[{"oa_version":"Submitted Version","publication_status":"published","type":"conference_abstract","publisher":"EuroCC","month":"07","department":[{"_id":"ScienComp"},{"_id":"EM-Fac"}],"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"Running Windows-applications on a Linux HPC cluster using WINE","date_updated":"2024-07-16T10:17:09Z","_id":"13161","language":[{"iso":"eng"}],"publication":"ASHPC23 - Austrian-Slovenian HPC Meeting 2023","page":"59-59","year":"2023","acknowledgement":"Thanks to Jesse Hansen for his suggestions on improving the abstract.","status":"public","author":[{"first_name":"Alois","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87","last_name":"Schlögl","orcid":"0000-0002-5621-8100","full_name":"Schlögl, Alois"},{"full_name":"Elefante, Stefano","last_name":"Elefante","id":"490F40CE-F248-11E8-B48F-1D18A9856A87","first_name":"Stefano"},{"full_name":"Hodirnau, Victor-Valentin","orcid":"0000-0003-3904-947X","id":"3661B498-F248-11E8-B48F-1D18A9856A87","last_name":"Hodirnau","first_name":"Victor-Valentin"}],"file":[{"checksum":"ec8e4295d54171032cdd1b01423eb4a6","date_created":"2023-07-18T09:18:55Z","access_level":"open_access","content_type":"application/pdf","success":1,"file_name":"2023_ASHPC_Schloegl.pdf","file_size":316959,"file_id":"13249","creator":"dernst","relation":"main_file","date_updated":"2023-07-18T09:18:55Z"}],"date_published":"2023-07-01T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2023-07-18T09:18:55Z","oa":1,"ddc":["000"],"license":"https://creativecommons.org/licenses/by/4.0/","has_accepted_license":"1","article_processing_charge":"No","conference":{"start_date":"2023-06-13","end_date":"2023-06-15","location":"Maribor, Slovenia","name":"ASHPC: Austrian-Slovenian HPC Meeting"},"corr_author":"1","day":"01","citation":{"ista":"Schlögl A, Elefante S, Hodirnau V-V. 2023. Running Windows-applications on a Linux HPC cluster using WINE. ASHPC23 - Austrian-Slovenian HPC Meeting 2023. ASHPC: Austrian-Slovenian HPC Meeting, 59–59.","apa":"Schlögl, A., Elefante, S., &#38; Hodirnau, V.-V. (2023). Running Windows-applications on a Linux HPC cluster using WINE. In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i> (pp. 59–59). Maribor, Slovenia: EuroCC.","chicago":"Schlögl, Alois, Stefano Elefante, and Victor-Valentin Hodirnau. “Running Windows-Applications on a Linux HPC Cluster Using WINE.” In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, 59–59. EuroCC, 2023.","mla":"Schlögl, Alois, et al. “Running Windows-Applications on a Linux HPC Cluster Using WINE.” <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, EuroCC, 2023, pp. 59–59.","ieee":"A. Schlögl, S. Elefante, and V.-V. Hodirnau, “Running Windows-applications on a Linux HPC cluster using WINE,” in <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, Maribor, Slovenia, 2023, pp. 59–59.","short":"A. Schlögl, S. Elefante, V.-V. Hodirnau, in:, ASHPC23 - Austrian-Slovenian HPC Meeting 2023, EuroCC, 2023, pp. 59–59.","ama":"Schlögl A, Elefante S, Hodirnau V-V. Running Windows-applications on a Linux HPC cluster using WINE. In: <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>. EuroCC; 2023:59-59."},"date_created":"2023-06-23T11:01:23Z","quality_controlled":"1"},{"_id":"13162","date_updated":"2024-07-16T10:24:07Z","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"department":[{"_id":"ScienComp"}],"title":"Cryo-EM software packages: A sys-admins point of view","month":"07","type":"conference_abstract","publication_status":"published","publisher":"EuroCC","oa_version":"Submitted Version","citation":{"chicago":"Elefante, Stefano, Stephan Stadlbauer, Michael F Alexander, and Alois Schlögl. “Cryo-EM Software Packages: A Sys-Admins Point of View.” In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, 42–42. EuroCC, 2023.","apa":"Elefante, S., Stadlbauer, S., Alexander, M. F., &#38; Schlögl, A. (2023). Cryo-EM software packages: A sys-admins point of view. In <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i> (pp. 42–42). Maribor, Slovenia: EuroCC.","mla":"Elefante, Stefano, et al. “Cryo-EM Software Packages: A Sys-Admins Point of View.” <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, EuroCC, 2023, pp. 42–42.","ista":"Elefante S, Stadlbauer S, Alexander MF, Schlögl A. 2023. Cryo-EM software packages: A sys-admins point of view. ASHPC23 - Austrian-Slovenian HPC Meeting 2023. ASHPC: Austrian-Slovenian HPC Meeting, 42–42.","ama":"Elefante S, Stadlbauer S, Alexander MF, Schlögl A. Cryo-EM software packages: A sys-admins point of view. In: <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>. EuroCC; 2023:42-42.","short":"S. Elefante, S. Stadlbauer, M.F. Alexander, A. Schlögl, in:, ASHPC23 - Austrian-Slovenian HPC Meeting 2023, EuroCC, 2023, pp. 42–42.","ieee":"S. Elefante, S. Stadlbauer, M. F. Alexander, and A. Schlögl, “Cryo-EM software packages: A sys-admins point of view,” in <i>ASHPC23 - Austrian-Slovenian HPC Meeting 2023</i>, Maribor, Slovenia, 2023, pp. 42–42."},"date_created":"2023-06-23T11:03:18Z","quality_controlled":"1","corr_author":"1","day":"01","conference":{"location":"Maribor, Slovenia","name":"ASHPC: Austrian-Slovenian HPC Meeting","end_date":"2023-06-15","start_date":"2023-06-12"},"article_processing_charge":"No","has_accepted_license":"1","ddc":["000"],"oa":1,"file_date_updated":"2023-07-18T09:28:30Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file":[{"relation":"main_file","file_id":"13250","creator":"dernst","date_updated":"2023-07-18T09:28:30Z","date_created":"2023-07-18T09:28:30Z","access_level":"open_access","content_type":"application/pdf","checksum":"0ab6173cd5c5634ed773cd37ff012681","file_size":380354,"file_name":"2023_ASHPC_Elefante.pdf","success":1}],"date_published":"2023-07-01T00:00:00Z","author":[{"full_name":"Elefante, Stefano","last_name":"Elefante","id":"490F40CE-F248-11E8-B48F-1D18A9856A87","first_name":"Stefano"},{"first_name":"Stephan","full_name":"Stadlbauer, Stephan","id":"4D0BC184-F248-11E8-B48F-1D18A9856A87","last_name":"Stadlbauer"},{"first_name":"Michael F","last_name":"Alexander","id":"3A02A8FA-F248-11E8-B48F-1D18A9856A87","full_name":"Alexander, Michael F"},{"first_name":"Alois","orcid":"0000-0002-5621-8100","full_name":"Schlögl, Alois","last_name":"Schlögl","id":"45BF87EE-F248-11E8-B48F-1D18A9856A87"}],"status":"public","year":"2023","publication":"ASHPC23 - Austrian-Slovenian HPC Meeting 2023","page":"42-42","language":[{"iso":"eng"}]},{"doi":"10.15252/embj.2023114557","scopus_import":"1","date_created":"2023-08-01T08:59:06Z","quality_controlled":"1","citation":{"apa":"Kroll, J., Hauschild, R., Kuznetcov, A., Stefanowski, K., Hermann, M. D., Merrin, J., … Renkawitz, J. (2023). Adaptive pathfinding by nucleokinesis during amoeboid migration. <i>EMBO Journal</i>. Embo Press. <a href=\"https://doi.org/10.15252/embj.2023114557\">https://doi.org/10.15252/embj.2023114557</a>","chicago":"Kroll, Janina, Robert Hauschild, Arthur Kuznetcov, Kasia Stefanowski, Monika D. Hermann, Jack Merrin, Lubuna B Shafeek, Annette Müller-Taubenberger, and Jörg Renkawitz. “Adaptive Pathfinding by Nucleokinesis during Amoeboid Migration.” <i>EMBO Journal</i>. Embo Press, 2023. <a href=\"https://doi.org/10.15252/embj.2023114557\">https://doi.org/10.15252/embj.2023114557</a>.","mla":"Kroll, Janina, et al. “Adaptive Pathfinding by Nucleokinesis during Amoeboid Migration.” <i>EMBO Journal</i>, e114557, Embo Press, 2023, doi:<a href=\"https://doi.org/10.15252/embj.2023114557\">10.15252/embj.2023114557</a>.","ista":"Kroll J, Hauschild R, Kuznetcov A, Stefanowski K, Hermann MD, Merrin J, Shafeek LB, Müller-Taubenberger A, Renkawitz J. 2023. Adaptive pathfinding by nucleokinesis during amoeboid migration. EMBO Journal., e114557.","ieee":"J. Kroll <i>et al.</i>, “Adaptive pathfinding by nucleokinesis during amoeboid migration,” <i>EMBO Journal</i>. Embo Press, 2023.","short":"J. Kroll, R. Hauschild, A. Kuznetcov, K. Stefanowski, M.D. Hermann, J. Merrin, L.B. Shafeek, A. Müller-Taubenberger, J. Renkawitz, EMBO Journal (2023).","ama":"Kroll J, Hauschild R, Kuznetcov A, et al. Adaptive pathfinding by nucleokinesis during amoeboid migration. <i>EMBO Journal</i>. 2023. doi:<a href=\"https://doi.org/10.15252/embj.2023114557\">10.15252/embj.2023114557</a>"},"day":"21","article_processing_charge":"Yes (via OA deal)","article_number":"e114557","has_accepted_license":"1","license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","ddc":["570"],"abstract":[{"lang":"eng","text":"Motile cells moving in multicellular organisms encounter microenvironments of locally heterogeneous mechanochemical composition. Individual compositional parameters like chemotactic signals, adhesiveness, and pore sizes are well known to be sensed by motile cells, providing individual guidance cues for cellular pathfinding. However, motile cells encounter diverse mechanochemical signals at the same time, raising the question of how cells respond to locally diverse and potentially competing signals on their migration routes. Here, we reveal that motile amoeboid cells require nuclear repositioning, termed nucleokinesis, for adaptive pathfinding in heterogeneous mechanochemical microenvironments. Using mammalian immune cells and the amoeba<jats:italic>Dictyostelium discoideum</jats:italic>, we discover that frequent, rapid and long-distance nucleokinesis is a basic component of amoeboid pathfinding, enabling cells to reorientate quickly between locally competing cues. Amoeboid nucleokinesis comprises a two-step cell polarity switch and is driven by myosin II-forces, sliding the nucleus from a ‘losing’ to the ‘winning’ leading edge to re-adjust the nuclear to the cellular path. Impaired nucleokinesis distorts fast path adaptions and causes cellular arrest in the microenvironment. Our findings establish that nucleokinesis is required for amoeboid cell navigation. Given that motile single-cell amoebae, many immune cells, and some cancer cells utilize an amoeboid migration strategy, these results suggest that amoeboid nucleokinesis underlies cellular navigation during unicellular biology, immunity, and disease."}],"file_date_updated":"2023-11-27T08:45:56Z","oa":1,"date_published":"2023-11-21T00:00:00Z","file":[{"relation":"main_file","creator":"dernst","file_id":"14611","date_updated":"2023-11-27T08:45:56Z","access_level":"open_access","content_type":"application/pdf","date_created":"2023-11-27T08:45:56Z","checksum":"6261d0041c7e8d284c39712c40079730","file_size":4862497,"success":1,"file_name":"2023_EmboJournal_Kroll.pdf"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","author":[{"first_name":"Janina","last_name":"Kroll","full_name":"Kroll, Janina"},{"first_name":"Robert","orcid":"0000-0001-9843-3522","full_name":"Hauschild, Robert","last_name":"Hauschild","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Arthur","full_name":"Kuznetcov, Arthur","last_name":"Kuznetcov"},{"last_name":"Stefanowski","full_name":"Stefanowski, Kasia","first_name":"Kasia"},{"full_name":"Hermann, Monika D.","last_name":"Hermann","first_name":"Monika D."},{"first_name":"Jack","id":"4515C308-F248-11E8-B48F-1D18A9856A87","last_name":"Merrin","orcid":"0000-0001-5145-4609","full_name":"Merrin, Jack"},{"orcid":"0000-0001-7180-6050","full_name":"Shafeek, Lubuna B","id":"3CD37A82-F248-11E8-B48F-1D18A9856A87","last_name":"Shafeek","first_name":"Lubuna B"},{"first_name":"Annette","last_name":"Müller-Taubenberger","full_name":"Müller-Taubenberger, Annette"},{"full_name":"Renkawitz, Jörg","orcid":"0000-0003-2856-3369","last_name":"Renkawitz","id":"3F0587C8-F248-11E8-B48F-1D18A9856A87","first_name":"Jörg"}],"external_id":{"pmid":["37987147"],"isi":["001120971800001"]},"acknowledgement":"We thank Christoph Mayr and Bingzhi Wang for initial experiments on amoeboid nucleokinesis, Ana-Maria Lennon-Duménil and Aline Yatim for bone marrow from MyoIIA-Flox*CD11c-Cre mice, Michael Sixt and Aglaja Kopf for EMTB-mCherry, EB3-mCherry, Lifeact-GFP, Lfc knockout, and Myh9-GFP expressing HoxB8 cells, Malte Benjamin Braun, Mauricio Ruiz, and Madeleine T. Schmitt for critical reading of the manuscript, and the Core Facility Bioimaging, the Core Facility Flow Cytometry, and the Animal Core Facility of the Biomedical Center (BMC) for excellent support. This study was supported by the Peter Hans Hofschneider Professorship of the foundation “Stiftung Experimentelle Biomedizin” (to JR), the LMU Institutional Strategy LMU-Excellent within the framework of the German Excellence Initiative (to JR), and the Deutsche Forschungsgemeinschaft (DFG; German Research Foundation; SFB914 project A12, to JR), and the CZI grant DAF2020-225401 (https://doi.org/10.37921/120055ratwvi) from the Chan Zuckerberg Initiative DAF (to RH; an advised fund of Silicon Valley Community Foundation (funder https://doi.org/10.13039/100014989)). Open Access funding enabled and organized by Projekt DEAL.","status":"public","year":"2023","language":[{"iso":"eng"}],"publication":"EMBO Journal","_id":"13342","pmid":1,"isi":1,"publication_identifier":{"issn":["0261-4189"],"eissn":["1460-2075"]},"date_updated":"2025-09-09T12:44:04Z","tmp":{"image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"department":[{"_id":"NanoFab"},{"_id":"Bio"}],"title":"Adaptive pathfinding by nucleokinesis during amoeboid migration","month":"11","article_type":"original","type":"journal_article","publisher":"Embo Press","publication_status":"published","oa_version":"Published Version"},{"article_type":"original","month":"09","main_file_link":[{"url":"https://www.biorxiv.org/content/10.1101/2023.07.09.548244","open_access":"1"}],"keyword":["Developmental Biology","Cell Biology","General Biochemistry","Genetics and Molecular Biology","Molecular Biology"],"oa_version":"Preprint","publication_status":"published","type":"journal_article","publisher":"Elsevier","pmid":1,"_id":"14781","publication_identifier":{"issn":["1534-5807"]},"date_updated":"2024-01-16T08:56:36Z","title":"Spatial organization and function of RNA molecules within phase-separated condensates in zebrafish are controlled by Dnd1","department":[{"_id":"Bio"}],"volume":58,"author":[{"full_name":"Westerich, Kim Joana","last_name":"Westerich","first_name":"Kim Joana"},{"full_name":"Tarbashevich, Katsiaryna","last_name":"Tarbashevich","first_name":"Katsiaryna"},{"first_name":"Jan","full_name":"Schick, Jan","last_name":"Schick"},{"last_name":"Gupta","full_name":"Gupta, Antra","first_name":"Antra"},{"last_name":"Zhu","full_name":"Zhu, Mingzhao","first_name":"Mingzhao"},{"full_name":"Hull, Kenneth","last_name":"Hull","first_name":"Kenneth"},{"first_name":"Daniel","last_name":"Romo","full_name":"Romo, Daniel"},{"first_name":"Dagmar","full_name":"Zeuschner, Dagmar","last_name":"Zeuschner"},{"last_name":"Goudarzi","id":"3384113A-F248-11E8-B48F-1D18A9856A87","full_name":"Goudarzi, Mohammad","first_name":"Mohammad"},{"first_name":"Theresa","last_name":"Gross-Thebing","full_name":"Gross-Thebing, Theresa"},{"first_name":"Erez","full_name":"Raz, Erez","last_name":"Raz"}],"external_id":{"pmid":["37463577"]},"date_published":"2023-09-11T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledgement":"We thank Celeste Brennecka for editing and Michal Reichman-Fried for critical comments on the manuscript. We thank Ursula Jordan, Esther Messerschmidt, and Ines Sandbote for technical assistance. This work was supported by funding from the University of Münster (K.J.W., K.T., E.R., A.G., T.G.-T., J.S., and M.G.), the Max Planck Institute for Molecular Biomedicine (D.Z.), the German Research Foundation grant CRU 326 (P2) RA863/12-2 (E.R.), Baylor University (K.H. and D.R.), and the National Institutes of Health grant R35 GM 134910 (D.R.). We thank the referees for insightful comments that helped improve the manuscript.","status":"public","year":"2023","issue":"17","page":"1578-1592.e5","language":[{"iso":"eng"}],"publication":"Developmental Cell","doi":"10.1016/j.devcel.2023.06.009","intvolume":"        58","day":"11","date_created":"2024-01-10T09:41:21Z","quality_controlled":"1","citation":{"chicago":"Westerich, Kim Joana, Katsiaryna Tarbashevich, Jan Schick, Antra Gupta, Mingzhao Zhu, Kenneth Hull, Daniel Romo, et al. “Spatial Organization and Function of RNA Molecules within Phase-Separated Condensates in Zebrafish Are Controlled by Dnd1.” <i>Developmental Cell</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.devcel.2023.06.009\">https://doi.org/10.1016/j.devcel.2023.06.009</a>.","apa":"Westerich, K. J., Tarbashevich, K., Schick, J., Gupta, A., Zhu, M., Hull, K., … Raz, E. (2023). Spatial organization and function of RNA molecules within phase-separated condensates in zebrafish are controlled by Dnd1. <i>Developmental Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.devcel.2023.06.009\">https://doi.org/10.1016/j.devcel.2023.06.009</a>","mla":"Westerich, Kim Joana, et al. “Spatial Organization and Function of RNA Molecules within Phase-Separated Condensates in Zebrafish Are Controlled by Dnd1.” <i>Developmental Cell</i>, vol. 58, no. 17, Elsevier, 2023, p. 1578–1592.e5, doi:<a href=\"https://doi.org/10.1016/j.devcel.2023.06.009\">10.1016/j.devcel.2023.06.009</a>.","ista":"Westerich KJ, Tarbashevich K, Schick J, Gupta A, Zhu M, Hull K, Romo D, Zeuschner D, Goudarzi M, Gross-Thebing T, Raz E. 2023. Spatial organization and function of RNA molecules within phase-separated condensates in zebrafish are controlled by Dnd1. Developmental Cell. 58(17), 1578–1592.e5.","ama":"Westerich KJ, Tarbashevich K, Schick J, et al. Spatial organization and function of RNA molecules within phase-separated condensates in zebrafish are controlled by Dnd1. <i>Developmental Cell</i>. 