[{"external_id":{"isi":["000603078000003"]},"title":"Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction","publisher":"Springer Nature","acknowledgement":"This research was supported by the Scientific Service Units (SSUs) of IST Austria through resources provided by Scientific Computing (SciComp), the Life Science Facility (LSF), the BioImaging Facility (BIF), and the Electron Microscopy Facility (EMF). We also thank Dimitry Tegunov (MPI for Biophysical Chemistry) for helpful discussions\r\nabout the M software, and Michael Sixt (IST Austria) and Klemens Rottner (Technical University Braunschweig, HZI Braunschweig) for critical reading of the manuscript. We also thank Gregory Voth (University of Chicago) for providing us the MD-derived branch junction model for comparison. The authors acknowledge support from IST Austria and from the Austrian Science Fund (FWF): M02495 to G.D. and Austrian Science Fund (FWF): P33367 to F.K.M.S. ","quality_controlled":"1","author":[{"first_name":"Florian","full_name":"Fäßler, Florian","last_name":"Fäßler","orcid":"0000-0001-7149-769X","id":"404F5528-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Georgi A","full_name":"Dimchev, Georgi A","last_name":"Dimchev","orcid":"0000-0001-8370-6161","id":"38C393BE-F248-11E8-B48F-1D18A9856A87"},{"id":"3661B498-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-3904-947X","first_name":"Victor-Valentin","last_name":"Hodirnau","full_name":"Hodirnau, Victor-Valentin"},{"full_name":"Wan, William","last_name":"Wan","first_name":"William"},{"orcid":"0000-0003-4790-8078","id":"48AD8942-F248-11E8-B48F-1D18A9856A87","first_name":"Florian KM","full_name":"Schur, Florian KM","last_name":"Schur"}],"oa":1,"keyword":["General Biochemistry","Genetics and Molecular Biology","General Physics and Astronomy","General Chemistry"],"project":[{"_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A","grant_number":"P33367","name":"Structure and isoform diversity of the Arp2/3 complex"},{"name":"Protein structure and function in filopodia across scales","grant_number":"M02495","call_identifier":"FWF","_id":"2674F658-B435-11E9-9278-68D0E5697425"}],"date_created":"2020-12-23T08:25:45Z","intvolume":"        11","department":[{"_id":"FlSc"},{"_id":"EM-Fac"}],"file_date_updated":"2020-12-28T08:16:10Z","isi":1,"scopus_import":"1","oa_version":"Published Version","related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/cutting-edge-technology-reveals-structures-within-cells/"}]},"status":"public","ddc":["570"],"corr_author":"1","_id":"8971","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","publication":"Nature Communications","publication_identifier":{"issn":["2041-1723"]},"volume":11,"type":"journal_article","has_accepted_license":"1","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"EM-Fac"}],"article_number":"6437","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"day":"22","citation":{"ama":"Fäßler F, Dimchev GA, Hodirnau V-V, Wan W, Schur FK. Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction. <i>Nature Communications</i>. 2020;11. doi:<a href=\"https://doi.org/10.1038/s41467-020-20286-x\">10.1038/s41467-020-20286-x</a>","mla":"Fäßler, Florian, et al. “Cryo-Electron Tomography Structure of Arp2/3 Complex in Cells Reveals New Insights into the Branch Junction.” <i>Nature Communications</i>, vol. 11, 6437, Springer Nature, 2020, doi:<a href=\"https://doi.org/10.1038/s41467-020-20286-x\">10.1038/s41467-020-20286-x</a>.","ista":"Fäßler F, Dimchev GA, Hodirnau V-V, Wan W, Schur FK. 2020. Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction. Nature Communications. 11, 6437.","chicago":"Fäßler, Florian, Georgi A Dimchev, Victor-Valentin Hodirnau, William Wan, and Florian KM Schur. “Cryo-Electron Tomography Structure of Arp2/3 Complex in Cells Reveals New Insights into the Branch Junction.” <i>Nature Communications</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41467-020-20286-x\">https://doi.org/10.1038/s41467-020-20286-x</a>.","ieee":"F. Fäßler, G. A. Dimchev, V.-V. Hodirnau, W. Wan, and F. K. Schur, “Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction,” <i>Nature Communications</i>, vol. 11. Springer Nature, 2020.","short":"F. Fäßler, G.A. Dimchev, V.-V. Hodirnau, W. Wan, F.K. Schur, Nature Communications 11 (2020).","apa":"Fäßler, F., Dimchev, G. A., Hodirnau, V.-V., Wan, W., &#38; Schur, F. K. (2020). Cryo-electron tomography structure of Arp2/3 complex in cells reveals new insights into the branch junction. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-020-20286-x\">https://doi.org/10.1038/s41467-020-20286-x</a>"},"language":[{"iso":"eng"}],"file":[{"file_name":"2020_NatureComm_Faessler.pdf","creator":"dernst","file_size":3958727,"date_updated":"2020-12-28T08:16:10Z","checksum":"55d43ea0061cc4027ba45e966e1db8cc","date_created":"2020-12-28T08:16:10Z","success":1,"content_type":"application/pdf","file_id":"8975","relation":"main_file","access_level":"open_access"}],"month":"12","date_published":"2020-12-22T00:00:00Z","date_updated":"2025-04-15T07:52:12Z","doi":"10.1038/s41467-020-20286-x","article_type":"original","article_processing_charge":"No","publication_status":"published","abstract":[{"lang":"eng","text":"The actin-related protein (Arp)2/3 complex nucleates branched actin filament networks pivotal for cell migration, endocytosis and pathogen infection. Its activation is tightly regulated and involves complex structural rearrangements and actin filament binding, which are yet to be understood. Here, we report a 9.0 Å resolution structure of the actin filament Arp2/3 complex branch junction in cells using cryo-electron tomography and subtomogram averaging. This allows us to generate an accurate model of the active Arp2/3 complex in the branch junction and its interaction with actin filaments. Notably, our model reveals a previously undescribed set of interactions of the Arp2/3 complex with the mother filament, significantly different to the previous branch junction model. Our structure also indicates a central role for the ArpC3 subunit in stabilizing the active conformation."}],"year":"2020"},{"language":[{"iso":"eng"}],"citation":{"apa":"Schlögl, A., Kiss, J., &#38; Elefante, S. (Eds.). (2020). <i>Austrian High-Performance-Computing meeting (AHPC2020)</i>. Presented at the AHPC: Austrian High-Performance-Computing Meeting, Klosterneuburg, Austria: IST Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:7474\">https://doi.org/10.15479/AT:ISTA:7474</a>","short":"A. Schlögl, J. Kiss, S. Elefante, eds., Austrian High-Performance-Computing Meeting (AHPC2020), IST Austria, Klosterneuburg, Austria, 2020.","chicago":"Schlögl, Alois, Janos Kiss, and Stefano Elefante, eds. <i>Austrian High-Performance-Computing Meeting (AHPC2020)</i>. Klosterneuburg, Austria: IST Austria, 2020. <a href=\"https://doi.org/10.15479/AT:ISTA:7474\">https://doi.org/10.15479/AT:ISTA:7474</a>.","ieee":"A. Schlögl, J. Kiss, and S. Elefante, Eds., <i>Austrian High-Performance-Computing meeting (AHPC2020)</i>. Klosterneuburg, Austria: IST Austria, 2020.","ista":"Schlögl A, Kiss J, Elefante S eds. 2020. Austrian High-Performance-Computing meeting (AHPC2020), Klosterneuburg, Austria: IST Austria, 72p.","mla":"Schlögl, Alois, et al., editors. <i>Austrian High-Performance-Computing Meeting (AHPC2020)</i>. IST Austria, 2020, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7474\">10.15479/AT:ISTA:7474</a>.","ama":"Schlögl A, Kiss J, Elefante S, eds. <i>Austrian High-Performance-Computing Meeting (AHPC2020)</i>. Klosterneuburg, Austria: IST Austria; 2020. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:7474\">10.15479/AT:ISTA:7474</a>"},"day":"19","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_updated":"2023-05-16T07:48:28Z","date_published":"2020-02-19T00:00:00Z","month":"02","file":[{"creator":"schloegl","date_updated":"2020-07-14T12:47:59Z","file_size":90899507,"date_created":"2020-02-19T06:53:38Z","checksum":"49798edb9e57bbd6be18362d1d7b18a9","content_type":"application/pdf","file_id":"7504","relation":"main_file","access_level":"open_access","file_name":"BOOKLET_AHPC2020.final.pdf"}],"doi":"10.15479/AT:ISTA:7474","year":"2020","place":"Klosterneuburg, Austria","abstract":[{"lang":"eng","text":"This booklet is a collection of abstracts presented at the AHPC conference."}],"publication_status":"published","article_processing_charge":"No","publisher":"IST Austria","conference":{"name":"AHPC: Austrian High-Performance-Computing Meeting","location":"Klosterneuburg, Austria","end_date":"2020-02-21","start_date":"2020-02-19"},"title":"Austrian High-Performance-Computing meeting (AHPC2020)","date_created":"2020-02-11T07:59:04Z","oa":1,"editor":[{"last_name":"Schlögl","full_name":"Schlögl, Alois","first_name":"Alois","orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87"},{"id":"3D3A06F8-F248-11E8-B48F-1D18A9856A87","last_name":"Kiss","full_name":"Kiss, Janos","first_name":"Janos"},{"first_name":"Stefano","last_name":"Elefante","full_name":"Elefante, Stefano","id":"490F40CE-F248-11E8-B48F-1D18A9856A87"}],"quality_controlled":"1","status":"public","ddc":["000"],"oa_version":"Published Version","file_date_updated":"2020-07-14T12:47:59Z","department":[{"_id":"ScienComp"}],"has_accepted_license":"1","type":"book_editor","page":"72","publication_identifier":{"isbn":["978-3-99078-004-6"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"7474"},{"pmid":1,"oa":1,"quality_controlled":"1","author":[{"first_name":"Madhumitha","last_name":"Narasimhan","full_name":"Narasimhan, Madhumitha","orcid":"0000-0002-8600-0671","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Alexander J","full_name":"Johnson, Alexander J","last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2739-8843"},{"full_name":"Prizak, Roshan","last_name":"Prizak","first_name":"Roshan","id":"4456104E-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0001-9735-5315","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","full_name":"Kaufmann, Walter","last_name":"Kaufmann","first_name":"Walter"},{"last_name":"Tan","full_name":"Tan, Shutang","first_name":"Shutang","orcid":"0000-0002-0471-8285","id":"2DE75584-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Casillas Perez","full_name":"Casillas Perez, Barbara E","first_name":"Barbara E","id":"351ED2AA-F248-11E8-B48F-1D18A9856A87"},{"id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","last_name":"Friml","full_name":"Friml, Jiří","first_name":"Jiří"}],"date_created":"2020-02-16T23:00:50Z","project":[{"_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","grant_number":"742985"},{"grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"title":"Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants","external_id":{"pmid":["31971511"],"isi":["000514104100001"]},"publisher":"eLife Sciences Publications","publication":"eLife","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7490","has_accepted_license":"1","acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"EM-Fac"}],"type":"journal_article","publication_identifier":{"eissn":["2050-084X"]},"volume":9,"isi":1,"file_date_updated":"2020-07-14T12:47:59Z","department":[{"_id":"JiFr"},{"_id":"GaTk"},{"_id":"EM-Fac"},{"_id":"SyCr"}],"intvolume":"         9","ddc":["570","580"],"status":"public","oa_version":"Published Version","scopus_import":"1","date_published":"2020-01-23T00:00:00Z","month":"01","ec_funded":1,"file":[{"file_name":"2020_eLife_Narasimhan.pdf","creator":"dernst","file_size":7247468,"date_updated":"2020-07-14T12:47:59Z","checksum":"2052daa4be5019534f3a42f200a09f32","date_created":"2020-02-18T07:21:16Z","content_type":"application/pdf","relation":"main_file","file_id":"7494","access_level":"open_access"}],"date_updated":"2025-04-14T07:45:03Z","citation":{"short":"M. Narasimhan, A.J. Johnson, R. Prizak, W. Kaufmann, S. Tan, B.E. Casillas Perez, J. Friml, ELife 9 (2020).","apa":"Narasimhan, M., Johnson, A. J., Prizak, R., Kaufmann, W., Tan, S., Casillas Perez, B. E., &#38; Friml, J. (2020). Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/eLife.52067\">https://doi.org/10.7554/eLife.52067</a>","mla":"Narasimhan, Madhumitha, et al. “Evolutionarily Unique Mechanistic Framework of Clathrin-Mediated Endocytosis in Plants.” <i>ELife</i>, vol. 9, e52067, eLife Sciences Publications, 2020, doi:<a href=\"https://doi.org/10.7554/eLife.52067\">10.7554/eLife.52067</a>.","ama":"Narasimhan M, Johnson AJ, Prizak R, et al. Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. <i>eLife</i>. 