward high-resolution in situ structural biology with cryo-electron tomography and subtomogram averaging. <i>Current Opinion in Structural Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.sbi.2019.03.018\">https://doi.org/10.1016/j.sbi.2019.03.018</a>","chicago":"Schur, Florian KM. “Toward High-Resolution in Situ Structural Biology with Cryo-Electron Tomography and Subtomogram Averaging.” <i>Current Opinion in Structural Biology</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.sbi.2019.03.018\">https://doi.org/10.1016/j.sbi.2019.03.018</a>.","mla":"Schur, Florian KM. “Toward High-Resolution in Situ Structural Biology with Cryo-Electron Tomography and Subtomogram Averaging.” <i>Current Opinion in Structural Biology</i>, vol. 58, no. 10, Elsevier, 2019, pp. 1–9, doi:<a href=\"https://doi.org/10.1016/j.sbi.2019.03.018\">10.1016/j.sbi.2019.03.018</a>."},"day":"01","oa_version":"None","publication_identifier":{"issn":["0959-440X"]},"publication_status":"published","acknowledgement":"The author acknowledges support from IST Austria and the Austrian Science Fund (FWF).","status":"public","_id":"6343","title":"Toward high-resolution in situ structural biology with cryo-electron tomography and subtomogram averaging","author":[{"last_name":"Schur","full_name":"Schur, Florian KM","first_name":"Florian KM","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-4790-8078"}],"doi":"10.1016/j.sbi.2019.03.018","abstract":[{"text":"Cryo-electron tomography (cryo-ET) provides unprecedented insights into the molecular constituents of biological environments. In combination with an image processing method called subtomogram averaging (STA), detailed 3D structures of biological molecules can be obtained in large, irregular macromolecular assemblies or in situ, without the need for purification. The contextual meta-information these methods also provide, such as a protein’s location within its native environment, can then be combined with functional data. This allows the derivation of a detailed view on the physiological or pathological roles of proteins from the molecular to cellular level. Despite their tremendous potential in in situ structural biology, cryo-ET and STA have been restricted by methodological limitations, such as the low obtainable resolution. Exciting progress now allows one to reach unprecedented resolutions in situ, ranging in optimal cases beyond the nanometer barrier. Here, I review current frontiers and future challenges in routinely determining high-resolution structures in in situ environments using cryo-ET and STA.","lang":"eng"}],"issue":"10","publisher":"Elsevier","intvolume":"        58","type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"FlSc"}],"date_created":"2019-04-19T11:19:13Z","scopus_import":"1","date_published":"2019-10-01T00:00:00Z","external_id":{"isi":["000494891800004"]},"date_updated":"2023-08-25T10:13:31Z","publication":"Current Opinion in Structural Biology","page":"1-9","article_type":"original","year":"2019"},{"date_updated":"2023-08-25T10:15:25Z","publication":"Nature","page":"378-381","related_material":{"link":[{"url":"https://doi.org/10.1038/s41586-019-1220-5","relation":"erratum"}]},"oa":1,"year":"2019","intvolume":"       568","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1808.10608"}],"publisher":"Springer Nature","quality_controlled":"1","language":[{"iso":"eng"}],"type":"journal_article","isi":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"JoFi"}],"scopus_import":"1","date_created":"2019-04-28T21:59:13Z","date_published":"2019-04-18T00:00:00Z","external_id":{"isi":["000464950700053"],"arxiv":["1808.10608"]},"publication_identifier":{"eissn":["14764687"],"issn":["00280836"]},"status":"public","publication_status":"published","_id":"6348","author":[{"orcid":"0000-0001-6249-5860","first_name":"Alfredo R","id":"3B82B0F8-F248-11E8-B48F-1D18A9856A87","last_name":"Rueda Sanchez","full_name":"Rueda Sanchez, Alfredo