2023;58(17):1578-1592.e5. doi:<a href=\"https://doi.org/10.1016/j.devcel.2023.06.009\">10.1016/j.devcel.2023.06.009</a>","ieee":"K. J. Westerich <i>et al.</i>, “Spatial organization and function of RNA molecules within phase-separated condensates in zebrafish are controlled by Dnd1,” <i>Developmental Cell</i>, vol. 58, no. 17. Elsevier, p. 1578–1592.e5, 2023.","short":"K.J. Westerich, K. Tarbashevich, J. Schick, A. Gupta, M. Zhu, K. Hull, D. Romo, D. Zeuschner, M. Goudarzi, T. Gross-Thebing, E. Raz, Developmental Cell 58 (2023) 1578–1592.e5."},"article_processing_charge":"No","oa":1,"abstract":[{"lang":"eng","text":"Germ granules, condensates of phase-separated RNA and protein, are organelles that are essential for germline development in different organisms. The patterning of the granules and their relevance for germ cell fate are not fully understood. Combining three-dimensional in vivo structural and functional analyses, we study the dynamic spatial organization of molecules within zebrafish germ granules. We find that the localization of RNA molecules to the periphery of the granules, where ribosomes are localized, depends on translational activity at this location. In addition, we find that the vertebrate-specific Dead end (Dnd1) protein is essential for nanos3 RNA localization at the condensates’ periphery. Accordingly, in the absence of Dnd1, or when translation is inhibited, nanos3 RNA translocates into the granule interior, away from the ribosomes, a process that is correlated with the loss of germ cell fate. These findings highlight the relevance of sub-granule compartmentalization for post-transcriptional control and its importance for preserving germ cell totipotency."}]},{"oa":1,"abstract":[{"text":"Acanthocephalans, intestinal parasites of vertebrates, are characterised by orders of magnitude higher metal accumulation than free-living organisms, but the mechanism of such effective metal accumulation is still unknown. The aim of our study was to gain new insights into the high-resolution localization of elements in the bodies of acanthocephalans, thus taking an initial step towards elucidating metal uptake and accumulation in organisms under real environmental conditions. For the first time, nanoscale secondary ion mass spectrometry (NanoSIMS) was used for high-resolution mapping of 12 elements (C, Ca, Cu, Fe, N, Na, O, P, Pb, S, Se, and Tl) in three selected body parts (trunk spines, inner part of the proboscis receptacle and inner surface of the tegument) of Dentitruncus truttae, a parasite of brown trout (Salmo trutta) from the Krka River in Croatia. In addition, the same body parts were examined using transmission electron microscopy (TEM) and correlated with NanoSIMS images. Metal concentrations determined using HR ICP-MS confirmed higher accumulation in D. truttae than in the fish intestine. The chemical composition of the acanthocephalan body showed the highest density of C, Ca, N, Na, O, S, as important and constitutive elements in living cells in all studied structures, while Fe was predominant among trace elements. In general, higher element density was found in trunk spines and tegument, as body structures responsible for substance absorption in parasites. The results obtained with NanoSIMS and TEM-NanoSIMS correlative imaging represent pilot data for mapping of elements at nanoscale resolution in the ultrastructure of various body parts of acanthocephalans and generally provide a contribution for further application of this technique in all parasite species.","lang":"eng"}],"article_number":"164010","article_processing_charge":"No","day":"20","date_created":"2024-01-10T10:43:08Z","citation":{"ista":"Filipović Marijić V, Subirana MA, Schaumlöffel D, Barišić J, Gontier E, Krasnici N, Mijošek T, Hernández-Orts JS, Scholz T, Erk M. 2023. First insight in element localisation in different body parts of the acanthocephalan Dentitruncus truttae using TEM and NanoSIMS. Science of The Total Environment. 887, 164010.","mla":"Filipović Marijić, Vlatka, et al. “First Insight in Element Localisation in Different Body Parts of the Acanthocephalan Dentitruncus Truttae Using TEM and NanoSIMS.” <i>Science of The Total Environment</i>, vol. 887, 164010, Elsevier, 2023, doi:<a href=\"https://doi.org/10.1016/j.scitotenv.2023.164010\">10.1016/j.scitotenv.2023.164010</a>.","chicago":"Filipović Marijić, Vlatka, Maria Angels Subirana, Dirk Schaumlöffel, Josip Barišić, Etienne Gontier, Nesrete Krasnici, Tatjana Mijošek, Jesús S. Hernández-Orts, Tomáš Scholz, and Marijana Erk. “First Insight in Element Localisation in Different Body Parts of the Acanthocephalan Dentitruncus Truttae Using TEM and NanoSIMS.” <i>Science of The Total Environment</i>. Elsevier, 2023. <a href=\"https://doi.org/10.1016/j.scitotenv.2023.164010\">https://doi.org/10.1016/j.scitotenv.2023.164010</a>.","apa":"Filipović Marijić, V., Subirana, M. A., Schaumlöffel, D., Barišić, J., Gontier, E., Krasnici, N., … Erk, M. (2023). First insight in element localisation in different body parts of the acanthocephalan Dentitruncus truttae using TEM and NanoSIMS. <i>Science of The Total Environment</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.scitotenv.2023.164010\">https://doi.org/10.1016/j.scitotenv.2023.164010</a>","ieee":"V. Filipović Marijić <i>et al.</i>, “First insight in element localisation in different body parts of the acanthocephalan Dentitruncus truttae using TEM and NanoSIMS,” <i>Science of The Total Environment</i>, vol. 887. Elsevier, 2023.","short":"V. Filipović Marijić, M.A. Subirana, D. Schaumlöffel, J. Barišić, E. Gontier, N. Krasnici, T. Mijošek, J.S. Hernández-Orts, T. Scholz, M. Erk, Science of The Total Environment 887 (2023).","ama":"Filipović Marijić V, Subirana MA, Schaumlöffel D, et al. First insight in element localisation in different body parts of the acanthocephalan Dentitruncus truttae using TEM and NanoSIMS. <i>Science of The Total Environment</i>. 2023;887. doi:<a href=\"https://doi.org/10.1016/j.scitotenv.2023.164010\">10.1016/j.scitotenv.2023.164010</a>"},"quality_controlled":"1","scopus_import":"1","doi":"10.1016/j.scitotenv.2023.164010","intvolume":"       887","language":[{"iso":"eng"}],"publication":"Science of The Total Environment","year":"2023","status":"public","acknowledgement":"The authors thank the Czech Science Foundation (project No. 19-28399X) and the Czech Academy of Sciences (RVO: 60077344) and are sincerely grateful to the Bordeaux Imaging Centre (member of the France BioImaging national infrastructure, ANR-10-INBS-04) for help with TEM and to members of the Laboratory of Biological Effects of Metals and Laboratory of Aquaculture and Pathology of Aquatic Organisms (Ruđer Bošković Institute, Croatia) for the assistance with fieldwork.","volume":887,"author":[{"last_name":"Filipović Marijić","full_name":"Filipović Marijić, Vlatka","first_name":"Vlatka"},{"first_name":"Maria Angels","last_name":"Subirana","full_name":"Subirana, Maria Angels"},{"first_name":"Dirk","full_name":"Schaumlöffel, Dirk","last_name":"Schaumlöffel"},{"full_name":"Barišić, Josip","last_name":"Barišić","first_name":"Josip"},{"first_name":"Etienne","last_name":"Gontier","full_name":"Gontier, Etienne"},{"full_name":"Krasnici, Nesrete","last_name":"Krasnici","id":"cb5852d4-287f-11ed-baf0-bc1dd2d5c745","first_name":"Nesrete"},{"first_name":"Tatjana","last_name":"Mijošek","full_name":"Mijošek, Tatjana"},{"first_name":"Jesús S.","full_name":"Hernández-Orts, Jesús S.","last_name":"Hernández-Orts"},{"first_name":"Tomáš","full_name":"Scholz, Tomáš","last_name":"Scholz"},{"last_name":"Erk","full_name":"Erk, Marijana","first_name":"Marijana"}],"external_id":{"isi":["001002645100001"],"pmid":["37169189"]},"date_published":"2023-08-20T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"First insight in element localisation in different body parts of the acanthocephalan Dentitruncus truttae using TEM and NanoSIMS","department":[{"_id":"LifeSc"}],"date_updated":"2025-04-24T11:35:33Z","publication_identifier":{"issn":["0048-9697"]},"OA_place":"repository","isi":1,"pmid":1,"_id":"14786","oa_version":"Submitted Version","publisher":"Elsevier","publication_status":"published","type":"journal_article","OA_type":"green","main_file_link":[{"open_access":"1","url":"https://hal.science/hal-04296657/document"}],"keyword":["Pollution","Waste Management and Disposal","Environmental Chemistry","Environmental Engineering"],"article_type":"original","month":"08"},{"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"department":[{"_id":"LifeSc"}],"title":"The human factor: Results of a small-angle scattering data analysis round robin","date_updated":"2025-09-09T14:20:00Z","isi":1,"publication_identifier":{"issn":["0021-8898"],"eissn":["1600-5767"]},"_id":"14799","arxiv":1,"type":"journal_article","publication_status":"published","oa_version":"Published Version","month":"12","article_type":"original","abstract":[{"lang":"eng","text":"A round-robin study has been carried out to estimate the impact of the human element in small-angle scattering data analysis. Four corrected datasets were provided to participants ready for analysis. All datasets were measured on samples containing spherical scatterers, with two datasets in dilute dispersions and two from powders. Most of the 46 participants correctly identified the number of populations in the dilute dispersions, with half of the population\r\nmean entries within 1.5% and half of the population width entries within 40%. Due to the added complexity of the structure factor, far fewer people submitted answers on the powder datasets. For those that did, half of the entries for the means and widths were within 44 and 86%, respectively. This round-robin experiment highlights several causes for the discrepancies, for which solutions are proposed."}],"ddc":["540"],"oa":1,"file_date_updated":"2024-01-17T07:47:35Z","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","quality_controlled":"1","citation":{"ieee":"B. R. Pauw <i>et al.</i>, “The human factor: Results of a small-angle scattering data analysis round robin,” <i>Journal of Applied Crystallography</i>, vol. 56, no. 6. pp. 1618–1629, 2023.","short":"B.R. Pauw, G.J. Smales, A.S. Anker, V. Annadurai, D. Balazs, R. Bienert, W.G. Bouwman, I. Breßler, J. Breternitz, E.S. Brok, G. Bryant, A.J. Clulow, E.R. Crater, F. De Geuser, A.D. Giudice, J. Deumer, S. Disch, S. Dutt, K. Frank, E. Fratini, P.R.A.F. Garcia, E.P. Gilbert, M.B. Hahn, J. Hallett, M. Hohenschutz, M. Hollamby, S. Huband, J. Ilavsky, J.K. Jochum, M. Juelsholt, B.W. Mansel, P. Penttilä, R.K. Pittkowski, G. Portale, L.D. Pozzo, L. Rochels, J.M. Rosalie, P.E.J. Saloga, S. Seibt, A.J. Smith, G.N. Smith, G.A. Spiering, T.M. Stawski, O. Taché, A.F. Thünemann, K. Toth, A.E. Whitten, J. Wuttke, Journal of Applied Crystallography 56 (2023) 1618–1629.","ama":"Pauw BR, Smales GJ, Anker AS, et al. The human factor: Results of a small-angle scattering data analysis round robin. <i>Journal of Applied Crystallography</i>. 2023;56(6):1618-1629. doi:<a href=\"https://doi.org/10.1107/S1600576723008324\">10.1107/S1600576723008324</a>","ista":"Pauw BR, Smales GJ, Anker AS, Annadurai V, Balazs D, Bienert R, Bouwman WG, Breßler I, Breternitz J, Brok ES, Bryant G, Clulow AJ, Crater ER, De Geuser F, Giudice AD, Deumer J, Disch S, Dutt S, Frank K, Fratini E, Garcia PRAF, Gilbert EP, Hahn MB, Hallett J, Hohenschutz M, Hollamby M, Huband S, Ilavsky J, Jochum JK, Juelsholt M, Mansel BW, Penttilä P, Pittkowski RK, Portale G, Pozzo LD, Rochels L, Rosalie JM, Saloga PEJ, Seibt S, Smith AJ, Smith GN, Spiering GA, Stawski TM, Taché O, Thünemann AF, Toth K, Whitten AE, Wuttke J. 2023. The human factor: Results of a small-angle scattering data analysis round robin. Journal of Applied Crystallography. 56(6), 1618–1629.","chicago":"Pauw, Brian R., Glen J. Smales, Andy S. Anker, Venkatasamy Annadurai, Daniel Balazs, Ralf Bienert, Wim G. Bouwman, et al. “The Human Factor: Results of a Small-Angle Scattering Data Analysis Round Robin.” <i>Journal of Applied Crystallography</i>, 2023. <a href=\"https://doi.org/10.1107/S1600576723008324\">https://doi.org/10.1107/S1600576723008324</a>.","mla":"Pauw, Brian R., et al. “The Human Factor: Results of a Small-Angle Scattering Data Analysis Round Robin.” <i>Journal of Applied Crystallography</i>, vol. 56, no. 6, 2023, pp. 1618–29, doi:<a href=\"https://doi.org/10.1107/S1600576723008324\">10.1107/S1600576723008324</a>.","apa":"Pauw, B. R., Smales, G. J., Anker, A. S., Annadurai, V., Balazs, D., Bienert, R., … Wuttke, J. (2023). The human factor: Results of a small-angle scattering data analysis round robin. <i>Journal of Applied Crystallography</i>. <a href=\"https://doi.org/10.1107/S1600576723008324\">https://doi.org/10.1107/S1600576723008324</a>"},"date_created":"2024-01-14T23:00:57Z","scopus_import":"1","day":"01","intvolume":"        56","doi":"10.1107/S1600576723008324","language":[{"iso":"eng"}],"publication":"Journal of Applied Crystallography","page":"1618-1629","issue":"6","year":"2023","acknowledgement":"KT acknowledges the NIST–NRC postdoctoral fellowship program for support. This work was partially funded through the European Metrology Programme for Innovation and Research (EMPIR) project No. 17NRM04.\r\nCertain commercial equipment, instruments, materials or software are identified in this article in order to specify the experimental procedure adequately. Such identification is not intended to imply recommendation or endorsement by NIST, nor is it intended to imply that the materials or equipment identified are necessarily the best available for the purpose. Open access funding enabled and organized by Projekt DEAL.","status":"public","date_published":"2023-12-01T00:00:00Z","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","file":[{"success":1,"file_name":"2023_JourApplCrystallography_Pauw.pdf","file_size":2165864,"checksum":"dab30d4556360f2cecf99f4b7efb0ee9","date_created":"2024-01-17T07:47:35Z","access_level":"open_access","content_type":"application/pdf","date_updated":"2024-01-17T07:47:35Z","file_id":"14822","creator":"dernst","relation":"main_file"}],"volume":56,"author":[{"last_name":"Pauw","full_name":"Pauw, Brian R.","first_name":"Brian R."},{"first_name":"Glen J.","full_name":"Smales, Glen J.","last_name":"Smales"},{"first_name":"Andy S.","full_name":"Anker, Andy S.","last_name":"Anker"},{"first_name":"Venkatasamy","full_name":"Annadurai, Venkatasamy","last_name":"Annadurai"},{"orcid":"0000-0001-7597-043X","full_name":"Balazs, Daniel","id":"302BADF6-85FC-11EA-9E3B-B9493DDC885E","last_name":"Balazs","first_name":"Daniel"},{"first_name":"Ralf","last_name":"Bienert","full_name":"Bienert, Ralf"},{"full_name":"Bouwman, Wim G.","last_name":"Bouwman","first_name":"Wim G."},{"first_name":"Ingo","last_name":"Breßler","full_name":"Breßler, Ingo"},{"first_name":"Joachim","full_name":"Breternitz, Joachim","last_name":"Breternitz"},{"first_name":"Erik S.","last_name":"Brok","full_name":"Brok, Erik S."},{"first_name":"Gary","full_name":"Bryant, Gary","last_name":"Bryant"},{"last_name":"Clulow","full_name":"Clulow, Andrew J.","first_name":"Andrew J."},{"last_name":"Crater","full_name":"Crater, Erin R.","first_name":"Erin R."},{"last_name":"De Geuser","full_name":"De Geuser, Frédéric","first_name":"Frédéric"},{"full_name":"Giudice, Alessandra Del","last_name":"Giudice","first_name":"Alessandra Del"},{"full_name":"Deumer, Jérôme","last_name":"Deumer","first_name":"Jérôme"},{"first_name":"Sabrina","full_name":"Disch, Sabrina","last_name":"Disch"},{"first_name":"Shankar","full_name":"Dutt, Shankar","last_name":"Dutt"},{"first_name":"Kilian","full_name":"Frank, Kilian","last_name":"Frank"},{"last_name":"Fratini","full_name":"Fratini, Emiliano","first_name":"Emiliano"},{"full_name":"Garcia, Paulo R.A.F.","last_name":"Garcia","first_name":"Paulo R.A.F."