[{"day":"12","date_updated":"2026-08-12T09:57:36Z","abstract":[{"lang":"eng","text":"The apical hook is a transiently formed structure that plays a protective role when the germinating seedling penetrates through the soil towards the surface. Crucial for proper bending is the local auxin maxima, which defines the concave (inner) side of the hook curvature. As no sign of asymmetric auxin distribution has been reported in embryonic hypocotyls prior to hook formation, the question of how auxin asymmetry is established in the early phases of seedling germination remains largely unanswered. Here, we analyzed the auxin distribution and expression of PIN auxin efflux carriers from early phases of germination, and show that bending of the root in response to gravity is the crucial initial cue that governs the hypocotyl bending required for apical hook formation. Importantly, polar auxin transport machinery is established gradually after germination starts as a result of tight root-hypocotyl interaction and a proper balance between abscisic acid and gibberellins."}],"fulldoi":"https://doi.org/10.1242/dev.175919","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"month":"09","department":[{"_id":"EvBe"}],"status":"public","article_processing_charge":"No","type":"journal_article","volume":146,"date_created":"2019-09-22T22:00:36Z","date_published":"2019-09-12T00:00:00Z","title":"Root gravity response module guides differential growth determining both root bending and apical hook formation in Arabidopsis","publication_identifier":{"eissn":["1477-9129"]},"main_file_link":[{"url":"https://doi.org/10.1242/dev.175919","open_access":"1"}],"oa_version":"Published Version","acknowledgement":"We thank Jiri Friml and Phillip Brewer for inspiring discussion and for help in preparing the manuscript. This research was supported by the Scientific Service Units (SSU) of IST-Austria through resources provided by the Bioimaging Facility\r\n(BIF), the Life Science Facility (LSF).\r\nThis work was supported by grants from the European Research Council (Starting Independent Research Grant ERC-2007-Stg- 207362-HCPO to E.B.). J.P. and M.S. received funds from European Regional Development Fund-Project ‘Centre for Experimental Plant Biology’ (No. CZ.02.1.01/0.0/0.0/16_019/0000738).","_id":"6897","external_id":{"pmid":["31391194"],"isi":["000486297400011"]},"publication":"Development","author":[{"id":"40A4B9E6-F248-11E8-B48F-1D18A9856A87","full_name":"Zhu, Qiang","last_name":"Zhu","first_name":"Qiang"},{"id":"460C6802-F248-11E8-B48F-1D18A9856A87","full_name":"Gallemi, Marçal","first_name":"Marçal","last_name":"Gallemi","orcid":"0000-0003-4675-6893"},{"last_name":"Pospíšil","first_name":"Jiří","full_name":"Pospíšil, Jiří"},{"first_name":"Petra","full_name":"Žádníková, Petra","last_name":"Žádníková"},{"full_name":"Strnad, Miroslav","first_name":"Miroslav","last_name":"Strnad"},{"first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","last_name":"Benková","full_name":"Benková, Eva","orcid":"0000-0002-8510-9739"}],"scopus_import":"1","publication_status":"published","citation":{"short":"Q. Zhu, M. Gallemi, J. Pospíšil, P. Žádníková, M. Strnad, E. Benková, Development 146 (2019).","ama":"Zhu Q, Gallemi M, Pospíšil J, Žádníková P, Strnad M, Benková E. Root gravity response module guides differential growth determining both root bending and apical hook formation in Arabidopsis. <i>Development</i>. 2019;146(17). doi:<a href=\"https://doi.org/10.1242/dev.175919\">10.1242/dev.175919</a>","ista":"Zhu Q, Gallemi M, Pospíšil J, Žádníková P, Strnad M, Benková E. 2019. Root gravity response module guides differential growth determining both root bending and apical hook formation in Arabidopsis. Development. 146(17), dev175919.","ieee":"Q. Zhu, M. Gallemi, J. Pospíšil, P. Žádníková, M. Strnad, and E. Benková, “Root gravity response module guides differential growth determining both root bending and apical hook formation in Arabidopsis,” <i>Development</i>, vol. 146, no. 17. Company of Biologists, 2019.","apa":"Zhu, Q., Gallemi, M., Pospíšil, J., Žádníková, P., Strnad, M., &#38; Benková, E. (2019). Root gravity response module guides differential growth determining both root bending and apical hook formation in Arabidopsis. <i>Development</i>. Company of Biologists. <a href=\"https://doi.org/10.1242/dev.175919\">https://doi.org/10.1242/dev.175919</a>","chicago":"Zhu, Qiang, Marçal Gallemi, Jiří Pospíšil, Petra Žádníková, Miroslav Strnad, and Eva Benková. “Root Gravity Response Module Guides Differential Growth Determining Both Root Bending and Apical Hook Formation in Arabidopsis.” <i>Development</i>. Company of Biologists, 2019. <a href=\"https://doi.org/10.1242/dev.175919\">https://doi.org/10.1242/dev.175919</a>.","mla":"Zhu, Qiang, et al. “Root Gravity Response Module Guides Differential Growth Determining Both Root Bending and Apical Hook Formation in Arabidopsis.” <i>Development</i>, vol. 146, no. 17, dev175919, Company of Biologists, 2019, doi:<a href=\"https://doi.org/10.1242/dev.175919\">10.1242/dev.175919</a>."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["580"],"quality_controlled":"1","doi":"10.1242/dev.175919","year":"2019","ec_funded":1,"intvolume":"       146","issue":"17","publisher":"Company of Biologists","project":[{"grant_number":"207362","_id":"253FCA6A-B435-11E9-9278-68D0E5697425","name":"Hormonal cross-talk in plant organogenesis","call_identifier":"FP7"}],"oa":1,"isi":1,"article_type":"original","article_number":"dev175919","pmid":1},{"volume":146,"date_created":"2020-01-29T16:27:10Z","article_processing_charge":"No","type":"journal_article","month":"04","language":[{"iso":"eng"}],"department":[{"_id":"MiSi"}],"status":"public","date_updated":"2026-08-12T09:57:15Z","day":"04","fulldoi":"https://doi.org/10.1242/dev.171397","abstract":[{"text":"The formation of neuronal dendrite branches is fundamental for the wiring and function of the nervous system. Indeed, dendrite branching enhances the coverage of the neuron's receptive field and modulates the initial processing of incoming stimuli. Complex dendrite patterns are achieved in vivo through a dynamic process of de novo branch formation, branch extension and retraction. The first step towards branch formation is the generation of a dynamic filopodium-like branchlet. The mechanisms underlying the initiation of dendrite branchlets are therefore crucial to the shaping of dendrites. Through in vivo time-lapse imaging of the subcellular localization of actin during the process of branching of Drosophila larva sensory neurons, combined with genetic analysis and electron tomography, we have identified the Actin-related protein (Arp) 2/3 complex as the major actin nucleator involved in the initiation of dendrite branchlet formation, under the control of the activator WAVE and of the small GTPase Rac1. Transient recruitment of an Arp2/3 component marks the site of branchlet initiation in vivo. These data position the activation of Arp2/3 as an early hub for the initiation of branchlet formation.","lang":"eng"}],"scopus_import":"1","author":[{"full_name":"Stürner, Tomke","last_name":"Stürner","first_name":"Tomke"},{"last_name":"Tatarnikova","first_name":"Anastasia","full_name":"Tatarnikova, Anastasia"},{"first_name":"Jan","full_name":"Müller, Jan","id":"AD07FDB4-0F61-11EA-8158-C4CC64CEAA8D","last_name":"Müller"},{"full_name":"Schaffran, Barbara","first_name":"Barbara","last_name":"Schaffran"},{"full_name":"Cuntz, Hermann","last_name":"Cuntz","first_name":"Hermann"},{"first_name":"Yun","full_name":"Zhang, Yun","last_name":"Zhang"},{"last_name":"Nemethova","first_name":"Maria","full_name":"Nemethova, Maria","id":"34E27F1C-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Sven","full_name":"Bogdan, Sven","last_name":"Bogdan"},{"last_name":"Small","full_name":"Small, Vic","first_name":"Vic"},{"first_name":"Gaia","full_name":"Tavosanis, Gaia","last_name":"Tavosanis"}],"publication":"Development","external_id":{"pmid":["30910826"],"isi":["000464583200006"]},"oa_version":"Published Version","main_file_link":[{"url":"https://doi.org/10.1242/dev.171397","open_access":"1"}],"_id":"7404","publication_identifier":{"issn":["0950-1991"],"eissn":["1477-9129"]},"title":"Transient localization of the Arp2/3 complex initiates neuronal dendrite branching in vivo","date_published":"2019-04-04T00:00:00Z","doi":"10.1242/dev.171397","year":"2019","quality_controlled":"1","ddc":["570"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"short":"T. Stürner, A. Tatarnikova, J. Müller, B. Schaffran, H. Cuntz, Y. Zhang, M. Nemethova, S. Bogdan, V. Small, G. Tavosanis, Development 146 (2019).","ama":"Stürner T, Tatarnikova A, Müller J, et al. Transient localization of the Arp2/3 complex initiates neuronal dendrite branching in vivo. <i>Development</i>. 2019;146(7). doi:<a href=\"https://doi.org/10.1242/dev.171397\">10.1242/dev.171397</a>","chicago":"Stürner, Tomke, Anastasia Tatarnikova, Jan Müller, Barbara Schaffran, Hermann Cuntz, Yun Zhang, Maria Nemethova, Sven Bogdan, Vic Small, and Gaia Tavosanis. “Transient Localization of the Arp2/3 Complex Initiates Neuronal Dendrite Branching in Vivo.” <i>Development</i>. Company of Biologists, 2019. <a href=\"https://doi.org/10.1242/dev.171397\">https://doi.org/10.1242/dev.171397</a>.","mla":"Stürner, Tomke, et al. “Transient Localization of the Arp2/3 Complex Initiates Neuronal Dendrite Branching in Vivo.” <i>Development</i>, vol. 146, no. 7, dev171397, Company of Biologists, 2019, doi:<a href=\"https://doi.org/10.1242/dev.171397\">10.1242/dev.171397</a>.","ista":"Stürner T, Tatarnikova A, Müller J, Schaffran B, Cuntz H, Zhang Y, Nemethova M, Bogdan S, Small V, Tavosanis G. 2019. Transient localization of the Arp2/3 complex initiates neuronal dendrite branching in vivo. Development. 146(7), dev171397.","apa":"Stürner, T., Tatarnikova, A., Müller, J., Schaffran, B., Cuntz, H., Zhang, Y., … Tavosanis, G. (2019). Transient localization of the Arp2/3 complex initiates neuronal dendrite branching in vivo. <i>Development</i>. Company of Biologists. <a href=\"https://doi.org/10.1242/dev.171397\">https://doi.org/10.1242/dev.171397</a>","ieee":"T. Stürner <i>et al.</i>, “Transient localization of the Arp2/3 complex initiates neuronal dendrite branching in vivo,” <i>Development</i>, vol. 146, no. 7. Company of Biologists, 2019."},"publication_status":"published","article_number":"dev171397","article_type":"original","pmid":1,"oa":1,"isi":1,"publisher":"Company of Biologists","issue":"7","intvolume":"       146"},{"citation":{"short":"F. Laccone, L. Malomo, J. Perez Rodriguez, N. Pietroni, F. Ponchio, B. Bickel, P. Cignoni, in:, 60th Anniversary Symposium of the International Association for Shell and Spatial Structures, International Center for Numerical Methods in Engineering, 2019, pp. 509–515.","ama":"Laccone F, Malomo L, Perez Rodriguez J, et al. FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels. In: <i>60th Anniversary Symposium of the International Association for Shell and Spatial Structures</i>. International Center for Numerical Methods in Engineering; 2019:509-515.","mla":"Laccone, Francesco, et al. “FlexMaps Pavilion: A Twisted Arc Made of Mesostructured Flat Flexible Panels.” <i>60th Anniversary Symposium of the International Association for Shell and Spatial Structures</i>, International Center for Numerical Methods in Engineering, 2019, pp. 509–15.","chicago":"Laccone, Francesco, Luigi Malomo, Jesus Perez Rodriguez, Nico Pietroni, Federico Ponchio, Bernd Bickel, and Paolo Cignoni. “FlexMaps Pavilion: A Twisted Arc Made of Mesostructured Flat Flexible Panels.” In <i>60th Anniversary Symposium of the International Association for Shell and Spatial Structures</i>, 509–15. International Center for Numerical Methods in Engineering, 2019.","apa":"Laccone, F., Malomo, L., Perez Rodriguez, J., Pietroni, N., Ponchio, F., Bickel, B., &#38; Cignoni, P. (2019). FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels. In <i>60th Anniversary Symposium of the International Association for Shell and Spatial Structures</i> (pp. 509–515). Barcelona, Spain: International Center for Numerical Methods in Engineering.","ieee":"F. Laccone <i>et al.