R"},{"full_name":"Sedlmeir, Florian","last_name":"Sedlmeir","first_name":"Florian"},{"first_name":"Madhuri","full_name":"Kumari, Madhuri","last_name":"Kumari"},{"first_name":"Gerd","last_name":"Leuchs","full_name":"Leuchs, Gerd"},{"first_name":"Harald G.L.","full_name":"Schwefel, Harald G.L.","last_name":"Schwefel"}],"title":"Resonant electro-optic frequency comb","doi":"10.1038/s41586-019-1110-x","issue":"7752","abstract":[{"lang":"eng","text":"High-speed optical telecommunication is enabled by wavelength-division multiplexing, whereby hundreds of individually stabilized lasers encode information within a single-mode optical fibre. Higher bandwidths require higher total optical power, but the power sent into the fibre is limited by optical nonlinearities within the fibre, and energy consumption by the light sources starts to become a substantial cost factor1. Optical frequency combs have been suggested to remedy this problem by generating numerous discrete, equidistant laser lines within a monolithic device; however, at present their stability and coherence allow them to operate only within small parameter ranges2,3,4. Here we show that a broadband frequency comb realized through the electro-optic effect within a high-quality whispering-gallery-mode resonator can operate at low microwave and optical powers. Unlike the usual third-order Kerr nonlinear optical frequency combs, our combs rely on the second-order nonlinear effect, which is much more efficient. Our result uses a fixed microwave signal that is mixed with an optical-pump signal to generate a coherent frequency comb with a precisely determined carrier separation. The resonant enhancement enables us to work with microwave powers that are three orders of magnitude lower than those in commercially available devices. We emphasize the practical relevance of our results to high rates of data communication. To circumvent the limitations imposed by nonlinear effects in optical communication fibres, one has to solve two problems: to provide a compact and fully integrated, yet high-quality and coherent, frequency comb generator; and to calculate nonlinear signal propagation in real time5. We report a solution to the first problem."}],"arxiv":1,"volume":568,"article_processing_charge":"No","month":"04","day":"18","citation":{"ieee":"A. R. Rueda Sanchez, F. Sedlmeir, M. Kumari, G. Leuchs, and H. G. L. Schwefel, “Resonant electro-optic frequency comb,” <i>Nature</i>, vol. 568, no. 7752. Springer Nature, pp. 378–381, 2019.","apa":"Rueda Sanchez, A. R., Sedlmeir, F., Kumari, M., Leuchs, G., &#38; Schwefel, H. G. L. (2019). Resonant electro-optic frequency comb. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-019-1110-x\">https://doi.org/10.1038/s41586-019-1110-x</a>","ama":"Rueda Sanchez AR, Sedlmeir F, Kumari M, Leuchs G, Schwefel HGL. Resonant electro-optic frequency comb. <i>Nature</i>. 2019;568(7752):378-381. doi:<a href=\"https://doi.org/10.1038/s41586-019-1110-x\">10.1038/s41586-019-1110-x</a>","short":"A.R. Rueda Sanchez, F. Sedlmeir, M. Kumari, G. Leuchs, H.G.L. Schwefel, Nature 568 (2019) 378–381.","ista":"Rueda Sanchez AR, Sedlmeir F, Kumari M, Leuchs G, Schwefel HGL. 2019. Resonant electro-optic frequency comb. Nature. 568(7752), 378–381.","mla":"Rueda Sanchez, Alfredo R., et al. “Resonant Electro-Optic Frequency Comb.” <i>Nature</i>, vol. 568, no. 7752, Springer Nature, 2019, pp. 378–81, doi:<a href=\"https://doi.org/10.1038/s41586-019-1110-x\">10.1038/s41586-019-1110-x</a>.","chicago":"Rueda Sanchez, Alfredo R, Florian Sedlmeir, Madhuri Kumari, Gerd Leuchs, and Harald G.L. Schwefel. “Resonant Electro-Optic Frequency Comb.” <i>Nature</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1038/s41586-019-1110-x\">https://doi.org/10.1038/s41586-019-1110-x</a>."