},{"first_name":"Elliot P.","last_name":"Gilbert","full_name":"Gilbert, Elliot P."},{"first_name":"Marc B.","last_name":"Hahn","full_name":"Hahn, Marc B."},{"full_name":"Hallett, James","last_name":"Hallett","first_name":"James"},{"first_name":"Max","full_name":"Hohenschutz, Max","last_name":"Hohenschutz"},{"first_name":"Martin","full_name":"Hollamby, Martin","last_name":"Hollamby"},{"first_name":"Steven","full_name":"Huband, Steven","last_name":"Huband"},{"first_name":"Jan","full_name":"Ilavsky, Jan","last_name":"Ilavsky"},{"full_name":"Jochum, Johanna K.","last_name":"Jochum","first_name":"Johanna K."},{"first_name":"Mikkel","last_name":"Juelsholt","full_name":"Juelsholt, Mikkel"},{"first_name":"Bradley W.","full_name":"Mansel, Bradley W.","last_name":"Mansel"},{"first_name":"Paavo","last_name":"Penttilä","full_name":"Penttilä, Paavo"},{"first_name":"Rebecca K.","last_name":"Pittkowski","full_name":"Pittkowski, Rebecca K."},{"last_name":"Portale","full_name":"Portale, Giuseppe","first_name":"Giuseppe"},{"full_name":"Pozzo, Lilo D.","last_name":"Pozzo","first_name":"Lilo D."},{"first_name":"Leonhard","last_name":"Rochels","full_name":"Rochels, Leonhard"},{"first_name":"Julian M.","last_name":"Rosalie","full_name":"Rosalie, Julian M."},{"first_name":"Patrick E.J.","last_name":"Saloga","full_name":"Saloga, Patrick E.J."},{"first_name":"Susanne","last_name":"Seibt","full_name":"Seibt, Susanne"},{"first_name":"Andrew J.","last_name":"Smith","full_name":"Smith, Andrew J."},{"last_name":"Smith","full_name":"Smith, Gregory N.","first_name":"Gregory N."},{"full_name":"Spiering, Glenn A.","last_name":"Spiering","first_name":"Glenn A."},{"last_name":"Stawski","full_name":"Stawski, Tomasz M.","first_name":"Tomasz M."},{"full_name":"Taché, Olivier","last_name":"Taché","first_name":"Olivier"},{"last_name":"Thünemann","full_name":"Thünemann, Andreas F.","first_name":"Andreas F."},{"first_name":"Kristof","last_name":"Toth","full_name":"Toth, Kristof"},{"first_name":"Andrew E.","last_name":"Whitten","full_name":"Whitten, Andrew E."},{"full_name":"Wuttke, Joachim","last_name":"Wuttke","first_name":"Joachim"}],"external_id":{"arxiv":["2303.03772"],"isi":["001120776200002"]}},{"author":[{"last_name":"Dass","full_name":"Dass, Avinash Vicholous","first_name":"Avinash Vicholous"},{"last_name":"Wunnava","full_name":"Wunnava, Sreekar","first_name":"Sreekar"},{"last_name":"Langlais","full_name":"Langlais, Juliette","first_name":"Juliette"},{"last_name":"von der Esch","full_name":"von der Esch, Beatriz","first_name":"Beatriz"},{"last_name":"Krusche","full_name":"Krusche, Maik","first_name":"Maik"},{"first_name":"Lennard","full_name":"Ufer, Lennard","last_name":"Ufer"},{"first_name":"Nico","last_name":"Chrisam","full_name":"Chrisam, Nico"},{"last_name":"Dubini","full_name":"Dubini, Romeo C. A.","first_name":"Romeo C. A."},{"full_name":"Gartner, Florian","last_name":"Gartner","first_name":"Florian"},{"first_name":"Severin","last_name":"Angerpointner","full_name":"Angerpointner, Severin"},{"first_name":"Christina F.","full_name":"Dirscherl, Christina F.","last_name":"Dirscherl"},{"orcid":"0000-0001-8729-7326","full_name":"Rovo, Petra","last_name":"Rovo","id":"c316e53f-b965-11eb-b128-bb26acc59c00","first_name":"Petra"},{"first_name":"Christof B.","last_name":"Mast","full_name":"Mast, Christof B."},{"first_name":"Judit E.","last_name":"Šponer","full_name":"Šponer, Judit E."},{"last_name":"Ochsenfeld","full_name":"Ochsenfeld, Christian","first_name":"Christian"},{"last_name":"Frey","full_name":"Frey, Erwin","first_name":"Erwin"},{"full_name":"Braun, Dieter","last_name":"Braun","first_name":"Dieter"}],"volume":5,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-01-01T00:00:00Z","file":[{"date_updated":"2024-07-31T11:20:58Z","creator":"dernst","file_id":"17355","relation":"main_file","file_name":"2023_ChemSystemsChem_Dass.pdf","success":1,"file_size":860679,"checksum":"b1e78c60e371f87bdf43970f17d1cb0b","access_level":"open_access","content_type":"application/pdf","date_created":"2024-07-31T11:20:58Z"}],"acknowledgement":"We would like to thank Ulrich Gerland, Tobias Göppel, Joachim Rosenberger and Bernhard Altaner for their helpful remarks and discussions; Thomas Matreux, Alexandra Kühnlein, Noël Yeh Martin and Maximilian Weingart for comments on the manuscript. The authors thank J. Kussmann (LMU Munich) for providing a development version of the FermiONs++ program package. Financial support was provided by the European Research Council (ERC Evotrap, grant no. 787356, the Simons Foundation (grant no. 327125), the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) – Project-ID 364653263 – TRR 235 (CRC 235), the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany's Excellence Strategy – EXC-2094 – 390783311, and the Center for NanoScience. Open Access funding enabled and organized by Projekt DEAL.","status":"public","year":"2023","issue":"1","language":[{"iso":"eng"}],"publication":"ChemSystemsChem","doi":"10.1002/syst.202200026","intvolume":"         5","day":"01","scopus_import":"1","quality_controlled":"1","date_created":"2024-05-29T06:13:48Z","citation":{"ama":"Dass AV, Wunnava S, Langlais J, et al. RNA oligomerisation without added catalyst from 2′,3′‐cyclic nucleotides by drying at air-water interfaces. <i>ChemSystemsChem</i>. 2023;5(1). doi:<a href=\"https://doi.org/10.1002/syst.202200026\">10.1002/syst.202200026</a>","ieee":"A. V. Dass <i>et al.</i>, “RNA oligomerisation without added catalyst from 2′,3′‐cyclic nucleotides by drying at air-water interfaces,” <i>ChemSystemsChem</i>, vol. 5, no. 1. Wiley, 2023.","short":"A.V. Dass, S. Wunnava, J. Langlais, B. von der Esch, M. Krusche, L. Ufer, N. Chrisam, R.C.A. Dubini, F. Gartner, S. Angerpointner, C.F. Dirscherl, P. Rovo, C.B. Mast, J.E. Šponer, C. Ochsenfeld, E. Frey, D. Braun, ChemSystemsChem 5 (2023).","ista":"Dass AV, Wunnava S, Langlais J, von der Esch B, Krusche M, Ufer L, Chrisam N, Dubini RCA, Gartner F, Angerpointner S, Dirscherl CF, Rovo P, Mast CB, Šponer JE, Ochsenfeld C, Frey E, Braun D. 2023. RNA oligomerisation without added catalyst from 2′,3′‐cyclic nucleotides by drying at air-water interfaces. ChemSystemsChem. 5(1), e202200026.","mla":"Dass, Avinash Vicholous, et al. “RNA Oligomerisation without Added Catalyst from 2′,3′‐cyclic Nucleotides by Drying at Air-Water Interfaces.” <i>ChemSystemsChem</i>, vol. 5, no. 1, e202200026, Wiley, 2023, doi:<a href=\"https://doi.org/10.1002/syst.202200026\">10.1002/syst.202200026</a>.","chicago":"Dass, Avinash Vicholous, Sreekar Wunnava, Juliette Langlais, Beatriz von der Esch, Maik Krusche, Lennard Ufer, Nico Chrisam, et al. “RNA Oligomerisation without Added Catalyst from 2′,3′‐cyclic Nucleotides by Drying at Air-Water Interfaces.” <i>ChemSystemsChem</i>. Wiley, 2023. <a href=\"https://doi.org/10.1002/syst.202200026\">https://doi.org/10.1002/syst.202200026</a>.","apa":"Dass, A. V., Wunnava, S., Langlais, J., von der Esch, B., Krusche, M., Ufer, L., … Braun, D. (2023). RNA oligomerisation without added catalyst from 2′,3′‐cyclic nucleotides by drying at air-water interfaces. <i>ChemSystemsChem</i>. Wiley. <a href=\"https://doi.org/10.1002/syst.202200026\">https://doi.org/10.1002/syst.202200026</a>"},"has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","article_number":"e202200026","file_date_updated":"2024-07-31T11:20:58Z","oa":1,"abstract":[{"text":"For the emergence of life, the abiotic synthesis of RNA from its monomers is a central step. We found that in alkaline, drying conditions in bulk and at heated air‐water interfaces, 2′,3′‐cyclic nucleotides oligomerised without additional catalyst, forming up to 10‐mers within a day. The oligomerisation proceeded at a pH range of 7–12, at temperatures between 40–80 °C and was marginally enhanced by K<jats:sup>+</jats:sup> ions. Among the canonical ribonucleotides, cGMP oligomerised most efficiently. Quantification was performed using HPLC coupled to ESI‐TOF by fitting the isotope distribution to the mass spectra. Our study suggests a oligomerisation mechanism where cGMP aids the incorporation of the relatively unreactive nucleotides C, A and U. The 2′,3′‐cyclic ribonucleotides are byproducts of prebiotic phosphorylation, nucleotide syntheses and RNA hydrolysis, indicating direct recycling pathways. The simple reaction condition offers a plausible entry point for RNA to the evolution of life on early Earth.","lang":"eng"}],"ddc":["530"],"article_type":"original","month":"01","oa_version":"Published Version","publisher":"Wiley","publication_status":"published","type":"journal_article","_id":"17078","publication_identifier":{"issn":["2570-4206"]},"date_updated":"2025-07-10T11:51:15Z","tmp":{"image":"/images/cc_by_nc_nd.png","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","short":"CC BY-NC-ND (4.0)"},"department":[{"_id":"NMR"}],"title":"RNA oligomerisation without added catalyst from 2′,3′‐cyclic nucleotides by drying at air-water interfaces"},{"oa":1,"file_date_updated":"2023-01-23T07:45:54Z","ddc":["570"],"abstract":[{"lang":"eng","text":"Regulation of the Arp2/3 complex is required for productive nucleation of branched actin networks. An emerging aspect of regulation is the incorporation of subunit isoforms into the Arp2/3 complex. Specifically, both ArpC5 subunit isoforms, ArpC5 and ArpC5L, have been reported to fine-tune nucleation activity and branch junction stability. We have combined reverse genetics and cellular structural biology to describe how ArpC5 and ArpC5L differentially affect cell migration. Both define the structural stability of ArpC1 in branch junctions and, in turn, by determining protrusion characteristics, affect protein dynamics and actin network ultrastructure. ArpC5 isoforms also affect the positioning of members of the Ena/Vasodilator-stimulated phosphoprotein (VASP) family of actin filament elongators, which mediate ArpC5 isoform–specific effects on the actin assembly level. Our results suggest that ArpC5 and Ena/VASP proteins are part of a signaling pathway enhancing cell migration.</jats:p>"}],"has_accepted_license":"1","article_number":"add6495","article_processing_charge":"No","day":"20","corr_author":"1","citation":{"ama":"Fäßler F, Javoor M, Datler J, et al. ArpC5 isoforms regulate Arp2/3 complex–dependent protrusion through differential Ena/VASP positioning. <i>Science Advances</i>. 2023;9(3). doi:<a href=\"https://doi.org/10.1126/sciadv.add6495\">10.1126/sciadv.add6495</a>","short":"F. Fäßler, M. Javoor, J. Datler, H. Döring, F. Hofer, G.A. Dimchev, V.-V. Hodirnau, J. Faix, K. Rottner, F.K. Schur, Science Advances 9 (2023).","ieee":"F. Fäßler <i>et al.</i>, “ArpC5 isoforms regulate Arp2/3 complex–dependent protrusion through differential Ena/VASP positioning,” <i>Science Advances</i>, vol. 9, no. 3. American Association for the Advancement of Science, 2023.","chicago":"Fäßler, Florian, Manjunath Javoor, Julia Datler, Hermann Döring, Florian Hofer, Georgi A Dimchev, Victor-Valentin Hodirnau, Jan Faix, Klemens Rottner, and Florian KM Schur. “ArpC5 Isoforms Regulate Arp2/3 Complex–Dependent Protrusion through Differential Ena/VASP Positioning.” <i>Science Advances</i>. American Association for the Advancement of Science, 2023. <a href=\"https://doi.org/10.1126/sciadv.add6495\">https://doi.org/10.1126/sciadv.add6495</a>.","apa":"Fäßler, F., Javoor, M., Datler, J., Döring, H., Hofer, F., Dimchev, G. A., … Schur, F. K. (2023). ArpC5 isoforms regulate Arp2/3 complex–dependent protrusion through differential Ena/VASP positioning. <i>Science Advances</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/sciadv.add6495\">https://doi.org/10.1126/sciadv.add6495</a>","mla":"Fäßler, Florian, et al. “ArpC5 Isoforms Regulate Arp2/3 Complex–Dependent Protrusion through Differential Ena/VASP Positioning.” <i>Science Advances</i>, vol. 9, no. 3, add6495, American Association for the Advancement of Science, 2023, doi:<a href=\"https://doi.org/10.1126/sciadv.add6495\">10.1126/sciadv.add6495</a>.","ista":"Fäßler F, Javoor M, Datler J, Döring H, Hofer F, Dimchev GA, Hodirnau V-V, Faix J, Rottner K, Schur FK. 2023. ArpC5 isoforms regulate Arp2/3 complex–dependent protrusion through differential Ena/VASP positioning. Science Advances. 9(3), add6495."},"quality_controlled":"1","date_created":"2023-01-23T07:26:42Z","scopus_import":"1","doi":"10.1126/sciadv.add6495","related_material":{"record":[{"relation":"research_data","status":"public","id":"14562"},{"status":"public","relation":"dissertation_contains","id":"18766"}]},"intvolume":"         9","issue":"3","publication":"Science Advances","language":[{"iso":"eng"}],"year":"2023","status":"public","acknowledgement":"We would like to thank K. von Peinen and B. Denker (Helmholtz Centre for Infection Research, Braunschweig, Germany) for experimental and technical assistance, respectively.\r\nThis research was supported by the Scientific Service Units (SSUs) of ISTA through resources provided by Scientific Computing (SciComp), the Life Science Facility (LSF), the Imaging and Optics facility (IOF), and the Electron Microscopy Facility (EMF). We acknowledge support from ISTA and from the Austrian Science Fund (FWF) (P33367) to F.K.M.S., from the Research Training Group GRK2223 and the Helmholtz Society to K.R,. and from the Deutsche Forschungsgemeinschaft (DFG) to J.F. and K.R.","volume":9,"external_id":{"isi":["000964550100015"],"pmid":["36662867"]},"author":[{"first_name":"Florian","full_name":"Fäßler, Florian","orcid":"0000-0001-7149-769X","last_name":"Fäßler","id":"404F5528-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Manjunath","id":"305ab18b-dc7d-11ea-9b2f-b58195228ea2","last_name":"Javoor","orcid":"0000-0003-2311-2112","full_name":"Javoor, Manjunath"},{"id":"3B12E2E6-F248-11E8-B48F-1D18A9856A87","last_name":"Datler","full_name":"Datler, Julia","orcid":"0000-0002-3616-8580","first_name":"Julia"},{"first_name":"Hermann","last_name":"Döring","full_name":"Döring, Hermann"},{"first_name":"Florian","full_name":"Hofer, 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KM"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-01-20T00:00:00Z","file":[{"creator":"dernst","file_id":"12335","relation":"main_file","date_updated":"2023-01-23T07:45:54Z","checksum":"ce81a6d0b84170e5e8c62f6acfa15d9e","content_type":"application/pdf","access_level":"open_access","date_created":"2023-01-23T07:45:54Z","file_name":"2023_ScienceAdvances_Faessler.pdf","success":1,"file_size":1756234}],"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"ArpC5 isoforms regulate Arp2/3 complex–dependent protrusion through differential Ena/VASP positioning","department":[{"_id":"FlSc"},{"_id":"EM-Fac"}],"date_updated":"2026-04-07T12:59:44Z","publication_identifier":{"issn":["2375-2548"]},"isi":1,"acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"LifeSc"},{"_id":"Bio"},{"_id":"EM-Fac"}],"pmid":1,"_id":"12334","oa_version":"Published Version","type":"journal_article","publication_status":"published","publisher":"American Association for the Advancement of Science","keyword":["Multidisciplinary"],"article_type":"original","project":[{"_id":"9B954C5C-BA93-11EA-9121-9846C619BF3A","name":"Structure and isoform diversity of the Arp2/3 complex","grant_number":"P33367"}],"month":"01"},{"publisher":"Institute of Science and Technology Austria","type":"research_data","oa_version":"Published Version","project":[{"_id":"265CB4D0-B435-11E9-9278-68D0E5697425","name":"Optical control of synaptic function via adhesion molecules","call_identifier":"FWF","grant_number":"I03600"},{"_id":"26AA4EF2-B435-11E9-9278-68D0E5697425","name":"Molecular Drug 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hippocampal CA3 circuitry","grant_number":"101026635","call_identifier":"H2020"}],"month":"08","tmp":{"short":"CC BY-NC-SA (4.0)","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"title":"Research data for the publication \"Imaging brain tissue architecture across millimeter to nanometer scales\"","department":[{"_id":"JoDa"},{"_id":"SaSi"},{"_id":"GaNo"},{"_id":"PeJo"},{"_id":"Bio"},{"_id":"RySh"}],"date_updated":"2026-04-14T08:34:35Z","acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"Bio"},{"_id":"PreCl"},{"_id":"LifeSc"},{"_id":"M-Shop"},{"_id":"E-Lib"}],"ec_funded":1,"_id":"13126","year":"2023","contributor":[{"last_name":"Michalska","id":"443DB6DE-F248-11E8-B48F-1D18A9856A87","first_name":"Julia M"},{"id":"46E28B80-F248-11E8-B48F-1D18A9856A87","last_name":"Lyudchik","first_name":"Julia"},{"orcid":"0000-0002-2340-7431","last_name":"Velicky","id":"39BDC62C-F248-11E8-B48F-1D18A9856A87","first_name":"Philipp"},{"first_name":"Hana","last_name":"Stefanickova","id":"ee3cb6ca-ec98-11ea-ae11-ff703e2254ed"},{"first_name":"Jake","orcid":"0000-0002-8698-3823","last_name":"Watson","id":"63836096-4690-11EA-BD4E-32803DDC885E"},{"id":"9ac8f577-2357-11eb-997a-e566c5550886","last_name":"Cenameri","first_name":"Alban"},{"first_name":"Christoph M","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","last_name":"Sommer","orcid":"0000-0003-1216-9105"},{"first_name":"Nicole","orcid":"0000-0002-3183-8207","last_name":"Amberg","id":"4CD6AAC6-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0003-2356-9403","id":"41CB84B2-F248-11E8-B48F-1D18A9856A87","last_name":"Venturino","first_name":"Alessandro"},{"last_name":"Roessler","first_name":"Karl"},{"last_name":"Czech","first_name":"Thomas"},{"first_name":"Romana","last_name":"Höftberger"},{"last_name":"Siegert","id":"36ACD32E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8635-0877","first_name":"Sandra"},{"id":"3E57A680-F248-11E8-B48F-1D18A9856A87","last_name":"Novarino","orcid":"0000-0002-7673-7178","first_name":"Gaia"},{"first_name":"Peter M","last_name":"Jonas","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5001-4804"}],"status":"public","acknowledgement":"We thank Jakob Vorlaufer, Nathalie Agudelo-Dueñas, Wiebke Jahr, Andreas Wartak for microscope maintenance and troubleshooting, Caroline Kreuzinger, Anna Freeman, and Irene Erber for technical assistance and Matthias Tomschik for support with obtaining human samples. We gratefully acknowledge Eder Miguel for setting up webKnossos and Marek Šuplata for computational support and hardware control. We are grateful to Ryuichi Shigemoto and Bernd Bickel for generous support, and Michael Sixt and Scott Boyd (Stanford University) for discussions and critical reading of the manuscript. PSD95-HaloTag mice were kindly provided by Seth Grant (University of Edinburgh). We acknowledge expert support by IST Austria’s scientific computing, imaging and optics, preclinical, and lab support facilities, and by the Library and Miba machine shop.