</i>, “FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels,” in <i>60th Anniversary Symposium of the International Association for Shell and Spatial Structures</i>, Barcelona, Spain, 2019, pp. 509–515.","ista":"Laccone F, Malomo L, Perez Rodriguez J, Pietroni N, Ponchio F, Bickel B, Cignoni P. 2019. FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels. 60th Anniversary Symposium of the International Association for Shell and Spatial Structures. IASS: International Association for Shell and Spatial Structures, 509–515."},"publication_status":"published","abstract":[{"text":"Bending-active structures are able to efficiently produce complex curved shapes starting from flat panels. The desired deformation of the panels derives from the proper selection of their elastic properties. Optimized panels, called FlexMaps, are designed such that, once they are bent and assembled, the resulting static equilibrium configuration matches a desired input 3D shape. The FlexMaps elastic properties are controlled by locally varying spiraling geometric mesostructures, which are optimized in size and shape to match the global curvature (i.e., bending requests) of the target shape. The design pipeline starts from a quad mesh representing the input 3D shape, which defines the edge size and the total amount of spirals: every quad will embed one spiral. Then, an optimization algorithm tunes the geometry of the spirals by using a simplified pre-computed rod model. This rod model is derived from a non-linear regression algorithm which approximates the non-linear behavior of solid FEM spiral models subject to hundreds of load combinations. This innovative pipeline has been applied to the project of a lightweight plywood pavilion named FlexMaps Pavilion, which is a single-layer piecewise twisted arc that fits a bounding box of 3.90x3.96x3.25 meters.","lang":"eng"}],"date_updated":"2026-08-12T11:11:20Z","day":"10","status":"public","department":[{"_id":"BeBi"}],"month":"10","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"quality_controlled":"1","article_processing_charge":"No","type":"conference","page":"509-515","year":"2019","date_created":"2021-03-21T23:01:21Z","date_published":"2019-10-10T00:00:00Z","publication_identifier":{"isbn":["9788412110104"],"issn":["2518-6582"]},"publisher":"International Center for Numerical Methods in Engineering","title":"FlexMaps Pavilion: A twisted arc made of mesostructured flat flexible panels","_id":"9261","isi":1,"conference":{"location":"Barcelona, Spain","name":"IASS: International Association for Shell and Spatial Structures","end_date":"2019-10-10","start_date":"2019-10-07"},"oa_version":"None","author":[{"full_name":"Laccone, Francesco","first_name":"Francesco","last_name":"Laccone"},{"last_name":"Malomo","first_name":"Luigi","full_name":"Malomo, Luigi"},{"full_name":"Perez Rodriguez, Jesus","first_name":"Jesus","last_name":"Perez Rodriguez","id":"2DC83906-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Pietroni, Nico","first_name":"Nico","last_name":"Pietroni"},{"last_name":"Ponchio","full_name":"Ponchio, Federico","first_name":"Federico"},{"full_name":"Bickel, Bernd","first_name":"Bernd","last_name":"Bickel","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385"},{"last_name":"Cignoni","full_name":"Cignoni, Paolo","first_name":"Paolo"}],"scopus_import":"1","publication":"60th Anniversary Symposium of the International Association for Shell and Spatial Structures","external_id":{"isi":["000563497600059"]}},{"type":"journal_article","article_processing_charge":"No","date_created":"2026-07-27T12:30:25Z","year":"2019","doi":"10.1093/obo/9780199363445-0120","date_updated":"2026-08-20T06:50:13Z","day":"28","fulldoi":"https://doi.org/10.1093/obo/9780199363445-0120","citation":{"ieee":"V. Ivanov, S. Fatichi, and E. Daly, “Ecohydrology,” <i>Oxford Bibliographies in Environmental Science</i>. Oxford University Press, 2019.","apa":"Ivanov, V., Fatichi, S., &#38; Daly, E. (2019). Ecohydrology. <i>Oxford Bibliographies in Environmental Science</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/obo/9780199363445-0120\">https://doi.org/10.1093/obo/9780199363445-0120</a>","ista":"Ivanov V, Fatichi S, Daly E. 2019. Ecohydrology. Oxford Bibliographies in Environmental Science.","mla":"Ivanov, Valeriy, et al. “Ecohydrology.” <i>Oxford Bibliographies in Environmental Science</i>, Oxford University Press, 2019, doi:<a href=\"https://doi.org/10.1093/obo/9780199363445-0120\">10.1093/obo/9780199363445-0120</a>.","chicago":"Ivanov, Valeriy, Simone Fatichi, and Edoardo Daly. “Ecohydrology.” <i>Oxford Bibliographies in Environmental Science</i>. Oxford University Press, 2019. <a href=\"https://doi.org/10.1093/obo/9780199363445-0120\">https://doi.org/10.1093/obo/9780199363445-0120</a>.","ama":"Ivanov V, Fatichi S, Daly E. Ecohydrology. <i>Oxford Bibliographies in Environmental Science</i>. 2019. doi:<a href=\"https://doi.org/10.1093/obo/9780199363445-0120\">10.1093/obo/9780199363445-0120</a>","short":"V. Ivanov, S. Fatichi, E. Daly, Oxford Bibliographies in Environmental Science (2019)."},"publication_status":"published","language":[{"iso":"eng"}],"month":"08","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","das_tickbox":"1","oa_version":"None","_id":"22587","author":[{"last_name":"Ivanov","full_name":"Ivanov, Valeriy","first_name":"Valeriy"},{"full_name":"Fatichi, Simone","id":"cf8e546b-a9b0-11f0-a43b-aa89ed1b56d6","first_name":"Simone","last_name":"Fatichi"},{"full_name":"Daly, Edoardo","last_name":"Daly","first_name":"Edoardo"}],"scopus_import":"1","publication":"Oxford Bibliographies in Environmental Science","article_type":"original","date_published":"2019-08-28T00:00:00Z","extern":"1","publication_identifier":{"eisbn":["9780197858356"]},"publisher":"Oxford University Press","title":"Ecohydrology","OA_type":"closed access"},{"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","citation":{"short":"M. Hledik, T.R. Sokolowski, G. Tkačik, in:, IEEE Information Theory Workshop, ITW 2019, IEEE, 2019.","ama":"Hledik M, Sokolowski TR, Tkačik G. A tight upper bound on mutual information. In: <i>IEEE Information Theory Workshop, ITW 2019</i>. IEEE; 2019. doi:<a href=\"https://doi.org/10.1109/ITW44776.2019.8989292\">10.1109/ITW44776.2019.8989292</a>","ieee":"M. Hledik, T. R. Sokolowski, and G. Tkačik, “A tight upper bound on mutual information,” in <i>IEEE Information Theory Workshop, ITW 2019</i>, Visby, Sweden, 2019.","apa":"Hledik, M., Sokolowski, T. R., &#38; Tkačik, G. (2019). A tight upper bound on mutual information. In <i>IEEE Information Theory Workshop, ITW 2019</i>. Visby, Sweden: IEEE. <a href=\"https://doi.org/10.1109/ITW44776.2019.8989292\">https://doi.org/10.1109/ITW44776.2019.8989292</a>","ista":"Hledik M, Sokolowski TR, Tkačik G. 2019. A tight upper bound on mutual information. IEEE Information Theory Workshop, ITW 2019. Information Theory Workshop, 8989292.","mla":"Hledik, Michal, et al. “A Tight Upper Bound on Mutual Information.” <i>IEEE Information Theory Workshop, ITW 2019</i>, 8989292, IEEE, 2019, doi:<a href=\"https://doi.org/10.1109/ITW44776.2019.8989292\">10.1109/ITW44776.2019.8989292</a>.","chicago":"Hledik, Michal, Thomas R Sokolowski, and Gašper Tkačik. “A Tight Upper Bound on Mutual Information.” In <i>IEEE Information Theory Workshop, ITW 2019</i>. IEEE, 2019. <a href=\"https://doi.org/10.1109/ITW44776.2019.8989292\">https://doi.org/10.1109/ITW44776.2019.8989292</a>."},"publication_status":"published","ec_funded":1,"doi":"10.1109/ITW44776.2019.8989292","year":"2019","quality_controlled":"1","publisher":"IEEE","article_number":"8989292","isi":1,"related_material":{"record":[{"status":"public","id":"15020","relation":"dissertation_contains"}]},"project":[{"call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","name":"International IST Doctoral Program"}],"oa":1,"status":"public","department":[{"_id":"GaTk"}],"language":[{"iso":"eng"}],"month":"08","fulldoi":"https://doi.org/10.1109/ITW44776.2019.8989292","abstract":[{"text":"We derive a tight lower bound on equivocation (conditional entropy), or equivalently a tight upper bound on mutual information between a signal variable and channel outputs. The bound is in terms of the joint distribution of the signals and maximum a posteriori decodes (most probable signals given channel output). As part of our derivation, we describe the key properties of the distribution of signals, channel outputs and decodes, that minimizes equivocation and maximizes mutual information. This work addresses a problem in data analysis, where mutual information between signals and decodes is sometimes used to lower bound the mutual information between signals and channel outputs. Our result provides a corresponding upper bound.","lang":"eng"}],"day":"01","date_updated":"2026-10-02T11:40:30Z","date_created":"2020-03-22T23:00:47Z","type":"conference","article_processing_charge":"No","publication_identifier":{"isbn":["9781538669006"]},"title":"A tight upper bound on mutual information","arxiv":1,"date_published":"2019-08-01T00:00:00Z","author":[{"id":"4171253A-F248-11E8-B48F-1D18A9856A87","first_name":"Michal","full_name":"Hledik, Michal","last_name":"Hledik"},{"orcid":"0000-0002-1287-3779","full_name":"Sokolowski, Thomas R","first_name":"Thomas R","last_name":"Sokolowski","id":"3E999752-F248-11E8-B48F-1D18A9856A87"},{"id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","first_name":"Gašper","last_name":"Tkačik","full_name":"Tkačik, Gašper","orcid":"0000-0002-6699-1455"}],"publication":"IEEE Information Theory Workshop, ITW 2019","scopus_import":"1","external_id":{"isi":["000540384500015"],"arxiv":["1812.01475"]},"_id":"7606","conference":{"end_date":"2019-08-28","start_date":"2019-08-25","location":"Visby, Sweden","name":"Information Theory Workshop"},"oa_version":"Preprint","main_file_link":[{"open_access":"1","url":"https://arxiv.org/abs/1812.01475"}]},{"date_published":"2019-09-11T00:00:00Z","title":"Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy","publication_identifier":{"issn":["2309-8503"]},"acknowledgement":"This work was supported by the ERC and EU Horizon 2020 (ERC 692692; MSC-IF 708497) and FWF Z 312-B27 Wittgenstein award; W 1205-B09).","_id":"11222","main_file_link":[{"open_access":"1","url":"https://www.intrinsicactivity.org/2019/7/S1/A3.27/"}],"oa_version":"Published Version","conference":{"start_date":"2019-09-25","end_date":"2019-09-27","name":"ANA: Austrian Neuroscience Association ; APHAR: Austrian Pharmacological Society","location":"Innsbruck, Austria"},"author":[{"first_name":"Olena","full_name":"Kim, Olena","last_name":"Kim","id":"3F8ABDDA-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2344-1039"},{"first_name":"Carolina","id":"4305C450-F248-11E8-B48F-1D18A9856A87","full_name":"Borges Merjane, Carolina","last_name":"Borges Merjane","orcid":"0000-0003-0005-401X"},{"first_name":"Peter M","full_name":"Jonas, Peter M","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","last_name":"Jonas","orcid":"0000-0001-5001-4804"}],"publication":"Intrinsic Activity","fulldoi":"https://doi.org/10.25006/ia.7.s1-a3.27","day":"11","date_updated":"2026-10-13T22:30:04Z","status":"public","department":[{"_id":"PeJo"}],"language":[{"iso":"eng"}],"month":"09","type":"conference_abstract","article_processing_charge":"No","volume":7,"date_created":"2022-04-20T15:06:05Z","intvolume":"         7","issue":"Suppl. 