2020;9. doi:<a href=\"https://doi.org/10.7554/eLife.52067\">10.7554/eLife.52067</a>","chicago":"Narasimhan, Madhumitha, Alexander J Johnson, Roshan Prizak, Walter Kaufmann, Shutang Tan, Barbara E Casillas Perez, and Jiří Friml. “Evolutionarily Unique Mechanistic Framework of Clathrin-Mediated Endocytosis in Plants.” <i>ELife</i>. eLife Sciences Publications, 2020. <a href=\"https://doi.org/10.7554/eLife.52067\">https://doi.org/10.7554/eLife.52067</a>.","ieee":"M. Narasimhan <i>et al.</i>, “Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants,” <i>eLife</i>, vol. 9. eLife Sciences Publications, 2020.","ista":"Narasimhan M, Johnson AJ, Prizak R, Kaufmann W, Tan S, Casillas Perez BE, Friml J. 2020. Evolutionarily unique mechanistic framework of clathrin-mediated endocytosis in plants. eLife. 9, e52067."},"day":"23","article_number":"e52067","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"language":[{"iso":"eng"}],"article_processing_charge":"No","year":"2020","abstract":[{"lang":"eng","text":"In plants, clathrin mediated endocytosis (CME) represents the major route for cargo internalisation from the cell surface. It has been assumed to operate in an evolutionary conserved manner as in yeast and animals. Here we report characterisation of ultrastructure, dynamics and mechanisms of plant CME as allowed by our advancement in electron microscopy and quantitative live imaging techniques. Arabidopsis CME appears to follow the constant curvature model and the bona fide CME population generates vesicles of a predominantly hexagonal-basket type; larger and with faster kinetics than in other models. Contrary to the existing paradigm, actin is dispensable for CME events at the plasma membrane but plays a unique role in collecting endocytic vesicles, sorting of internalised cargos and directional endosome movement that itself actively promote CME events. Internalized vesicles display a strongly delayed and sequential uncoating. These unique features highlight the independent evolution of the plant CME mechanism during the autonomous rise of multicellularity in eukaryotes."}],"publication_status":"published","article_type":"original","doi":"10.7554/eLife.52067"},{"language":[{"iso":"eng"}],"citation":{"ieee":"A. Schauer, D. C. Nunes Pinheiro, R. Hauschild, and C.-P. J. Heisenberg, “Zebrafish embryonic explants undergo genetically encoded self-assembly,” <i>eLife</i>, vol. 9. eLife Sciences Publications, 2020.","chicago":"Schauer, Alexandra, Diana C Nunes Pinheiro, Robert Hauschild, and Carl-Philipp J Heisenberg. “Zebrafish Embryonic Explants Undergo Genetically Encoded Self-Assembly.” <i>ELife</i>. eLife Sciences Publications, 2020. <a href=\"https://doi.org/10.7554/elife.55190\">https://doi.org/10.7554/elife.55190</a>.","ista":"Schauer A, Nunes Pinheiro DC, Hauschild R, Heisenberg C-PJ. 2020. Zebrafish embryonic explants undergo genetically encoded self-assembly. eLife. 9, e55190.","mla":"Schauer, Alexandra, et al. “Zebrafish Embryonic Explants Undergo Genetically Encoded Self-Assembly.” <i>ELife</i>, vol. 9, e55190, eLife Sciences Publications, 2020, doi:<a href=\"https://doi.org/10.7554/elife.55190\">10.7554/elife.55190</a>.","ama":"Schauer A, Nunes Pinheiro DC, Hauschild R, Heisenberg C-PJ. Zebrafish embryonic explants undergo genetically encoded self-assembly. <i>eLife</i>. 2020;9. doi:<a href=\"https://doi.org/10.7554/elife.55190\">10.7554/elife.55190</a>","apa":"Schauer, A., Nunes Pinheiro, D. C., Hauschild, R., &#38; Heisenberg, C.-P. J. (2020). Zebrafish embryonic explants undergo genetically encoded self-assembly. <i>ELife</i>. eLife Sciences Publications. <a href=\"https://doi.org/10.7554/elife.55190\">https://doi.org/10.7554/elife.55190</a>","short":"A. Schauer, D.C. Nunes Pinheiro, R. Hauschild, C.-P.J. Heisenberg, ELife 9 (2020)."},"day":"06","article_number":"e55190","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_updated":"2026-09-08T22:30:13Z","date_published":"2020-04-06T00:00:00Z","month":"04","ec_funded":1,"file":[{"file_id":"7890","relation":"main_file","content_type":"application/pdf","date_created":"2020-05-25T15:15:43Z","checksum":"f6aad884cf706846ae9357fcd728f8b5","file_size":7744848,"creator":"dernst","date_updated":"2020-07-14T12:48:04Z","access_level":"open_access","file_name":"2020_eLife_Schauer.pdf"}],"article_type":"original","doi":"10.7554/elife.55190","year":"2020","abstract":[{"text":"Embryonic stem cell cultures are thought to self-organize into embryoid bodies, able to undergo symmetry-breaking, germ layer specification and even morphogenesis. Yet, it is unclear how to reconcile this remarkable self-organization capacity with classical experiments demonstrating key roles for extrinsic biases by maternal factors and/or extraembryonic tissues in embryogenesis. Here, we show that zebrafish embryonic tissue explants, prepared prior to germ layer induction and lacking extraembryonic tissues, can specify all germ layers and form a seemingly complete mesendoderm anlage. Importantly, explant organization requires polarized inheritance of maternal factors from dorsal-marginal regions of the blastoderm. Moreover, induction of endoderm and head-mesoderm, which require peak Nodal-signaling levels, is highly variable in explants, reminiscent of embryos with reduced Nodal signals from the extraembryonic tissues. Together, these data suggest that zebrafish explants do not undergo bona fide self-organization, but rather display features of genetically encoded self-assembly, where intrinsic genetic programs control the emergence of order.","lang":"eng"}],"publication_status":"published","article_processing_charge":"No","publisher":"eLife Sciences Publications","title":"Zebrafish embryonic explants undergo genetically encoded self-assembly","external_id":{"pmid":["32250246"],"isi":["000531544400001"]},"date_created":"2020-05-25T15:01:40Z","project":[{"call_identifier":"H2020","grant_number":"742573","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","_id":"260F1432-B435-11E9-9278-68D0E5697425"},{"_id":"26B1E39C-B435-11E9-9278-68D0E5697425","grant_number":"25239","name":"Mesendoderm specification in zebrafish: The role of extraembryonic tissues"},{"name":"Coordination of mesendoderm cell fate specification and internalization during zebrafish gastrulation","grant_number":"ALTF 850-2017","_id":"26520D1E-B435-11E9-9278-68D0E5697425"},{"_id":"266BC5CE-B435-11E9-9278-68D0E5697425","name":"Coordination of mesendoderm fate specification and internalization during zebrafish gastrulation","grant_number":"LT000429"}],"pmid":1,"oa":1,"quality_controlled":"1","author":[{"orcid":"0000-0001-7659-9142","id":"30A536BA-F248-11E8-B48F-1D18A9856A87","first_name":"Alexandra","full_name":"Schauer, Alexandra","last_name":"Schauer"},{"first_name":"Diana C","full_name":"Nunes Pinheiro, Diana C","last_name":"Nunes Pinheiro","orcid":"0000-0003-4333-7503","id":"2E839F16-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0001-9843-3522","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","first_name":"Robert","full_name":"Hauschild, Robert","last_name":"Hauschild"},{"first_name":"Carl-Philipp J","last_name":"Heisenberg","full_name":"Heisenberg, Carl-Philipp J","orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87"}],"related_material":{"record":[{"relation":"dissertation_contains","status":"public","id":"12891"}]},"ddc":["570"],"corr_author":"1","status":"public","oa_version":"Published Version","scopus_import":"1","isi":1,"file_date_updated":"2020-07-14T12:48:04Z","department":[{"_id":"CaHe"},{"_id":"Bio"}],"intvolume":"         9","has_accepted_license":"1","type":"journal_article","volume":9,"publication_identifier":{"issn":["2050-084X"]},"publication":"eLife","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"7888"},{"isi":1,"department":[{"_id":"NanoFab"},{"_id":"Bio"},{"_id":"MiSi"}],"intvolume":"       582","related_material":{"link":[{"relation":"press_release","description":"News on IST Homepage","url":"https://ist.ac.at/en/news/off-road-mode-enables-mobile-cells-to-move-freely/"}],"record":[{"relation":"dissertation_contains","status":"public","id":"12401"},{"relation":"dissertation_contains","status":"public","id":"14697"}]},"status":"public","oa_version":"Preprint","scopus_import":"1","publication":"Nature","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"7885","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"M-Shop"}],"type":"journal_article","publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"volume":582,"page":"582–585","title":"Cellular locomotion using environmental topography","external_id":{"pmid":["32581372"],"isi":["000532688300008"]},"publisher":"Springer Nature","pmid":1,"oa":1,"acknowledgement":"We thank A. Leithner and J. Renkawitz for discussion and critical reading of the manuscript; J. Schwarz and M. Mehling for establishing the microfluidic setups; the Bioimaging Facility of IST Austria for excellent support, as well as the Life Science Facility and the Miba Machine Shop of IST Austria; and F. N. Arslan, L. E. Burnett and L. Li for their work during their rotation in the IST PhD programme. This work was supported by the European Research Council (ERC StG 281556 and CoG 724373) to M.S. and grants from the Austrian Science Fund (FWF P29911) and the WWTF to M.S. M.H. was supported by the European Regional Development Fund Project (CZ.02.1.01/0.0/0.0/15_003/0000476). F.G. received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement no. 747687.","quality_controlled":"1","author":[{"last_name":"Reversat","full_name":"Reversat, Anne","first_name":"Anne","id":"35B76592-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0666-8928"},{"orcid":"0000-0001-6120-3723","id":"397A88EE-F248-11E8-B48F-1D18A9856A87","full_name":"Gärtner, Florian R","last_name":"Gärtner","first_name":"Florian R"},{"full_name":"Merrin, Jack","last_name":"Merrin","first_name":"Jack","orcid":"0000-0001-5145-4609","id":"4515C308-F248-11E8-B48F-1D18A9856A87"},{"id":"489E3F00-F248-11E8-B48F-1D18A9856A87","first_name":"Julian A","full_name":"Stopp, Julian A","last_name":"Stopp"},{"first_name":"Saren","last_name":"Tasciyan","full_name":"Tasciyan, Saren","orcid":"0000-0003-1671-393X","id":"4323B49C-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Juan L","full_name":"Aguilera Servin, Juan L","last_name":"Aguilera Servin","orcid":"0000-0002-2862-8372","id":"2A67C376-F248-11E8-B48F-1D18A9856A87"},{"last_name":"De Vries","full_name":"De Vries, Ingrid","first_name":"Ingrid","id":"4C7D837E-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0001-9843-3522","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","last_name":"Hauschild","full_name":"Hauschild, Robert","first_name":"Robert"},{"id":"4167FE56-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6625-3348","full_name":"Hons, Miroslav","last_name":"Hons","first_name":"Miroslav"},{"first_name":"Matthieu","full_name":"Piel, Matthieu","last_name":"Piel"},{"full_name":"Callan-Jones, Andrew","last_name":"Callan-Jones","first_name":"Andrew"},{"first_name":"Raphael","last_name":"Voituriez","full_name":"Voituriez, Raphael"},{"first_name":"Michael K","last_name":"Sixt","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87"}],"OA_place":"repository","date_created":"2020-05-24T22:01:01Z","project":[{"_id":"25A603A2-B435-11E9-9278-68D0E5697425","name":"Cytoskeletal force generation and force transduction of migrating leukocytes","grant_number":"281556","call_identifier":"FP7"},{"_id":"25FE9508-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"724373","name":"Cellular Navigation Along Spatial Gradients"},{"call_identifier":"FWF","name":"Mechanical adaptation of lamellipodial actin","grant_number":"P29911","_id":"26018E70-B435-11E9-9278-68D0E5697425"},{"call_identifier":"H2020","name":"Mechanical Adaptation of Lamellipodial Actin Networks in Migrating Cells","grant_number":"747687","_id":"260AA4E2-B435-11E9-9278-68D0E5697425"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1101/793919"}],"article_type":"original","doi":"10.1038/s41586-020-2283-z","article_processing_charge":"No","OA_type":"green","year":"2020","abstract":[{"lang":"eng","text":"Eukaryotic cells migrate by coupling the intracellular force of the actin cytoskeleton to the environment. While force coupling is usually mediated by transmembrane adhesion receptors, especially those of the integrin family, amoeboid cells such as leukocytes can migrate extremely fast despite very low adhesive forces1. Here we show that leukocytes cannot only migrate under low adhesion but can also transmit forces in the complete absence of transmembrane force coupling. When confined within three-dimensional environments, they use the topographical features of the substrate to propel themselves. Here the retrograde flow of the actin cytoskeleton follows the texture of the substrate, creating retrograde shear forces that are sufficient to drive the cell body forwards. Notably, adhesion-dependent and adhesion-independent migration are not mutually exclusive, but rather are variants of the same principle of coupling retrograde actin flow to the environment and thus can potentially operate interchangeably and simultaneously. As adhesion-free migration is independent of the chemical composition of the environment, it renders cells completely autonomous in their locomotive behaviour."