\r\nWe gratefully acknowledge funding by the following sources: \r\nAustrian Science Fund (FWF) grant I3600-B27 (JGD)\r\nAustrian Science Fund (FWF) grant DK W1232 (JGD, JMM)\r\nAustrian Science Fund (FWF) grant Z 312-B27, Wittgenstein award (PJ)\r\nAustrian Science Funds (FWF) projects I4685-B, I6565-B (SYNABS) and DOC 33-B27 (RH)\r\nGesellschaft für Forschungsförderung NÖ (NFB) grant LSC18-022 (JGD)\r\nEuropean Union’s Horizon 2020 research and innovation programme, European Research Council (ERC) grant 715508 – REVERSEAUTISM (GN)\r\nEuropean Union’s Horizon 2020 research and innovation programme, European Research Council (ERC) grant 692692 – GIANTSYN (PJ)\r\nMarie Skłodowska-Curie Actions Fellowship GA no. 665385 under the EU Horizon 2020 program (JMM, JL)\r\nMarie Skłodowska-Curie Actions Individual Fellowship 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Super-resolution optical microscopy excels at visualizing specific molecules and individual cells but fails to provide tissue context. Here, we developed Comprehensive Analysis of Tissues across Scales (CATS), a technology to densely map brain tissue architecture from millimeter regional to nanometer synaptic scales in diverse chemically fixed brain preparations, including rodent and human. CATS uses fixation-compatible extracellular labeling and optical imaging, including stimulated emission depletion or expansion microscopy, to comprehensively delineate cellular structures. It enables three-dimensional reconstruction of single synapses and mapping of synaptic connectivity by identification and analysis of putative synaptic cleft regions. Applying CATS to the mouse hippocampal mossy fiber circuitry, we reconstructed and quantified the synaptic input and output structure of identified neurons. We furthermore demonstrate applicability to clinically derived human tissue samples, including formalin-fixed paraffin-embedded routine diagnostic specimens, for visualizing the cellular architecture of brain tissue in health and disease.","lang":"eng"}],"file_date_updated":"2023-08-04T13:19:47Z","oa":1,"article_processing_charge":"No","has_accepted_license":"1","citation":{"apa":"Danzl, J. G. (2023). Research data for the publication “Imaging brain tissue architecture across millimeter to nanometer scales.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:13126\">https://doi.org/10.15479/AT:ISTA:13126</a>","mla":"Danzl, Johann G. <i>Research Data for the Publication “Imaging Brain Tissue Architecture across Millimeter to Nanometer Scales.”</i> Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:13126\">10.15479/AT:ISTA:13126</a>.","chicago":"Danzl, Johann G. “Research Data for the Publication ‘Imaging Brain Tissue Architecture across Millimeter to Nanometer Scales.’” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:13126\">https://doi.org/10.15479/AT:ISTA:13126</a>.","ista":"Danzl JG. 2023. Research data for the publication ‘Imaging brain tissue architecture across millimeter to nanometer scales’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:13126\">10.15479/AT:ISTA:13126</a>.","ieee":"J. G. Danzl, “Research data for the publication ‘Imaging brain tissue architecture across millimeter to nanometer scales.’” Institute of Science and Technology Austria, 2023.","short":"J.G. Danzl, (2023).","ama":"Danzl JG. Research data for the publication “Imaging brain tissue architecture across millimeter to nanometer scales.” 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:13126\">10.15479/AT:ISTA:13126</a>"},"date_created":"2023-06-07T07:15:12Z","corr_author":"1","day":"04","related_material":{"link":[{"relation":"research_data","url":"https://pub.ista.ac.at/group_danzl/data/CATS/","description":"Original data for Fig. 5d, Fig. 5d (N2V) and Fig. 5f-i, provided via an external link due to the large size (>10GB) of the datasets. "}],"record":[{"id":"14257","status":"public","relation":"used_in_publication"}]},"doi":"10.15479/AT:ISTA:13126"},{"_id":"13267","ec_funded":1,"pmid":1,"OA_place":"publisher","isi":1,"acknowledged_ssus":[{"_id":"ScienComp"},{"_id":"Bio"},{"_id":"PreCl"},{"_id":"E-Lib"},{"_id":"LifeSc"},{"_id":"M-Shop"}],"publication_identifier":{"eissn":["1548-7105"],"issn":["1548-7091"]},"date_updated":"2026-04-07T12:58:30Z","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"Dense 4D nanoscale reconstruction of living brain tissue","department":[{"_id":"PeJo"},{"_id":"GaNo"},{"_id":"BeBi"},{"_id":"JoDa"},{"_id":"Bio"}],"project":[{"name":"Optical control of synaptic function via adhesion molecules","call_identifier":"FWF","grant_number":"I03600","_id":"265CB4D0-B435-11E9-9278-68D0E5697425"},{"_id":"2548AE96-B435-11E9-9278-68D0E5697425","name":"Molecular Drug Targets","call_identifier":"FWF","grant_number":"W1232"},{"_id":"25C5A090-B435-11E9-9278-68D0E5697425","name":"Synaptic communication in neuronal microcircuits","grant_number":"Z00312","call_identifier":"FWF"},{"name":"High content imaging to decode human immune cell interactions in health and allergic disease","grant_number":"LS18-022","_id":"23889792-32DE-11EA-91FC-C7463DDC885E"},{"name":"International IST Doctoral Program","call_identifier":"H2020","grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"},{"_id":"24F9549A-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"715767","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling"},{"_id":"25444568-B435-11E9-9278-68D0E5697425","name":"Probing the Reversibility of Autism Spectrum Disorders by Employing in vivo and in vitro Models","call_identifier":"H2020","grant_number":"715508"},{"name":"Biophysics and circuit function of a giant cortical glutamatergic synapse","grant_number":"692692","call_identifier":"H2020","_id":"25B7EB9E-B435-11E9-9278-68D0E5697425"},{"_id":"fc2be41b-9c52-11eb-aca3-faa90aa144e9","grant_number":"101026635","call_identifier":"H2020","name":"Synaptic computations of the hippocampal CA3 circuitry"},{"grant_number":"LT00057","name":"High-speed 3D-nanoscopy to study the role of adhesion during 3D cell migration","_id":"2668BFA0-B435-11E9-9278-68D0E5697425"}],"month":"08","article_type":"original","OA_type":"hybrid","publisher":"Springer Nature","type":"journal_article","publication_status":"published","oa_version":"Published Version","related_material":{"link":[{"url":"https://github.com/danzllab/LIONESS","relation":"software"}],"record":[{"id":"12817","status":"public","relation":"research_data"},{"id":"14770","status":"public","relation":"shorter_version"},{"id":"11943","status":"public","relation":"earlier_version"},{"id":"18674","status":"public","relation":"dissertation_contains"}]},"intvolume":"        20","doi":"10.1038/s41592-023-01936-6","citation":{"ista":"Velicky P, Miguel Villalba E, Michalska JM, Lyudchik J, Wei D, Lin Z, Watson J, Troidl J, Beyer J, Ben Simon Y, Sommer CM, Jahr W, Cenameri A, Broichhagen J, Grant SGN, Jonas PM, Novarino G, Pfister H, Bickel B, Danzl JG. 2023. Dense 4D nanoscale reconstruction of living brain tissue. Nature Methods. 20, 1256–1265.","mla":"Velicky, Philipp, et al. “Dense 4D Nanoscale Reconstruction of Living Brain Tissue.” <i>Nature Methods</i>, vol. 20, Springer Nature, 2023, pp. 1256–65, doi:<a href=\"https://doi.org/10.1038/s41592-023-01936-6\">10.1038/s41592-023-01936-6</a>.","apa":"Velicky, P., Miguel Villalba, E., Michalska, J. M., Lyudchik, J., Wei, D., Lin, Z., … Danzl, J. G. (2023). Dense 4D nanoscale reconstruction of living brain tissue. <i>Nature Methods</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41592-023-01936-6\">https://doi.org/10.1038/s41592-023-01936-6</a>","chicago":"Velicky, Philipp, Eder Miguel Villalba, Julia M Michalska, Julia Lyudchik, Donglai Wei, Zudi Lin, Jake Watson, et al. “Dense 4D Nanoscale Reconstruction of Living Brain Tissue.” <i>Nature Methods</i>. Springer Nature, 2023. <a href=\"https://doi.org/10.1038/s41592-023-01936-6\">https://doi.org/10.1038/s41592-023-01936-6</a>.","short":"P. Velicky, E. Miguel Villalba, J.M. Michalska, J. Lyudchik, D. Wei, Z. Lin, J. Watson, J. Troidl, J. Beyer, Y. Ben Simon, C.M. Sommer, W. Jahr, A. Cenameri, J. Broichhagen, S.G.N. Grant, P.M. Jonas, G. Novarino, H. Pfister, B. Bickel, J.G. Danzl, Nature Methods 20 (2023) 1256–1265.","ieee":"P. Velicky <i>et al.</i>, “Dense 4D nanoscale reconstruction of living brain tissue,” <i>Nature Methods</i>, vol. 20. Springer Nature, pp. 1256–1265, 2023.","ama":"Velicky P, Miguel Villalba E, Michalska JM, et al. Dense 4D nanoscale reconstruction of living brain tissue. <i>Nature Methods</i>. 2023;20:1256-1265. doi:<a href=\"https://doi.org/10.1038/s41592-023-01936-6\">10.1038/s41592-023-01936-6</a>"},"date_created":"2023-07-23T22:01:13Z","quality_controlled":"1","scopus_import":"1","day":"01","corr_author":"1","article_processing_charge":"Yes (in subscription journal)","has_accepted_license":"1","ddc":["570"],"abstract":[{"lang":"eng","text":"Three-dimensional (3D) reconstruction of living brain tissue down to an individual synapse level would create opportunities for decoding the dynamics and structure–function relationships of the brain’s complex and dense information processing network; however, this has been hindered by insufficient 3D resolution, inadequate signal-to-noise ratio and prohibitive light burden in optical imaging, whereas electron microscopy is inherently static. Here we solved these challenges by developing an integrated optical/machine-learning technology, LIONESS (live information-optimized nanoscopy enabling saturated segmentation). This leverages optical modifications to stimulated emission depletion microscopy in comprehensively, extracellularly labeled tissue and previous information on sample structure via machine learning to simultaneously achieve isotropic super-resolution, high signal-to-noise ratio and compatibility with living tissue. This allows dense deep-learning-based instance segmentation and 3D reconstruction at a synapse level, incorporating molecular, activity and morphodynamic information. LIONESS opens up avenues for studying the dynamic functional (nano-)architecture of living brain tissue."}],"oa":1,"file_date_updated":"2025-02-26T08:01:57Z","file":[{"file_name":"2023_NatureMethods_Velicky.pdf","success":1,"file_size":14103039,"checksum":"a68e845780a82ea36d0d4d3212a87c10","date_created":"2025-02-26T08:01:57Z","content_type":"application/pdf","access_level":"open_access","date_updated":"2025-02-26T08:01:57Z","file_id":"19088","creator":"dernst","relation":"main_file"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-08-01T00:00:00Z","volume":20,"external_id":{"isi":["001025621500001"],"pmid":["37429995"]},"author":[{"id":"39BDC62C-F248-11E8-B48F-1D18A9856A87","last_name":"Velicky","full_name":"Velicky, Philipp","orcid":"0000-0002-2340-7431","first_name":"Philipp"},{"full_name":"Miguel Villalba, Eder","orcid":"0000-0001-5665-0430","id":"3FB91342-F248-11E8-B48F-1D18A9856A87","last_name":"Miguel Villalba","first_name":"Eder"},{"first_name":"Julia M","last_name":"Michalska","id":"443DB6DE-F248-11E8-B48F-1D18A9856A87","full_name":"Michalska, Julia M","orcid":"0000-0003-3862-1235"},{"first_name":"Julia","full_name":"Lyudchik, Julia","id":"46E28B80-F248-11E8-B48F-1D18A9856A87","last_name":"Lyudchik"},{"first_name":"Donglai","full_name":"Wei, Donglai","last_name":"Wei"},{"first_name":"Zudi","full_name":"Lin, Zudi","last_name":"Lin"},{"orcid":"0000-0002-8698-3823","full_name":"Watson, Jake","last_name":"Watson","id":"63836096-4690-11EA-BD4E-32803DDC885E","first_name":"Jake"},{"first_name":"Jakob","last_name":"Troidl","full_name":"Troidl, Jakob"},{"full_name":"Beyer, Johanna","last_name":"Beyer","first_name":"Johanna"},{"full_name":"Ben Simon, Yoav","id":"43DF3136-F248-11E8-B48F-1D18A9856A87","last_name":"Ben Simon","first_name":"Yoav"},{"first_name":"Christoph M","full_name":"Sommer, Christoph M","orcid":"0000-0003-1216-9105","last_name":"Sommer","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Wiebke","orcid":"0000-0003-0201-2315","full_name":"Jahr, Wiebke","last_name":"Jahr","id":"425C1CE8-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Cenameri, Alban","last_name":"Cenameri","id":"9ac8f577-2357-11eb-997a-e566c5550886","first_name":"Alban"},{"full_name":"Broichhagen, Johannes","last_name":"Broichhagen","first_name":"Johannes"},{"full_name":"Grant, Seth G.N.","last_name":"Grant","first_name":"Seth G.N."