1","publisher":"Austrian Pharmacological Society","keyword":["hippocampus","mossy fibers","readily releasable pool","electron microscopy"],"oa":1,"project":[{"call_identifier":"H2020","name":"Biophysics and circuit function of a giant cortical glutamatergic synapse","_id":"25B7EB9E-B435-11E9-9278-68D0E5697425","grant_number":"692692"},{"call_identifier":"H2020","grant_number":"708497","_id":"25BAF7B2-B435-11E9-9278-68D0E5697425","name":"Presynaptic calcium channels distribution and impact on coupling at the hippocampal mossy fiber synapse"},{"call_identifier":"FWF","grant_number":"W01205","_id":"25C3DBB6-B435-11E9-9278-68D0E5697425","name":"Zellkommunikation in Gesundheit und Krankheit"},{"_id":"25C5A090-B435-11E9-9278-68D0E5697425","grant_number":"Z00312","name":"Synaptic communication in neuronal microcircuits","call_identifier":"FWF"}],"related_material":{"record":[{"relation":"dissertation_contains","id":"11196","status":"public"}]},"article_number":"A3.27","publication_status":"published","citation":{"mla":"Kim, Olena, et al. “Functional Analysis of the Docked Vesicle Pool in Hippocampal Mossy Fiber Terminals by Electron Microscopy.” <i>Intrinsic Activity</i>, vol. 7, no. Suppl. 1, A3.27, Austrian Pharmacological Society, 2019, doi:<a href=\"https://doi.org/10.25006/ia.7.s1-a3.27\">10.25006/ia.7.s1-a3.27</a>.","chicago":"Kim, Olena, Carolina Borges Merjane, and Peter M Jonas. “Functional Analysis of the Docked Vesicle Pool in Hippocampal Mossy Fiber Terminals by Electron Microscopy.” In <i>Intrinsic Activity</i>, Vol. 7. Austrian Pharmacological Society, 2019. <a href=\"https://doi.org/10.25006/ia.7.s1-a3.27\">https://doi.org/10.25006/ia.7.s1-a3.27</a>.","ieee":"O. Kim, C. Borges Merjane, and P. M. Jonas, “Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy,” in <i>Intrinsic Activity</i>, Innsbruck, Austria, 2019, vol. 7, no. Suppl. 1.","apa":"Kim, O., Borges Merjane, C., &#38; Jonas, P. M. (2019). Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy. In <i>Intrinsic Activity</i> (Vol. 7). Innsbruck, Austria: Austrian Pharmacological Society. <a href=\"https://doi.org/10.25006/ia.7.s1-a3.27\">https://doi.org/10.25006/ia.7.s1-a3.27</a>","ista":"Kim O, Borges Merjane C, Jonas PM. 2019. Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy. Intrinsic Activity. ANA: Austrian Neuroscience Association ; APHAR: Austrian Pharmacological Society vol. 7, A3.27.","short":"O. Kim, C. Borges Merjane, P.M. Jonas, in:, Intrinsic Activity, Austrian Pharmacological Society, 2019.","ama":"Kim O, Borges Merjane C, Jonas PM. Functional analysis of the docked vesicle pool in hippocampal mossy fiber terminals by electron microscopy. In: <i>Intrinsic Activity</i>. Vol 7. Austrian Pharmacological Society; 2019. doi:<a href=\"https://doi.org/10.25006/ia.7.s1-a3.27\">10.25006/ia.7.s1-a3.27</a>"},"corr_author":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["570"],"quality_controlled":"1","year":"2019","doi":"10.25006/ia.7.s1-a3.27","ec_funded":1},{"file":[{"file_name":"xcad_sup_mat_siga19.pdf","date_updated":"2020-07-14T12:47:49Z","checksum":"56a2fb019adcb556d2b022f5e5acb68c","title":"X-CAD Supplemental Material","file_id":"7119","access_level":"open_access","creator":"bbickel","content_type":"application/pdf","relation":"supplementary_material","file_size":1673176,"date_created":"2019-11-26T14:24:26Z"},{"date_created":"2019-11-26T14:24:27Z","description":"This is the author's version of the work.","file_size":14563618,"relation":"main_file","content_type":"application/pdf","access_level":"open_access","creator":"bbickel","file_id":"7120","title":"X-CAD: Optimizing CAD Models with Extended Finite Elements","checksum":"5f29d76aceb5102e766cbab9b17d776e","date_updated":"2020-07-14T12:47:49Z","file_name":"XCAD_authors_version.pdf"},{"checksum":"0d31e123286cbec9e28b2001c2bb0d55","file_id":"7121","creator":"bbickel","access_level":"open_access","file_name":"XCAD_video.mp4","date_updated":"2020-07-14T12:47:49Z","date_created":"2019-11-26T14:27:37Z","content_type":"video/mp4","file_size":259979129,"relation":"main_file"}],"issue":"6","publisher":"ACM","intvolume":"        38","project":[{"call_identifier":"H2020","_id":"24F9549A-B435-11E9-9278-68D0E5697425","grant_number":"715767","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling"}],"oa":1,"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"12897"}]},"isi":1,"article_number":"157","article_type":"original","citation":{"mla":"Hafner, Christian, et al. “X-CAD: Optimizing CAD Models with Extended Finite Elements.” <i>ACM Transactions on Graphics</i>, vol. 38, no. 6, 157, ACM, 2019, doi:<a href=\"https://doi.org/10.1145/3355089.3356576\">10.1145/3355089.3356576</a>.","chicago":"Hafner, Christian, Christian Schumacher, Espen Knoop, Thomas Auzinger, Bernd Bickel, and Moritz Bächer. “X-CAD: Optimizing CAD Models with Extended Finite Elements.” <i>ACM Transactions on Graphics</i>. ACM, 2019. <a href=\"https://doi.org/10.1145/3355089.3356576\">https://doi.org/10.1145/3355089.3356576</a>.","apa":"Hafner, C., Schumacher, C., Knoop, E., Auzinger, T., Bickel, B., &#38; Bächer, M. (2019). X-CAD: Optimizing CAD Models with Extended Finite Elements. <i>ACM Transactions on Graphics</i>. ACM. <a href=\"https://doi.org/10.1145/3355089.3356576\">https://doi.org/10.1145/3355089.3356576</a>","ieee":"C. Hafner, C. Schumacher, E. Knoop, T. Auzinger, B. Bickel, and M. Bächer, “X-CAD: Optimizing CAD Models with Extended Finite Elements,” <i>ACM Transactions on Graphics</i>, vol. 38, no. 6. ACM, 2019.","ista":"Hafner C, Schumacher C, Knoop E, Auzinger T, Bickel B, Bächer M. 2019. X-CAD: Optimizing CAD Models with Extended Finite Elements. ACM Transactions on Graphics. 38(6), 157.","short":"C. Hafner, C. Schumacher, E. Knoop, T. Auzinger, B. Bickel, M. Bächer, ACM Transactions on Graphics 38 (2019).","ama":"Hafner C, Schumacher C, Knoop E, Auzinger T, Bickel B, Bächer M. X-CAD: Optimizing CAD Models with Extended Finite Elements. <i>ACM Transactions on Graphics</i>. 2019;38(6). doi:<a href=\"https://doi.org/10.1145/3355089.3356576\">10.1145/3355089.3356576</a>"},"publication_status":"published","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","quality_controlled":"1","ddc":["000"],"ec_funded":1,"year":"2019","doi":"10.1145/3355089.3356576","date_published":"2019-11-06T00:00:00Z","file_date_updated":"2020-07-14T12:47:49Z","publication_identifier":{"issn":["0730-0301"]},"title":"X-CAD: Optimizing CAD Models with Extended Finite Elements","oa_version":"Submitted Version","_id":"7117","scopus_import":"1","author":[{"first_name":"Christian","full_name":"Hafner, Christian","last_name":"Hafner","id":"400429CC-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Schumacher","first_name":"Christian","full_name":"Schumacher, Christian"},{"last_name":"Knoop","first_name":"Espen","full_name":"Knoop, Espen"},{"id":"4718F954-F248-11E8-B48F-1D18A9856A87","last_name":"Auzinger","full_name":"Auzinger, Thomas","first_name":"Thomas","orcid":"0000-0002-1546-3265"},{"last_name":"Bickel","first_name":"Bernd","full_name":"Bickel, Bernd","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385"},{"last_name":"Bächer","first_name":"Moritz","full_name":"Bächer, Moritz"}],"publication":"ACM Transactions on Graphics","external_id":{"isi":["000498397300007"]},"date_updated":"2026-10-13T22:30:08Z","day":"06","fulldoi":"https://doi.org/10.1145/3355089.3356576","abstract":[{"text":"We propose a novel generic shape optimization method for CAD models based on the eXtended Finite Element Method (XFEM). Our method works directly on the intersection between the model and a regular simulation grid, without the need to mesh or remesh, thus removing a bottleneck of classical shape optimization strategies. This is made possible by a novel hierarchical integration scheme that accurately integrates finite element quantities with sub-element precision. For optimization, we efficiently compute analytical shape derivatives of the entire framework, from model intersection to integration rule generation and XFEM simulation. Moreover, we describe a differentiable projection of shape parameters onto a constraint manifold spanned by user-specified shape preservation, consistency, and manufacturability constraints. We demonstrate the utility of our approach by optimizing mass distribution, strength-to-weight ratio, and inverse elastic shape design objectives directly on parameterized 3D CAD models.","lang":"eng"}],"has_accepted_license":"1","month":"11","language":[{"iso":"eng"}],"status":"public","department":[{"_id":"BeBi"}],"type":"journal_article","article_processing_charge":"No","volume":38,"date_created":"2019-11-26T14:22:09Z"},{"has_accepted_license":"1","month":"12","language":[{"iso":"eng"}],"department":[{"_id":"RySh"}],"status":"public","date_updated":"2026-10-13T22:30:11Z","day":"20","fulldoi":"https://doi.org/10.1016/j.isci.2019.11.025","abstract":[{"text":"Electron microscopy (EM) is a technology that enables visualization of single proteins at a nanometer resolution. However, current protein analysis by EM mainly relies on immunolabeling with gold-particle-conjugated antibodies, which is compromised by large size of antibody, precluding precise detection of protein location in biological samples. Here, we develop a specific chemical labeling method for EM detection of proteins at single-molecular level. Rational design of α-helical peptide tag and probe structure provided a complementary reaction pair that enabled specific cysteine conjugation of the tag. The developed chemical labeling with gold-nanoparticle-conjugated probe showed significantly higher labeling efficiency and detectability of high-density clusters of tag-fused G protein-coupled receptors in freeze-fracture replicas compared with immunogold labeling. Furthermore, in ultrathin sections, the spatial resolution of the chemical labeling was significantly higher than that of antibody-mediated labeling. These results demonstrate substantial advantages of the chemical labeling approach for single protein visualization by EM.","lang":"eng"}],"volume":22,"date_created":"2020-01-29T15:56:56Z","article_processing_charge":"No","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","license":"https://creativecommons.org/licenses/by/4.0/","publication_identifier":{"issn":["2589-0042"]},"title":"Electron microscopic detection of single membrane proteins by a specific chemical labeling","date_published":"2019-12-20T00:00:00Z","file_date_updated":"2020-07-14T12:47:57Z","author":[{"first_name":"Shigekazu","id":"4427179E-F248-11E8-B48F-1D18A9856A87","last_name":"Tabata","full_name":"Tabata, Shigekazu"},{"last_name":"Jevtic","full_name":"Jevtic, Marijo","first_name":"Marijo","id":"4BE3BC94-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Nobutaka","last_name":"Kurashige","full_name":"Kurashige, Nobutaka"},{"last_name":"Fuchida","first_name":"Hirokazu","full_name":"Fuchida, Hirokazu"},{"last_name":"Kido","first_name":"Munetsugu","full_name":"Kido, Munetsugu"},{"full_name":"Tani, Kazushi","first_name":"Kazushi","last_name":"Tani"},{"full_name":"Zenmyo, Naoki","first_name":"Naoki","last_name":"Zenmyo"},{"last_name":"Uchinomiya","first_name":"Shohei","full_name":"Uchinomiya, Shohei"},{"last_name":"Harada","full_name":"Harada, Harumi","id":"2E55CDF2-F248-11E8-B48F-1D18A9856A87","first_name":"Harumi","orcid":"0000-0001-7429-7896"},{"full_name":"Itakura, Makoto","last_name":"Itakura","first_name":"Makoto"},{"last_name":"Hamachi","full_name":"Hamachi, Itaru","first_name":"Itaru"},{"orcid":"0000-0001-8761-9444","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","first_name":"Ryuichi","last_name":"Shigemoto","full_name":"Shigemoto, Ryuichi"},{"last_name":"Ojida","full_name":"Ojida, Akio","first_name":"Akio"}],"publication":"iScience","scopus_import":"1","external_id":{"pmid":["31786521"],"isi":["000504652000020"]},"oa_version":"Published Version","_id":"7391","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","corr_author":"1","citation":{"short":"S. Tabata, M. Jevtic, N. Kurashige, H. Fuchida, M. Kido, K. Tani, N. Zenmyo, S. Uchinomiya, H. Harada, M. Itakura, I. Hamachi, R. Shigemoto, A. Ojida, IScience 22 (2019) 256–268.","ama":"Tabata S, Jevtic M, Kurashige N, et al. Electron microscopic detection of single membrane proteins by a specific chemical labeling. <i>iScience</i>. 