}],"publication_status":"published","citation":{"ista":"Reversat A, Gärtner FR, Merrin J, Stopp JA, Tasciyan S, Aguilera Servin JL, de Vries I, Hauschild R, Hons M, Piel M, Callan-Jones A, Voituriez R, Sixt MK. 2020. Cellular locomotion using environmental topography. Nature. 582, 582–585.","chicago":"Reversat, Anne, Florian R Gärtner, Jack Merrin, Julian A Stopp, Saren Tasciyan, Juan L Aguilera Servin, Ingrid de Vries, et al. “Cellular Locomotion Using Environmental Topography.” <i>Nature</i>. Springer Nature, 2020. <a href=\"https://doi.org/10.1038/s41586-020-2283-z\">https://doi.org/10.1038/s41586-020-2283-z</a>.","ieee":"A. Reversat <i>et al.</i>, “Cellular locomotion using environmental topography,” <i>Nature</i>, vol. 582. Springer Nature, pp. 582–585, 2020.","ama":"Reversat A, Gärtner FR, Merrin J, et al. Cellular locomotion using environmental topography. <i>Nature</i>. 2020;582:582–585. doi:<a href=\"https://doi.org/10.1038/s41586-020-2283-z\">10.1038/s41586-020-2283-z</a>","mla":"Reversat, Anne, et al. “Cellular Locomotion Using Environmental Topography.” <i>Nature</i>, vol. 582, Springer Nature, 2020, pp. 582–585, doi:<a href=\"https://doi.org/10.1038/s41586-020-2283-z\">10.1038/s41586-020-2283-z</a>.","apa":"Reversat, A., Gärtner, F. R., Merrin, J., Stopp, J. A., Tasciyan, S., Aguilera Servin, J. L., … Sixt, M. K. (2020). Cellular locomotion using environmental topography. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-020-2283-z\">https://doi.org/10.1038/s41586-020-2283-z</a>","short":"A. Reversat, F.R. Gärtner, J. Merrin, J.A. Stopp, S. Tasciyan, J.L. Aguilera Servin, I. de Vries, R. Hauschild, M. Hons, M. Piel, A. Callan-Jones, R. Voituriez, M.K. Sixt, Nature 582 (2020) 582–585."},"day":"25","language":[{"iso":"eng"}],"date_published":"2020-06-25T00:00:00Z","month":"06","ec_funded":1,"date_updated":"2026-09-08T22:30:16Z"},{"_id":"9750","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","publication":"bioRxiv","page":"41","publication_status":"published","type":"preprint","abstract":[{"text":"Tension of the actomyosin cell cortex plays a key role in determining cell-cell contact growth and size. The level of cortical tension outside of the cell-cell contact, when pulling at the contact edge, scales with the total size to which a cell-cell contact can grow1,2. Here we show in zebrafish primary germ layer progenitor cells that this monotonic relationship only applies to a narrow range of cortical tension increase, and that above a critical threshold, contact size inversely scales with cortical tension. This switch from cortical tension increasing to decreasing progenitor cell-cell contact size is caused by cortical tension promoting E-cadherin anchoring to the actomyosin cytoskeleton, thereby increasing clustering and stability of E-cadherin at the contact. Once tension-mediated E-cadherin stabilization at the contact exceeds a critical threshold level, the rate by which the contact expands in response to pulling forces from the cortex sharply drops, leading to smaller contacts at physiologically relevant timescales of contact formation. Thus, the activity of cortical tension in expanding cell-cell contact size is limited by tension stabilizing E-cadherin-actin complexes at the contact.","lang":"eng"}],"acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"},{"_id":"SSU"}],"year":"2020","department":[{"_id":"CaHe"},{"_id":"EM-Fac"},{"_id":"Bio"}],"doi":"10.1101/2020.11.20.391284","main_file_link":[{"url":"https://doi.org/10.1101/2020.11.20.391284","open_access":"1"}],"oa_version":"Preprint","status":"public","related_material":{"record":[{"status":"public","id":"10766","relation":"later_version"},{"relation":"dissertation_contains","id":"9623","status":"public"}]},"acknowledgement":"We would like to thank Edouard Hannezo for discussions, Shayan Shami Pour and Daniel Capek for help with data analysis, Vanessa Barone and other members of the Heisenberg laboratory for thoughtful discussions and comments on the manuscript. We also thank Jack Merrin for preparing the microwells, and the Scientific Service Units at IST Austria, specifically Bioimaging and Electron Microscopy, and the Zebrafish Facility for continuous support. We acknowledge Hitoshi Morita for the kind gift of VinculinB-GFP plasmid. This research was supported by an ERC Advanced Grant (MECSPEC) to C.-P.H, EMBO Long Term grant (ALTF 187-2013) to M.S and IST Fellow Marie-Curie COFUND No. P_IST_EU01 to J.S.","author":[{"id":"30F3F2F0-F248-11E8-B48F-1D18A9856A87","first_name":"Jana","last_name":"Slovakova","full_name":"Slovakova, Jana"},{"last_name":"Sikora","full_name":"Sikora, Mateusz K","first_name":"Mateusz K","id":"2F74BCDE-F248-11E8-B48F-1D18A9856A87"},{"id":"2F1E1758-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5223-3346","last_name":"Caballero Mancebo","full_name":"Caballero Mancebo, Silvia","first_name":"Silvia"},{"orcid":"0000-0003-4761-5996","id":"2B819732-F248-11E8-B48F-1D18A9856A87","full_name":"Krens, Gabriel","last_name":"Krens","first_name":"Gabriel"},{"id":"3F99E422-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9735-5315","first_name":"Walter","last_name":"Kaufmann","full_name":"Kaufmann, Walter"},{"first_name":"Karla","last_name":"Huljev","full_name":"Huljev, Karla","id":"44C6F6A6-F248-11E8-B48F-1D18A9856A87"},{"id":"39427864-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0912-4566","full_name":"Heisenberg, Carl-Philipp J","last_name":"Heisenberg","first_name":"Carl-Philipp J"}],"ec_funded":1,"month":"11","oa":1,"date_published":"2020-11-20T00:00:00Z","project":[{"_id":"25681D80-B435-11E9-9278-68D0E5697425","name":"International IST Postdoc Fellowship Programme","grant_number":"291734","call_identifier":"FP7"},{"_id":"260F1432-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","grant_number":"742573"},{"name":"Modulation of adhesion function in cell-cell contact formation by cortical tension","grant_number":"187-2013","_id":"2521E28E-B435-11E9-9278-68D0E5697425"}],"date_created":"2021-07-29T11:29:50Z","date_updated":"2026-09-08T22:30:27Z","day":"20","title":"Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion","citation":{"chicago":"Slovakova, Jana, Mateusz K Sikora, Silvia Caballero Mancebo, Gabriel Krens, Walter Kaufmann, Karla Huljev, and Carl-Philipp J Heisenberg. “Tension-Dependent Stabilization of E-Cadherin Limits Cell-Cell Contact Expansion.” <i>BioRxiv</i>, 2020. <a href=\"https://doi.org/10.1101/2020.11.20.391284\">https://doi.org/10.1101/2020.11.20.391284</a>.","ieee":"J. Slovakova <i>et al.</i>, “Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion,” <i>bioRxiv</i>. 2020.","ista":"Slovakova J, Sikora MK, Caballero Mancebo S, Krens G, Kaufmann W, Huljev K, Heisenberg C-PJ. 2020. Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion. bioRxiv, <a href=\"https://doi.org/10.1101/2020.11.20.391284\">10.1101/2020.11.20.391284</a>.","mla":"Slovakova, Jana, et al. “Tension-Dependent Stabilization of E-Cadherin Limits Cell-Cell Contact Expansion.” <i>BioRxiv</i>, 2020, doi:<a href=\"https://doi.org/10.1101/2020.11.20.391284\">10.1101/2020.11.20.391284</a>.","ama":"Slovakova J, Sikora MK, Caballero Mancebo S, et al. Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion. <i>bioRxiv</i>. 2020. doi:<a href=\"https://doi.org/10.1101/2020.11.20.391284\">10.1101/2020.11.20.391284</a>","apa":"Slovakova, J., Sikora, M. K., Caballero Mancebo, S., Krens, G., Kaufmann, W., Huljev, K., &#38; Heisenberg, C.-P. J. (2020). Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2020.11.20.391284\">https://doi.org/10.1101/2020.11.20.391284</a>","short":"J. Slovakova, M.K. Sikora, S. Caballero Mancebo, G. Krens, W. Kaufmann, K. Huljev, C.-P.J. Heisenberg, BioRxiv (2020)."},"language":[{"iso":"eng"}]},{"ec_funded":1,"file":[{"creator":"ajohnson","date_updated":"2021-08-08T22:30:03Z","file_size":15150403,"date_created":"2020-11-26T17:12:51Z","checksum":"2d11f79a0b4e0a380fb002b933da331a","content_type":"application/pdf","relation":"main_file","file_id":"8815","access_level":"open_access","embargo":"2021-08-07","file_name":"2020 - Johnson - JSC - plant CME toolbox.pdf"}],"month":"08","date_published":"2020-08-06T00:00:00Z","date_updated":"2026-09-08T22:30:53Z","article_number":"jcs248062","day":"06","citation":{"apa":"Johnson, A. J., Gnyliukh, N., Kaufmann, W., Narasimhan, M., Vert, G., Bednarek, S., &#38; Friml, J. (2020). Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis. <i>Journal of Cell Science</i>. The Company of Biologists. <a href=\"https://doi.org/10.1242/jcs.248062\">https://doi.org/10.1242/jcs.248062</a>","short":"A.J. Johnson, N. Gnyliukh, W. Kaufmann, M. Narasimhan, G. Vert, S. Bednarek, J. Friml, Journal of Cell Science 133 (2020).","ista":"Johnson AJ, Gnyliukh N, Kaufmann W, Narasimhan M, Vert G, Bednarek S, Friml J. 2020. Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis. Journal of Cell Science. 133(15), jcs248062.","chicago":"Johnson, Alexander J, Nataliia Gnyliukh, Walter Kaufmann, Madhumitha Narasimhan, G Vert, SY Bednarek, and Jiří Friml. “Experimental Toolbox for Quantitative Evaluation of Clathrin-Mediated Endocytosis in the Plant Model Arabidopsis.” <i>Journal of Cell Science</i>. The Company of Biologists, 2020. <a href=\"https://doi.org/10.1242/jcs.248062\">https://doi.org/10.1242/jcs.248062</a>.","ieee":"A. J. Johnson <i>et al.</i>, “Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis,” <i>Journal of Cell Science</i>, vol. 133, no. 15. The Company of Biologists, 2020.","ama":"Johnson AJ, Gnyliukh N, Kaufmann W, et al. Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis. <i>Journal of Cell Science</i>. 2020;133(15). doi:<a href=\"https://doi.org/10.1242/jcs.248062\">10.1242/jcs.248062</a>","mla":"Johnson, Alexander J., et al. “Experimental Toolbox for Quantitative Evaluation of Clathrin-Mediated Endocytosis in the Plant Model Arabidopsis.” <i>Journal of Cell Science</i>, vol. 133, no. 15, jcs248062, The Company of Biologists, 2020, doi:<a href=\"https://doi.org/10.1242/jcs.248062\">10.1242/jcs.248062</a>."},"language":[{"iso":"eng"}],"article_processing_charge":"No","publication_status":"published","abstract":[{"lang":"eng","text":"Clathrin-mediated endocytosis (CME) is a crucial cellular process implicated in many aspects of plant growth, development, intra- and inter-cellular signaling, nutrient uptake and pathogen defense. Despite these significant roles, little is known about the precise molecular details of how it functions in planta. In order to facilitate the direct quantitative study of plant CME, here we review current routinely used methods and present refined, standardized quantitative imaging protocols which allow the detailed characterization of CME at multiple scales in plant tissues. These include: (i) an efficient electron microscopy protocol for the imaging of Arabidopsis CME vesicles in situ, thus providing a method for the detailed characterization of the ultra-structure of clathrin-coated vesicles; (ii) a detailed protocol and analysis for quantitative live-cell fluorescence microscopy to precisely examine the temporal interplay of endocytosis components during single CME events; (iii) a semi-automated analysis to allow the quantitative characterization of global internalization of cargos in whole plant tissues; and (iv) an overview and validation of useful genetic and pharmacological tools to interrogate the molecular mechanisms and function of CME in intact plant samples."