},{"first_name":"Peter M","full_name":"Jonas, Peter M","orcid":"0000-0001-5001-4804","last_name":"Jonas","id":"353C1B58-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Gaia","orcid":"0000-0002-7673-7178","full_name":"Novarino, Gaia","last_name":"Novarino","id":"3E57A680-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Hanspeter","last_name":"Pfister","full_name":"Pfister, Hanspeter"},{"first_name":"Bernd","full_name":"Bickel, Bernd","orcid":"0000-0001-6511-9385","id":"49876194-F248-11E8-B48F-1D18A9856A87","last_name":"Bickel"},{"id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","last_name":"Danzl","full_name":"Danzl, Johann G","orcid":"0000-0001-8559-3973","first_name":"Johann G"}],"status":"public","acknowledgement":"We thank J. Vorlaufer, N. Agudelo and A. Wartak for microscope maintenance and troubleshooting, C. Kreuzinger and A. Freeman for technical assistance, M. Šuplata for hardware control support and M. Cunha dos Santos for initial exploration of software. We\r\nthank P. Henderson for advice on deep-learning training and M. Sixt, S. Boyd and T. Weiss for discussions and critical reading of the manuscript. L. Lavis (Janelia Research Campus) generously provided the JF585-HaloTag ligand. We acknowledge expert support by IST\r\nAustria’s scientific computing, imaging and optics, preclinical, library and laboratory support facilities and by the Miba machine shop. We gratefully acknowledge funding by the following sources: Austrian Science Fund (F.W.F.) grant no. I3600-B27 (J.G.D.), grant no. DK W1232\r\n(J.G.D. and J.M.M.) and grant no. Z 312-B27, Wittgenstein award (P.J.); the Gesellschaft für Forschungsförderung NÖ grant no. LSC18-022 (J.G.D.); an ISTA Interdisciplinary project grant (J.G.D. and B.B.); the European Union’s Horizon 2020 research and innovation programme,\r\nMarie-Skłodowska Curie grant 665385 (J.M.M. and J.L.); the European Union’s Horizon 2020 research and innovation programme, European Research Council grant no. 715767, MATERIALIZABLE (B.B.); grant no. 715508, REVERSEAUTISM (G.N.); grant no. 695568, SYNNOVATE (S.G.N.G.); and grant no. 692692, GIANTSYN (P.J.); the Simons\r\nFoundation Autism Research Initiative grant no. 529085 (S.G.N.G.); the Wellcome Trust Technology Development grant no. 202932 (S.G.N.G.); the Marie Skłodowska-Curie Actions Individual Fellowship no. 101026635 under the EU Horizon 2020 program (J.F.W.);\r\nthe Human Frontier Science Program postdoctoral fellowship LT000557/2018 (W.J.); and the National Science Foundation grant no. IIS-1835231 (H.P.) and NCS-FO-2124179 (H.P.).","year":"2023","publication":"Nature Methods","page":"1256-1265","language":[{"iso":"eng"}]},{"OA_place":"repository","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"NanoFab"}],"_id":"13312","ec_funded":1,"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"Radio frequency driven superconducting diode and parity conserving  Cooper pair transport in a two-dimensional germanium hole gas","department":[{"_id":"GeKa"},{"_id":"M-Shop"}],"date_updated":"2026-04-07T13:27:22Z","keyword":["Mesoscale and Nanoscale Physics"],"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2306.07109","open_access":"1"}],"month":"06","project":[{"_id":"237E5020-32DE-11EA-91FC-C7463DDC885E","name":"TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS","grant_number":"862046","call_identifier":"H2020"},{"_id":"237B3DA4-32DE-11EA-91FC-C7463DDC885E","name":"Towards scalable hut wire quantum devices","call_identifier":"FWF","grant_number":"P32235"},{"name":"Merging spin and superconducting qubits in planar Ge","grant_number":"P36507","_id":"bd8bd29e-d553-11ed-ba76-f0070d4b237a"},{"name":"Center for Correlated Quantum Materials and Solid State Quantum Systems: Conventional  and unconventional topological superconductors","grant_number":"F8606","_id":"34a66131-11ca-11ed-8bc3-a31681c6b03e"},{"_id":"eb9b30ac-77a9-11ec-83b8-871f581d53d2","name":"Protected states of quantum matter"}],"arxiv":1,"type":"preprint","publication_status":"draft","oa_version":"Preprint","date_created":"2023-07-26T11:17:20Z","citation":{"ama":"Valentini M, Sagi O, Baghumyan L, et al. Radio frequency driven superconducting diode and parity conserving  Cooper pair transport in a two-dimensional germanium hole gas. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2306.07109\">10.48550/arXiv.2306.07109</a>","short":"M. Valentini, O. Sagi, L. Baghumyan, T. de Gijsel, J. Jung, S. Calcaterra, A. Ballabio, J.A. Servin, K. Aggarwal, M. Janik, T. Adletzberger, R.S. Souto, M. Leijnse, J. Danon, C. Schrade, E. Bakkers, D. Chrastina, G. Isella, G. Katsaros, ArXiv (n.d.).","ieee":"M. Valentini <i>et al.</i>, “Radio frequency driven superconducting diode and parity conserving  Cooper pair transport in a two-dimensional germanium hole gas,” <i>arXiv</i>. .","ista":"Valentini M, Sagi O, Baghumyan L, Gijsel T de, Jung J, Calcaterra S, Ballabio A, Servin JA, Aggarwal K, Janik M, Adletzberger T, Souto RS, Leijnse M, Danon J, Schrade C, Bakkers E, Chrastina D, Isella G, Katsaros G. Radio frequency driven superconducting diode and parity conserving  Cooper pair transport in a two-dimensional germanium hole gas. arXiv, 2306.07109.","apa":"Valentini, M., Sagi, O., Baghumyan, L., Gijsel, T. de, Jung, J., Calcaterra, S., … Katsaros, G. (n.d.). Radio frequency driven superconducting diode and parity conserving  Cooper pair transport in a two-dimensional germanium hole gas. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2306.07109\">https://doi.org/10.48550/arXiv.2306.07109</a>","chicago":"Valentini, Marco, Oliver Sagi, Levon Baghumyan, Thijs de Gijsel, Jason Jung, Stefano Calcaterra, Andrea Ballabio, et al. “Radio Frequency Driven Superconducting Diode and Parity Conserving  Cooper Pair Transport in a Two-Dimensional Germanium Hole Gas.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2306.07109\">https://doi.org/10.48550/arXiv.2306.07109</a>.","mla":"Valentini, Marco, et al. “Radio Frequency Driven Superconducting Diode and Parity Conserving  Cooper Pair Transport in a Two-Dimensional Germanium Hole Gas.” <i>ArXiv</i>, 2306.07109, doi:<a href=\"https://doi.org/10.48550/arXiv.2306.07109\">10.48550/arXiv.2306.07109</a>."},"corr_author":"1","day":"13","related_material":{"record":[{"id":"13286","relation":"dissertation_contains","status":"public"}]},"doi":"10.48550/arXiv.2306.07109","ddc":["530"],"abstract":[{"text":"Superconductor/semiconductor hybrid devices have attracted increasing\r\ninterest in the past years. Superconducting electronics aims to complement\r\nsemiconductor technology, while hybrid architectures are at the forefront of\r\nnew ideas such as topological superconductivity and protected qubits. In this\r\nwork, we engineer the induced superconductivity in two-dimensional germanium\r\nhole gas by varying the distance between the quantum well and the aluminum. We\r\ndemonstrate a hard superconducting gap and realize an electrically and flux\r\ntunable superconducting diode using a superconducting quantum interference\r\ndevice (SQUID). This allows to tune the current phase relation (CPR), to a\r\nregime where single Cooper pair tunneling is suppressed, creating a $ \\sin\r\n\\left( 2 \\varphi \\right)$ CPR. Shapiro experiments complement this\r\ninterpretation and the microwave drive allows to create a diode with $ \\approx\r\n100 \\%$ efficiency. The reported results open up the path towards monolithic\r\nintegration of spin qubit devices, microwave resonators and (protected)\r\nsuperconducting qubits on a silicon technology compatible platform.","lang":"eng"}],"oa":1,"article_number":"2306.07109","article_processing_charge":"No","acknowledgement":"The authors acknowledge Alexander Brinkmann, Alessandro Crippa, Andrew Higginbotham, Andrea Iorio, Giordano\r\nScappucci and Christian Schonenberger for helpful discussions. We thank Marcel Verheijen for the support in the\r\nTEM analysis. This research and related results were made\r\npossible with the support of the NOMIS Foundation. It was\r\nsupported by the Scientific Service Units of ISTA through resources provided by the MIBA Machine Shop and the\r\nnanofabrication facility, the European Union’s Horizon 2020\r\nresearch and innovation programme under Grant Agreement\r\nNo 862046, the HORIZON-RIA 101069515 project and the\r\nFWF Projects #P-32235, #P-36507 and #F-8606. R.S.S.\r\nacknowledges Spanish CM “Talento Program” Project No.\r\n2022-T1/IND-24070.","status":"public","date_published":"2023-06-13T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","author":[{"id":"C0BB2FAC-D767-11E9-B658-BC13E6697425","last_name":"Valentini","full_name":"Valentini, Marco","first_name":"Marco"},{"full_name":"Sagi, Oliver","id":"71616374-A8E9-11E9-A7CA-09ECE5697425","last_name":"Sagi","first_name":"Oliver"},{"full_name":"Baghumyan, Levon","last_name":"Baghumyan","first_name":"Levon"},{"first_name":"Thijs de","full_name":"Gijsel, Thijs de","last_name":"Gijsel"},{"first_name":"Jason","last_name":"Jung","id":"4C9ACE7A-F248-11E8-B48F-1D18A9856A87","full_name":"Jung, Jason"},{"full_name":"Calcaterra, Stefano","last_name":"Calcaterra","first_name":"Stefano"},{"first_name":"Andrea","last_name":"Ballabio","full_name":"Ballabio, Andrea"},{"first_name":"Juan Aguilera","last_name":"Servin","full_name":"Servin, Juan Aguilera"},{"first_name":"Kushagra","id":"b22ab905-3539-11eb-84c3-fc159dcd79cb","last_name":"Aggarwal","orcid":"0000-0001-9985-9293","full_name":"Aggarwal, Kushagra"},{"last_name":"Janik","id":"396A1950-F248-11E8-B48F-1D18A9856A87","orcid":"0009-0003-9037-8831","full_name":"Janik, Marian","first_name":"Marian"},{"id":"38756BB2-F248-11E8-B48F-1D18A9856A87","last_name":"Adletzberger","full_name":"Adletzberger, Thomas","first_name":"Thomas"},{"last_name":"Souto","full_name":"Souto, Rubén Seoane","first_name":"Rubén Seoane"},{"last_name":"Leijnse","full_name":"Leijnse, Martin","first_name":"Martin"},{"full_name":"Danon, Jeroen","last_name":"Danon","first_name":"Jeroen"},{"first_name":"Constantin","last_name":"Schrade","full_name":"Schrade, Constantin"},{"last_name":"Bakkers","full_name":"Bakkers, Erik","first_name":"Erik"},{"last_name":"Chrastina","full_name":"Chrastina, Daniel","first_name":"Daniel"},{"first_name":"Giovanni","full_name":"Isella, Giovanni","last_name":"Isella"},{"first_name":"Georgios","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","last_name":"Katsaros","full_name":"Katsaros, Georgios","orcid":"0000-0001-8342-202X"}],"external_id":{"arxiv":["2306.07109"]},"publication":"arXiv","language":[{"iso":"eng"}],"year":"2023"},{"article_processing_charge":"No","article_number":"adc9584","ddc":["570"],"abstract":[{"text":"Immune responses rely on the rapid and coordinated migration of leukocytes. Whereas it is well established that single-cell migration is often guided by gradients of chemokines and other chemoattractants, it remains poorly understood how these gradients are generated, maintained, and modulated. By combining experimental data with theory on leukocyte chemotaxis guided by the G protein–coupled receptor (GPCR) CCR7, we demonstrate that in addition to its role as the sensory receptor that steers migration, CCR7 also acts as a generator and a modulator of chemotactic gradients. Upon exposure to the CCR7 ligand CCL19, dendritic cells (DCs) effectively internalize the receptor and ligand as part of the canonical GPCR desensitization response. We show that CCR7 internalization also acts as an effective sink for the chemoattractant, dynamically shaping the spatiotemporal distribution of the chemokine. This mechanism drives complex collective migration patterns, enabling DCs to create or sharpen chemotactic gradients. We further show that these self-generated gradients can sustain the long-range guidance of DCs, adapt collective migration patterns to the size and geometry of the environment, and provide a guidance cue for other comigrating cells. Such a dual role of CCR7 as a GPCR that both senses and consumes its ligand can thus provide a novel mode of cellular self-organization.","lang":"eng"}],"oa":1,"intvolume":"         8","related_material":{"record":[{"id":"14279","status":"public","relation":"research_data"},{"id":"19745","status":"public","relation":"dissertation_contains"},{"id":"14697","relation":"dissertation_contains","status":"public"}]},"doi":"10.1126/sciimmunol.adc9584","scopus_import":"1","quality_controlled":"1","citation":{"chicago":"Alanko, Jonna H, Mehmet C Ucar, Nikola Canigova, Julian A Stopp, Jan Schwarz, Jack Merrin, Edouard B Hannezo, and Michael K Sixt. “CCR7 Acts as Both a Sensor and a Sink for CCL19 to Coordinate Collective Leukocyte Migration.” <i>Science Immunology</i>. American Association for the Advancement of Science, 2023. <a href=\"https://doi.org/10.1126/sciimmunol.adc9584\">https://doi.org/10.1126/sciimmunol.adc9584</a>.","apa":"Alanko, J. H., Ucar, M. C., Canigova, N., Stopp, J. A., Schwarz, J., Merrin, J., … Sixt, M. K. (2023). CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration. <i>Science Immunology</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/sciimmunol.adc9584\">https://doi.org/10.1126/sciimmunol.adc9584</a>","mla":"Alanko, Jonna H., et al. “CCR7 Acts as Both a Sensor and a Sink for CCL19 to Coordinate Collective Leukocyte Migration.” <i>Science Immunology</i>, vol. 8, no. 87, adc9584, American Association for the Advancement of Science, 2023, doi:<a href=\"https://doi.org/10.1126/sciimmunol.adc9584\">10.1126/sciimmunol.adc9584</a>.","ista":"Alanko JH, Ucar MC, Canigova N, Stopp JA, Schwarz J, Merrin J, Hannezo EB, Sixt MK. 2023. CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration. Science Immunology. 8(87), adc9584.","ama":"Alanko JH, Ucar MC, Canigova N, et al. CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration. <i>Science Immunology</i>. 2023;8(87). doi:<a href=\"https://doi.org/10.1126/sciimmunol.adc9584\">10.1126/sciimmunol.adc9584</a>","ieee":"J. H. Alanko <i>et al.</i>, “CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration,” <i>Science Immunology</i>, vol. 8, no. 87. American Association for the Advancement of Science, 2023.","short":"J.H. Alanko, M.C. Ucar, N. Canigova, J.A. Stopp, J. Schwarz, J. Merrin, E.B. Hannezo, M.K. Sixt, Science Immunology 8 (2023)."},"date_created":"2023-09-06T08:07:51Z","corr_author":"1","day":"01","year":"2023","publication":"Science Immunology","language":[{"iso":"eng"}],"issue":"87","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2023-09-01T00:00:00Z","author":[{"orcid":"0000-0002-7698-3061","full_name":"Alanko, Jonna H","id":"2CC12E8C-F248-11E8-B48F-1D18A9856A87","last_name":"Alanko","first_name":"Jonna H"},{"id":"50B2A802-6007-11E9-A42B-EB23E6697425","last_name":"Ucar","full_name":"Ucar, Mehmet C","orcid":"0000-0003-0506-4217","first_name":"Mehmet C"},{"first_name":"Nikola","full_name":"Canigova, Nikola","orcid":"0000-0002-8518-5926","last_name":"Canigova","id":"3795523E-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Stopp, Julian A","last_name":"Stopp","id":"489E3F00-F248-11E8-B48F-1D18A9856A87","first_name":"Julian A"},{"first_name":"Jan","full_name":"Schwarz, Jan","last_name":"Schwarz","id":"346C1EC6-F248-11E8-B48F-1D18A9856A87"},{"id":"4515C308-F248-11E8-B48F-1D18A9856A87","last_name":"Merrin","orcid":"0000-0001-5145-4609","full_name":"Merrin, Jack","first_name":"Jack"},{"first_name":"Edouard B","full_name":"Hannezo, Edouard B","orcid":"0000-0001-6005-1561","last_name":"Hannezo","id":"3A9DB764-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Michael K","full_name":"Sixt, Michael K","orcid":"0000-0002-6620-9179","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","last_name":"Sixt"}],"external_id":{"pmid":["37656776"],"isi":["001062110600003"]},"volume":8,"status":"public","acknowledgement":"We thank I. de Vries and the Scientific Service Units (Life Sciences, Bioimaging, Nanofabrication, Preclinical and Miba Machine Shop) of the Institute of Science and Technology Austria for excellent support, as well as all the rotation students assisting in the laboratory work (B. Zens, H. Schön, and D. Babic).\r\nThis work was supported by grants from the European Research Council under the European Union’s Horizon 2020 research to M.S. (grant agreement no. 724373) and to E.H. (grant agreement no. 851288), and a grant by the Austrian Science Fund (DK Nanocell W1250-B20) to M.S. J.A. was supported by the Jenny and Antti Wihuri Foundation and Research Council of Finland's Flagship Programme InFLAMES (decision number: 357910). M.C.U. was supported by the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie grant agreement no. 754411.","date_updated":"2026-06-19T22:31:20Z","title":"CCR7 acts as both a sensor and a sink for CCL19 to coordinate collective leukocyte migration","department":[{"_id":"MiSi"},{"_id":"EdHa"},{"_id":"NanoFab"}],"ec_funded":1,"_id":"14274","pmid":1,"isi":1,"publication_identifier":{"issn":["2470-9468"]},"type":"journal_article","publisher":"American Association for the Advancement of Science","publication_status":"published","oa_version":"Published Version","project":[{"_id":"25FE9508-B435-11E9-9278-68D0E5697425","name":"Cellular Navigation Along Spatial Gradients","call_identifier":"H2020","grant_number":"724373"},{"name":"Design Principles of Branching Morphogenesis","grant_number":"851288","call_identifier":"H2020","_id":"05943252-7A3F-11EA-A408-12923DDC885E"},{"call_identifier":"FWF","grant_number":"W01250-B20","name":"Nano-Analytics of Cellular Systems","_id":"265E2996-B435-11E9-9278-68D0E5697425"},{"_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"month":"09","article_type":"original","keyword":["General Medicine","Immunology"],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1126/sciimmunol.adc9584"}]},{"author":[{"first_name":"Clara A","id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","last_name":"Chlebak","full_name":"Chlebak, Clara A","orcid":"0000-0002-3385-3865"},{"full_name":"Reid, Peter H.","last_name":"Reid","first_name":"Peter H."}],"volume":38,"user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","date_published":"2022-04-01T00:00:00Z","status":"public","year":"2022","issue":"1","language":[{"iso":"eng"}],"publication":"Library and Information History","page":"23-41","doi":"10.3366/lih.2022.0097","intvolume":"        38","corr_author":"1","day":"01","scopus_import":"1","date_created":"2022-06-12T22:01:45Z","citation":{"ieee":"C. A. Chlebak and P. H. Reid, “From the prefect’s desk: Gerard van Swieten’s library correspondence,” <i>Library and Information History</i>, vol. 38, no. 1. Edinburgh University Press, pp. 23–41, 2022.","short":"C.A. Chlebak, P.H. Reid, Library and Information History 38 (2022) 23–41.","ama":"Chlebak CA, Reid PH. From the prefect’s desk: Gerard van Swieten’s library correspondence. <i>Library and Information History</i>. 