2019;22(12):256-268. doi:<a href=\"https://doi.org/10.1016/j.isci.2019.11.025\">10.1016/j.isci.2019.11.025</a>","ieee":"S. Tabata <i>et al.</i>, “Electron microscopic detection of single membrane proteins by a specific chemical labeling,” <i>iScience</i>, vol. 22, no. 12. Elsevier, pp. 256–268, 2019.","apa":"Tabata, S., Jevtic, M., Kurashige, N., Fuchida, H., Kido, M., Tani, K., … Ojida, A. (2019). Electron microscopic detection of single membrane proteins by a specific chemical labeling. <i>IScience</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.isci.2019.11.025\">https://doi.org/10.1016/j.isci.2019.11.025</a>","ista":"Tabata S, Jevtic M, Kurashige N, Fuchida H, Kido M, Tani K, Zenmyo N, Uchinomiya S, Harada H, Itakura M, Hamachi I, Shigemoto R, Ojida A. 2019. Electron microscopic detection of single membrane proteins by a specific chemical labeling. iScience. 22(12), 256–268.","mla":"Tabata, Shigekazu, et al. “Electron Microscopic Detection of Single Membrane Proteins by a Specific Chemical Labeling.” <i>IScience</i>, vol. 22, no. 12, Elsevier, 2019, pp. 256–68, doi:<a href=\"https://doi.org/10.1016/j.isci.2019.11.025\">10.1016/j.isci.2019.11.025</a>.","chicago":"Tabata, Shigekazu, Marijo Jevtic, Nobutaka Kurashige, Hirokazu Fuchida, Munetsugu Kido, Kazushi Tani, Naoki Zenmyo, et al. “Electron Microscopic Detection of Single Membrane Proteins by a Specific Chemical Labeling.” <i>IScience</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.isci.2019.11.025\">https://doi.org/10.1016/j.isci.2019.11.025</a>."},"publication_status":"published","page":"256-268","ec_funded":1,"doi":"10.1016/j.isci.2019.11.025","year":"2019","quality_controlled":"1","ddc":["570"],"publisher":"Elsevier","issue":"12","intvolume":"        22","file":[{"date_updated":"2020-07-14T12:47:57Z","file_name":"2019_iScience_Tabata.pdf","access_level":"open_access","creator":"dernst","file_id":"7448","checksum":"f3e90056a49f09b205b1c4f8c739ffd1","file_size":7197776,"relation":"main_file","content_type":"application/pdf","date_created":"2020-02-04T10:48:36Z"}],"article_type":"original","pmid":1,"oa":1,"project":[{"_id":"25CA28EA-B435-11E9-9278-68D0E5697425","grant_number":"694539","name":"In situ analysis of single channel subunit composition in neurons: physiological implication in synaptic plasticity and behaviour","call_identifier":"H2020"},{"name":"Human Brain Project Specific Grant Agreement 1","grant_number":"720270","_id":"25CBA828-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"related_material":{"record":[{"id":"11393","relation":"dissertation_contains","status":"public"}]},"isi":1},{"publication_status":"published","citation":{"chicago":"Castro, João Pl, Michelle N. Yancoskie, Marta Marchini, Stefanie Belohlavy, Layla Hiramatsu, Marek Kučka, William H. Beluch, et al. “An Integrative Genomic Analysis of the Longshanks Selection Experiment for Longer Limbs in Mice.” <i>ELife</i>. eLife Sciences Publications, 2019. <a href=\"https://doi.org/10.7554/eLife.42014\">https://doi.org/10.7554/eLife.42014</a>.","mla":"Castro, João Pl, et al. “An Integrative Genomic Analysis of the Longshanks Selection Experiment for Longer Limbs in Mice.” <i>ELife</i>, vol. 8, e42014, eLife Sciences Publications, 2019, doi:<a href=\"https://doi.org/10.7554/eLife.42014\">10.7554/eLife.42014</a>.","ista":"Castro JP, Yancoskie MN, Marchini M, Belohlavy S, Hiramatsu L, Kučka M, Beluch WH, Naumann R, Skuplik I, Cobb J, Barton NH, Rolian C, Chan YF. 2019. An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice. eLife. 8, e42014.","ieee":"J. P. Castro <i>et al.</i>, “An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice,” <i>eLife</i>, vol. 8. eLife Sciences Publications, 2019.","apa":"Castro, J. P., Yancoskie, M. N., Marchini, M., Belohlavy, S., Hiramatsu, L., Kučka, M., … Chan, Y. F. (2019). An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.42014\">https://doi.org/10.7554/eLife.42014</a>","ama":"Castro JP, Yancoskie MN, Marchini M, et al. An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice. <i>eLife</i>. 2019;8. doi:<a href=\"https://doi.org/10.7554/eLife.42014\">10.7554/eLife.42014</a>","short":"J.P. Castro, M.N. Yancoskie, M. Marchini, S. Belohlavy, L. Hiramatsu, M. Kučka, W.H. Beluch, R. Naumann, I. Skuplik, J. Cobb, N.H. Barton, C. Rolian, Y.F. Chan, ELife 8 (2019)."},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","ddc":["576"],"quality_controlled":"1","doi":"10.7554/eLife.42014","year":"2019","file":[{"date_created":"2019-07-29T07:41:18Z","content_type":"application/pdf","relation":"main_file","file_size":6748249,"file_id":"6721","checksum":"fa0936fe58f0d9e3f8e75038570e5a17","creator":"apreinsp","access_level":"open_access","file_name":"2019_eLife_Castro.pdf","date_updated":"2020-07-14T12:47:38Z"}],"intvolume":"         8","publisher":"eLife Sciences Publications","oa":1,"related_material":{"record":[{"status":"public","id":"9804","relation":"research_data"},{"status":"public","relation":"dissertation_contains","id":"11388"}]},"isi":1,"article_number":"e42014","pmid":1,"day":"06","date_updated":"2026-10-13T22:30:15Z","abstract":[{"text":"Evolutionary studies are often limited by missing data that are critical to understanding the history of selection. Selection experiments, which reproduce rapid evolution under controlled conditions, are excellent tools to study how genomes evolve under selection. Here we present a genomic dissection of the Longshanks selection experiment, in which mice were selectively bred over 20 generations for longer tibiae relative to body mass, resulting in 13% longer tibiae in two replicates. We synthesized evolutionary theory, genome sequences and molecular genetics to understand the selection response and found that it involved both polygenic adaptation and discrete loci of major effect, with the strongest loci tending to be selected in parallel between replicates. We show that selection may favor de-repression of bone growth through inactivating two limb enhancers of an inhibitor, Nkx3-2. Our integrative genomic analyses thus show that it is possible to connect individual base-pair changes to the overall selection response.","lang":"eng"}],"fulldoi":"https://doi.org/10.7554/eLife.42014","month":"06","language":[{"iso":"eng"}],"has_accepted_license":"1","department":[{"_id":"NiBa"}],"status":"public","article_processing_charge":"No","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"type":"journal_article","date_created":"2019-07-28T21:59:17Z","volume":8,"file_date_updated":"2020-07-14T12:47:38Z","date_published":"2019-06-06T00:00:00Z","title":"An integrative genomic analysis of the Longshanks selection experiment for longer limbs in mice","oa_version":"Published Version","_id":"6713","external_id":{"pmid":["31169497"],"isi":["000473588700001"]},"author":[{"first_name":"João Pl","full_name":"Castro, João Pl","last_name":"Castro"},{"last_name":"Yancoskie","full_name":"Yancoskie, Michelle N.","first_name":"Michelle N."},{"first_name":"Marta","full_name":"Marchini, Marta","last_name":"Marchini"},{"orcid":"0000-0002-9849-498X","first_name":"Stefanie","full_name":"Belohlavy, Stefanie","id":"43FE426A-F248-11E8-B48F-1D18A9856A87","last_name":"Belohlavy"},{"full_name":"Hiramatsu, Layla","last_name":"Hiramatsu","first_name":"Layla"},{"first_name":"Marek","last_name":"Kučka","full_name":"Kučka, Marek"},{"full_name":"Beluch, William H.","last_name":"Beluch","first_name":"William H."},{"last_name":"Naumann","first_name":"Ronald","full_name":"Naumann, Ronald"},{"last_name":"Skuplik","first_name":"Isabella","full_name":"Skuplik, Isabella"},{"last_name":"Cobb","full_name":"Cobb, John","first_name":"John"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","first_name":"Nicholas H","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240"},{"full_name":"Rolian, Campbell","last_name":"Rolian","first_name":"Campbell"},{"first_name":"Yingguang Frank","last_name":"Chan","full_name":"Chan, Yingguang Frank"}],"publication":"eLife","scopus_import":"1"},{"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","citation":{"mla":"Casillas Perez, Barbara E. <i>Collective Defenses of Garden Ants against a Fungal Pathogen</i>. Institute of Science and Technology Austria, 2019, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:6435\">10.15479/AT:ISTA:6435</a>.","chicago":"Casillas Perez, Barbara E. “Collective Defenses of Garden Ants against a Fungal Pathogen.” Institute of Science and Technology Austria, 2019. <a href=\"https://doi.org/10.15479/AT:ISTA:6435\">https://doi.org/10.15479/AT:ISTA:6435</a>.","ieee":"B. E. Casillas Perez, “Collective defenses of garden ants against a fungal pathogen,” Institute of Science and Technology Austria, 2019.","apa":"Casillas Perez, B. E. (2019). <i>Collective defenses of garden ants against a fungal pathogen</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:6435\">https://doi.org/10.15479/AT:ISTA:6435</a>","ista":"Casillas Perez BE. 2019. Collective defenses of garden ants against a fungal pathogen. Institute of Science and Technology Austria.","ama":"Casillas Perez BE. Collective defenses of garden ants against a fungal pathogen. 2019. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:6435\">10.15479/AT:ISTA:6435</a>","short":"B.E. Casillas Perez, Collective Defenses of Garden Ants against a Fungal Pathogen, Institute of Science and Technology Austria, 2019."