}],"year":"2020","doi":"10.1242/jcs.248062","article_type":"original","quality_controlled":"1","author":[{"orcid":"0000-0002-2739-8843","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","last_name":"Johnson","full_name":"Johnson, Alexander J","first_name":"Alexander J"},{"first_name":"Nataliia","last_name":"Gnyliukh","full_name":"Gnyliukh, Nataliia","orcid":"0000-0002-2198-0509","id":"390C1120-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Kaufmann","full_name":"Kaufmann, Walter","first_name":"Walter","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9735-5315"},{"orcid":"0000-0002-8600-0671","id":"44BF24D0-F248-11E8-B48F-1D18A9856A87","last_name":"Narasimhan","full_name":"Narasimhan, Madhumitha","first_name":"Madhumitha"},{"last_name":"Vert","full_name":"Vert, G","first_name":"G"},{"first_name":"SY","last_name":"Bednarek","full_name":"Bednarek, SY"},{"first_name":"Jiří","full_name":"Friml, Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596"}],"acknowledgement":"This paper is dedicated to the memory of Christien Merrifield. He pioneered quantitative\r\nimaging approaches in mammalian CME and his mentorship inspired the development of all\r\nthe analysis methods presented here. His joy in research, pure scientific curiosity and\r\nmicroscopy excellence remain a constant inspiration. We thank Daniel Van Damme for gifting\r\nus the CLC2-GFP x TPLATE-TagRFP plants used in this manuscript. We further thank the\r\nScientific Service Units at IST Austria; specifically, the Electron Microscopy Facility for\r\ntechnical assistance (in particular Vanessa Zheden) and the BioImaging Facility BioImaging\r\nFacility for access to equipment. ","oa":1,"pmid":1,"project":[{"_id":"26538374-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","grant_number":"I03630","name":"Molecular mechanisms of endocytic cargo recognition in plants"},{"call_identifier":"H2020","grant_number":"665385","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"}],"date_created":"2020-07-21T08:58:19Z","external_id":{"isi":["000561047900021"],"pmid":["32616560"]},"title":"Experimental toolbox for quantitative evaluation of clathrin-mediated endocytosis in the plant model Arabidopsis","issue":"15","publisher":"The Company of Biologists","_id":"8139","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication":"Journal of Cell Science","volume":133,"publication_identifier":{"issn":["0021-9533"],"eissn":["1477-9137"]},"type":"journal_article","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"Bio"}],"has_accepted_license":"1","intvolume":"       133","department":[{"_id":"JiFr"},{"_id":"EM-Fac"}],"file_date_updated":"2021-08-08T22:30:03Z","isi":1,"scopus_import":"1","oa_version":"Published Version","ddc":["575"],"status":"public","related_material":{"record":[{"relation":"dissertation_contains","id":"14510","status":"public"}]}},{"publication":"bioRxiv","_id":"7800","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"preprint","has_accepted_license":"1","acknowledged_ssus":[{"_id":"PreCl"}],"file_date_updated":"2020-07-14T12:48:03Z","department":[{"_id":"JoDa"},{"_id":"GaNo"},{"_id":"LifeSc"}],"oa_version":"Preprint","related_material":{"record":[{"relation":"later_version","id":"9429","status":"public"},{"relation":"dissertation_contains","status":"public","id":"8620"}]},"corr_author":"1","ddc":["570"],"status":"public","oa":1,"das_tickbox":"1","author":[{"first_name":"Jasmin","last_name":"Morandell","full_name":"Morandell, Jasmin","id":"4739D480-F248-11E8-B48F-1D18A9856A87"},{"id":"29A8453C-F248-11E8-B48F-1D18A9856A87","first_name":"Lena A","full_name":"Schwarz, Lena A","last_name":"Schwarz"},{"full_name":"Basilico, Bernadette","last_name":"Basilico","first_name":"Bernadette","id":"36035796-5ACA-11E9-A75E-7AF2E5697425","orcid":"0000-0003-1843-3173"},{"full_name":"Tasciyan, Saren","last_name":"Tasciyan","first_name":"Saren","id":"4323B49C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1671-393X"},{"full_name":"Nicolas, Armel","last_name":"Nicolas","first_name":"Armel","id":"2A103192-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Christoph M","full_name":"Sommer, Christoph M","last_name":"Sommer","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1216-9105"},{"id":"382077BA-F248-11E8-B48F-1D18A9856A87","first_name":"Caroline","last_name":"Kreuzinger","full_name":"Kreuzinger, Caroline"},{"id":"3B2ABCF4-F248-11E8-B48F-1D18A9856A87","full_name":"Knaus, Lisa","last_name":"Knaus","first_name":"Lisa"},{"id":"D23090A2-9057-11EA-883A-A8396FC7A38F","last_name":"Dobler","full_name":"Dobler, Zoe","first_name":"Zoe"},{"first_name":"Emanuele","last_name":"Cacci","full_name":"Cacci, Emanuele"},{"orcid":"0000-0001-8559-3973","id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","full_name":"Danzl, Johann G","last_name":"Danzl","first_name":"Johann G"},{"first_name":"Gaia","full_name":"Novarino, Gaia","last_name":"Novarino","orcid":"0000-0002-7673-7178","id":"3E57A680-F248-11E8-B48F-1D18A9856A87"}],"date_created":"2020-05-05T14:31:33Z","project":[{"call_identifier":"FWF","name":"Optical control of synaptic function via adhesion molecules","grant_number":"I03600","_id":"265CB4D0-B435-11E9-9278-68D0E5697425"},{"call_identifier":"FWF","grant_number":"W1232","name":"Molecular Drug Targets","_id":"2548AE96-B435-11E9-9278-68D0E5697425"}],"title":"Cul3 regulates cytoskeleton protein homeostasis and cell migration during a critical window of brain development","article_processing_charge":"No","abstract":[{"text":"De novo loss of function mutations in the ubiquitin ligase-encoding gene Cullin3 (CUL3) lead to autism spectrum disorder (ASD). Here, we used Cul3 mouse models to evaluate the consequences of Cul3 mutations in vivo. Our results show that Cul3 haploinsufficient mice exhibit deficits in motor coordination as well as ASD-relevant social and cognitive impairments. Cul3 mutant brain displays cortical lamination abnormalities due to defective neuronal migration and reduced numbers of excitatory and inhibitory neurons. In line with the observed abnormal columnar organization, Cul3 haploinsufficiency is associated with decreased spontaneous excitatory and inhibitory activity in the cortex. At the molecular level, employing a quantitative proteomic approach, we show that Cul3 regulates cytoskeletal and adhesion protein abundance in mouse embryos. Abnormal regulation of cytoskeletal proteins in Cul3 mutant neuronal cells results in atypical organization of the actin mesh at the cell leading edge, likely causing the observed migration deficits. In contrast to these important functions early in development, Cul3 deficiency appears less relevant at adult stages. In fact, induction of Cul3 haploinsufficiency in adult mice does not result in the behavioral defects observed in constitutive Cul3 haploinsufficient animals. Taken together, our data indicate that Cul3 has a critical role in the regulation of cytoskeletal proteins and neuronal migration and that ASD-associated defects and behavioral abnormalities are primarily due to Cul3 functions at early developmental stages.","lang":"eng"}],"year":"2020","publication_status":"draft","doi":"10.1101/2020.01.10.902064 ","month":"01","date_published":"2020-01-11T00:00:00Z","file":[{"content_type":"application/pdf","file_id":"7801","relation":"main_file","date_updated":"2020-07-14T12:48:03Z","creator":"rsix","file_size":2931370,"checksum":"c6799ab5daba80efe8e2ed63c15f8c81","date_created":"2020-05-05T14:31:19Z","access_level":"open_access","file_name":"2020.01.10.902064v1.full.pdf"}],"date_updated":"2026-09-08T22:31:12Z","day":"11","citation":{"apa":"Morandell, J., Schwarz, L. A., Basilico, B., Tasciyan, S., Nicolas, A., Sommer, C. M., … Novarino, G. (n.d.). Cul3 regulates cytoskeleton protein homeostasis and cell migration during a critical window of brain development. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2020.01.10.902064 \">https://doi.org/10.1101/2020.01.10.902064 </a>","short":"J. Morandell, L.A. Schwarz, B. Basilico, S. Tasciyan, A. Nicolas, C.M. Sommer, C. Kreuzinger, L. Knaus, Z. Dobler, E. Cacci, J.G. Danzl, G. Novarino, BioRxiv (n.d.).","chicago":"Morandell, Jasmin, Lena A Schwarz, Bernadette Basilico, Saren Tasciyan, Armel Nicolas, Christoph M Sommer, Caroline Kreuzinger, et al. “Cul3 Regulates Cytoskeleton Protein Homeostasis and Cell Migration during a Critical Window of Brain Development.” <i>BioRxiv</i>, n.d. <a href=\"https://doi.org/10.1101/2020.01.10.902064 \">https://doi.org/10.1101/2020.01.10.902064 </a>.","ieee":"J. Morandell <i>et al.</i>, “Cul3 regulates cytoskeleton protein homeostasis and cell migration during a critical window of brain development,” <i>bioRxiv</i>. .","ista":"Morandell J, Schwarz LA, Basilico B, Tasciyan S, Nicolas A, Sommer CM, Kreuzinger C, Knaus L, Dobler Z, Cacci E, Danzl JG, Novarino G. Cul3 regulates cytoskeleton protein homeostasis and cell migration during a critical window of brain development. bioRxiv, <a href=\"https://doi.org/10.1101/2020.01.10.902064 \">10.1101/2020.01.10.902064 </a>.","mla":"Morandell, Jasmin, et al. “Cul3 Regulates Cytoskeleton Protein Homeostasis and Cell Migration during a Critical Window of Brain Development.” <i>BioRxiv</i>, doi:<a href=\"https://doi.org/10.1101/2020.01.10.902064 \">10.1101/2020.01.10.902064 </a>.","ama":"Morandell J, Schwarz LA, Basilico B, et al. Cul3 regulates cytoskeleton protein homeostasis and cell migration during a critical window of brain development. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2020.01.10.902064 \">10.1101/2020.01.10.902064 </a>"},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","short":"CC BY-NC-ND (4.0)"},"language":[{"iso":"eng"}]},{"date_updated":"2024-10-09T21:05:24Z","date_created":"2023-05-05T12:48:48Z","author":[{"orcid":"0000-0002-5621-8100","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","full_name":"Schlögl, Alois","last_name":"Schlögl","first_name":"Alois"},{"first_name":"Janos","last_name":"Kiss","full_name":"Kiss, Janos","id":"3D3A06F8-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Elefante","full_name":"Elefante, Stefano","first_name":"Stefano","id":"490F40CE-F248-11E8-B48F-1D18A9856A87"}],"file":[{"file_name":"2019_AHPC_Schloegl.pdf","checksum":"acc8272027faaf30709c51ac5c58ffa4","date_created":"2023-05-16T07:27:09Z","file_size":1097603,"date_updated":"2023-05-16T07:27:09Z","creator":"dernst","file_id":"12970","relation":"main_file","success":1,"content_type":"application/pdf","access_level":"open_access"}],"date_published":"2019-02-27T00:00:00Z","oa":1,"month":"02","publisher":"Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz","conference":{"location":"Grundlsee, Austria","end_date":"2019-02-27","start_date":"2019-02-25","name":"AHPC: Austrian HPC Meeting"},"language":[{"iso":"eng"}],"citation":{"ista":"Schlögl A, Kiss J, Elefante S. 2019. Is Debian suitable for running an HPC Cluster? AHPC19 - Austrian HPC Meeting 2019 . AHPC: Austrian HPC Meeting, 25.","chicago":"Schlögl, Alois, Janos Kiss, and Stefano Elefante. “Is Debian Suitable for Running an HPC Cluster?” In <i>AHPC19 - Austrian HPC Meeting 2019 </i>, 25. Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz, 2019.","ieee":"A. Schlögl, J. Kiss, and S. Elefante, “Is Debian suitable for running an HPC Cluster?,” in <i>AHPC19 - Austrian HPC Meeting 2019 </i>, Grundlsee, Austria, 2019, p. 25.","ama":"Schlögl A, Kiss J, Elefante S. Is Debian suitable for running an HPC Cluster? In: <i>AHPC19 - Austrian HPC Meeting 2019 </i>. Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz; 2019:25.","mla":"Schlögl, Alois, et al. “Is Debian Suitable for Running an HPC Cluster?” <i>AHPC19 - Austrian HPC Meeting 2019 </i>, Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz, 2019, p. 25.","apa":"Schlögl, A., Kiss, J., &#38; Elefante, S. (2019). Is Debian suitable for running an HPC Cluster? In <i>AHPC19 - Austrian HPC Meeting 2019 </i> (p. 25). Grundlsee, Austria: Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz.","short":"A. Schlögl, J. Kiss, S. Elefante, in:, AHPC19 - Austrian HPC Meeting 2019 , Institut für Mathematik und wissenschaftliches Rechnen der Universität Graz, 2019, p. 25."