2022;38(1):23-41. doi:<a href=\"https://doi.org/10.3366/lih.2022.0097\">10.3366/lih.2022.0097</a>","mla":"Chlebak, Clara A., and Peter H. Reid. “From the Prefect’s Desk: Gerard van Swieten’s Library Correspondence.” <i>Library and Information History</i>, vol. 38, no. 1, Edinburgh University Press, 2022, pp. 23–41, doi:<a href=\"https://doi.org/10.3366/lih.2022.0097\">10.3366/lih.2022.0097</a>.","chicago":"Chlebak, Clara A, and Peter H. Reid. “From the Prefect’s Desk: Gerard van Swieten’s Library Correspondence.” <i>Library and Information History</i>. Edinburgh University Press, 2022. <a href=\"https://doi.org/10.3366/lih.2022.0097\">https://doi.org/10.3366/lih.2022.0097</a>.","apa":"Chlebak, C. A., &#38; Reid, P. H. (2022). From the prefect’s desk: Gerard van Swieten’s library correspondence. <i>Library and Information History</i>. Edinburgh University Press. <a href=\"https://doi.org/10.3366/lih.2022.0097\">https://doi.org/10.3366/lih.2022.0097</a>","ista":"Chlebak CA, Reid PH. 2022. From the prefect’s desk: Gerard van Swieten’s library correspondence. Library and Information History. 38(1), 23–41."},"quality_controlled":"1","article_processing_charge":"No","oa":1,"abstract":[{"lang":"eng","text":"This article investigates library-related documents written by Gerard van Swieten (1700–72) during his tenure as Library Prefect in the Imperial Library of Vienna (1745–72). Van Swieten’s time as Library Prefect is considered through a textual analysis. Handwritten letters were deconstructed in terms of their appearance, layout, and tone in order to mine them for meaning. Furthermore, the contents were examined for library matters such as censorship, catalogues, and collection development. The Imperial Court Library held a prominent role as a repository for rare and valuable works, later becoming the National Library of Austria.\r\nGerard van Swieten’s work as a librarian tends to be overlooked, perhaps because he is better known as the private physician of Maria Theresia, as well as a medical reformer. Nevertheless, he was a hard-working chief librarian deeply involved in all aspects of librarianship. Van Swieten endorsed modern scientific works, which were otherwise banned officially by the censorship commission, for the use of scholars in the library, expanded the collection by acquiring books through his network of scholars and publishers, and reissued library catalogues. He also provided for the comfort of users in the library reading room, at a time when such considerations were unusual. In conclusion, a proposal is made that van Swieten viewed his role as librarian with some importance and pride."}],"article_type":"original","month":"04","main_file_link":[{"url":"https://rgu-repository.worktribe.com/output/1635939","open_access":"1"}],"oa_version":"Submitted Version","type":"journal_article","publication_status":"published","publisher":"Edinburgh University Press","_id":"11444","publication_identifier":{"eissn":["1758-3497"],"issn":["1758-3489"]},"date_updated":"2024-10-09T21:02:31Z","department":[{"_id":"E-Lib"}],"title":"From the prefect’s desk: Gerard van Swieten’s library correspondence"},{"date_updated":"2025-04-14T07:44:07Z","title":"Surface functionalization of surfactant-free particles: A strategy to tailor the properties of nanocomposites for enhanced thermoelectric performance","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"department":[{"_id":"MaIb"},{"_id":"EM-Fac"}],"pmid":1,"ec_funded":1,"_id":"11705","publication_identifier":{"eissn":["1521-3773"],"issn":["1433-7851"]},"acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"NanoFab"}],"isi":1,"oa_version":"Published Version","type":"journal_article","publication_status":"published","publisher":"Wiley","article_type":"original","project":[{"grant_number":"M02889","name":"Bottom-up Engineering for Thermoelectric Applications","_id":"9B8804FC-BA93-11EA-9121-9846C619BF3A"},{"call_identifier":"H2020","grant_number":"754411","name":"ISTplus - Postdoctoral Fellowships","_id":"260C2330-B435-11E9-9278-68D0E5697425"}],"month":"08","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","article_number":"e202207002","file_date_updated":"2023-02-02T08:01:00Z","oa":1,"abstract":[{"text":"The broad implementation of thermoelectricity requires high-performance and low-cost materials. One possibility is employing surfactant-free solution synthesis to produce nanopowders. We propose the strategy of functionalizing “naked” particles’ surface by inorganic molecules to control the nanostructure and, consequently, thermoelectric performance. In particular, we use bismuth thiolates to functionalize surfactant-free SnTe particles’ surfaces. Upon thermal processing, bismuth thiolates decomposition renders SnTe-Bi2S3 nanocomposites with synergistic functions: 1) carrier concentration optimization by Bi doping; 2) Seebeck coefficient enhancement and bipolar effect suppression by energy filtering; and 3) lattice thermal conductivity reduction by small grain domains, grain boundaries and nanostructuration. Overall, the SnTe-Bi2S3 nanocomposites exhibit peak z T up to 1.3 at 873 K and an average z T of ≈0.6 at 300–873 K, which is among the highest reported for solution-processed SnTe.","lang":"eng"}],"ddc":["540"],"doi":"10.1002/anie.202207002","intvolume":"        61","day":"26","corr_author":"1","scopus_import":"1","date_created":"2022-07-31T22:01:48Z","quality_controlled":"1","citation":{"ama":"Chang C, Liu Y, Lee S, et al. Surface functionalization of surfactant-free particles: A strategy to tailor the properties of nanocomposites for enhanced thermoelectric performance. <i>Angewandte Chemie - International Edition</i>. 2022;61(35). doi:<a href=\"https://doi.org/10.1002/anie.202207002\">10.1002/anie.202207002</a>","short":"C. Chang, Y. Liu, S. Lee, M. Spadaro, K.M. Koskela, T. Kleinhanns, T. Costanzo, J. Arbiol, R.L. Brutchey, M. Ibáñez, Angewandte Chemie - International Edition 61 (2022).","ieee":"C. Chang <i>et al.</i>, “Surface functionalization of surfactant-free particles: A strategy to tailor the properties of nanocomposites for enhanced thermoelectric performance,” <i>Angewandte Chemie - International Edition</i>, vol. 61, no. 35. Wiley, 2022.","apa":"Chang, C., Liu, Y., Lee, S., Spadaro, M., Koskela, K. M., Kleinhanns, T., … Ibáñez, M. (2022). Surface functionalization of surfactant-free particles: A strategy to tailor the properties of nanocomposites for enhanced thermoelectric performance. <i>Angewandte Chemie - International Edition</i>. Wiley. <a href=\"https://doi.org/10.1002/anie.202207002\">https://doi.org/10.1002/anie.202207002</a>","chicago":"Chang, Cheng, Yu Liu, Seungho Lee, Maria Spadaro, Kristopher M. Koskela, Tobias Kleinhanns, Tommaso Costanzo, Jordi Arbiol, Richard L. Brutchey, and Maria Ibáñez. “Surface Functionalization of Surfactant-Free Particles: A Strategy to Tailor the Properties of Nanocomposites for Enhanced Thermoelectric Performance.” <i>Angewandte Chemie - International Edition</i>. Wiley, 2022. <a href=\"https://doi.org/10.1002/anie.202207002\">https://doi.org/10.1002/anie.202207002</a>.","mla":"Chang, Cheng, et al. “Surface Functionalization of Surfactant-Free Particles: A Strategy to Tailor the Properties of Nanocomposites for Enhanced Thermoelectric Performance.” <i>Angewandte Chemie - International Edition</i>, vol. 61, no. 35, e202207002, Wiley, 2022, doi:<a href=\"https://doi.org/10.1002/anie.202207002\">10.1002/anie.202207002</a>.","ista":"Chang C, Liu Y, Lee S, Spadaro M, Koskela KM, Kleinhanns T, Costanzo T, Arbiol J, Brutchey RL, Ibáñez M. 2022. Surface functionalization of surfactant-free particles: A strategy to tailor the properties of nanocomposites for enhanced thermoelectric performance. Angewandte Chemie - International Edition. 61(35), e202207002."},"year":"2022","issue":"35","language":[{"iso":"eng"}],"publication":"Angewandte Chemie - International Edition","external_id":{"isi":["000828274200001"],"pmid":["38505739"]},"author":[{"full_name":"Chang, Cheng","orcid":"0000-0002-9515-4277","last_name":"Chang","id":"9E331C2E-9F27-11E9-AE48-5033E6697425","first_name":"Cheng"},{"full_name":"Liu, Yu","orcid":"0000-0001-7313-6740","last_name":"Liu","id":"2A70014E-F248-11E8-B48F-1D18A9856A87","first_name":"Yu"},{"first_name":"Seungho","id":"BB243B88-D767-11E9-B658-BC13E6697425","last_name":"Lee","full_name":"Lee, Seungho","orcid":"0000-0002-6962-8598"},{"full_name":"Spadaro, Maria","last_name":"Spadaro","first_name":"Maria"},{"full_name":"Koskela, Kristopher M.","last_name":"Koskela","first_name":"Kristopher M."},{"id":"8BD9DE16-AB3C-11E9-9C8C-2A03E6697425","last_name":"Kleinhanns","full_name":"Kleinhanns, Tobias","first_name":"Tobias"},{"last_name":"Costanzo","id":"D93824F4-D9BA-11E9-BB12-F207E6697425","full_name":"Costanzo, Tommaso","orcid":"0000-0001-9732-3815","first_name":"Tommaso"},{"first_name":"Jordi","full_name":"Arbiol, Jordi","last_name":"Arbiol"},{"last_name":"Brutchey","full_name":"Brutchey, Richard L.","first_name":"Richard L."},{"full_name":"Ibáñez, Maria","orcid":"0000-0001-5013-2843","id":"43C61214-F248-11E8-B48F-1D18A9856A87","last_name":"Ibáñez","first_name":"Maria"}],"volume":61,"file":[{"date_updated":"2023-02-02T08:01:00Z","relation":"main_file","file_id":"12476","creator":"dernst","file_size":4072650,"file_name":"2022_AngewandteChemieInternat_Chang.pdf","success":1,"date_created":"2023-02-02T08:01:00Z","access_level":"open_access","content_type":"application/pdf","checksum":"ad601f2b9e26e46ab4785162be58b5ed"}],"date_published":"2022-08-26T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","acknowledgement":"This research was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by Electron Microscopy Facility (EMF) and the Nanofabrication Facility (NNF). This work was financially supported by IST Austria and the Werner Siemens Foundation. C.C. acknowledges funding from the FWF “Lise Meitner Fellowship” grant agreement M 2889-N. Lise Meitner Project (M2889-N). Y.L. acknowledges funding from the European Union's Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No. 754411. R.L.B. thanks the National Science Foundation for support under DMR-1904719. MCS acknowledge MINECO Juan de la Cierva Incorporation fellowship (JdlCI 2019) and Severo Ochoa. M.C.S. and J.A. acknowledge funding from Generalitat de Catalunya 2017 SGR 327. ICN2 is supported by the Severo Ochoa program from Spanish MINECO (Grant no. SEV-2017-0706) and is funded by the CERCA Programme/Generalitat de Catalunya. This study was supported by MCIN with funding from European Union NextGenerationEU (PRTR-C17.I1) and Generalitat de Catalunya."},{"year":"2022","issue":"12","language":[{"iso":"eng"}],"publication":"Journal of Cell Biology","external_id":{"isi":["000932941400001"],"pmid":["36214847 "]},"author":[{"full_name":"Weier, Ann-Kathrin","last_name":"Weier","first_name":"Ann-Kathrin"},{"last_name":"Homrich","full_name":"Homrich, Mirka","first_name":"Mirka"},{"first_name":"Stephanie","full_name":"Ebbinghaus, Stephanie","last_name":"Ebbinghaus"},{"full_name":"Juda, Pavel","last_name":"Juda","first_name":"Pavel"},{"first_name":"Eliška","full_name":"Miková, Eliška","last_name":"Miková"},{"full_name":"Hauschild, Robert","orcid":"0000-0001-9843-3522","last_name":"Hauschild","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","first_name":"Robert"},{"first_name":"Lili","full_name":"Zhang, Lili","last_name":"Zhang"},{"first_name":"Thomas","last_name":"Quast","full_name":"Quast, Thomas"},{"first_name":"Elvira","last_name":"Mass","full_name":"Mass, Elvira"},{"first_name":"Andreas","last_name":"Schlitzer","full_name":"Schlitzer, Andreas"},{"first_name":"Waldemar","last_name":"Kolanus","full_name":"Kolanus, Waldemar"},{"first_name":"Sven","full_name":"Burgdorf, Sven","last_name":"Burgdorf"},{"first_name":"Oliver J.","full_name":"Gruß, Oliver J.","last_name":"Gruß"},{"last_name":"Hons","full_name":"Hons, Miroslav","first_name":"Miroslav"},{"first_name":"Stefan","full_name":"Wieser, Stefan","last_name":"Wieser"},{"last_name":"Kiermaier","full_name":"Kiermaier, Eva","first_name":"Eva"}],"volume":221,"file":[{"date_updated":"2023-08-16T11:24:53Z","relation":"main_file","file_id":"14065","creator":"dernst","file_size":11090179,"file_name":"2023_JCB_Weier.pdf","success":1,"date_created":"2023-08-16T11:24:53Z","access_level":"open_access","content_type":"application/pdf","checksum":"0c9af38f82af30c6ce528f2caece4246"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2022-12-05T00:00:00Z","status":"public","acknowledgement":"We thank Markéta Dalecká and Irena Krejzová for their support with FIB-SEM imaging, the Imaging Methods Core Facility at BIOCEV supported by the Ministry of Education, Youth and Sports Czech Republic (Large RI Project LM2018129 Czech-BioImaging), and European Regional Development Fund (project No. CZ.02.1.01/0.0/0.0/18_046/0016045) for their support with obtaining imaging data presented in this paper. The authors further thank Andreas Villunger, Florian Gärtner, Frank Bradke, and Sarah Förster for helpful discussions; Andy Zielinski for help with statistics; and Björn Weiershausen for assisting with figure illustration.\r\n\r\nThis work was funded by a fellowship of the Ministry of Innovation, Science and Research of North-Rhine-Westphalia (AZ: 421-8.03.03.02-137069) to E. Kiermaier and the Deutsche Forschungsgemeinschaft (German Research Foundation) under Germany’s Excellence Strategy – EXC 2151 – 390873048. R. Hauschild was funded by grant number 2020-225401 from the Chan Zuckerberg Initiative Donor-Advised Fund, an advised fund of Silicon Valley Community Foundation. M. Hons is supported by Czech Science Foundation GACR 20-24603Y and Charles University PRIMUS/20/MED/013.","has_accepted_license":"1","article_processing_charge":"No","article_number":"e202107134","file_date_updated":"2023-08-16T11:24:53Z","oa":1,"ddc":["570"],"abstract":[{"lang":"eng","text":"Centrosomes play a crucial role during immune cell interactions and initiation of the immune response. In proliferating cells, centrosome numbers are tightly controlled and generally limited to one in G1 and two prior to mitosis. Defects in regulating centrosome numbers have been associated with cell transformation and tumorigenesis. Here, we report the emergence of extra centrosomes in leukocytes during immune activation. Upon antigen encounter, dendritic cells pass through incomplete mitosis and arrest in the subsequent G1 phase leading to tetraploid cells with accumulated centrosomes. In addition, cell stimulation increases expression of polo-like kinase 2, resulting in diploid cells with two centrosomes in G1-arrested cells. During cell migration, centrosomes tightly cluster and act as functional microtubule-organizing centers allowing for increased persistent locomotion along gradients of chemotactic cues. Moreover, dendritic cells with extra centrosomes display enhanced secretion of inflammatory cytokines and optimized T cell responses. Together, these results demonstrate a previously unappreciated role of extra centrosomes for regular cell and tissue homeostasis."}],"doi":"10.1083/jcb.202107134","intvolume":"       221","day":"05","scopus_import":"1","date_created":"2023-01-12T12:01:09Z","citation":{"ieee":"A.-K. Weier <i>et al.</i>, “Multiple centrosomes enhance migration and immune cell effector functions of mature dendritic cells,” <i>Journal of Cell Biology</i>, vol. 221, no. 12. Rockefeller University Press, 2022.","short":"A.-K. Weier, M. Homrich, S. Ebbinghaus, P. Juda, E. Miková, R. Hauschild, L. Zhang, T. Quast, E. Mass, A. Schlitzer, W. Kolanus, S. Burgdorf, O.J. Gruß, M. Hons, S. Wieser, E. Kiermaier, Journal of Cell Biology 221 (2022).","ama":"Weier A-K, Homrich M, Ebbinghaus S, et al. Multiple centrosomes enhance migration and immune cell effector functions of mature dendritic cells. <i>Journal of Cell Biology</i>. 2022;221(12). doi:<a href=\"https://doi.org/10.1083/jcb.202107134\">10.1083/jcb.202107134</a>","ista":"Weier A-K, Homrich M, Ebbinghaus S, Juda P, Miková E, Hauschild R, Zhang L, Quast T, Mass E, Schlitzer A, Kolanus W, Burgdorf S, Gruß OJ, Hons M, Wieser S, Kiermaier E. 2022. Multiple centrosomes enhance migration and immune cell effector functions of mature dendritic cells. Journal of Cell Biology. 221(12), e202107134.","apa":"Weier, A.