},"oa_version":"Preprint"},{"volume":177,"article_processing_charge":"No","has_accepted_license":"1","file":[{"file_id":"6411","date_created":"2019-05-13T06:12:45Z","access_level":"open_access","checksum":"4ceba04a96a74f5092ec3ce2c579a0c7","content_type":"application/pdf","date_updated":"2020-07-14T12:47:28Z","file_name":"2019_Cell_Marhava.pdf","creator":"dernst","relation":"main_file","file_size":10272032}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","file_date_updated":"2020-07-14T12:47:28Z","ddc":["570"],"month":"05","pmid":1,"day":"02","citation":{"chicago":"Marhavá, Petra, Lukas Hörmayer, Saiko Yoshida, Peter Marhavý, Eva Benková, and Jiří Friml. “Re-Activation of Stem Cell Pathways for Pattern Restoration in Plant Wound Healing.” <i>Cell</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.cell.2019.04.015\">https://doi.org/10.1016/j.cell.2019.04.015</a>.","mla":"Marhavá, Petra, et al. “Re-Activation of Stem Cell Pathways for Pattern Restoration in Plant Wound Healing.” <i>Cell</i>, vol. 177, no. 4, Elsevier, 2019, p. 957–969.e13, doi:<a href=\"https://doi.org/10.1016/j.cell.2019.04.015\">10.1016/j.cell.2019.04.015</a>.","ama":"Marhavá P, Hörmayer L, Yoshida S, Marhavý P, Benková E, Friml J. Re-activation of stem cell pathways for pattern restoration in plant wound healing. <i>Cell</i>. 2019;177(4):957-969.e13. doi:<a href=\"https://doi.org/10.1016/j.cell.2019.04.015\">10.1016/j.cell.2019.04.015</a>","ista":"Marhavá P, Hörmayer L, Yoshida S, Marhavý P, Benková E, Friml J. 2019. Re-activation of stem cell pathways for pattern restoration in plant wound healing. Cell. 177(4), 957–969.e13.","short":"P. Marhavá, L. Hörmayer, S. Yoshida, P. Marhavý, E. Benková, J. Friml, Cell 177 (2019) 957–969.e13.","apa":"Marhavá, P., Hörmayer, L., Yoshida, S., Marhavý, P., Benková, E., &#38; Friml, J. (2019). Re-activation of stem cell pathways for pattern restoration in plant wound healing. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2019.04.015\">https://doi.org/10.1016/j.cell.2019.04.015</a>","ieee":"P. Marhavá, L. Hörmayer, S. Yoshida, P. Marhavý, E. Benková, and J. Friml, “Re-activation of stem cell pathways for pattern restoration in plant wound healing,” <i>Cell</i>, vol. 177, no. 4. Elsevier, p. 957–969.e13, 2019."},"ec_funded":1,"publication_status":"published","status":"public","project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}],"publication_identifier":{"eissn":["10974172"],"issn":["00928674"]},"doi":"10.1016/j.cell.2019.04.015","issue":"4","abstract":[{"lang":"eng","text":"A process of restorative patterning in plant roots correctly replaces eliminated cells to heal local injuries despite the absence of cell migration, which underpins wound healing in animals. \r\n\r\nPatterning in plants relies on oriented cell divisions and acquisition of specific cell identities. Plants regularly endure wounds caused by abiotic or biotic environmental stimuli and have developed extraordinary abilities to restore their tissues after injuries. Here, we provide insight into a mechanism of restorative patterning that repairs tissues after wounding. Laser-assisted elimination of different cells in Arabidopsis root combined with live-imaging tracking during vertical growth allowed analysis of the regeneration processes in vivo. Specifically, the cells adjacent to the inner side of the injury re-activated their stem cell transcriptional programs. They accelerated their progression through cell cycle, coordinately changed the cell division orientation, and ultimately acquired de novo the correct cell fates to replace missing cells. These observations highlight existence of unknown intercellular positional signaling and demonstrate the capability of specified cells to re-acquire stem cell programs as a crucial part of the plant-specific mechanism of wound healing."