},"title":"Is Debian suitable for running an HPC Cluster?","day":"27","publication_status":"published","page":"25","has_accepted_license":"1","year":"2019","type":"conference_abstract","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","_id":"12901","publication":"AHPC19 - Austrian HPC Meeting 2019 ","corr_author":"1","ddc":["000"],"status":"public","oa_version":"Published Version","main_file_link":[{"url":"https://vsc.ac.at/fileadmin/user_upload/vsc/conferences/ahpc19/BOOKLET_AHPC19.pdf","open_access":"1"}],"department":[{"_id":"ScienComp"}],"file_date_updated":"2023-05-16T07:27:09Z"},{"article_type":"original","doi":"10.1038/s41596-018-0117-3","publication_status":"published","year":"2019","abstract":[{"lang":"eng","text":"Expansion microscopy is a relatively new approach to super-resolution imaging that uses expandable hydrogels to isotropically increase the physical distance between fluorophores in biological samples such as cell cultures or tissue slices. The classic gel recipe results in an expansion factor of ~4×, with a resolution of 60–80 nm. We have recently developed X10 microscopy, which uses a gel that achieves an expansion factor of ~10×, with a resolution of ~25 nm. Here, we provide a step-by-step protocol for X10 expansion microscopy. A typical experiment consists of seven sequential stages: (i) immunostaining, (ii) anchoring, (iii) polymerization, (iv) homogenization, (v) expansion, (vi) imaging, and (vii) validation. The protocol presented here includes recommendations for optimization, pitfalls and their solutions, and detailed guidelines that should increase reproducibility. Although our protocol focuses on X10 expansion microscopy, we detail which of these suggestions are also applicable to classic fourfold expansion microscopy. We exemplify our protocol using primary hippocampal neurons from rats, but our approach can be used with other primary cells or cultured cell lines of interest. This protocol will enable any researcher with basic experience in immunostainings and access to an epifluorescence microscope to perform super-resolution microscopy with X10. The procedure takes 3 d and requires ~5 h of actively handling the sample for labeling and expansion, and another ~3 h for imaging and analysis."}],"article_processing_charge":"No","language":[{"iso":"eng"}],"citation":{"mla":"Truckenbrodt, Sven M., et al. “A Practical Guide to Optimization in X10 Expansion Microscopy.” <i>Nature Protocols</i>, vol. 14, no. 3, Nature Publishing Group, 2019, pp. 832–863, doi:<a href=\"https://doi.org/10.1038/s41596-018-0117-3\">10.1038/s41596-018-0117-3</a>.","ama":"Truckenbrodt SM, Sommer CM, Rizzoli SO, Danzl JG. A practical guide to optimization in X10 expansion microscopy. <i>Nature Protocols</i>. 2019;14(3):832–863. doi:<a href=\"https://doi.org/10.1038/s41596-018-0117-3\">10.1038/s41596-018-0117-3</a>","chicago":"Truckenbrodt, Sven M, Christoph M Sommer, Silvio O Rizzoli, and Johann G Danzl. “A Practical Guide to Optimization in X10 Expansion Microscopy.” <i>Nature Protocols</i>. Nature Publishing Group, 2019. <a href=\"https://doi.org/10.1038/s41596-018-0117-3\">https://doi.org/10.1038/s41596-018-0117-3</a>.","ieee":"S. M. Truckenbrodt, C. M. Sommer, S. O. Rizzoli, and J. G. Danzl, “A practical guide to optimization in X10 expansion microscopy,” <i>Nature Protocols</i>, vol. 14, no. 3. Nature Publishing Group, pp. 832–863, 2019.","ista":"Truckenbrodt SM, Sommer CM, Rizzoli SO, Danzl JG. 2019. A practical guide to optimization in X10 expansion microscopy. Nature Protocols. 14(3), 832–863.","short":"S.M. Truckenbrodt, C.M. Sommer, S.O. Rizzoli, J.G. Danzl, Nature Protocols 14 (2019) 832–863.","apa":"Truckenbrodt, S. M., Sommer, C. M., Rizzoli, S. O., &#38; Danzl, J. G. (2019). A practical guide to optimization in X10 expansion microscopy. <i>Nature Protocols</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41596-018-0117-3\">https://doi.org/10.1038/s41596-018-0117-3</a>"},"day":"01","date_updated":"2025-04-14T07:44:00Z","ec_funded":1,"file":[{"relation":"main_file","file_id":"9619","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","success":1,"checksum":"7efb9951e7ddf3e3dcc2fb92b859c623","date_created":"2021-06-29T14:41:46Z","date_updated":"2021-06-29T14:41:46Z","file_size":84478958,"creator":"kschuh","access_level":"open_access","file_name":"181031_Truckenbrodt_ExM_NatProtoc.docx"}],"date_published":"2019-03-01T00:00:00Z","month":"03","scopus_import":"1","status":"public","ddc":["570"],"oa_version":"Submitted Version","department":[{"_id":"JoDa"},{"_id":"Bio"}],"intvolume":"        14","file_date_updated":"2021-06-29T14:41:46Z","isi":1,"page":"832–863","volume":14,"has_accepted_license":"1","type":"journal_article","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","_id":"6052","publication":"Nature Protocols","publisher":"Nature Publishing Group","external_id":{"pmid":["30778205"],"isi":["000459890700008"]},"issue":"3","title":"A practical guide to optimization in X10 expansion microscopy","project":[{"call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425"},{"_id":"265CB4D0-B435-11E9-9278-68D0E5697425","name":"Optical control of synaptic function via adhesion molecules","grant_number":"I03600","call_identifier":"FWF"}],"date_created":"2019-02-24T22:59:20Z","quality_controlled":"1","author":[{"id":"45812BD4-F248-11E8-B48F-1D18A9856A87","full_name":"Truckenbrodt, Sven M","last_name":"Truckenbrodt","first_name":"Sven M"},{"orcid":"0000-0003-1216-9105","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph M","full_name":"Sommer, Christoph M","last_name":"Sommer"},{"first_name":"Silvio O","last_name":"Rizzoli","full_name":"Rizzoli, Silvio O"},{"id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8559-3973","first_name":"Johann G","last_name":"Danzl","full_name":"Danzl, Johann G"}],"pmid":1,"oa":1},{"day":"07","citation":{"mla":"Xia, Peng, et al. “Lateral Inhibition in Cell Specification Mediated by Mechanical Signals Modulating TAZ Activity.” <i>Cell</i>, vol. 176, no. 6, Elsevier, 2019, p. 1379–1392.e14, doi:<a href=\"https://doi.org/10.1016/j.cell.2019.01.019\">10.1016/j.cell.2019.01.019</a>.","ama":"Xia P, Gütl DJ, Zheden V, Heisenberg C-PJ. Lateral inhibition in cell specification mediated by mechanical signals modulating TAZ activity. <i>Cell</i>. 2019;176(6):1379-1392.e14. doi:<a href=\"https://doi.org/10.1016/j.cell.2019.01.019\">10.1016/j.cell.2019.01.019</a>","ieee":"P. Xia, D. J. Gütl, V. Zheden, and C.-P. J. Heisenberg, “Lateral inhibition in cell specification mediated by mechanical signals modulating TAZ activity,” <i>Cell</i>, vol. 176, no. 6. Elsevier, p. 1379–1392.e14, 2019.","chicago":"Xia, Peng, Daniel J Gütl, Vanessa Zheden, and Carl-Philipp J Heisenberg. “Lateral Inhibition in Cell Specification Mediated by Mechanical Signals Modulating TAZ Activity.” <i>Cell</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.cell.2019.01.019\">https://doi.org/10.1016/j.cell.2019.01.019</a>.","ista":"Xia P, Gütl DJ, Zheden V, Heisenberg C-PJ. 2019. Lateral inhibition in cell specification mediated by mechanical signals modulating TAZ activity. Cell. 176(6), 1379–1392.e14.","short":"P. Xia, D.J. Gütl, V. Zheden, C.-P.J. Heisenberg, Cell 176 (2019) 1379–1392.e14.","apa":"Xia, P., Gütl, D. J., Zheden, V., &#38; Heisenberg, C.-P. J. (2019). Lateral inhibition in cell specification mediated by mechanical signals modulating TAZ activity. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2019.01.019\">https://doi.org/10.1016/j.cell.2019.01.019</a>"},"language":[{"iso":"eng"}],"ec_funded":1,"month":"03","date_published":"2019-03-07T00:00:00Z","date_updated":"2026-06-18T18:59:54Z","doi":"10.1016/j.cell.2019.01.019","article_type":"original","main_file_link":[{"url":"https://doi.org/10.1016/j.cell.2019.01.019","open_access":"1"}],"article_processing_charge":"No","publication_status":"published","abstract":[{"text":"Cell fate specification by lateral inhibition typically involves contact signaling through the Delta-Notch signaling pathway. However, whether this is the only signaling mode mediating lateral inhibition remains unclear. Here we show that in zebrafish oogenesis, a group of cells within the granulosa cell layer at the oocyte animal pole acquire elevated levels of the transcriptional coactivator TAZ in their nuclei. One of these cells, the future micropyle precursor cell (MPC), accumulates increasingly high levels of nuclear TAZ and grows faster than its surrounding cells, mechanically compressing those cells, which ultimately lose TAZ from their nuclei. Strikingly, relieving neighbor-cell compression by MPC ablation or aspiration restores nuclear TAZ accumulation in neighboring cells, eventually leading to MPC re-specification from these cells. Conversely, MPC specification is defective in taz−/− follicles. These findings uncover a novel mode of lateral inhibition in cell fate specification based on mechanical signals controlling TAZ activity.","lang":"eng"}],"year":"2019","external_id":{"pmid":["30773315"],"isi":["000460509600013"]},"title":"Lateral inhibition in cell specification mediated by mechanical signals modulating TAZ activity","issue":"6","publisher":"Elsevier","author":[{"last_name":"Xia","full_name":"Xia, Peng","first_name":"Peng","orcid":"0000-0002-5419-7756","id":"4AB6C7D0-F248-11E8-B48F-1D18A9856A87"},{"id":"381929CE-F248-11E8-B48F-1D18A9856A87","first_name":"Daniel J","full_name":"Gütl, Daniel J","last_name":"Gütl"},{"first_name":"Vanessa","last_name":"Zheden","full_name":"Zheden, Vanessa","orcid":"0000-0002-9438-4783","id":"39C5A68A-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-0912-4566","id":"39427864-F248-11E8-B48F-1D18A9856A87","full_name":"Heisenberg, Carl-Philipp J","last_name":"Heisenberg","first_name":"Carl-Philipp J"}],"quality_controlled":"1","acknowledgement":"We thank Roland Dosch, Makoto Furutani-Seiki, Brian Link, Mary Mullins, and Masazumi Tada for providing transgenic and/or mutant zebrafish lines; Alexandra Schauer, Shayan Shami-Pour, and the rest of the Heisenberg lab for technical assistance and feedback on the manuscript; and the Bioimaging, Electron Microscopy, and Zebrafish facilities of IST Austria for continuous support. This work was supported by an ERC advanced grant ( MECSPEC to C.-P.H.).","oa":1,"pmid":1,"project":[{"_id":"260F1432-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","grant_number":"742573"}],"date_created":"2019-03-10T22:59:19Z","intvolume":"       176","department":[{"_id":"CaHe"},{"_id":"EM-Fac"}],"isi":1,"scopus_import":"1","oa_version":"Published Version","status":"public","related_material":{"link":[{"description":"News on IST Homepage","relation":"press_release","url":"https://ist.ac.at/en/news/in-zebrafish-eggs-most-rapidly-growing-cell-inhibits-its-neighbours-through-mechanical-signals/"}]},"ddc":["570"],"_id":"6087","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Cell","volume":176,"page":"1379-1392.e14","type":"journal_article","acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"},{"_id":"LifeSc"}]},{"doi":"10.1371/journal.pone.0212699","article_processing_charge":"No","abstract":[{"lang":"eng","text":"Blebs are cellular protrusions observed in migrating cells and in cells undergoing spreading, cytokinesis, and apoptosis. Here we investigate the flow of cytoplasm during bleb formation and the concurrent changes in cell volume using zebrafish primordial germ cells (PGCs) as an in vivo model. We show that bleb inflation occurs concomitantly with cytoplasmic inflow into it and that during this process the total cell volume does not change. We thus show that bleb formation in primordial germ cells results primarily from redistribution of material within the cell rather than being driven by flow of water from an external source."}],"year":"2019","publication_status":"published","day":"26","citation":{"ista":"Goudarzi M, Boquet-Pujadas A, Olivo-Marin JC, Raz E. 2019. Fluid dynamics during bleb formation in migrating cells in vivo. PLOS ONE. 14(2), e0212699.","ieee":"M. Goudarzi, A. Boquet-Pujadas, J. C. Olivo-Marin, and E. Raz, “Fluid dynamics during bleb formation in migrating cells in vivo,” <i>PLOS ONE</i>, vol. 14, no. 2. Public Library of Science, 2019.","chicago":"Goudarzi, Mohammad, Aleix Boquet-Pujadas, Jean Christophe Olivo-Marin, and Erez Raz. “Fluid Dynamics during Bleb Formation in Migrating Cells in Vivo.” <i>PLOS ONE</i>. Public Library of Science, 2019. <a href=\"https://doi.org/10.1371/journal.pone.0212699\">https://doi.org/10.1371/journal.pone.0212699</a>.","ama":"Goudarzi M, Boquet-Pujadas A, Olivo-Marin JC, Raz E. Fluid dynamics during bleb formation in migrating cells in vivo. <i>PLOS ONE</i>. 