-K., Homrich, M., Ebbinghaus, S., Juda, P., Miková, E., Hauschild, R., … Kiermaier, E. (2022). Multiple centrosomes enhance migration and immune cell effector functions of mature dendritic cells. <i>Journal of Cell Biology</i>. Rockefeller University Press. <a href=\"https://doi.org/10.1083/jcb.202107134\">https://doi.org/10.1083/jcb.202107134</a>","mla":"Weier, Ann-Kathrin, et al. “Multiple Centrosomes Enhance Migration and Immune Cell Effector Functions of Mature Dendritic Cells.” <i>Journal of Cell Biology</i>, vol. 221, no. 12, e202107134, Rockefeller University Press, 2022, doi:<a href=\"https://doi.org/10.1083/jcb.202107134\">10.1083/jcb.202107134</a>.","chicago":"Weier, Ann-Kathrin, Mirka Homrich, Stephanie Ebbinghaus, Pavel Juda, Eliška Miková, Robert Hauschild, Lili Zhang, et al. “Multiple Centrosomes Enhance Migration and Immune Cell Effector Functions of Mature Dendritic Cells.” <i>Journal of Cell Biology</i>. Rockefeller University Press, 2022. <a href=\"https://doi.org/10.1083/jcb.202107134\">https://doi.org/10.1083/jcb.202107134</a>."},"quality_controlled":"1","oa_version":"Published Version","publication_status":"published","type":"journal_article","publisher":"Rockefeller University Press","article_type":"original","project":[{"name":"Tools for automation and feedback microscopy","grant_number":"CZI01","_id":"c08e9ad1-5a5b-11eb-8a69-9d1cf3b07473"}],"month":"12","keyword":["Cell Biology"],"date_updated":"2025-04-15T08:37:41Z","tmp":{"short":"CC BY-NC-SA (4.0)","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"department":[{"_id":"Bio"}],"title":"Multiple centrosomes enhance migration and immune cell effector functions of mature dendritic cells","pmid":1,"_id":"12122","publication_identifier":{"issn":["0021-9525"],"eissn":["1540-8140"]},"isi":1},{"_id":"12224","publication_identifier":{"issn":["2399-3642"]},"isi":1,"date_updated":"2024-10-09T21:03:48Z","department":[{"_id":"PreCl"}],"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"title":"Muskelin regulates actin-dependent synaptic changes and intrinsic brain activity relevant to behavioral and cognitive processes","article_type":"original","month":"06","keyword":["General Agricultural and Biological Sciences","General Biochemistry","Genetics and Molecular Biology","Medicine (miscellaneous)"],"oa_version":"Published Version","publication_status":"published","type":"journal_article","publisher":"Springer Nature","doi":"10.1038/s42003-022-03446-1","intvolume":"         5","day":"15","corr_author":"1","quality_controlled":"1","citation":{"ieee":"M. W. Muhia <i>et al.</i>, “Muskelin regulates actin-dependent synaptic changes and intrinsic brain activity relevant to behavioral and cognitive processes,” <i>Communications Biology</i>, vol. 5. Springer Nature, 2022.","short":"M.W. Muhia, P. YuanXiang, J. Sedlacik, J.R. Schwarz, F.F. Heisler, K.V. Gromova, E. Thies, P. Breiden, Y. Pechmann, M.R. Kreutz, M. Kneussel, Communications Biology 5 (2022).","ama":"Muhia MW, YuanXiang P, Sedlacik J, et al. Muskelin regulates actin-dependent synaptic changes and intrinsic brain activity relevant to behavioral and cognitive processes. <i>Communications Biology</i>. 2022;5. doi:<a href=\"https://doi.org/10.1038/s42003-022-03446-1\">10.1038/s42003-022-03446-1</a>","chicago":"Muhia, Mary W, PingAn YuanXiang, Jan Sedlacik, Jürgen R. Schwarz, Frank F. Heisler, Kira V. Gromova, Edda Thies, et al. “Muskelin Regulates Actin-Dependent Synaptic Changes and Intrinsic Brain Activity Relevant to Behavioral and Cognitive Processes.” <i>Communications Biology</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1038/s42003-022-03446-1\">https://doi.org/10.1038/s42003-022-03446-1</a>.","apa":"Muhia, M. W., YuanXiang, P., Sedlacik, J., Schwarz, J. R., Heisler, F. F., Gromova, K. V., … Kneussel, M. (2022). Muskelin regulates actin-dependent synaptic changes and intrinsic brain activity relevant to behavioral and cognitive processes. <i>Communications Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s42003-022-03446-1\">https://doi.org/10.1038/s42003-022-03446-1</a>","mla":"Muhia, Mary W., et al. “Muskelin Regulates Actin-Dependent Synaptic Changes and Intrinsic Brain Activity Relevant to Behavioral and Cognitive Processes.” <i>Communications Biology</i>, vol. 5, 589, Springer Nature, 2022, doi:<a href=\"https://doi.org/10.1038/s42003-022-03446-1\">10.1038/s42003-022-03446-1</a>.","ista":"Muhia MW, YuanXiang P, Sedlacik J, Schwarz JR, Heisler FF, Gromova KV, Thies E, Breiden P, Pechmann Y, Kreutz MR, Kneussel M. 2022. Muskelin regulates actin-dependent synaptic changes and intrinsic brain activity relevant to behavioral and cognitive processes. Communications Biology. 5, 589."},"date_created":"2023-01-16T09:48:19Z","scopus_import":"1","has_accepted_license":"1","article_number":"589","article_processing_charge":"No","oa":1,"file_date_updated":"2023-01-27T08:23:46Z","abstract":[{"lang":"eng","text":"Muskelin (Mkln1) is implicated in neuronal function, regulating plasma membrane receptor trafficking. However, its influence on intrinsic brain activity and corresponding behavioral processes remains unclear. Here we show that murine <jats:italic>Mkln1</jats:italic> knockout causes non-habituating locomotor activity, increased exploratory drive, and decreased locomotor response to amphetamine. Muskelin deficiency impairs social novelty detection while promoting the retention of spatial reference memory and fear extinction recall. This is strongly mirrored in either weaker or stronger resting-state functional connectivity between critical circuits mediating locomotor exploration and cognition. We show that <jats:italic>Mkln1</jats:italic> deletion alters dendrite branching and spine structure, coinciding with enhanced AMPAR-mediated synaptic transmission but selective impairment in synaptic potentiation maintenance. We identify muskelin at excitatory synapses and highlight its role in regulating dendritic spine actin stability. Our findings point to aberrant spine actin modulation and changes in glutamatergic synaptic function as critical mechanisms that contribute to the neurobehavioral phenotype arising from <jats:italic>Mkln1</jats:italic> ablation."}],"ddc":["570"],"volume":5,"author":[{"first_name":"Mary W","id":"ab7ed20f-09f7-11eb-909c-d5d0b443ee9d","last_name":"Muhia","full_name":"Muhia, Mary W"},{"last_name":"YuanXiang","full_name":"YuanXiang, PingAn","first_name":"PingAn"},{"first_name":"Jan","last_name":"Sedlacik","full_name":"Sedlacik, Jan"},{"full_name":"Schwarz, Jürgen R.","last_name":"Schwarz","first_name":"Jürgen R."},{"full_name":"Heisler, Frank F.","last_name":"Heisler","first_name":"Frank F."},{"first_name":"Kira V.","full_name":"Gromova, Kira V.","last_name":"Gromova"},{"first_name":"Edda","last_name":"Thies","full_name":"Thies, Edda"},{"first_name":"Petra","last_name":"Breiden","full_name":"Breiden, Petra"},{"full_name":"Pechmann, Yvonne","last_name":"Pechmann","first_name":"Yvonne"},{"full_name":"Kreutz, Michael R.","last_name":"Kreutz","first_name":"Michael R."},{"full_name":"Kneussel, Matthias","last_name":"Kneussel","first_name":"Matthias"}],"external_id":{"isi":["000811777900003"]},"date_published":"2022-06-15T00:00:00Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","file":[{"date_created":"2023-01-27T08:23:46Z","access_level":"open_access","content_type":"application/pdf","checksum":"bd95be1e77090208b79bc45ea8785d0b","file_size":3968356,"file_name":"2022_CommBiology_Muhia.pdf","success":1,"relation":"main_file","file_id":"12417","creator":"dernst","date_updated":"2023-01-27T08:23:46Z"}],"acknowledgement":"The authors are grateful to the UKE Animal Facilities (Hamburg) for animal husbandry and Dr. Bastian Tiemann for his veterinary expertise and supervision of animal care. We thank Dr. Franco Lombino for critically reading the manuscript and for helpful discussion. This work was supported by grants from the Deutsche Forschungsgemeinschaft (DFG) (FOR2419-KN556/11-1, FOR2419-KN556/11-2, KN556/12-1) and the Landesforschungsförderung Hamburg (LFF-FV76) to M.K.\r\nOpen Access funding enabled and organized by Projekt DEAL.","status":"public","year":"2022","publication":"Communications Biology","language":[{"iso":"eng"}]},{"acknowledgement":"We thank Stefan Wiedemann for the synthesis of reference compounds and Pia Heinrichs for assistance in the NMR measurements of the oligonucleotides. We also thank Dr. Luis Escobar and Jonas Feldmann for valued discussions. This work was supported by the German Research Foundation (DFG) for financial support via CRC1309 (Project ID 325871075, A04), CRC1361 (Project ID 893547839, P02) and CRC1032 (Project ID 201269156, A5). This project has received funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program under grant agreement No 741912 (EpiR). We are grateful for additional funding from the Volkswagen Foundation (EvoRib). Open Access funding enabled and organized by Projekt DEAL.","status":"public","file":[{"checksum":"4e8152454d12025d13f6e6e9ca06b5d0","date_created":"2023-01-27T10:28:45Z","content_type":"application/pdf","access_level":"open_access","file_name":"2022_AngewandteChemieInternat_Xu.pdf","success":1,"file_size":1076715,"file_id":"12422","creator":"dernst","relation":"main_file","date_updated":"2023-01-27T10:28:45Z"}],"date_published":"2022-11-07T00:00:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","volume":61,"external_id":{"pmid":["36063071"],"isi":["000866428500001"]},"author":[{"last_name":"Xu","full_name":"Xu, Felix","first_name":"Felix"},{"full_name":"Crisp, Antony","last_name":"Crisp","first_name":"Antony"},{"first_name":"Thea","full_name":"Schinkel, Thea","last_name":"Schinkel"},{"full_name":"Dubini, Romeo C. A.","last_name":"Dubini","first_name":"Romeo C. A."},{"first_name":"Sarah","full_name":"Hübner, Sarah","last_name":"Hübner"},{"last_name":"Becker","full_name":"Becker, Sidney","first_name":"Sidney"},{"first_name":"Florian","last_name":"Schelter","full_name":"Schelter, Florian"},{"first_name":"Petra","full_name":"Rovo, Petra","orcid":"0000-0001-8729-7326","id":"c316e53f-b965-11eb-b128-bb26acc59c00","last_name":"Rovo"},{"last_name":"Carell","full_name":"Carell, Thomas","first_name":"Thomas"}],"language":[{"iso":"eng"}],"publication":"Angewandte Chemie International Edition","issue":"45","year":"2022","date_created":"2023-01-16T09:49:05Z","citation":{"ista":"Xu F, Crisp A, Schinkel T, Dubini RCA, Hübner S, Becker S, Schelter F, Rovo P, Carell T. 2022. Isoxazole nucleosides as building blocks for a plausible proto‐RNA. Angewandte Chemie International Edition. 61(45), e202211945.","apa":"Xu, F., Crisp, A., Schinkel, T., Dubini, R. C. A., Hübner, S., Becker, S., … Carell, T. (2022). Isoxazole nucleosides as building blocks for a plausible proto‐RNA. <i>Angewandte Chemie International Edition</i>. Wiley. <a href=\"https://doi.org/10.1002/anie.202211945\">https://doi.org/10.1002/anie.202211945</a>","chicago":"Xu, Felix, Antony Crisp, Thea Schinkel, Romeo C. A. Dubini, Sarah Hübner, Sidney Becker, Florian Schelter, Petra Rovo, and Thomas Carell. “Isoxazole Nucleosides as Building Blocks for a Plausible Proto‐RNA.” <i>Angewandte Chemie International Edition</i>. Wiley, 2022. <a href=\"https://doi.org/10.1002/anie.202211945\">https://doi.org/10.1002/anie.202211945</a>.","mla":"Xu, Felix, et al. “Isoxazole Nucleosides as Building Blocks for a Plausible Proto‐RNA.” <i>Angewandte Chemie International Edition</i>, vol. 61, no. 45, e202211945, Wiley, 2022, doi:<a href=\"https://doi.org/10.1002/anie.202211945\">10.1002/anie.202211945</a>.","ama":"Xu F, Crisp A, Schinkel T, et al. Isoxazole nucleosides as building blocks for a plausible proto‐RNA. <i>Angewandte Chemie International Edition</i>. 2022;61(45). doi:<a href=\"https://doi.org/10.1002/anie.202211945\">10.1002/anie.202211945</a>","short":"F. Xu, A. Crisp, T. Schinkel, R.C.A. Dubini, S. Hübner, S. Becker, F. Schelter, P. Rovo, T. Carell, Angewandte Chemie International Edition 61 (2022).","ieee":"F. Xu <i>et al.</i>, “Isoxazole nucleosides as building blocks for a plausible proto‐RNA,” <i>Angewandte Chemie International Edition</i>, vol. 61, no. 45. Wiley, 2022."},"quality_controlled":"1","scopus_import":"1","day":"07","intvolume":"        61","doi":"10.1002/anie.202211945","ddc":["540"],"abstract":[{"lang":"eng","text":"The question of how RNA, as the principal carrier of genetic information evolved is fundamentally important for our understanding of the origin of life. The RNA molecule is far too complex to have formed in one evolutionary step, suggesting that ancestral proto-RNAs (first ancestor of RNA) may have existed, which evolved over time into the RNA of today. Here we show that isoxazole nucleosides, which are quickly formed from hydroxylamine, cyanoacetylene, urea and ribose, are plausible precursors for RNA. The isoxazole nucleoside can rearrange within an RNA-strand to give cytidine, which leads to an increase of pairing stability. If the proto-RNA contains a canonical seed-nucleoside with defined stereochemistry, the seed-nucleoside can control the configuration of the anomeric center that forms during the in-RNA transformation. The results demonstrate that RNA could have emerged from evolutionarily primitive precursor isoxazole ribosides after strand formation."}],"oa":1,"file_date_updated":"2023-01-27T10:28:45Z","article_number":"e202211945","article_processing_charge":"No","has_accepted_license":"1","keyword":["General Chemistry","Catalysis"],"month":"11","article_type":"original","type":"journal_article","publisher":"Wiley","publication_status":"published","oa_version":"Published Version","isi":1,"publication_identifier":{"eissn":["1521-3773"],"issn":["1433-7851"]},"_id":"12228","pmid":1,"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"department":[{"_id":"NMR"}],"title":"Isoxazole nucleosides as building blocks for a plausible proto‐RNA","date_updated":"2025-06-11T13:40:23Z"},{"scopus_import":"1","date_created":"2023-01-16T09:51:49Z","quality_controlled":"1","citation":{"ista":"Johnson AJ, Kaufmann W, Sommer CM, Costanzo T, Dahhan DA, Bednarek SY, Friml J. 2022. Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution. Molecular Plant. 15(10), 1533–1542.","chicago":"Johnson, Alexander J, Walter Kaufmann, Christoph M Sommer, Tommaso Costanzo, Dana A. Dahhan, Sebastian Y. Bednarek, and Jiří Friml. “Three-Dimensional Visualization of Planta Clathrin-Coated Vesicles at Ultrastructural Resolution.” <i>Molecular Plant</i>. Elsevier, 2022. <a href=\"https://doi.org/10.1016/j.molp.2022.09.003\">https://doi.org/10.1016/j.molp.2022.09.003</a>.","apa":"Johnson, A. J., Kaufmann, W., Sommer, C. M., Costanzo, T., Dahhan, D. A., Bednarek, S. Y., &#38; Friml, J. (2022). Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution. <i>Molecular Plant</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.molp.2022.09.003\">https://doi.org/10.1016/j.molp.2022.09.003</a>","mla":"Johnson, Alexander J., et al. “Three-Dimensional Visualization of Planta Clathrin-Coated Vesicles at Ultrastructural Resolution.” <i>Molecular Plant</i>, vol. 15, no. 10, Elsevier, 2022, pp. 1533–42, doi:<a href=\"https://doi.org/10.1016/j.molp.2022.09.003\">10.1016/j.molp.2022.09.003</a>.","ieee":"A. J. Johnson <i>et al.</i>, “Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution,” <i>Molecular Plant</i>, vol. 15, no. 10. Elsevier, pp. 1533–1542, 2022.","short":"A.J. Johnson, W. Kaufmann, C.M. Sommer, T. Costanzo, D.A. Dahhan, S.Y. Bednarek, J. Friml, Molecular Plant 15 (2022) 1533–1542.","ama":"Johnson AJ, Kaufmann W, Sommer CM, et al. Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution. <i>Molecular Plant</i>. 2022;15(10):1533-1542. doi:<a href=\"https://doi.org/10.1016/j.molp.2022.09.003\">10.1016/j.molp.2022.09.003</a>"},"day":"03","corr_author":"1","intvolume":"        15","doi":"10.1016/j.molp.2022.09.003","abstract":[{"lang":"eng","text":"Biological systems are the sum of their dynamic three-dimensional (3D) parts. Therefore, it is critical to study biological structures in 3D and at high resolution to gain insights into their physiological functions. Electron microscopy of metal replicas of unroofed cells and isolated organelles has been a key technique to visualize intracellular structures at nanometer resolution. However, many of these methods require specialized equipment and personnel to complete them. Here, we present novel accessible methods to analyze biological structures in unroofed cells and biochemically isolated organelles in 3D and at nanometer resolution, focusing on Arabidopsis clathrin-coated vesicles (CCVs). While CCVs are essential trafficking organelles, their detailed structural information is lacking due to their poor preservation when observed via classical electron microscopy protocols experiments. First, we establish a method to visualize CCVs in unroofed cells using scanning transmission electron microscopy tomography, providing sufficient resolution to define the clathrin coat arrangements. Critically, the samples are prepared directly on electron microscopy grids, removing the requirement to use extremely corrosive acids, thereby enabling the use of this method in any electron microscopy lab. Secondly, we demonstrate that this standardized sample preparation allows the direct comparison of isolated CCV samples with those visualized in cells. Finally, to facilitate the high-throughput and robust screening of metal replicated samples, we provide a deep learning analysis method to screen the “pseudo 3D” morphologies of CCVs imaged with 2D modalities. Collectively, our work establishes accessible ways to examine the 3D structure of biological samples and provide novel insights into the structure of plant CCVs."