},"publication_status":"published","corr_author":"1","page":"183","ec_funded":1,"doi":"10.15479/AT:ISTA:6435","year":"2019","degree_awarded":"PhD","ddc":["570","006","578","592"],"publisher":"Institute of Science and Technology Austria","keyword":["Social Immunity","Sanitary care","Social Insects","Organisational Immunity","Colony development","Multi-target tracking"],"file":[{"creator":"casillas","access_level":"open_access","checksum":"6daf2d2086111aa8fd3fbc919a3e2833","file_id":"6438","date_updated":"2021-02-11T11:17:15Z","file_name":"tesisDoctoradoBC.pdf","date_created":"2019-05-13T09:16:20Z","relation":"main_file","file_size":3895187,"embargo":"2020-05-08","content_type":"application/pdf"},{"file_id":"6439","checksum":"3d221aaff7559a7060230a1ff610594f","access_level":"closed","creator":"casillas","file_name":"tesisDoctoradoBC.zip","date_updated":"2020-07-14T12:47:30Z","embargo_to":"open_access","date_created":"2019-05-13T09:16:20Z","content_type":"application/zip","relation":"source_file","file_size":7365118}],"alternative_title":["ISTA Thesis"],"OA_place":"publisher","oa":1,"related_material":{"record":[{"status":"public","id":"1999","relation":"part_of_dissertation"}]},"project":[{"name":"Epidemics in ant societies on a chip","grant_number":"771402","_id":"2649B4DE-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"supervisor":[{"orcid":"0000-0002-2193-3868","first_name":"Sylvia M","last_name":"Cremer","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","full_name":"Cremer, Sylvia M"}],"department":[{"_id":"SyCr"}],"status":"public","has_accepted_license":"1","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"ScienComp"},{"_id":"M-Shop"},{"_id":"LifeSc"}],"month":"05","fulldoi":"https://doi.org/10.15479/AT:ISTA:6435","abstract":[{"lang":"eng","text":"Social insect colonies tend to have numerous members which function together like a single organism in such harmony that the term ``super-organism'' is often used. In this analogy the reproductive caste is analogous to the primordial germ\r\ncells of a metazoan, while the sterile worker caste corresponds to somatic cells. The worker castes, like tissues, are\r\nin charge of all functions of a living being, besides reproduction. The establishment of new super-organismal units\r\n(i.e. new colonies) is accomplished by the co-dependent castes. The term oftentimes goes beyond a metaphor. We invoke it when we speak about the metabolic rate, thermoregulation, nutrient regulation and gas exchange of a social insect colony. Furthermore, we assert that the super-organism has an immune system, and benefits from ``social immunity''.\r\n\r\nSocial immunity was first summoned by evolutionary biologists to resolve the apparent discrepancy between the expected high frequency of disease outbreak amongst numerous, closely related tightly-interacting hosts, living in stable and microbially-rich environments, against the exceptionally scarce epidemic accounts in natural populations. Social\r\nimmunity comprises a multi-layer assembly of behaviours which have evolved to effectively keep the pathogenic enemies of a colony at bay. The field of social immunity has drawn interest, as it becomes increasingly urgent to stop\r\nthe collapse of pollinator species and curb the growth of invasive pests. In the past decade, several mechanisms of\r\nsocial immune responses have been dissected, but many more questions remain open.\r\n\r\nI present my work in two experimental chapters. In the first, I use invasive garden ants (*Lasius neglectus*) to study how pathogen load and its distribution among nestmates affect the grooming response of the group. Any given group of ants will carry out the same total grooming work, but will direct their grooming effort towards individuals\r\ncarrying a relatively higher spore load. Contrary to expectation, the highest risk of transmission does not stem from grooming highly contaminated ants, but instead, we suggest that the grooming response likely minimizes spore loss to the environment, reducing contamination from inadvertent pickup from the substrate.\r\n\r\nThe second is a comparative developmental approach. I follow black garden ant queens (*Lasius niger*) and their colonies from mating flight, through hibernation for a year. Colonies which grow fast from the start, have a lower chance of survival through hibernation, and those which survive grow at a lower pace later. This is true for colonies of naive\r\nand challenged queens. Early pathogen exposure of the queens changes colony dynamics in an unexpected way: colonies from exposed queens are more likely to grow slowly and recover in numbers only after they survive hibernation.\r\n\r\nIn addition to the two experimental chapters, this thesis includes a co-authored published review on organisational\r\nimmunity, where we enlist the experimental evidence and theoretical framework on which this hypothesis is built,\r\nidentify the caveats and underline how the field is ripe to overcome them. In a final chapter, I describe my part in\r\ntwo collaborative efforts, one to develop an image-based tracker, and the second to develop a classifier for ant\r\nbehaviour."}],"day":"07","date_updated":"2026-04-08T14:02:12Z","date_created":"2019-05-13T08:58:35Z","type":"dissertation","article_processing_charge":"No","publication_identifier":{"issn":["2663-337X"]},"title":"Collective defenses of garden ants against a fungal pathogen","date_published":"2019-05-07T00:00:00Z","file_date_updated":"2021-02-11T11:17:15Z","author":[{"full_name":"Casillas Perez, Barbara E","first_name":"Barbara E","id":"351ED2AA-F248-11E8-B48F-1D18A9856A87","last_name":"Casillas Perez"}],"_id":"6435","oa_version":"Published Version"},{"language":[{"iso":"eng"}],"month":"09","department":[{"_id":"SiHi"}],"status":"public","date_updated":"2026-10-13T22:30:24Z","day":"04","fulldoi":"https://doi.org/10.1016/j.neuron.2019.08.021","volume":103,"date_created":"2019-08-25T22:00:50Z","type":"journal_article","article_processing_charge":"No","publication_identifier":{"issn":["0896-6273"],"eissn":["1097-4199"]},"title":"Memo1 tiles the radial glial cell grid","date_published":"2019-09-04T00:00:00Z","author":[{"id":"475990FE-F248-11E8-B48F-1D18A9856A87","last_name":"Contreras","first_name":"Ximena","full_name":"Contreras, Ximena"},{"orcid":"0000-0003-2279-1061","first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","last_name":"Hippenmeyer","full_name":"Hippenmeyer, Simon"}],"scopus_import":"1","publication":"Neuron","external_id":{"isi":["000484400200002"],"pmid":["31487522"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.neuron.2019.08.021"}],"oa_version":"Published Version","_id":"6830","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Contreras X, Hippenmeyer S. 2019. Memo1 tiles the radial glial cell grid. Neuron. 103(5), 750–752.","ieee":"X. Contreras and S. Hippenmeyer, “Memo1 tiles the radial glial cell grid,” <i>Neuron</i>, vol. 103, no. 5. Elsevier, pp. 750–752, 2019.","apa":"Contreras, X., &#38; Hippenmeyer, S. (2019). Memo1 tiles the radial glial cell grid. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2019.08.021\">https://doi.org/10.1016/j.neuron.2019.08.021</a>","chicago":"Contreras, Ximena, and Simon Hippenmeyer. “Memo1 Tiles the Radial Glial Cell Grid.” <i>Neuron</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.neuron.2019.08.021\">https://doi.org/10.1016/j.neuron.2019.08.021</a>.","mla":"Contreras, Ximena, and Simon Hippenmeyer. “Memo1 Tiles the Radial Glial Cell Grid.” <i>Neuron</i>, vol. 103, no. 5, Elsevier, 2019, pp. 750–52, doi:<a href=\"https://doi.org/10.1016/j.neuron.2019.08.021\">10.1016/j.neuron.2019.08.021</a>.","ama":"Contreras X, Hippenmeyer S. Memo1 tiles the radial glial cell grid. <i>Neuron</i>. 2019;103(5):750-752. doi:<a href=\"https://doi.org/10.1016/j.neuron.2019.08.021\">10.1016/j.neuron.2019.08.021</a>","short":"X. Contreras, S. Hippenmeyer, Neuron 103 (2019) 750–752."},"publication_status":"published","page":"750-752","year":"2019","doi":"10.1016/j.neuron.2019.08.021","quality_controlled":"1","ddc":["570"],"issue":"5","publisher":"Elsevier","intvolume":"       103","article_type":"letter_note","pmid":1,"related_material":{"record":[{"id":"7902","relation":"part_of_dissertation","status":"public"}]},"oa":1,"isi":1},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_status":"published","citation":{"short":"S. Shamipour, R. Kardos, S. Xue, B. Hof, E.B. Hannezo, C.-P.J. Heisenberg, Cell 177 (2019) 1463–1479.e18.","ama":"Shamipour S, Kardos R, Xue S, Hof B, Hannezo EB, Heisenberg C-PJ. Bulk actin dynamics drive phase segregation in zebrafish oocytes. <i>Cell</i>. 2019;177(6):1463-1479.e18. doi:<a href=\"https://doi.org/10.1016/j.cell.2019.04.030\">10.1016/j.cell.2019.04.030</a>","ieee":"S. Shamipour, R. Kardos, S. Xue, B. Hof, E. B. Hannezo, and C.-P. J. Heisenberg, “Bulk actin dynamics drive phase segregation in zebrafish oocytes,” <i>Cell</i>, vol. 177, no. 6. Elsevier, p. 1463–1479.e18, 2019.","apa":"Shamipour, S., Kardos, R., Xue, S., Hof, B., Hannezo, E. B., &#38; Heisenberg, C.-P. J. (2019). Bulk actin dynamics drive phase segregation in zebrafish oocytes. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2019.04.030\">https://doi.org/10.1016/j.cell.2019.04.030</a>","ista":"Shamipour S, Kardos R, Xue S, Hof B, Hannezo EB, Heisenberg C-PJ. 2019. Bulk actin dynamics drive phase segregation in zebrafish oocytes. Cell. 177(6), 1463–1479.e18.","mla":"Shamipour, Shayan, et al. “Bulk Actin Dynamics Drive Phase Segregation in Zebrafish Oocytes.” <i>Cell</i>, vol. 177, no. 6, Elsevier, 2019, p. 1463–1479.e18, doi:<a href=\"https://doi.org/10.1016/j.cell.2019.04.030\">10.1016/j.cell.2019.04.030</a>.","chicago":"Shamipour, Shayan, Roland Kardos, Shi-lei Xue, Björn Hof, Edouard B Hannezo, and Carl-Philipp J Heisenberg. “Bulk Actin Dynamics Drive Phase Segregation in Zebrafish Oocytes.” <i>Cell</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.cell.2019.04.030\">https://doi.org/10.1016/j.cell.2019.04.030</a>."},"doi":"10.1016/j.cell.2019.04.030","year":"2019","ec_funded":1,"page":"1463-1479.e18","ddc":["570"],"quality_controlled":"1","intvolume":"       177","issue":"6","publisher":"Elsevier","file":[{"file_id":"8686","checksum":"aea43726d80e35ce3885073a5f05c3e3","creator":"dernst","access_level":"open_access","success":1,"file_name":"2019_Cell_Shamipour_accepted.pdf","date_updated":"2020-10-21T07:22:34Z","date_created":"2020-10-21T07:22:34Z","content_type":"application/pdf","relation":"main_file","file_size":3356292}],"article_type":"original","pmid":1,"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"8350"}],"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/how-the-cytoplasm-separates-from-the-yolk/"}]},"oa":1,"project":[{"call_identifier":"H2020","_id":"260F1432-B435-11E9-9278-68D0E5697425","grant_number":"742573","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation"},{"call_identifier":"FWF","grant_number":"P31639","_id":"268294B6-B435-11E9-9278-68D0E5697425","name":"Active mechano-chemical description of the cell cytoskeleton"}],"isi":1,"acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"language":[{"iso":"eng"}],"month":"05","has_accepted_license":"1","status":"public","department":[{"_id":"CaHe"},{"_id":"EdHa"},{"_id":"BjHo"}],"day":"30","date_updated":"2026-10-13T22:30:25Z","abstract":[{"lang":"eng","text":"Segregation of maternal determinants within the oocyte constitutes the first step in embryo patterning. In zebrafish oocytes, extensive ooplasmic streaming leads to the segregation of ooplasm from yolk granules along the animal-vegetal axis of the oocyte. Here, we show that this process does not rely on cortical actin reorganization, as previously thought, but instead on a cell-cycle-dependent bulk actin polymerization wave traveling from the animal to the vegetal pole of the oocyte. This wave functions in segregation by both pulling ooplasm animally and pushing yolk granules vegetally. Using biophysical experimentation and theory, we show that ooplasm pulling is mediated by bulk actin network flows exerting friction forces on the ooplasm, while yolk granule pushing is achieved by a mechanism closely resembling actin comet formation on yolk granules. Our study defines a novel role of cell-cycle-controlled bulk actin polymerization waves in oocyte polarization via ooplasmic segregation."