2019;14(2). doi:<a href=\"https://doi.org/10.1371/journal.pone.0212699\">10.1371/journal.pone.0212699</a>","mla":"Goudarzi, Mohammad, et al. “Fluid Dynamics during Bleb Formation in Migrating Cells in Vivo.” <i>PLOS ONE</i>, vol. 14, no. 2, e0212699, Public Library of Science, 2019, doi:<a href=\"https://doi.org/10.1371/journal.pone.0212699\">10.1371/journal.pone.0212699</a>.","apa":"Goudarzi, M., Boquet-Pujadas, A., Olivo-Marin, J. C., &#38; Raz, E. (2019). Fluid dynamics during bleb formation in migrating cells in vivo. <i>PLOS ONE</i>. Public Library of Science. <a href=\"https://doi.org/10.1371/journal.pone.0212699\">https://doi.org/10.1371/journal.pone.0212699</a>","short":"M. Goudarzi, A. Boquet-Pujadas, J.C. Olivo-Marin, E. Raz, PLOS ONE 14 (2019)."},"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"article_number":"e0212699","language":[{"iso":"eng"}],"month":"02","date_published":"2019-02-26T00:00:00Z","file":[{"file_name":"2019_PLoSOne_Goudarzi.pdf","content_type":"application/pdf","relation":"main_file","file_id":"6096","date_updated":"2020-07-14T12:47:19Z","creator":"dernst","file_size":2967731,"checksum":"b885de050ed4bb3c86f706487a47197f","date_created":"2019-03-11T16:09:23Z","access_level":"open_access"}],"date_updated":"2023-09-19T14:46:47Z","file_date_updated":"2020-07-14T12:47:19Z","isi":1,"intvolume":"        14","department":[{"_id":"Bio"}],"oa_version":"Published Version","status":"public","ddc":["570"],"scopus_import":"1","publication":"PLOS ONE","_id":"6093","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","type":"journal_article","has_accepted_license":"1","volume":14,"title":"Fluid dynamics during bleb formation in migrating cells in vivo","issue":"2","external_id":{"isi":["000459712100022"]},"publisher":"Public Library of Science","oa":1,"author":[{"id":"3384113A-F248-11E8-B48F-1D18A9856A87","first_name":"Mohammad","full_name":"Goudarzi, Mohammad","last_name":"Goudarzi"},{"first_name":"Aleix","last_name":"Boquet-Pujadas","full_name":"Boquet-Pujadas, Aleix"},{"full_name":"Olivo-Marin, Jean Christophe","last_name":"Olivo-Marin","first_name":"Jean Christophe"},{"last_name":"Raz","full_name":"Raz, Erez","first_name":"Erez"}],"quality_controlled":"1","date_created":"2019-03-10T22:59:21Z"},{"citation":{"mla":"Antoniou, Michael N., et al. <i>MOESM1 of Glyphosate Does Not Substitute for Glycine in Proteins of Actively Dividing Mammalian Cells</i>. Springer Nature, 2019, doi:<a href=\"https://doi.org/10.6084/m9.figshare.9411761.v1\">10.6084/m9.figshare.9411761.v1</a>.","ama":"Antoniou MN, Nicolas A, Mesnage R, Biserni M, Rao FV, Martin CV. MOESM1 of Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. 2019. doi:<a href=\"https://doi.org/10.6084/m9.figshare.9411761.v1\">10.6084/m9.figshare.9411761.v1</a>","chicago":"Antoniou, Michael N., Armel Nicolas, Robin Mesnage, Martina Biserni, Francesco V. Rao, and Cristina Vazquez Martin. “MOESM1 of Glyphosate Does Not Substitute for Glycine in Proteins of Actively Dividing Mammalian Cells.” Springer Nature, 2019. <a href=\"https://doi.org/10.6084/m9.figshare.9411761.v1\">https://doi.org/10.6084/m9.figshare.9411761.v1</a>.","ieee":"M. N. Antoniou, A. Nicolas, R. Mesnage, M. Biserni, F. V. Rao, and C. V. Martin, “MOESM1 of Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells.” Springer Nature, 2019.","ista":"Antoniou MN, Nicolas A, Mesnage R, Biserni M, Rao FV, Martin CV. 2019. MOESM1 of Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells, Springer Nature, <a href=\"https://doi.org/10.6084/m9.figshare.9411761.v1\">10.6084/m9.figshare.9411761.v1</a>.","short":"M.N. Antoniou, A. Nicolas, R. Mesnage, M. Biserni, F.V. Rao, C.V. Martin, (2019).","apa":"Antoniou, M. N., Nicolas, A., Mesnage, R., Biserni, M., Rao, F. V., &#38; Martin, C. V. (2019). MOESM1 of Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. Springer Nature. <a href=\"https://doi.org/10.6084/m9.figshare.9411761.v1\">https://doi.org/10.6084/m9.figshare.9411761.v1</a>"},"title":"MOESM1 of Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells","day":"09","publisher":"Springer Nature","author":[{"first_name":"Michael N.","last_name":"Antoniou","full_name":"Antoniou, Michael N."},{"id":"2A103192-F248-11E8-B48F-1D18A9856A87","full_name":"Nicolas, Armel","last_name":"Nicolas","first_name":"Armel"},{"full_name":"Mesnage, Robin","last_name":"Mesnage","first_name":"Robin"},{"last_name":"Biserni","full_name":"Biserni, Martina","first_name":"Martina"},{"first_name":"Francesco V.","last_name":"Rao","full_name":"Rao, Francesco V."},{"last_name":"Martin","full_name":"Martin, Cristina Vazquez","first_name":"Cristina Vazquez"}],"date_published":"2019-08-09T00:00:00Z","month":"08","oa":1,"date_updated":"2023-02-23T12:52:29Z","date_created":"2021-08-06T08:14:05Z","department":[{"_id":"LifeSc"}],"doi":"10.6084/m9.figshare.9411761.v1","status":"public","related_material":{"record":[{"status":"public","id":"6819","relation":"used_in_publication"}]},"oa_version":"Published Version","main_file_link":[{"url":"https://doi.org/10.6084/m9.figshare.9411761.v1","open_access":"1"}],"user_id":"6785fbc1-c503-11eb-8a32-93094b40e1cf","article_processing_charge":"No","_id":"9784","year":"2019","type":"research_data_reference","abstract":[{"text":"Additional file 1: Table S1. Kinetics of MDA-MB-231 cell growth in either the presence or absence of 100Â mg/L glyphosate. Cell counts are given at day-1 of seeding flasks and following 6-days of continuous culture. Note: no differences in cell numbers were observed between negative control and glyphosate treated cultures.","lang":"eng"}]},{"date_created":"2019-07-07T21:59:19Z","oa":1,"author":[{"first_name":"Chi Huu","last_name":"Nguyen","full_name":"Nguyen, Chi Huu"},{"full_name":"Glüxam, Tobias","last_name":"Glüxam","first_name":"Tobias"},{"first_name":"Angela","last_name":"Schlerka","full_name":"Schlerka, Angela"},{"last_name":"Bauer","full_name":"Bauer, Katharina","first_name":"Katharina","id":"2ED6B14C-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Grandits","full_name":"Grandits, Alexander M.","first_name":"Alexander M."},{"last_name":"Hackl","full_name":"Hackl, Hubert","first_name":"Hubert"},{"last_name":"Dovey","full_name":"Dovey, Oliver","first_name":"Oliver"},{"full_name":"Zöchbauer-Müller, Sabine","last_name":"Zöchbauer-Müller","first_name":"Sabine"},{"first_name":"Jonathan L.","full_name":"Cooper, Jonathan L.","last_name":"Cooper"},{"first_name":"George S.","last_name":"Vassiliou","full_name":"Vassiliou, George S."},{"last_name":"Stoiber","full_name":"Stoiber, Dagmar","first_name":"Dagmar"},{"first_name":"Rotraud","last_name":"Wieser","full_name":"Wieser, Rotraud"},{"first_name":"Gerwin","full_name":"Heller, Gerwin","last_name":"Heller"}],"quality_controlled":"1","publisher":"Nature Publishing Group","title":"SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness","issue":"1","external_id":{"isi":["000472597400042"]},"type":"journal_article","has_accepted_license":"1","volume":9,"publication":"Scientific Reports","_id":"6607","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa_version":"Published Version","ddc":["576"],"status":"public","scopus_import":"1","isi":1,"file_date_updated":"2020-07-14T12:47:34Z","intvolume":"         9","department":[{"_id":"PreCl"}],"date_updated":"2023-08-28T12:26:51Z","month":"06","date_published":"2019-06-24T00:00:00Z","file":[{"file_name":"nature_2019_Nguyen.pdf","checksum":"3283522fffadf4b5fc8c7adfe3ba4564","date_created":"2019-07-08T15:15:28Z","date_updated":"2020-07-14T12:47:34Z","file_size":2017352,"creator":"kschuh","relation":"main_file","file_id":"6623","content_type":"application/pdf","access_level":"open_access"}],"language":[{"iso":"eng"}],"day":"24","citation":{"ista":"Nguyen CH, Glüxam T, Schlerka A, Bauer K, Grandits AM, Hackl H, Dovey O, Zöchbauer-Müller S, Cooper JL, Vassiliou GS, Stoiber D, Wieser R, Heller G. 2019. SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness. Scientific Reports. 9(1), 9139.","chicago":"Nguyen, Chi Huu, Tobias Glüxam, Angela Schlerka, Katharina Bauer, Alexander M. Grandits, Hubert Hackl, Oliver Dovey, et al. “SOCS2 Is Part of a Highly Prognostic 4-Gene Signature in AML and Promotes Disease Aggressiveness.” <i>Scientific Reports</i>. Nature Publishing Group, 2019. <a href=\"https://doi.org/10.1038/s41598-019-45579-0\">https://doi.org/10.1038/s41598-019-45579-0</a>.","ieee":"C. H. Nguyen <i>et al.</i>, “SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness,” <i>Scientific Reports</i>, vol. 9, no. 1. Nature Publishing Group, 2019.","ama":"Nguyen CH, Glüxam T, Schlerka A, et al. SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness. <i>Scientific Reports</i>. 2019;9(1). doi:<a href=\"https://doi.org/10.1038/s41598-019-45579-0\">10.1038/s41598-019-45579-0</a>","mla":"Nguyen, Chi Huu, et al. “SOCS2 Is Part of a Highly Prognostic 4-Gene Signature in AML and Promotes Disease Aggressiveness.” <i>Scientific Reports</i>, vol. 9, no. 1, 9139, Nature Publishing Group, 2019, doi:<a href=\"https://doi.org/10.1038/s41598-019-45579-0\">10.1038/s41598-019-45579-0</a>.","apa":"Nguyen, C. H., Glüxam, T., Schlerka, A., Bauer, K., Grandits, A. M., Hackl, H., … Heller, G. (2019). SOCS2 is part of a highly prognostic 4-gene signature in AML and promotes disease aggressiveness. <i>Scientific Reports</i>. Nature Publishing Group. <a href=\"https://doi.org/10.1038/s41598-019-45579-0\">https://doi.org/10.1038/s41598-019-45579-0</a>","short":"C.H. Nguyen, T. Glüxam, A. Schlerka, K. Bauer, A.M. Grandits, H. Hackl, O. Dovey, S. Zöchbauer-Müller, J.L. Cooper, G.S. Vassiliou, D. Stoiber, R. Wieser, G. Heller, Scientific Reports 9 (2019)."},"article_number":"9139","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"abstract":[{"text":"Acute myeloid leukemia (AML) is a heterogeneous disease with respect to its genetic and molecular basis and to patients´ outcome. Clinical, cytogenetic, and mutational data are used to classify patients into risk groups with different survival, however, within-group heterogeneity is still an issue. Here, we used a robust likelihood-based survival modeling approach and publicly available gene expression data to identify a minimal number of genes whose combined expression values were prognostic of overall survival. The resulting gene expression signature (4-GES) consisted of 4 genes (SOCS2, IL2RA, NPDC1, PHGDH), predicted patient survival as an independent prognostic parameter in several cohorts of AML patients (total, 1272 patients), and further refined prognostication based on the European Leukemia Net classification. An oncogenic role of the top scoring gene in this signature, SOCS2, was investigated using MLL-AF9 and Flt3-ITD/NPM1c driven mouse models of AML. SOCS2 promoted leukemogenesis as well as the abundance, quiescence, and activity of AML stem cells. Overall, the 4-GES represents a highly discriminating prognostic parameter in AML, whose clinical applicability is greatly enhanced by its small number of genes. The newly established role of SOCS2 in leukemia aggressiveness and stemness raises the possibility that the signature might even be exploitable therapeutically.","lang":"eng"}],"year":"2019","publication_status":"published","article_processing_charge":"No","doi":"10.1038/s41598-019-45579-0"},{"article_processing_charge":"No","year":"2019","abstract":[{"lang":"eng","text":"Glyphosate (N-phosphonomethyl glycine) and its commercial herbicide formulations have been shown to exert toxicity via various mechanisms. It has been asserted that glyphosate substitutes for glycine in polypeptide chains leading to protein misfolding and toxicity. However, as no direct evidence exists for glycine to glyphosate substitution in proteins, including in mammalian organisms, we tested this claim by conducting a proteomics analysis of MDA-MB-231 human breast cancer cells grown in the presence of 100 mg/L glyphosate for 6 days. Protein extracts from three treated and three untreated cell cultures were analysed as one TMT-6plex labelled sample, to highlight a specific pattern (+/+/+/−/−/−) of reporter intensities for peptides bearing true glyphosate treatment induced-post translational modifications as well as allowing an investigation of the total proteome."}],"publication_status":"published","doi":"10.1186/s13104-019-4534-3","date_published":"2019-08-08T00:00:00Z","month":"08","file":[{"access_level":"open_access","date_created":"2019-08-23T11:10:35Z","checksum":"4a2bb7994b7f2c432bf44f5127ea3102","date_updated":"2020-07-14T12:47:40Z","creator":"dernst","file_size":1177482,"file_id":"6829","relation":"main_file","content_type":"application/pdf","file_name":"2019_BMC_Antoniou.pdf"}],"date_updated":"2023-02-23T14:08:14Z","citation":{"short":"M.N. Antoniou, A. Nicolas, R. Mesnage, M. Biserni, F.V. Rao, C.V. Martin, BMC Research Notes 12 (2019).","apa":"Antoniou, M. N., Nicolas, A., Mesnage, R., Biserni, M., Rao, F. V., &#38; Martin, C. V. (2019). Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. <i>BMC Research Notes</i>. BioMed Central. <a href=\"https://doi.org/10.1186/s13104-019-4534-3\">https://doi.org/10.1186/s13104-019-4534-3</a>","ama":"Antoniou MN, Nicolas A, Mesnage R, Biserni M, Rao FV, Martin CV. Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. <i>BMC Research Notes</i>. 2019;12. doi:<a href=\"https://doi.org/10.1186/s13104-019-4534-3\">10.1186/s13104-019-4534-3</a>","mla":"Antoniou, Michael N., et al. “Glyphosate Does Not Substitute for Glycine in Proteins of Actively Dividing Mammalian Cells.” <i>BMC Research Notes</i>, vol. 12, 494, BioMed Central, 2019, doi:<a href=\"https://doi.org/10.1186/s13104-019-4534-3\">10.1186/s13104-019-4534-3</a>.","ista":"Antoniou MN, Nicolas A, Mesnage R, Biserni M, Rao FV, Martin CV. 2019. Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells. BMC Research Notes. 12, 494.","chicago":"Antoniou, Michael N., Armel Nicolas, Robin Mesnage, Martina Biserni, Francesco V. Rao, and Cristina Vazquez Martin. “Glyphosate Does Not Substitute for Glycine in Proteins of Actively Dividing Mammalian Cells.” <i>BMC Research Notes</i>. BioMed Central, 2019. <a href=\"https://doi.org/10.1186/s13104-019-4534-3\">https://doi.org/10.1186/s13104-019-4534-3</a>.","ieee":"M. N. Antoniou, A. Nicolas, R. Mesnage, M. Biserni, F. V. Rao, and C. V. Martin, “Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells,” <i>BMC Research Notes</i>, vol. 12. BioMed Central, 2019."},"day":"08","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"article_number":"494","language":[{"iso":"eng"}],"publication":"BMC Research Notes","user_id":"3E5EF7F0-F248-11E8-B48F-1D18A9856A87","_id":"6819","has_accepted_license":"1","type":"journal_article","publication_identifier":{"eissn":["1756-0500"]},"volume":12,"file_date_updated":"2020-07-14T12:47:40Z","department":[{"_id":"LifeSc"}],"intvolume":"        12","ddc":["570"],"related_material":{"record":[{"status":"public","id":"9784","relation":"research_data"}]},"status":"public","oa_version":"Published Version","scopus_import":1,"pmid":1,"oa":1,"author":[{"last_name":"Antoniou","full_name":"Antoniou, Michael N.","first_name":"Michael N."},{"id":"2A103192-F248-11E8-B48F-1D18A9856A87","first_name":"Armel","last_name":"Nicolas","full_name":"Nicolas, Armel"},{"first_name":"Robin","last_name":"Mesnage","full_name":"Mesnage, Robin"},{"first_name":"Martina","last_name":"Biserni","full_name":"Biserni, Martina"},{"last_name":"Rao","full_name":"Rao, Francesco V.","first_name":"Francesco V."},{"full_name":"Martin, Cristina Vazquez","last_name":"Martin","first_name":"Cristina Vazquez"}],"quality_controlled":"1","date_created":"2019-08-18T22:00:39Z","title":"Glyphosate does not substitute for glycine in proteins of actively dividing mammalian cells","external_id":{"pmid":["31395095"]},"publisher":"BioMed Central"},{"oa_version":"Published Version","status":"public","ddc":["570"],"scopus_import":"1","file_date_updated":"2020-07-14T12:47:42Z","isi":1,"intvolume":"         9","department":[{"_id":"Bio"}],"type":"journal_article","has_accepted_license":"1","volume":9,"publication_identifier":{"eissn":["2045-2322"]},"publication":"Scientific Reports","_id":"6867","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","publisher":"Springer Nature","title":"A novel magnet-based scratch method for standardisation of wound-healing assays","issue":"1","external_id":{"isi":["000483697800007"],"pmid":["31477739"]},"date_created":"2019-09-15T22:00:42Z","oa":1,"pmid":1,"quality_controlled":"1","author":[{"first_name":"M.","full_name":"Fenu, M.","last_name":"Fenu"},{"last_name":"Bettermann","full_name":"Bettermann, T.","first_name":"T."},{"full_name":"Vogl, C.","last_name":"Vogl","first_name":"C."},{"orcid":"0000-0002-8821-8236","id":"39CD9926-F248-11E8-B48F-1D18A9856A87","last_name":"Darwish-Miranda","full_name":"Darwish-Miranda, Nasser","first_name":"Nasser"},{"full_name":"Schramel, J.","last_name":"Schramel","first_name":"J."},{"full_name":"Jenner, F.","last_name":"Jenner","first_name":"F."},{"full_name":"Ribitsch, I.","last_name":"Ribitsch","first_name":"I."}],"doi":"10.1038/s41598-019-48930-7","abstract":[{"text":"A novel magnetic scratch method achieves repeatability, reproducibility and geometric control greater than pipette scratch assays and closely approximating the precision of cell exclusion assays while inducing the cell injury inherently necessary for wound healing assays. The magnetic scratch is affordable, easily implemented and standardisable and thus may contribute toward better comparability of data generated in different studies and laboratories.","lang":"eng"}],"year":"2019","publication_status":"published","article_processing_charge":"No","language":[{"iso":"eng"}],"day":"02","citation":{"short":"M. Fenu, T. Bettermann, C. Vogl, N. Darwish-Miranda, J. Schramel, F. Jenner, I. Ribitsch, Scientific Reports 9 (2019).","apa":"Fenu, M., Bettermann, T., Vogl, C., Darwish-Miranda, N., Schramel, J., Jenner, F., &#38; Ribitsch, I. (2019). A novel magnet-based scratch method for standardisation of wound-healing assays. <i>Scientific Reports</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41598-019-48930-7\">https://doi.org/10.1038/s41598-019-48930-7</a>","ama":"Fenu M, Bettermann T, Vogl C, et al. A novel magnet-based scratch method for standardisation of wound-healing assays. <i>Scientific Reports</i>. 2019;9(1). doi:<a href=\"https://doi.org/10.1038/s41598-019-48930-7\">10.1038/s41598-019-48930-7</a>","mla":"Fenu, M., et al. “A Novel Magnet-Based Scratch Method for Standardisation of Wound-Healing Assays.” <i>Scientific Reports</i>, vol. 9, no. 1, 12625, Springer Nature, 2019, doi:<a href=\"https://doi.org/10.1038/s41598-019-48930-7\">10.1038/s41598-019-48930-7</a>.","ista":"Fenu M, Bettermann T, Vogl C, Darwish-Miranda N, Schramel J, Jenner F, Ribitsch I. 2019. A novel magnet-based scratch method for standardisation of wound-healing assays. Scientific Reports. 9(1), 12625.","chicago":"Fenu, M., T. Bettermann, C. Vogl, Nasser Darwish-Miranda, J. Schramel, F. Jenner, and I. Ribitsch. “A Novel Magnet-Based Scratch Method for Standardisation of Wound-Healing Assays.” <i>Scientific Reports</i>. Springer Nature, 2019. <a href=\"https://doi.org/10.1038/s41598-019-48930-7\">https://doi.org/10.1038/s41598-019-48930-7</a>.","ieee":"M. Fenu <i>et al.</i>, “A novel magnet-based scratch method for standardisation of wound-healing assays,” <i>Scientific Reports</i>, vol. 9, no. 1. Springer Nature, 2019."},"article_number":"12625","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_updated":"2026-04-03T09:39:11Z","month":"09","date_published":"2019-09-02T00:00:00Z","file":[{"content_type":"application/pdf","relation":"main_file","file_id":"6879","date_updated":"2020-07-14T12:47:42Z","file_size":3523795,"creator":"dernst","checksum":"9cfd986d4108e288cc72276ef047ab0c","date_created":"2019-09-16T12:42:40Z","access_level":"open_access","file_name":"2019_ScientificReports_Fenu.pdf"}]},{"publisher":"MDPI","issue":"4","title":"Frontiers in microfluidics, a teaching resource review","external_id":{"isi":["000505590000024"],"pmid":["31816954"]},"date_created":"2020-01-05T23:00:45Z","pmid":1,"oa":1,"author":[{"orcid":"0000-0001-5145-4609","id":"4515C308-F248-11E8-B48F-1D18A9856A87","last_name":"Merrin","full_name":"Merrin, Jack","first_name":"Jack"}],"quality_controlled":"1","ddc":["620"],"corr_author":"1","status":"public","oa_version":"Published Version","scopus_import":"1","isi":1,"file_date_updated":"2020-07-14T12:47:54Z","department":[{"_id":"NanoFab"}],"intvolume":"         6","has_accepted_license":"1","type":"journal_article","publication_identifier":{"eissn":["2306-5354"]},"volume":6,"publication":"Bioengineering","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","_id":"7225","language":[{"iso":"eng"}],"citation":{"apa":"Merrin, J. (2019). Frontiers in microfluidics, a teaching resource review. <i>Bioengineering</i>. MDPI. <a href=\"https://doi.org/10.3390/bioengineering6040109\">https://doi.org/10.3390/bioengineering6040109</a>","short":"J. Merrin, Bioengineering 6 (2019).","ista":"Merrin J. 2019. Frontiers in microfluidics, a teaching resource review. Bioengineering. 6(4), 109.","ieee":"J. Merrin, “Frontiers in microfluidics, a teaching resource review,” <i>Bioengineering</i>, vol. 6, no. 4. MDPI, 2019.","chicago":"Merrin, Jack. “Frontiers in Microfluidics, a Teaching Resource Review.” <i>Bioengineering</i>. MDPI, 2019. <a href=\"https://doi.org/10.3390/bioengineering6040109\">https://doi.org/10.3390/bioengineering6040109</a>.","ama":"Merrin J. Frontiers in microfluidics, a teaching resource review. <i>Bioengineering</i>. 2019;6(4). doi:<a href=\"https://doi.org/10.3390/bioengineering6040109\">10.3390/bioengineering6040109</a>","mla":"Merrin, Jack. “Frontiers in Microfluidics, a Teaching Resource Review.” <i>Bioengineering</i>, vol. 6, no. 4, 109, MDPI, 2019, doi:<a href=\"https://doi.org/10.3390/bioengineering6040109\">10.3390/bioengineering6040109</a>."},"day":"03","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"article_number":"109","date_updated":"2026-04-16T08:35:28Z","date_published":"2019-12-03T00:00:00Z","month":"12","file":[{"relation":"main_file","file_id":"7243","content_type":"application/pdf","date_created":"2020-01-07T14:49:59Z","checksum":"80f1499e2a4caccdf3aa54b137fd99a0","creator":"dernst","date_updated":"2020-07-14T12:47:54Z","file_size":2660780,"access_level":"open_access","file_name":"2019_Bioengineering_Merrin.pdf"}],"article_type":"review","doi":"10.3390/bioengineering6040109","year":"2019","abstract":[{"text":"This is a literature teaching resource review for biologically inspired microfluidics courses\r\nor exploring the diverse applications of microfluidics. The structure is around key papers and model\r\norganisms. While courses gradually change over time, a focus remains on understanding how\r\nmicrofluidics has developed as well as what it can and cannot do for researchers. As a primary\r\nstarting point, we cover micro-fluid mechanics principles and microfabrication of devices. A variety\r\nof applications are discussed using model prokaryotic and eukaryotic organisms from the set\r\nof bacteria (Escherichia coli), trypanosomes (Trypanosoma brucei), yeast (Saccharomyces cerevisiae),\r\nslime molds (Physarum polycephalum), worms (Caenorhabditis elegans), flies (Drosophila melangoster),\r\nplants (Arabidopsis thaliana), and mouse immune cells (Mus musculus). Other engineering and\r\nbiochemical methods discussed include biomimetics, organ on a chip, inkjet, droplet microfluidics,\r\nbiotic games, and diagnostics. While we have not yet reached the end-all lab on a chip,\r\nmicrofluidics can still be used effectively for specific applications.","lang":"eng"}],"publication_status":"published","article_processing_charge":"Yes"},{"scopus_import":"1","status":"public","oa_version":"None","department":[{"_id":"HaJa"},{"_id":"Bio"}],"intvolume":"       312","isi":1,"page":"114-121","volume":312,"publication_identifier":{"issn":["0165-0270"]},"acknowledged_ssus":[{"_id":"Bio"},{"_id":"EM-Fac"}],"type":"journal_article","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","_id":"7406","publication":"Journal of Neuroscience Methods","publisher":"Elsevier","external_id":{"pmid":["30496761"],"isi":["000456220900013"]},"title":"Isolation of synaptic vesicles from genetically engineered cultured neurons","project":[{"_id":"25548C20-B435-11E9-9278-68D0E5697425","name":"Microbial Ion Channels for Synthetic Neurobiology","grant_number":"303564","call_identifier":"FP7"},{"name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425"},{"grant_number":"W1232","name":"Molecular Drug Targets","call_identifier":"FWF","_id":"2548AE96-B435-11E9-9278-68D0E5697425"}],"date_created":"2020-01-30T09:12:19Z","author":[{"first_name":"Catherine","full_name":"Mckenzie, Catherine","last_name":"Mckenzie","id":"3EEDE19A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Spanova, Miroslava","last_name":"Spanova","first_name":"Miroslava","id":"44A924DC-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Johnson","full_name":"Johnson, Alexander J","first_name":"Alexander J","orcid":"0000-0002-2739-8843","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Kainrath","full_name":"Kainrath, Stephanie","first_name":"Stephanie","id":"32CFBA64-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-6709-2195"},{"orcid":"0000-0002-9438-4783","id":"39C5A68A-F248-11E8-B48F-1D18A9856A87","first_name":"Vanessa","last_name":"Zheden","full_name":"Zheden, Vanessa"},{"full_name":"Sitte, Harald H.","last_name":"Sitte","first_name":"Harald H."