}],"_id":"6351","author":[{"last_name":"Marhavá","full_name":"Marhavá, Petra","first_name":"Petra","id":"44E59624-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0001-8295-2926","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","first_name":"Lukas","full_name":"Hörmayer, Lukas","last_name":"Hörmayer"},{"last_name":"Yoshida","full_name":"Yoshida, Saiko","first_name":"Saiko","id":"2E46069C-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0001-5227-5741","last_name":"Marhavy","full_name":"Marhavy, Peter","first_name":"Peter","id":"3F45B078-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-8510-9739","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","first_name":"Eva","full_name":"Benková, Eva","last_name":"Benková"},{"full_name":"Friml, Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","orcid":"0000-0002-8302-7596"}],"title":"Re-activation of stem cell pathways for pattern restoration in plant wound healing","language":[{"iso":"eng"}],"type":"journal_article","quality_controlled":"1","isi":1,"intvolume":"       177","publisher":"Elsevier","scopus_import":"1","acknowledged_ssus":[{"_id":"Bio"}],"date_created":"2019-04-28T21:59:14Z","external_id":{"isi":["000466843000015"],"pmid":["31051107"]},"date_published":"2019-05-02T00:00:00Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"page":"957-969.e13","related_material":{"link":[{"description":"News on IST Homepage","url":"https://ist.ac.at/en/news/specialized-plant-cells-regain-stem-cell-features-to-heal-wounds/","relation":"press_release"}],"record":[{"id":"9992","status":"public","relation":"dissertation_contains"}]},"date_updated":"2024-03-25T23:30:06Z","publication":"Cell","year":"2019","oa":1},{"has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","file":[{"file_name":"2019_MolecularBioReport_Temnov.pdf","file_size":1948014,"creator":"dernst","relation":"main_file","date_updated":"2020-07-14T12:47:28Z","access_level":"open_access","content_type":"application/pdf","checksum":"45bf040bbce1cea274f6013fa18ba21b","file_id":"6362","date_created":"2019-04-30T09:52:36Z"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","day":"12","citation":{"apa":"Temnov, A. A., Rogov, K. A., Sklifas, A. N., Klychnikova, E. V., Hartl, M., Djinovic-Carugo, K., &#38; Charnagalov, A. (2019). Protective properties of the cultured stem cell proteome studied in an animal model of acetaminophen-induced acute liver failure. <i>Molecular Biology Reports</i>. Springer. <a href=\"https://doi.org/10.1007/s11033-019-04765-z\">https://doi.org/10.1007/s11033-019-04765-z</a>","ieee":"A. A. Temnov <i>et al.</i>, “Protective properties of the cultured stem cell proteome studied in an animal model of acetaminophen-induced acute liver failure,” <i>Molecular Biology Reports</i>. Springer, 2019.","short":"A.A. Temnov, K.A. Rogov, A.N. Sklifas, E.V. Klychnikova, M. Hartl, K. Djinovic-Carugo, A. Charnagalov, Molecular Biology Reports (2019).","ama":"Temnov AA, Rogov KA, Sklifas AN, et al. Protective properties of the cultured stem cell proteome studied in an animal model of acetaminophen-induced acute liver failure. <i>Molecular Biology Reports</i>. 2019. doi:<a href=\"https://doi.org/10.1007/s11033-019-04765-z\">10.1007/s11033-019-04765-z</a>","ista":"Temnov AA, Rogov KA, Sklifas AN, Klychnikova EV, Hartl M, Djinovic-Carugo K, Charnagalov A. 2019. Protective properties of the cultured stem cell proteome studied in an animal model of acetaminophen-induced acute liver failure. Molecular Biology Reports.","chicago":"Temnov, Andrey Alexandrovich, Konstantin Arkadevich Rogov, Alla Nikolaevna Sklifas, Elena Valerievna Klychnikova, Markus Hartl, Kristina Djinovic-Carugo, and Alexej Charnagalov. “Protective Properties of the Cultured Stem Cell Proteome Studied in an Animal Model of Acetaminophen-Induced Acute Liver Failure.” <i>Molecular Biology Reports</i>. Springer, 2019. <a href=\"https://doi.org/10.1007/s11033-019-04765-z\">https://doi.org/10.1007/s11033-019-04765-z</a>.","mla":"Temnov, Andrey Alexandrovich, et al. “Protective Properties of the Cultured Stem Cell Proteome Studied in an Animal Model of Acetaminophen-Induced Acute Liver Failure.” <i>Molecular Biology Reports</i>, Springer, 2019, doi:<a href=\"https://doi.org/10.1007/s11033-019-04765-z\">10.1007/s11033-019-04765-z</a>."