}],"fulldoi":"https://doi.org/10.1016/j.cell.2019.04.030","volume":177,"date_created":"2019-06-02T21:59:12Z","type":"journal_article","article_processing_charge":"No","title":"Bulk actin dynamics drive phase segregation in zebrafish oocytes","publication_identifier":{"eissn":["1097-4172"],"issn":["0092-8674"]},"file_date_updated":"2020-10-21T07:22:34Z","date_published":"2019-05-30T00:00:00Z","external_id":{"isi":["000469415100013"],"pmid":["31080065"]},"author":[{"last_name":"Shamipour","id":"40B34FE2-F248-11E8-B48F-1D18A9856A87","first_name":"Shayan","full_name":"Shamipour, Shayan"},{"id":"4039350E-F248-11E8-B48F-1D18A9856A87","first_name":"Roland","full_name":"Kardos, Roland","last_name":"Kardos"},{"last_name":"Xue","id":"31D2C804-F248-11E8-B48F-1D18A9856A87","full_name":"Xue, Shi-lei","first_name":"Shi-lei"},{"orcid":"0000-0003-2057-2754","id":"3A374330-F248-11E8-B48F-1D18A9856A87","last_name":"Hof","full_name":"Hof, Björn","first_name":"Björn"},{"full_name":"Hannezo, Edouard B","last_name":"Hannezo","first_name":"Edouard B","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6005-1561"},{"orcid":"0000-0002-0912-4566","last_name":"Heisenberg","id":"39427864-F248-11E8-B48F-1D18A9856A87","first_name":"Carl-Philipp J","full_name":"Heisenberg, Carl-Philipp J"}],"scopus_import":"1","publication":"Cell","oa_version":"Published Version","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1016/j.cell.2019.04.030"}],"acknowledgement":"We would like to thank Pierre Recho, Guillaume Salbreux, and Silvia Grigolon for advice on the theory, Lila Solnica-Krezel for kindly providing us with zebrafish dachsous mutants, members of the Heisenberg and Hannezo groups for fruitful discussions, and the Bioimaging and zebrafish facilities at IST Austria for their continuous support. This project has received funding from the European Union (European Research Council Advanced Grant 742573 to C.P.H.) and from the Austrian Science Fund (FWF) (P 31639 to E.H.).","_id":"6508"},{"quality_controlled":"1","ddc":["570"],"ec_funded":1,"page":"937-952.e18","year":"2019","doi":"10.1016/j.cell.2019.10.006","citation":{"ista":"Schwayer C, Shamipour S, Pranjic-Ferscha K, Schauer A, Balda M, Tada M, Matter K, Heisenberg C-PJ. 2019. Mechanosensation of tight junctions depends on ZO-1 phase separation and flow. Cell. 179(4), 937–952.e18.","ieee":"C. Schwayer <i>et al.</i>, “Mechanosensation of tight junctions depends on ZO-1 phase separation and flow,” <i>Cell</i>, vol. 179, no. 4. Cell Press, p. 937–952.e18, 2019.","apa":"Schwayer, C., Shamipour, S., Pranjic-Ferscha, K., Schauer, A., Balda, M., Tada, M., … Heisenberg, C.-P. J. (2019). Mechanosensation of tight junctions depends on ZO-1 phase separation and flow. <i>Cell</i>. Cell Press. <a href=\"https://doi.org/10.1016/j.cell.2019.10.006\">https://doi.org/10.1016/j.cell.2019.10.006</a>","chicago":"Schwayer, Cornelia, Shayan Shamipour, Kornelija Pranjic-Ferscha, Alexandra Schauer, M Balda, M Tada, K Matter, and Carl-Philipp J Heisenberg. “Mechanosensation of Tight Junctions Depends on ZO-1 Phase Separation and Flow.” <i>Cell</i>. Cell Press, 2019. <a href=\"https://doi.org/10.1016/j.cell.2019.10.006\">https://doi.org/10.1016/j.cell.2019.10.006</a>.","mla":"Schwayer, Cornelia, et al. “Mechanosensation of Tight Junctions Depends on ZO-1 Phase Separation and Flow.” <i>Cell</i>, vol. 179, no. 4, Cell Press, 2019, p. 937–952.e18, doi:<a href=\"https://doi.org/10.1016/j.cell.2019.10.006\">10.1016/j.cell.2019.10.006</a>.","ama":"Schwayer C, Shamipour S, Pranjic-Ferscha K, et al. Mechanosensation of tight junctions depends on ZO-1 phase separation and flow. <i>Cell</i>. 2019;179(4):937-952.e18. doi:<a href=\"https://doi.org/10.1016/j.cell.2019.10.006\">10.1016/j.cell.2019.10.006</a>","short":"C. Schwayer, S. Shamipour, K. Pranjic-Ferscha, A. Schauer, M. Balda, M. Tada, K. Matter, C.-P.J. Heisenberg, Cell 179 (2019) 937–952.e18."},"publication_status":"published","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"project":[{"name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","grant_number":"742573","_id":"260F1432-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"related_material":{"record":[{"status":"public","id":"7186","relation":"dissertation_contains"},{"relation":"dissertation_contains","id":"8350","status":"public"}],"link":[{"relation":"press_release","description":"News auf IST Website","url":"https://ist.ac.at/en/news/biochemistry-meets-mechanics-the-sensitive-nature-of-cell-cell-contact-formation-in-embryo-development/"}]},"isi":1,"article_type":"original","pmid":1,"file":[{"date_created":"2020-10-21T07:09:45Z","content_type":"application/pdf","relation":"main_file","file_size":8805878,"file_id":"8684","checksum":"33dac4bb77ee630e2666e936b4d57980","access_level":"open_access","creator":"dernst","success":1,"file_name":"2019_Cell_Schwayer_accepted.pdf","date_updated":"2020-10-21T07:09:45Z"}],"publisher":"Cell Press","issue":"4","intvolume":"       179","type":"journal_article","article_processing_charge":"No","volume":179,"date_created":"2019-11-12T12:51:06Z","date_updated":"2026-10-13T22:30:25Z","day":"31","fulldoi":"https://doi.org/10.1016/j.cell.2019.10.006","has_accepted_license":"1","month":"10","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"PreCl"},{"_id":"Bio"}],"status":"public","department":[{"_id":"CaHe"},{"_id":"BjHo"}],"oa_version":"Submitted Version","_id":"7001","scopus_import":"1","author":[{"orcid":"0000-0001-5130-2226","full_name":"Schwayer, Cornelia","last_name":"Schwayer","first_name":"Cornelia","id":"3436488C-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Shayan","last_name":"Shamipour","id":"40B34FE2-F248-11E8-B48F-1D18A9856A87","full_name":"Shamipour, Shayan"},{"first_name":"Kornelija","last_name":"Pranjic-Ferscha","id":"4362B3C2-F248-11E8-B48F-1D18A9856A87","full_name":"Pranjic-Ferscha, Kornelija"},{"orcid":"0000-0001-7659-9142","last_name":"Schauer","id":"30A536BA-F248-11E8-B48F-1D18A9856A87","first_name":"Alexandra","full_name":"Schauer, Alexandra"},{"full_name":"Balda, M","last_name":"Balda","first_name":"M"},{"first_name":"M","full_name":"Tada, M","last_name":"Tada"},{"last_name":"Matter","first_name":"K","full_name":"Matter, K"},{"orcid":"0000-0002-0912-4566","full_name":"Heisenberg, Carl-Philipp J","id":"39427864-F248-11E8-B48F-1D18A9856A87","first_name":"Carl-Philipp J","last_name":"Heisenberg"}],"publication":"Cell","external_id":{"pmid":["31675500"],"isi":["000493898000012"]},"date_published":"2019-10-31T00:00:00Z","file_date_updated":"2020-10-21T07:09:45Z","publication_identifier":{"issn":["0092-8674"],"eissn":["1097-4172"]},"title":"Mechanosensation of tight junctions depends on ZO-1 phase separation and flow"},{"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","corr_author":"1","citation":{"short":"A. Kopf, The Implication of Cytoskeletal Dynamics on Leukocyte Migration, Institute of Science and Technology Austria, 2019.","ama":"Kopf A. The implication of cytoskeletal dynamics on leukocyte migration. 2019. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:6891\">10.15479/AT:ISTA:6891</a>","chicago":"Kopf, Aglaja. “The Implication of Cytoskeletal Dynamics on Leukocyte Migration.” Institute of Science and Technology Austria, 2019. <a href=\"https://doi.org/10.15479/AT:ISTA:6891\">https://doi.org/10.15479/AT:ISTA:6891</a>.","mla":"Kopf, Aglaja. <i>The Implication of Cytoskeletal Dynamics on Leukocyte Migration</i>. Institute of Science and Technology Austria, 2019, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:6891\">10.15479/AT:ISTA:6891</a>.","ista":"Kopf A. 2019. The implication of cytoskeletal dynamics on leukocyte migration. Institute of Science and Technology Austria.","ieee":"A. Kopf, “The implication of cytoskeletal dynamics on leukocyte migration,” Institute of Science and Technology Austria, 2019.","apa":"Kopf, A. (2019). <i>The implication of cytoskeletal dynamics on leukocyte migration</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:6891\">https://doi.org/10.15479/AT:ISTA:6891</a>"},"publication_status":"published","page":"171","doi":"10.15479/AT:ISTA:6891","year":"2019","ddc":["570"],"degree_awarded":"PhD","keyword":["cell biology","immunology","leukocyte","migration","microfluidics"],"publisher":"Institute of Science and Technology Austria","file":[{"file_size":74735267,"relation":"source_file","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","date_created":"2019-10-15T05:28:42Z","embargo_to":"open_access","date_updated":"2020-10-17T22:30:03Z","file_name":"Kopf_PhD_Thesis.docx","access_level":"closed","creator":"akopf","checksum":"00d100d6468e31e583051e0a006b640c","file_id":"6950"},{"access_level":"open_access","creator":"akopf","checksum":"5d1baa899993ae6ca81aebebe1797000","file_id":"6951","date_updated":"2020-10-17T22:30:03Z","file_name":"Kopf_PhD_Thesis1.pdf","date_created":"2019-10-15T05:28:47Z","relation":"main_file","file_size":52787224,"embargo":"2020-10-16","content_type":"application/pdf"}],"alternative_title":["ISTA Thesis"],"project":[{"name":"Nano-Analytics of Cellular Systems","grant_number":"W01250-B20","_id":"265E2996-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"oa":1,"related_material":{"record":[{"relation":"part_of_dissertation","id":"6877","status":"public"},{"relation":"part_of_dissertation","id":"6328","status":"public"},{"status":"public","id":"15","relation":"part_of_dissertation"}],"link":[{"relation":"press_release","url":"https://ist.ac.at/en/news/feeling-like-a-cell/"}]},"supervisor":[{"first_name":"Michael K","full_name":"Sixt, Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","orcid":"0000-0002-6620-9179"}],"OA_place":"publisher","has_accepted_license":"1","language":[{"iso":"eng"}],"month":"07","status":"public","department":[{"_id":"MiSi"}],"day":"24","date_updated":"2026-06-18T17:44:11Z","fulldoi":"https://doi.org/10.15479/AT:ISTA:6891","abstract":[{"lang":"eng","text":"While cells of mesenchymal or epithelial origin perform their effector functions in a purely anchorage dependent manner, cells derived from the hematopoietic lineage are not committed to operate only within a specific niche. Instead, these cells are able to function autonomously of the molecular composition in a broad range of tissue compartments. By this means, cells of the hematopoietic lineage retain the capacity to disseminate into connective tissue and recirculate between organs, building the foundation for essential processes such as tissue regeneration or immune surveillance. \r\nCells of the immune system, specifically leukocytes, are extraordinarily good at performing this task. These cells are able to flexibly shift their mode of migration between an adhesion-mediated and an adhesion-independent manner, instantaneously accommodating for any changes in molecular composition of the external scaffold. The key component driving directed leukocyte migration is the chemokine receptor 7, which guides the cell along gradients of chemokine ligand. Therefore, the physical destination of migrating leukocytes is purely deterministic, i.e. given by global directional cues such as chemokine gradients. \r\nNevertheless, these cells typically reside in three-dimensional scaffolds of inhomogeneous complexity, raising the question whether cells are able to locally discriminate between multiple optional migration routes. Current literature provides evidence that leukocytes, specifically dendritic cells, do indeed probe their surrounding by virtue of multiple explorative protrusions. However, it remains enigmatic how these cells decide which one is the more favorable route to follow and what are the key players involved in performing this task. Due to the heterogeneous environment of most tissues, and the vast adaptability of migrating leukocytes, at this time it is not clear to what extent leukocytes are able to optimize their migratory strategy by adapting their level of adhesiveness. And, given