},{"id":"33BA6C30-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8023-9315","full_name":"Janovjak, Harald L","last_name":"Janovjak","first_name":"Harald L"}],"quality_controlled":"1","pmid":1,"article_type":"original","doi":"10.1016/j.jneumeth.2018.11.018","publication_status":"published","year":"2019","abstract":[{"text":"Background\r\nSynaptic vesicles (SVs) are an integral part of the neurotransmission machinery, and isolation of SVs from their host neuron is necessary to reveal their most fundamental biochemical and functional properties in in vitro assays. Isolated SVs from neurons that have been genetically engineered, e.g. to introduce genetically encoded indicators, are not readily available but would permit new insights into SV structure and function. Furthermore, it is unclear if cultured neurons can provide sufficient starting material for SV isolation procedures.\r\n\r\nNew method\r\nHere, we demonstrate an efficient ex vivo procedure to obtain functional SVs from cultured rat cortical neurons after genetic engineering with a lentivirus.\r\n\r\nResults\r\nWe show that ∼108 plated cortical neurons allow isolation of suitable SV amounts for functional analysis and imaging. We found that SVs isolated from cultured neurons have neurotransmitter uptake comparable to that of SVs isolated from intact cortex. Using total internal reflection fluorescence (TIRF) microscopy, we visualized an exogenous SV-targeted marker protein and demonstrated the high efficiency of SV modification.\r\n\r\nComparison with existing methods\r\nObtaining SVs from genetically engineered neurons currently generally requires the availability of transgenic animals, which is constrained by technical (e.g. cost and time) and biological (e.g. developmental defects and lethality) limitations.\r\n\r\nConclusions\r\nThese results demonstrate the modification and isolation of functional SVs using cultured neurons and viral transduction. The ability to readily obtain SVs from genetically engineered neurons will permit linking in situ studies to in vitro experiments in a variety of genetic contexts.","lang":"eng"}],"article_processing_charge":"No","language":[{"iso":"eng"}],"citation":{"chicago":"Mckenzie, Catherine, Miroslava Spanova, Alexander J Johnson, Stephanie Kainrath, Vanessa Zheden, Harald H. Sitte, and Harald L Janovjak. “Isolation of Synaptic Vesicles from Genetically Engineered Cultured Neurons.” <i>Journal of Neuroscience Methods</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.jneumeth.2018.11.018\">https://doi.org/10.1016/j.jneumeth.2018.11.018</a>.","ieee":"C. Mckenzie <i>et al.</i>, “Isolation of synaptic vesicles from genetically engineered cultured neurons,” <i>Journal of Neuroscience Methods</i>, vol. 312. Elsevier, pp. 114–121, 2019.","ista":"Mckenzie C, Spanova M, Johnson AJ, Kainrath S, Zheden V, Sitte HH, Janovjak HL. 2019. Isolation of synaptic vesicles from genetically engineered cultured neurons. Journal of Neuroscience Methods. 312, 114–121.","mla":"Mckenzie, Catherine, et al. “Isolation of Synaptic Vesicles from Genetically Engineered Cultured Neurons.” <i>Journal of Neuroscience Methods</i>, vol. 312, Elsevier, 2019, pp. 114–21, doi:<a href=\"https://doi.org/10.1016/j.jneumeth.2018.11.018\">10.1016/j.jneumeth.2018.11.018</a>.","ama":"Mckenzie C, Spanova M, Johnson AJ, et al. Isolation of synaptic vesicles from genetically engineered cultured neurons. <i>Journal of Neuroscience Methods</i>. 2019;312:114-121. doi:<a href=\"https://doi.org/10.1016/j.jneumeth.2018.11.018\">10.1016/j.jneumeth.2018.11.018</a>","apa":"Mckenzie, C., Spanova, M., Johnson, A. J., Kainrath, S., Zheden, V., Sitte, H. H., &#38; Janovjak, H. L. (2019). Isolation of synaptic vesicles from genetically engineered cultured neurons. <i>Journal of Neuroscience Methods</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.jneumeth.2018.11.018\">https://doi.org/10.1016/j.jneumeth.2018.11.018</a>","short":"C. Mckenzie, M. Spanova, A.J. Johnson, S. Kainrath, V. Zheden, H.H. Sitte, H.L. Janovjak, Journal of Neuroscience Methods 312 (2019) 114–121."},"day":"15","date_updated":"2026-04-14T08:34:33Z","ec_funded":1,"date_published":"2019-01-15T00:00:00Z","month":"01"},{"publication_identifier":{"issn":["0924-977X"]},"page":"S11-S12","volume":29,"publication_status":"published","type":"journal_article","year":"2019","_id":"7415","article_processing_charge":"No","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication":"European Neuropsychopharmacology","doi":"10.1016/j.euroneuro.2019.09.040","article_type":"original","oa_version":"None","status":"public","intvolume":"        29","department":[{"_id":"GaNo"},{"_id":"LifeSc"}],"isi":1,"date_created":"2020-01-30T10:07:41Z","date_updated":"2023-09-07T14:56:17Z","author":[{"last_name":"Morandell","full_name":"Morandell, Jasmin","first_name":"Jasmin","id":"4739D480-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Armel","last_name":"Nicolas","full_name":"Nicolas, Armel","id":"2A103192-F248-11E8-B48F-1D18A9856A87"},{"id":"29A8453C-F248-11E8-B48F-1D18A9856A87","full_name":"Schwarz, Lena A","last_name":"Schwarz","first_name":"Lena A"},{"id":"3E57A680-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7673-7178","last_name":"Novarino","full_name":"Novarino, Gaia","first_name":"Gaia"}],"quality_controlled":"1","month":"12","date_published":"2019-12-13T00:00:00Z","publisher":"Elsevier","language":[{"iso":"eng"}],"external_id":{"isi":["000502657500021"]},"day":"13","title":"S.16.05 Illuminating the role of the e3 ubiquitin ligase cullin3 in brain development and autism","issue":"Supplement 6","citation":{"ieee":"J. Morandell, A. Nicolas, L. A. Schwarz, and G. Novarino, “S.16.05 Illuminating the role of the e3 ubiquitin ligase cullin3 in brain development and autism,” <i>European Neuropsychopharmacology</i>, vol. 29, no. Supplement 6. Elsevier, pp. S11–S12, 2019.","chicago":"Morandell, Jasmin, Armel Nicolas, Lena A Schwarz, and Gaia Novarino. “S.16.05 Illuminating the Role of the E3 Ubiquitin Ligase Cullin3 in Brain Development and Autism.” <i>European Neuropsychopharmacology</i>. Elsevier, 2019. <a href=\"https://doi.org/10.1016/j.euroneuro.2019.09.040\">https://doi.org/10.1016/j.euroneuro.2019.09.040</a>.","ista":"Morandell J, Nicolas A, Schwarz LA, Novarino G. 2019. S.16.05 Illuminating the role of the e3 ubiquitin ligase cullin3 in brain development and autism. European Neuropsychopharmacology. 29(Supplement 6), S11–S12.","mla":"Morandell, Jasmin, et al. “S.16.05 Illuminating the Role of the E3 Ubiquitin Ligase Cullin3 in Brain Development and Autism.” <i>European Neuropsychopharmacology</i>, vol. 29, no. Supplement 6, Elsevier, 2019, pp. S11–12, doi:<a href=\"https://doi.org/10.1016/j.euroneuro.2019.09.040\">10.1016/j.euroneuro.2019.09.040</a>.","ama":"Morandell J, Nicolas A, Schwarz LA, Novarino G. S.16.05 Illuminating the role of the e3 ubiquitin ligase cullin3 in brain development and autism. <i>European Neuropsychopharmacology</i>. 2019;29(Supplement 6):S11-S12. doi:<a href=\"https://doi.org/10.1016/j.euroneuro.2019.09.040\">10.1016/j.euroneuro.2019.09.040</a>","apa":"Morandell, J., Nicolas, A., Schwarz, L. A., &#38; Novarino, G. (2019). S.16.05 Illuminating the role of the e3 ubiquitin ligase cullin3 in brain development and autism. <i>European Neuropsychopharmacology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.euroneuro.2019.09.040\">https://doi.org/10.1016/j.euroneuro.2019.09.040</a>","short":"J. Morandell, A. Nicolas, L.A. Schwarz, G. Novarino, European Neuropsychopharmacology 29 (2019) S11–S12."}},{"article_processing_charge":"No","publication_status":"published","abstract":[{"lang":"eng","text":"In this article a model is described how Open Access definitions can be formed on the basis of objective criteria. The common Open Access definitions such as \"gold\" and \"green\" are not exactly defined. This becomes a problem as soon as one begins to measure Open Access, for example if the development of the Open Access share should be monitored. This was discussed in the working group on Open Access Monitoring  of  the  AT2OA  project  and  the  present  model  was  developed, which is based on 5 critics with 4 characteristics: location, licence, version, embargo and conditions of the Open Access publication are taken into account. In the meantime, the model has also been tested in practice using R scripts, and the initial results are quite promising."}],"year":"2019","doi":"10.31263/voebm.v72i1.2276","article_type":"original","file":[{"content_type":"application/pdf","relation":"main_file","file_id":"6661","creator":"apreinsp","date_updated":"2020-07-14T12:47:35Z","file_size":468558,"checksum":"c0d2695d6d0d34e62ba06fb3f0ebaaed","date_created":"2019-07-22T08:45:03Z","access_level":"open_access","file_name":"2019_MitteilungenDerVOEB_Danowski.pdf"}],"month":"05","date_published":"2019-05-17T00:00:00Z","date_updated":"2026-07-07T06:28:30Z","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"day":"17","citation":{"short":"P. Danowski, Mitteilungen Der Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare 72 (2019) 59–65.","apa":"Danowski, P. (2019). An Austrian proposal for the classification of Open Access Tuples (COAT) - distinguish different open access types beyond colors. <i>Mitteilungen Der Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare</i>. Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare. <a href=\"https://doi.org/10.31263/voebm.v72i1.2276\">https://doi.org/10.31263/voebm.v72i1.2276</a>","mla":"Danowski, Patrick. “An Austrian Proposal for the Classification of Open Access Tuples (COAT) - Distinguish Different Open Access Types beyond Colors.” <i>Mitteilungen Der Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare</i>, vol. 72, no. 1, Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, 2019, pp. 59–65, doi:<a href=\"https://doi.org/10.31263/voebm.v72i1.2276\">10.31263/voebm.v72i1.2276</a>.","ama":"Danowski P. An Austrian proposal for the classification of Open Access Tuples (COAT) - distinguish different open access types beyond colors. <i>Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare</i>. 2019;72(1):59-65. doi:<a href=\"https://doi.org/10.31263/voebm.v72i1.2276\">10.31263/voebm.v72i1.2276</a>","ieee":"P. Danowski, “An Austrian proposal for the classification of Open Access Tuples (COAT) - distinguish different open access types beyond colors,” <i>Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare</i>, vol. 72, no. 1. Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, pp. 59–65, 2019.","chicago":"Danowski, Patrick. “An Austrian Proposal for the Classification of Open Access Tuples (COAT) - Distinguish Different Open Access Types beyond Colors.” <i>Mitteilungen Der Vereinigung Österreichischer Bibliothekarinnen Und Bibliothekare</i>. Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare, 2019. <a href=\"https://doi.org/10.31263/voebm.v72i1.2276\">https://doi.org/10.31263/voebm.v72i1.2276</a>.","ista":"Danowski P. 2019. An Austrian proposal for the classification of Open Access Tuples (COAT) - distinguish different open access types beyond colors. Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare. 72(1), 59–65."},"language":[{"iso":"eng"}],"_id":"6657","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication":"Mitteilungen der Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare","page":"59-65","publication_identifier":{"eissn":["1022-2588"]},"volume":72,"type":"journal_article","has_accepted_license":"1","intvolume":"        72","department":[{"_id":"E-Lib"}],"file_date_updated":"2020-07-14T12:47:35Z","scopus_import":"1","oa_version":"Published Version","status":"public","corr_author":"1","ddc":["020"],"related_material":{"record":[{"id":"5686","status":"public","relation":"earlier_version"}]},"author":[{"orcid":"0000-0002-6026-4409","id":"2EBD1598-F248-11E8-B48F-1D18A9856A87","full_name":"Danowski, Patrick","last_name":"Danowski","first_name":"Patrick"}],"quality_controlled":"1","oa":1,"date_created":"2019-07-21T21:59:15Z","title":"An Austrian proposal for the classification of Open Access Tuples (COAT) - distinguish different open access types beyond colors","issue":"1","publisher":"Vereinigung Österreichischer Bibliothekarinnen und Bibliothekare"}]