},"month":"04","file_date_updated":"2020-07-14T12:47:28Z","ddc":["570"],"status":"public","acknowledgement":"The studies were supported by the Austrian Federal Ministry of Economy, Family and Youth through the initiative “Laura Bassi Centres of Expertise” funding the Center of Optimized Structural Stud-ies, grant No. 253275","publication_status":"published","publication_identifier":{"issn":["03014851"],"eissn":["15734978"]},"abstract":[{"text":"Chronic overuse of common pharmaceuticals, e.g. acetaminophen (paracetamol), often leads to the development of acute liver failure (ALF). This study aimed to elucidate the effect of cultured mesenchymal stem cells (MSCs) proteome on the onset of liver damage and regeneration dynamics in animals with ALF induced by acetaminophen, to test the liver protective efficacy of MSCs proteome depending on the oxygen tension in cell culture, and to blueprint protein components responsible for the effect. Protein compositions prepared from MSCs cultured in mild hypoxic (5% and 10%  O2) and normal (21%  O2) conditions were used to treat ALF induced in mice by injection of acetaminophen. To test the effect of reduced oxygen tension in cell culture on resulting MSCs proteome content we applied a combination of high performance liquid chromatography and mass-spectrometry (LC–MS/MS) for the identification of proteins in lysates of MSCs cultured at different  O2 levels. The treatment of acetaminophen-administered animals with proteins released from cultured MSCs resulted in the inhibition of inflammatory reactions in damaged liver; the area of hepatocyte necrosis being reduced in the first 24 h. Compositions obtained from MSCs cultured at lower O2 level were shown to be more potent than a composition prepared from normoxic cells. A comparative characterization of protein pattern and identification of individual components done by a cytokine assay and proteomics analysis of protein compositions revealed that even moderate hypoxia produces discrete changes in the expression of various subsets of proteins responsible for intracellular respiration and cell signaling. The application of proteins prepared from MSCs grown in vitro at reduced oxygen tension significantly accelerates healing process in damaged liver tissue. The proteomics data obtained for different preparations offer new information about the potential candidates in the MSCs protein repertoire sensitive to oxygen tension in culture medium, which can be involved in the generalized mechanisms the cells use to respond to acute liver failure.","lang":"eng"}],"doi":"10.1007/s11033-019-04765-z","author":[{"last_name":"Temnov","full_name":"Temnov, Andrey Alexandrovich","first_name":"Andrey Alexandrovich"},{"full_name":"Rogov, Konstantin Arkadevich","last_name":"Rogov","first_name":"Konstantin Arkadevich"},{"first_name":"Alla Nikolaevna","last_name":"Sklifas","full_name":"Sklifas, Alla Nikolaevna"},{"last_name":"Klychnikova","full_name":"Klychnikova, Elena Valerievna","first_name":"Elena Valerievna"},{"last_name":"Hartl","full_name":"Hartl, Markus","first_name":"Markus"},{"first_name":"Kristina","last_name":"Djinovic-Carugo","full_name":"Djinovic-Carugo, Kristina"},{"first_name":"Alexej","id":"49F06DBA-F248-11E8-B48F-1D18A9856A87","last_name":"Charnagalov","full_name":"Charnagalov, Alexej"}],"title":"Protective properties of the cultured stem cell proteome studied in an animal model of acetaminophen-induced acute liver failure","_id":"6352","isi":1,"type":"journal_article","quality_controlled":"1","language":[{"iso":"eng"}],"publisher":"Springer","external_id":{"isi":["000470332600049"]},"date_published":"2019-04-12T00:00:00Z","scopus_import":"1","date_created":"2019-04-28T21:59:14Z","department":[{"_id":"LeSa"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication":"Molecular Biology Reports","date_updated":"2023-08-25T10:14:26Z","year":"2019","oa":1}]