the fact that leukocyte migration is characterized by branched cell shapes in combination with high migration velocities, it is reasonable to assume that these cells require fine tuned shape maintenance mechanisms that tightly coordinate protrusion and adhesion dynamics in a spatiotemporal manner. \r\nTherefore, this study aimed to elucidate how rapidly migrating leukocytes opt for an ideal migratory path while maintaining a continuous cell shape and balancing adhesive forces to efficiently navigate through complex microenvironments. \r\nThe results of this study unraveled a role for the microtubule cytoskeleton in promoting the decision making process during path finding and for the first time point towards a microtubule-mediated function in cell shape maintenance of highly ramified cells such as dendritic cells. Furthermore, we found that migrating low-adhesive leukocytes are able to instantaneously adapt to increased tensile load by engaging adhesion receptors. This response was only occurring tangential to the substrate while adhesive properties in the vertical direction were not increased. As leukocytes are primed for rapid migration velocities, these results demonstrate that leukocyte integrins are able to confer a high level of traction forces parallel to the cell membrane along the direction of migration without wasting energy in gluing the cell to the substrate. \r\nThus, the data in the here presented thesis provide new insights into the pivotal role of cytoskeletal dynamics and the mechanisms of force transduction during leukocyte migration. \r\nThereby the here presented results help to further define fundamental principles underlying leukocyte migration and open up potential therapeutic avenues of clinical relevance.\r\n"}],"date_created":"2019-09-19T08:19:44Z","type":"dissertation","article_processing_charge":"No","publication_identifier":{"isbn":["978-3-99078-002-2"],"eissn":["2663-337X"]},"title":"The implication of cytoskeletal dynamics on leukocyte migration","date_published":"2019-07-24T00:00:00Z","file_date_updated":"2020-10-17T22:30:03Z","author":[{"orcid":"0000-0002-2187-6656","first_name":"Aglaja","full_name":"Kopf, Aglaja","last_name":"Kopf","id":"31DAC7B6-F248-11E8-B48F-1D18A9856A87"}],"oa_version":"Published Version","_id":"6891"},{"pmid":1,"article_type":"letter_note","isi":1,"related_material":{"link":[{"relation":"press_release","url":"https://ist.ac.at/en/news/leukocytes-use-their-nucleus-as-a-ruler-to-choose-path-of-least-resistance/","description":"News on IST Homepage"}],"record":[{"status":"public","id":"14697","relation":"dissertation_contains"},{"status":"public","relation":"dissertation_contains","id":"6891"}]},"project":[{"call_identifier":"FP7","grant_number":"281556","_id":"25A603A2-B435-11E9-9278-68D0E5697425","name":"Cytoskeletal force generation and force transduction of migrating leukocytes"},{"_id":"25FE9508-B435-11E9-9278-68D0E5697425","grant_number":"724373","name":"Cellular Navigation Along Spatial Gradients","call_identifier":"H2020"},{"name":"Nano-Analytics of Cellular Systems","grant_number":"W01250-B20","_id":"265FAEBA-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"},{"call_identifier":"FP7","name":"International IST Postdoc Fellowship Programme","grant_number":"291734","_id":"25681D80-B435-11E9-9278-68D0E5697425"},{"name":"Molecular and system level view of immune cell migration","_id":"25A48D24-B435-11E9-9278-68D0E5697425","grant_number":"ALTF 1396-2014"}],"oa":1,"intvolume":"       568","publisher":"Springer Nature","doi":"10.1038/s41586-019-1087-5","year":"2019","page":"546-550","ec_funded":1,"quality_controlled":"1","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication_status":"published","citation":{"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>","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.","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>.","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>.","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.","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>"},"external_id":{"pmid":["30944468"],"isi":["000465594200050"]},"scopus_import":"1","publication":"Nature","author":[{"last_name":"Renkawitz","full_name":"Renkawitz, Jörg","id":"3F0587C8-F248-11E8-B48F-1D18A9856A87","first_name":"Jörg","orcid":"0000-0003-2856-3369"},{"orcid":"0000-0002-2187-6656","last_name":"Kopf","id":"31DAC7B6-F248-11E8-B48F-1D18A9856A87","first_name":"Aglaja","full_name":"Kopf, Aglaja"},{"full_name":"Stopp, Julian A","first_name":"Julian A","id":"489E3F00-F248-11E8-B48F-1D18A9856A87","last_name":"Stopp"},{"full_name":"de Vries, Ingrid","last_name":"de Vries","first_name":"Ingrid","id":"4C7D837E-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Driscoll","full_name":"Driscoll, Meghan K.","first_name":"Meghan K."},{"orcid":"0000-0001-5145-4609","first_name":"Jack","id":"4515C308-F248-11E8-B48F-1D18A9856A87","full_name":"Merrin, Jack","last_name":"Merrin"},{"orcid":"0000-0001-9843-3522","full_name":"Hauschild, Robert","last_name":"Hauschild","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","first_name":"Robert"},{"first_name":"Erik S.","last_name":"Welf","full_name":"Welf, Erik S."},{"first_name":"Gaudenz","last_name":"Danuser","full_name":"Danuser, Gaudenz"},{"last_name":"Fiolka","first_name":"Reto","full_name":"Fiolka, Reto"},{"orcid":"0000-0002-6620-9179","last_name":"Sixt","first_name":"Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","full_name":"Sixt, Michael K"}],"_id":"6328","main_file_link":[{"url":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7217284/","open_access":"1"}],"oa_version":"Submitted Version","title":"Nuclear positioning facilitates amoeboid migration along the path of least resistance","date_published":"2019-04-25T00:00:00Z","volume":568,"date_created":"2019-04-17T06:52:28Z","type":"journal_article","article_processing_charge":"No","status":"public","department":[{"_id":"MiSi"},{"_id":"NanoFab"},{"_id":"Bio"}],"acknowledged_ssus":[{"_id":"SSU"}],"month":"04","language":[{"iso":"eng"}],"abstract":[{"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.","lang":"eng"}],"fulldoi":"https://doi.org/10.1038/s41586-019-1087-5","date_updated":"2026-10-13T22:30:27Z","day":"25"},{"page":"51-53","year":"2019","doi":"10.1016/j.cell.2019.08.047","quality_controlled":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"short":"A. Kopf, M.K. Sixt, Cell 179 (2019) 51–53.","ama":"Kopf A, Sixt MK. The neural crest pitches in to remove apoptotic debris. <i>Cell</i>. 2019;179(1):51-53. doi:<a href=\"https://doi.org/10.1016/j.cell.2019.08.047\">10.1016/j.cell.2019.08.047</a>","mla":"Kopf, Aglaja, and Michael K. Sixt. “The Neural Crest Pitches in to Remove Apoptotic Debris.” <i>Cell</i>, vol. 179, no. 1, Elsevier, 2019, pp. 51–53, doi:<a href=\"https://doi.org/10.1016/j.cell.2019.08.047\">10.1016/j.cell.2019.08.047</a>.","chicago":"Kopf, Aglaja, and Michael K Sixt. “The Neural Crest Pitches in to Remove Apoptotic Debris.” <i>Cell</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.cell.2019.08.047\">https://doi.org/10.1016/j.cell.2019.08.047</a>.","ieee":"A. Kopf and M. K. Sixt, “The neural crest pitches in to remove apoptotic debris,” <i>Cell</i>, vol. 179, no. 1. Elsevier, pp. 51–53, 2019.","apa":"Kopf, A., &#38; Sixt, M. K. (2019). The neural crest pitches in to remove apoptotic debris. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2019.08.047\">https://doi.org/10.1016/j.cell.2019.08.047</a>","ista":"Kopf A, Sixt MK. 2019. The neural crest pitches in to remove apoptotic debris. Cell. 179(1), 51–53."},"publication_status":"published","article_type":"original","pmid":1,"related_material":{"record":[{"relation":"dissertation_contains","id":"6891","status":"public"}]},"isi":1,"issue":"1","publisher":"Elsevier","intvolume":"       179","date_created":"2019-09-15T22:00:46Z","volume":179,"type":"journal_article","article_processing_charge":"No","month":"09","language":[{"iso":"eng"}],"department":[{"_id":"MiSi"}],"status":"public","day":"19","date_updated":"2026-10-13T22:30:27Z","fulldoi":"https://doi.org/10.1016/j.cell.2019.08.047","publication":"Cell","author":[{"id":"31DAC7B6-F248-11E8-B48F-1D18A9856A87","last_name":"Kopf","full_name":"Kopf, Aglaja","first_name":"Aglaja","orcid":"0000-0002-2187-6656"},{"full_name":"Sixt, Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt","first_name":"Michael K","orcid":"0000-0002-6620-9179"}],"scopus_import":"1","external_id":{"isi":["000486618500011"],"pmid":["31539498"]},"oa_version":"None","_id":"6877","publication_identifier":{"issn":["0092-8674"],"eissn":["1097-4172"]},"title":"The neural crest pitches in to remove apoptotic debris","date_published":"2019-09-19T00:00:00Z"},{"quality_controlled":"1","ddc":["570"],"ec_funded":1,"page":"957-969.e13","doi":"10.1016/j.cell.2019.04.015","year":"2019","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>.","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.","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.","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>","short":"P. Marhavá, L. Hörmayer, S. Yoshida, P. Marhavý, E. Benková, J. Friml, Cell 177 (2019) 957–969.e13."},"publication_status":"published","corr_author":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","isi":1,"project":[{"call_identifier":"H2020","grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"}],"oa":1,"related_material":{"record":[{"status":"public","relation":"dissertation_contains","id":"9992"}],"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/specialized-plant-cells-regain-stem-cell-features-to-heal-wounds/"}]},"pmid":1,"file":[{"content_type":"application/pdf","file_size":10272032,"relation":"main_file","date_created":"2019-05-13T06:12:45Z","file_name":"2019_Cell_Marhava.pdf","date_updated":"2020-07-14T12:47:28Z","checksum":"4ceba04a96a74f5092ec3ce2c579a0c7","file_id":"6411","access_level":"open_access","creator":"dernst"}],"issue":"4","publisher":"Elsevier","intvolume":"       177","type":"journal_article","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"article_processing_charge":"No","date_created":"2019-04-28T21:59:14Z","volume":177,"fulldoi":"https://doi.org/10.1016/j.cell.2019.04.015","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."}],"date_updated":"2026-10-13T22:30:29Z","day":"02","status":"public","department":[{"_id":"JiFr"},{"_id":"EvBe"}],"has_accepted_license":"1","language":[{"iso":"eng"}],"acknowledged_ssus":[{"_id":"Bio"}],"month":"05","_id":"6351","oa_version":"Published Version","publication":"Cell","author":[{"id":"44E59624-F248-11E8-B48F-1D18A9856A87","last_name":"Marhavá","full_name":"Marhavá, Petra","first_name":"Petra"},{"orcid":"0000-0001-8295-2926","first_name":"Lukas","full_name":"Hörmayer, Lukas","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","last_name":"Hörmayer"},{"orcid":"0000-0001-6111-9353","id":"2E46069C-F248-11E8-B48F-1D18A9856A87","last_name":"Yoshida","full_name":"Yoshida, Saiko","first_name":"Saiko"},{"last_name":"Marhavy","id":"3F45B078-F248-11E8-B48F-1D18A9856A87","full_name":"Marhavy, Peter","first_name":"Peter","orcid":"0000-0001-5227-5741"},{"full_name":"Benková, Eva","first_name":"Eva","id":"38F4F166-F248-11E8-B48F-1D18A9856A87","last_name":"Benková","orcid":"0000-0002-8510-9739"},{"last_name":"Friml","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596"}],"scopus_import":"1","external_id":{"isi":["000466843000015"],"pmid":["31051107"]},"date_published":"2019-05-02T00:00:00Z","file_date_updated":"2020-07-14T12:47:28Z","publication_identifier":{"eissn":["1097-4172"],"issn":["0092-8674"]},"title":"Re-activation of stem cell pathways for pattern restoration in plant wound healing"},{"date_published":"2019-03-29T00:00:00Z","file_date_updated":"2020-07-14T12:47:23Z","publication_identifier":{"eissn":["1095-9203"],"issn":["0036-8075"]},"title":"The entorhinal cognitive map is attracted to goals","oa_version":"Submitted Version","_id":"6194","author":[{"orcid":"0000-0001-7237-5109","last_name":"Boccara","id":"3FC06552-F248-11E8-B48F-1D18A9856A87","first_name":"Charlotte N.","full_name":"Boccara, Charlotte N."