}],"ddc":["580"],"file_date_updated":"2023-01-30T07:46:51Z","oa":1,"article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","acknowledgement":"A.J. is supported by funding from the Austrian Science Fund I3630B25 (to J.F.). This research was supported by the Scientific Service Units of Institute of Science and Technology Austria (ISTA) through resources provided by the Electron Microscopy Facility, Lab Support Facility, and the Imaging and Optics Facility. We acknowledge Prof. David Robinson (Heidelberg) and Prof. Jan Traas (Lyon) for making us aware of previously published classical on-grid preparation methods. No conflict of interest declared.","status":"public","file":[{"file_name":"2022_MolecularPlant_Johnson.pdf","success":1,"file_size":2307251,"checksum":"04d5c12490052d03e4dc4412338a43dd","content_type":"application/pdf","access_level":"open_access","date_created":"2023-01-30T07:46:51Z","date_updated":"2023-01-30T07:46:51Z","creator":"dernst","file_id":"12435","relation":"main_file"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","date_published":"2022-10-03T00:00:00Z","external_id":{"isi":["000882769800009"],"pmid":["36081349"]},"author":[{"first_name":"Alexander J","last_name":"Johnson","id":"46A62C3A-F248-11E8-B48F-1D18A9856A87","full_name":"Johnson, Alexander J","orcid":"0000-0002-2739-8843"},{"first_name":"Walter","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","last_name":"Kaufmann","orcid":"0000-0001-9735-5315","full_name":"Kaufmann, Walter"},{"full_name":"Sommer, Christoph M","orcid":"0000-0003-1216-9105","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","last_name":"Sommer","first_name":"Christoph M"},{"first_name":"Tommaso","orcid":"0000-0001-9732-3815","full_name":"Costanzo, Tommaso","id":"D93824F4-D9BA-11E9-BB12-F207E6697425","last_name":"Costanzo"},{"first_name":"Dana A.","full_name":"Dahhan, Dana A.","last_name":"Dahhan"},{"last_name":"Bednarek","full_name":"Bednarek, Sebastian Y.","first_name":"Sebastian Y."},{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","first_name":"Jiří"}],"volume":15,"language":[{"iso":"eng"}],"publication":"Molecular Plant","page":"1533-1542","issue":"10","year":"2022","isi":1,"acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"LifeSc"},{"_id":"Bio"}],"publication_identifier":{"issn":["1674-2052"]},"_id":"12239","pmid":1,"tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"department":[{"_id":"JiFr"},{"_id":"EM-Fac"},{"_id":"Bio"}],"title":"Three-dimensional visualization of planta clathrin-coated vesicles at ultrastructural resolution","date_updated":"2025-04-15T07:32:09Z","keyword":["Plant Science","Molecular Biology"],"project":[{"name":"Molecular mechanisms of endocytic cargo recognition in plants","grant_number":"I03630","call_identifier":"FWF","_id":"26538374-B435-11E9-9278-68D0E5697425"}],"month":"10","article_type":"original","publisher":"Elsevier","publication_status":"published","type":"journal_article","oa_version":"Published Version"},{"article_number":"093138","article_processing_charge":"No","has_accepted_license":"1","ddc":["530"],"abstract":[{"text":"Theoretical foundations of chaos have been predominantly laid out for finite-dimensional dynamical systems, such as the three-body problem in classical mechanics and the Lorenz model in dissipative systems. In contrast, many real-world chaotic phenomena, e.g., weather, arise in systems with many (formally infinite) degrees of freedom, which limits direct quantitative analysis of such systems using chaos theory. In the present work, we demonstrate that the hydrodynamic pilot-wave systems offer a bridge between low- and high-dimensional chaotic phenomena by allowing for a systematic study of how the former connects to the latter. Specifically, we present experimental results, which show the formation of low-dimensional chaotic attractors upon destabilization of regular dynamics and a final transition to high-dimensional chaos via the merging of distinct chaotic regions through a crisis bifurcation. Moreover, we show that the post-crisis dynamics of the system can be rationalized as consecutive scatterings from the nonattracting chaotic sets with lifetimes following exponential distributions. ","lang":"eng"}],"oa":1,"file_date_updated":"2023-01-30T09:41:12Z","intvolume":"        32","doi":"10.1063/5.0102904","citation":{"ama":"Choueiri GH, Suri B, Merrin J, Serbyn M, Hof B, Budanur NB. Crises and chaotic scattering in hydrodynamic pilot-wave experiments. <i>Chaos: An Interdisciplinary Journal of Nonlinear Science</i>. 2022;32(9). doi:<a href=\"https://doi.org/10.1063/5.0102904\">10.1063/5.0102904</a>","ieee":"G. H. Choueiri, B. Suri, J. Merrin, M. Serbyn, B. Hof, and N. B. Budanur, “Crises and chaotic scattering in hydrodynamic pilot-wave experiments,” <i>Chaos: An Interdisciplinary Journal of Nonlinear Science</i>, vol. 32, no. 9. AIP Publishing, 2022.","short":"G.H. Choueiri, B. Suri, J. Merrin, M. Serbyn, B. Hof, N.B. Budanur, Chaos: An Interdisciplinary Journal of Nonlinear Science 32 (2022).","ista":"Choueiri GH, Suri B, Merrin J, Serbyn M, Hof B, Budanur NB. 2022. Crises and chaotic scattering in hydrodynamic pilot-wave experiments. Chaos: An Interdisciplinary Journal of Nonlinear Science. 32(9), 093138.","chicago":"Choueiri, George H, Balachandra Suri, Jack Merrin, Maksym Serbyn, Björn Hof, and Nazmi B Budanur. “Crises and Chaotic Scattering in Hydrodynamic Pilot-Wave Experiments.” <i>Chaos: An Interdisciplinary Journal of Nonlinear Science</i>. AIP Publishing, 2022. <a href=\"https://doi.org/10.1063/5.0102904\">https://doi.org/10.1063/5.0102904</a>.","apa":"Choueiri, G. H., Suri, B., Merrin, J., Serbyn, M., Hof, B., &#38; Budanur, N. B. (2022). Crises and chaotic scattering in hydrodynamic pilot-wave experiments. <i>Chaos: An Interdisciplinary Journal of Nonlinear Science</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0102904\">https://doi.org/10.1063/5.0102904</a>","mla":"Choueiri, George H., et al. “Crises and Chaotic Scattering in Hydrodynamic Pilot-Wave Experiments.” <i>Chaos: An Interdisciplinary Journal of Nonlinear Science</i>, vol. 32, no. 9, 093138, AIP Publishing, 2022, doi:<a href=\"https://doi.org/10.1063/5.0102904\">10.1063/5.0102904</a>."},"date_created":"2023-01-16T09:58:16Z","quality_controlled":"1","scopus_import":"1","day":"26","year":"2022","publication":"Chaos: An Interdisciplinary Journal of Nonlinear Science","language":[{"iso":"eng"}],"issue":"9","file":[{"date_updated":"2023-01-30T09:41:12Z","creator":"dernst","file_id":"12445","relation":"main_file","success":1,"file_name":"2022_Chaos_Choueiri.pdf","file_size":3209644,"checksum":"17881eff8b21969359a2dd64620120ba","content_type":"application/pdf","access_level":"open_access","date_created":"2023-01-30T09:41:12Z"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2022-09-26T00:00:00Z","volume":32,"external_id":{"pmid":["36182399"],"isi":["000861009600005"],"arxiv":["2206.01531"]},"author":[{"full_name":"Choueiri, George H","id":"448BD5BC-F248-11E8-B48F-1D18A9856A87","last_name":"Choueiri","first_name":"George H"},{"first_name":"Balachandra","full_name":"Suri, Balachandra","id":"47A5E706-F248-11E8-B48F-1D18A9856A87","last_name":"Suri"},{"full_name":"Merrin, Jack","orcid":"0000-0001-5145-4609","id":"4515C308-F248-11E8-B48F-1D18A9856A87","last_name":"Merrin","first_name":"Jack"},{"first_name":"Maksym","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","last_name":"Serbyn","orcid":"0000-0002-2399-5827","full_name":"Serbyn, Maksym"},{"full_name":"Hof, Björn","orcid":"0000-0003-2057-2754","last_name":"Hof","id":"3A374330-F248-11E8-B48F-1D18A9856A87","first_name":"Björn"},{"last_name":"Budanur","id":"3EA1010E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-0423-5010","full_name":"Budanur, Nazmi B","first_name":"Nazmi B"}],"acknowledgement":"This work was partially funded by the Institute of Science and Technology Austria Interdisciplinary Project Committee Grant “Pilot-Wave Hydrodynamics: Chaos and Quantum Analogies.”","status":"public","date_updated":"2025-06-11T13:41:34Z","title":"Crises and chaotic scattering in hydrodynamic pilot-wave experiments","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"department":[{"_id":"MaSe"},{"_id":"BjHo"},{"_id":"NanoFab"}],"_id":"12259","pmid":1,"isi":1,"publication_identifier":{"eissn":["1089-7682"],"issn":["1054-1500"]},"publication_status":"published","type":"journal_article","publisher":"AIP Publishing","oa_version":"Published Version","arxiv":1,"month":"09","article_type":"original","keyword":["Applied Mathematics","General Physics and Astronomy","Mathematical Physics","Statistical and Nonlinear Physics"]},{"year":"2022","issue":"9","publication":"Nature Structural & Molecular Biology","language":[{"iso":"eng"}],"page":"942-953","author":[{"full_name":"Prattes, Michael","last_name":"Prattes","first_name":"Michael"},{"last_name":"Grishkovskaya","full_name":"Grishkovskaya, Irina","first_name":"Irina"},{"first_name":"Victor-Valentin","full_name":"Hodirnau, Victor-Valentin","last_name":"Hodirnau","id":"3661B498-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Christina","full_name":"Hetzmannseder, Christina","last_name":"Hetzmannseder"},{"first_name":"Gertrude","last_name":"Zisser","full_name":"Zisser, Gertrude"},{"first_name":"Carolin","full_name":"Sailer, Carolin","last_name":"Sailer"},{"last_name":"Kargas","full_name":"Kargas, Vasileios","first_name":"Vasileios"},{"last_name":"Loibl","full_name":"Loibl, Mathias","first_name":"Mathias"},{"last_name":"Gerhalter","full_name":"Gerhalter, Magdalena","first_name":"Magdalena"},{"last_name":"Kofler","full_name":"Kofler, Lisa","first_name":"Lisa"},{"first_name":"Alan J.","last_name":"Warren","full_name":"Warren, Alan J."},{"first_name":"Florian","full_name":"Stengel, Florian","last_name":"Stengel"},{"first_name":"David","full_name":"Haselbach, David","last_name":"Haselbach"},{"full_name":"Bergler, Helmut","last_name":"Bergler","first_name":"Helmut"}],"external_id":{"pmid":["36097293"],"isi":["000852942100004"]},"volume":29,"file":[{"success":1,"file_name":"2022_NatureStrucMolecBio_Prattes.pdf","file_size":9935057,"checksum":"2d5c3ec01718fefd7553052b0b8a0793","date_created":"2023-01-30T10:00:04Z","access_level":"open_access","content_type":"application/pdf","date_updated":"2023-01-30T10:00:04Z","file_id":"12447","creator":"dernst","relation":"main_file"}],"date_published":"2022-09-12T00:00:00Z","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","status":"public","acknowledgement":"We thank M. Fromont-Racine, A. Johnson, J. Woolford, S. Rospert, J. P. G. Ballesta and\r\nE. Hurt for supplying antibodies. The work was supported by Boehringer Ingelheim (to\r\nD. H.), the Austrian Science Foundation FWF (grants 32536 and 32977 to H. B.), the\r\nUK Medical Research Council (MR/T012412/1 to A. J. W.) and the German Research\r\nFoundation (Emmy Noether Programme STE 2517/1-1 and STE 2517/5-1 to F.S.). We\r\nthank Norberto Escudero-Urquijo, Pablo Castro-Hartmann and K. Dent, Cambridge\r\nInstitute for Medical Research, for their help in cryo-EM during early phases of this\r\nproject. This research was supported by the Scientific Service Units of IST Austria through\r\nresources provided by the Electron Microscopy Facility. We thank S. Keller, Institute of\r\nMolecular Biosciences (Biophysics), University Graz for support with the quantification of\r\nthe SPR particle release assay. We thank I. Schaffner, University of Natural Resources and\r\nLife Sciences, Vienna for her help in early stages of the SPR experiments.","has_accepted_license":"1","article_processing_charge":"No","file_date_updated":"2023-01-30T10:00:04Z","oa":1,"abstract":[{"lang":"eng","text":"The AAA-ATPase Drg1 is a key factor in eukaryotic ribosome biogenesis that initiates cytoplasmic maturation of the large ribosomal subunit. Drg1 releases the shuttling maturation factor Rlp24 from pre-60S particles shortly after nuclear export, a strict requirement for downstream maturation. The molecular mechanism of release remained elusive. Here, we report a series of cryo-EM structures that captured the extraction of Rlp24 from pre-60S particles by Saccharomyces cerevisiae Drg1. These structures reveal that Arx1 and the eukaryote-specific rRNA expansion segment ES27 form a joint docking platform that positions Drg1 for efficient extraction of Rlp24 from the pre-ribosome. The tips of the Drg1 N domains thereby guide the Rlp24 C terminus into the central pore of the Drg1 hexamer, enabling extraction by a hand-over-hand translocation mechanism. Our results uncover substrate recognition and processing by Drg1 step by step and provide a comprehensive mechanistic picture of the conserved modus operandi of AAA-ATPases."}],"ddc":["570"],"doi":"10.1038/s41594-022-00832-5","intvolume":"        29","day":"12","scopus_import":"1","citation":{"short":"M. Prattes, I. Grishkovskaya, V.-V. Hodirnau, C. Hetzmannseder, G. Zisser, C. Sailer, V. Kargas, M. Loibl, M. Gerhalter, L. Kofler, A.J. Warren, F. Stengel, D. Haselbach, H. Bergler, Nature Structural &#38; Molecular Biology 29 (2022) 942–953.","ieee":"M. Prattes <i>et al.</i>, “Visualizing maturation factor extraction from the nascent ribosome by the AAA-ATPase Drg1,” <i>Nature Structural &#38; Molecular Biology</i>, vol. 29, no. 9. Springer Nature, pp. 942–953, 2022.","ama":"Prattes M, Grishkovskaya I, Hodirnau V-V, et al. Visualizing maturation factor extraction from the nascent ribosome by the AAA-ATPase Drg1. <i>Nature Structural &#38; Molecular Biology</i>. 2022;29(9):942-953. doi:<a href=\"https://doi.org/10.1038/s41594-022-00832-5\">10.1038/s41594-022-00832-5</a>","chicago":"Prattes, Michael, Irina Grishkovskaya, Victor-Valentin Hodirnau, Christina Hetzmannseder, Gertrude Zisser, Carolin Sailer, Vasileios Kargas, et al. “Visualizing Maturation Factor Extraction from the Nascent Ribosome by the AAA-ATPase Drg1.” <i>Nature Structural &#38; Molecular Biology</i>. Springer Nature, 2022. <a href=\"https://doi.org/10.1038/s41594-022-00832-5\">https://doi.org/10.1038/s41594-022-00832-5</a>.","mla":"Prattes, Michael, et al. “Visualizing Maturation Factor Extraction from the Nascent Ribosome by the AAA-ATPase Drg1.” <i>Nature Structural &#38; Molecular Biology</i>, vol. 29, no. 9, Springer Nature, 2022, pp. 942–53, doi:<a href=\"https://doi.org/10.1038/s41594-022-00832-5\">10.1038/s41594-022-00832-5</a>.","apa":"Prattes, M., Grishkovskaya, I., Hodirnau, V.-V., Hetzmannseder, C., Zisser, G., Sailer, C., … Bergler, H. (2022). Visualizing maturation factor extraction from the nascent ribosome by the AAA-ATPase Drg1. <i>Nature Structural &#38; Molecular Biology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41594-022-00832-5\">https://doi.org/10.1038/s41594-022-00832-5</a>","ista":"Prattes M, Grishkovskaya I, Hodirnau V-V, Hetzmannseder C, Zisser G, Sailer C, Kargas V, Loibl M, Gerhalter M, Kofler L, Warren AJ, Stengel F, Haselbach D, Bergler H. 2022. Visualizing maturation factor extraction from the nascent ribosome by the AAA-ATPase Drg1. Nature Structural &#38; Molecular Biology. 29(9), 942–953."},"date_created":"2023-01-16T09:59:06Z","quality_controlled":"1","oa_version":"Published Version","publication_status":"published","type":"journal_article","publisher":"Springer Nature","article_type":"original","month":"09","keyword":["Molecular Biology","Structural Biology"],"date_updated":"2023-08-04T09:52:20Z","title":"Visualizing maturation factor extraction from the nascent ribosome by the AAA-ATPase Drg1","tmp":{"image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)"},"department":[{"_id":"EM-Fac"}],"pmid":1,"_id":"12262","publication_identifier":{"issn":["1545-9993"],"eissn":["1545-9985"]},"isi":1,"acknowledged_ssus":[{"_id":"EM-Fac"}]}]