},{"first_name":"Michele","full_name":"Nardin, Michele","id":"30BD0376-F248-11E8-B48F-1D18A9856A87","last_name":"Nardin","orcid":"0000-0001-8849-6570"},{"orcid":"0000-0001-9439-3148","full_name":"Stella, Federico","first_name":"Federico","last_name":"Stella","id":"39AF1E74-F248-11E8-B48F-1D18A9856A87"},{"id":"426376DC-F248-11E8-B48F-1D18A9856A87","last_name":"O'Neill","first_name":"Joseph","full_name":"O'Neill, Joseph"},{"full_name":"Csicsvari, Jozsef L","id":"3FA14672-F248-11E8-B48F-1D18A9856A87","last_name":"Csicsvari","first_name":"Jozsef L","orcid":"0000-0002-5193-4036"}],"scopus_import":"1","publication":"Science","external_id":{"isi":["000462738000034"]},"date_updated":"2026-10-13T22:30:30Z","day":"29","fulldoi":"https://doi.org/10.1126/science.aav4837","abstract":[{"lang":"eng","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."}],"has_accepted_license":"1","language":[{"iso":"eng"}],"month":"03","department":[{"_id":"JoCs"}],"status":"public","article_processing_charge":"No","type":"journal_article","date_created":"2019-04-04T08:39:30Z","volume":363,"file":[{"access_level":"open_access","creator":"dernst","file_id":"7826","checksum":"5e6b16742cde10a560cfaf2130764da1","date_updated":"2020-07-14T12:47:23Z","file_name":"2019_Science_Boccara.pdf","date_created":"2020-05-14T09:11:10Z","file_size":9045923,"relation":"main_file","content_type":"application/pdf"}],"issue":"6434","publisher":"American Association for the Advancement of Science","intvolume":"       363","project":[{"name":"Memory-related information processing in neuronal circuits of the hippocampus and entorhinal cortex","_id":"257A4776-B435-11E9-9278-68D0E5697425","grant_number":"281511","call_identifier":"FP7"},{"call_identifier":"H2020","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","name":"International IST Doctoral Program"}],"related_material":{"link":[{"description":"News on IST Homepage","url":"https://ist.ac.at/en/news/grid-cells-create-treasure-map-in-rat-brain/","relation":"press_release"}],"record":[{"status":"public","id":"6062","relation":"popular_science"},{"relation":"dissertation_contains","id":"11932","status":"public"}]},"oa":1,"isi":1,"article_type":"original","citation":{"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>","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>.","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.","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.","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>"},"publication_status":"published","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","quality_controlled":"1","ddc":["570"],"page":"1443-1447","ec_funded":1,"year":"2019","doi":"10.1126/science.aav4837"},{"oa_version":"Published Version","_id":"6943","external_id":{"isi":["000502890600017"],"pmid":["31585333"]},"publication":"Current Opinion in Plant Biology","author":[{"last_name":"Hörmayer","full_name":"Hörmayer, Lukas","first_name":"Lukas","id":"2EEE7A2A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8295-2926"},{"full_name":"Friml, Jiří","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","orcid":"0000-0002-8302-7596"}],"scopus_import":"1","file_date_updated":"2020-07-14T12:47:45Z","date_published":"2019-12-01T00:00:00Z","title":"Targeted cell ablation-based insights into wound healing and restorative patterning","publication_identifier":{"issn":["1369-5266"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","short":"CC BY (4.0)"},"article_processing_charge":"No","type":"journal_article","volume":52,"date_created":"2019-10-14T07:00:24Z","date_updated":"2026-10-13T22:30:29Z","day":"01","abstract":[{"text":"Plants as sessile organisms are constantly under attack by herbivores, rough environmental situations, or mechanical pressure. These challenges often lead to the induction of wounds or destruction of already specified and developed tissues. Additionally, wounding makes plants vulnerable to invasion by pathogens, which is why wound signalling often triggers specific defence responses. To stay competitive or, eventually, survive under these circumstances, plants need to regenerate efficiently, which in rigid, tissue migration-incompatible plant tissues requires post-embryonic patterning and organogenesis. Now, several studies used laser-assisted single cell ablation in the Arabidopsis root tip as a minimal wounding proxy. Here, we discuss their findings and put them into context of a broader spectrum of wound signalling, pathogen responses and tissue as well as organ regeneration.","lang":"eng"}],"fulldoi":"https://doi.org/10.1016/j.pbi.2019.08.006","month":"12","language":[{"iso":"eng"}],"has_accepted_license":"1","status":"public","department":[{"_id":"JiFr"}],"oa":1,"project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985","call_identifier":"H2020"}],"related_material":{"record":[{"id":"9992","relation":"dissertation_contains","status":"public"}]},"isi":1,"article_type":"original","pmid":1,"file":[{"creator":"dernst","access_level":"open_access","file_id":"6946","checksum":"d6fd68a6e965f1efe3f0bf2d2070a616","date_updated":"2020-07-14T12:47:45Z","file_name":"2019_CurrentOpinionPlant_Hoermayer.pdf","date_created":"2019-10-14T14:48:21Z","relation":"main_file","file_size":1659288,"content_type":"application/pdf"}],"intvolume":"        52","publisher":"Elsevier","ddc":["580"],"quality_controlled":"1","year":"2019","doi":"10.1016/j.pbi.2019.08.006","page":"124-130","ec_funded":1,"corr_author":"1","publication_status":"published","citation":{"short":"L. Hörmayer, J. Friml, Current Opinion in Plant Biology 52 (2019) 124–130.","ama":"Hörmayer L, Friml J. Targeted cell ablation-based insights into wound healing and restorative patterning. <i>Current Opinion in Plant Biology</i>. 2019;52:124-130. doi:<a href=\"https://doi.org/10.1016/j.pbi.2019.08.006\">10.1016/j.pbi.2019.08.006</a>","chicago":"Hörmayer, Lukas, and Jiří Friml. “Targeted Cell Ablation-Based Insights into Wound Healing and Restorative Patterning.” <i>Current Opinion in Plant Biology</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.pbi.2019.08.006\">https://doi.org/10.1016/j.pbi.2019.08.006</a>.","mla":"Hörmayer, Lukas, and Jiří Friml. “Targeted Cell Ablation-Based Insights into Wound Healing and Restorative Patterning.” <i>Current Opinion in Plant Biology</i>, vol. 52, Elsevier, 2019, pp. 124–30, doi:<a href=\"https://doi.org/10.1016/j.pbi.2019.08.006\">10.1016/j.pbi.2019.08.006</a>.","ista":"Hörmayer L, Friml J. 2019. Targeted cell ablation-based insights into wound healing and restorative patterning. Current Opinion in Plant Biology. 52, 124–130.","ieee":"L. Hörmayer and J. Friml, “Targeted cell ablation-based insights into wound healing and restorative patterning,” <i>Current Opinion in Plant Biology</i>, vol. 52. Elsevier, pp. 124–130, 2019.","apa":"Hörmayer, L., &#38; Friml, J. (2019). Targeted cell ablation-based insights into wound healing and restorative patterning. <i>Current Opinion in Plant Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.pbi.2019.08.006\">https://doi.org/10.1016/j.pbi.2019.08.006</a>"},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8"},{"date_updated":"2026-10-13T22:30:29Z","day":"22","fulldoi":"https://doi.org/10.1103/PhysRevLett.122.114502","abstract":[{"lang":"eng","text":"Suspended particles can alter the properties of fluids and in particular also affect the transition fromlaminar to turbulent flow. An earlier study [Mataset al.,Phys. Rev. Lett.90, 014501 (2003)] reported howthe subcritical (i.e., hysteretic) transition to turbulent puffs is affected by the addition of particles. Here weshow that in addition to this known transition, with increasing concentration a supercritical (i.e.,continuous) transition to a globally fluctuating state is found. At the same time the Newtonian-typetransition to puffs is delayed to larger Reynolds numbers. At even higher concentration only the globallyfluctuating state is found. The dynamics of particle laden flows are hence determined by two competinginstabilities that give rise to three flow regimes: Newtonian-type turbulence at low, a particle inducedglobally fluctuating state at high, and a coexistence state at intermediate concentrations."}],"language":[{"iso":"eng"}],"month":"03","status":"public","department":[{"_id":"BjHo"}],"type":"journal_article","article_processing_charge":"No","volume":122,"date_created":"2019-03-31T21:59:12Z","date_published":"2019-03-22T00:00:00Z","arxiv":1,"publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"title":"Transition to turbulence in particle laden flows","main_file_link":[{"url":"https://arxiv.org/abs/1809.06358","open_access":"1"}],"oa_version":"Preprint","_id":"6189","author":[{"full_name":"Agrawal, Nishchal","id":"469E6004-F248-11E8-B48F-1D18A9856A87","last_name":"Agrawal","first_name":"Nishchal"},{"last_name":"Choueiri","id":"448BD5BC-F248-11E8-B48F-1D18A9856A87","first_name":"George H","full_name":"Choueiri, George H"},{"full_name":"Hof, Björn","first_name":"Björn","id":"3A374330-F248-11E8-B48F-1D18A9856A87","last_name":"Hof","orcid":"0000-0003-2057-2754"}],"publication":"Physical Review Letters","scopus_import":"1","external_id":{"isi":["000461922000006"],"arxiv":["1809.06358"],"pmid":["30951357"]},"citation":{"short":"N. Agrawal, G.H. Choueiri, B. Hof, Physical Review Letters 122 (2019).","ama":"Agrawal N, Choueiri GH, Hof B. Transition to turbulence in particle laden flows. <i>Physical Review Letters</i>. 2019;122(11). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.122.114502\">10.1103/PhysRevLett.122.114502</a>","mla":"Agrawal, Nishchal, et al. “Transition to Turbulence in Particle Laden Flows.” <i>Physical Review Letters</i>, vol. 122, no. 11, 114502, American Physical Society, 2019, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.122.114502\">10.1103/PhysRevLett.122.114502</a>.","chicago":"Agrawal, Nishchal, George H Choueiri, and Björn Hof. “Transition to Turbulence in Particle Laden Flows.” <i>Physical Review Letters</i>. American Physical Society, 2019. <a href=\"https://doi.org/10.1103/PhysRevLett.122.114502\">https://doi.org/10.1103/PhysRevLett.122.114502</a>.","apa":"Agrawal, N., Choueiri, G. H., &#38; Hof, B. (2019). Transition to turbulence in particle laden flows. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.122.114502\">https://doi.org/10.1103/PhysRevLett.122.114502</a>","ieee":"N. Agrawal, G. H. Choueiri, and B. Hof, “Transition to turbulence in particle laden flows,” <i>Physical Review Letters</i>, vol. 122, no. 11. American Physical Society, 2019.","ista":"Agrawal N, Choueiri GH, Hof B. 2019. Transition to turbulence in particle laden flows. Physical Review Letters. 122(11), 114502."},"publication_status":"published","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","quality_controlled":"1","doi":"10.1103/PhysRevLett.122.114502","year":"2019","publisher":"American Physical Society","issue":"11","intvolume":"       122","oa":1,"related_material":{"record":[{"relation":"dissertation_contains","id":"9728","status":"public"}]},"isi":1,"article_number":"114502","pmid":1}]