[{"related_material":{"link":[{"relation":"press_release","url":"https://ista.ac.at/en/news/2025-ig-nobel-prize-for-perfect-pasta-sauce/","description":"News on ISTA"}]},"OA_place":"publisher","article_number":"044122","article_processing_charge":"Yes (in subscription journal)","quality_controlled":"1","author":[{"full_name":"Bartolucci, G.","first_name":"G.","last_name":"Bartolucci"},{"full_name":"Busiello, D. M.","first_name":"D. M.","last_name":"Busiello"},{"last_name":"Ciarchi","first_name":"M.","full_name":"Ciarchi, M."},{"last_name":"Corticelli","full_name":"Corticelli, A.","first_name":"A."},{"last_name":"Di Terlizzi","first_name":"I.","full_name":"Di Terlizzi, I."},{"first_name":"Fabrizio","id":"69dbf5fb-8a76-11ed-866b-fb486d8b5689","full_name":"Olmeda, Fabrizio","last_name":"Olmeda"},{"first_name":"D.","full_name":"Revignas, D.","last_name":"Revignas"},{"last_name":"Schimmenti","first_name":"V. M.","full_name":"Schimmenti, V. M."}],"publication_status":"published","type":"journal_article","isi":1,"intvolume":"        37","doi":"10.1063/5.0255841","issue":"4","acknowledgement":"he authors thank Frank Jülicher, for supporting the initiative and stimulating discussions. We thank Tetsuya Spippayashi for enlightening clarifications on the historical origins of Cacio e pepe and Giuseppe Ricchitelli for helping with the construction of the experimental apparatus. We further thank Martina Gaiba, Alessandro Gaiba, John D. Treado, Virginia Lepore, Eleonora Nanu, Julia Kirsch, Lara Koehler, Burak Budanur, Irina Pi-Jaumà, Elizabeth Brückner, M.J. Franco Oñate, Giorgio Nicoletti, and Marco Salvalaglio for their support and for eating up the sample leftovers. Finally, we thank Simone Frau for taking the photograph in Fig. 1(a).","has_accepted_license":"1","status":"public","arxiv":1,"publisher":"AIP Publishing","external_id":{"arxiv":["2501.00536"],"isi":["001482986200001"]},"file_date_updated":"2025-05-12T09:31:22Z","volume":37,"_id":"19670","oa_version":"Published Version","oa":1,"department":[{"_id":"EdHa"}],"citation":{"chicago":"Bartolucci, G., D. M. Busiello, M. Ciarchi, A. Corticelli, I. Di Terlizzi, Fabrizio Olmeda, D. Revignas, and V. M. Schimmenti. “Phase Behavior of Cacio e Pepe Sauce.” <i>Physics of Fluids</i>. AIP Publishing, 2025. <a href=\"https://doi.org/10.1063/5.0255841\">https://doi.org/10.1063/5.0255841</a>.","short":"G. Bartolucci, D.M. Busiello, M. Ciarchi, A. Corticelli, I. Di Terlizzi, F. Olmeda, D. Revignas, V.M. Schimmenti, Physics of Fluids 37 (2025).","ama":"Bartolucci G, Busiello DM, Ciarchi M, et al. Phase behavior of Cacio e Pepe sauce. <i>Physics of Fluids</i>. 2025;37(4). doi:<a href=\"https://doi.org/10.1063/5.0255841\">10.1063/5.0255841</a>","apa":"Bartolucci, G., Busiello, D. M., Ciarchi, M., Corticelli, A., Di Terlizzi, I., Olmeda, F., … Schimmenti, V. M. (2025). Phase behavior of Cacio e Pepe sauce. <i>Physics of Fluids</i>. AIP Publishing. <a href=\"https://doi.org/10.1063/5.0255841\">https://doi.org/10.1063/5.0255841</a>","mla":"Bartolucci, G., et al. “Phase Behavior of Cacio e Pepe Sauce.” <i>Physics of Fluids</i>, vol. 37, no. 4, 044122, AIP Publishing, 2025, doi:<a href=\"https://doi.org/10.1063/5.0255841\">10.1063/5.0255841</a>.","ista":"Bartolucci G, Busiello DM, Ciarchi M, Corticelli A, Di Terlizzi I, Olmeda F, Revignas D, Schimmenti VM. 2025. Phase behavior of Cacio e Pepe sauce. Physics of Fluids. 37(4), 044122.","ieee":"G. Bartolucci <i>et al.</i>, “Phase behavior of Cacio e Pepe sauce,” <i>Physics of Fluids</i>, vol. 37, no. 4. AIP Publishing, 2025."},"ddc":["530"],"date_created":"2025-05-11T22:02:40Z","publication":"Physics of Fluids","date_updated":"2026-04-28T13:24:53Z","date_published":"2025-04-01T00:00:00Z","month":"04","year":"2025","article_type":"original","scopus_import":"1","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","title":"Phase behavior of Cacio e Pepe sauce","day":"01","language":[{"iso":"eng"}],"OA_type":"hybrid","file":[{"file_name":"2025_PhysicsFluids_Bartolucci.pdf","creator":"dernst","checksum":"242d05898aa0a2348b9c108747adb5ce","success":1,"file_id":"19681","content_type":"application/pdf","access_level":"open_access","date_created":"2025-05-12T09:31:22Z","date_updated":"2025-05-12T09:31:22Z","relation":"main_file","file_size":4926853}],"abstract":[{"lang":"eng","text":"“Pasta alla Cacio e pepe” is a traditional Italian dish made with pasta, pecorino cheese, and pepper. Despite its simple ingredient list, achieving the perfect texture and creaminess of the sauce can be challenging. In this study, we systematically explore the phase behavior of Cacio e pepe sauce, focusing on its stability at increasing temperatures for various proportions of cheese, water, and starch. We identify starch concentration as the key factor influencing sauce stability, with direct implications for practical cooking. Specifically, we delineate a regime where starch concentrations below 1% (relative to cheese mass) lead to the formation of system-wide clumps, a condition determining what we term the “Mozzarella Phase” and corresponding to an unpleasant and separated sauce. Additionally, we examine the impact of cheese concentration relative to water at a fixed starch level, observing a lower critical solution temperature that we theoretically rationalized by means of a minimal effective free-energy model. We further analyze the effect of a less traditional stabilizer, trisodium citrate, and observe a sharp transition from the Mozzarella Phase to a completely smooth and stable sauce, in contrast to starch-stabilized mixtures, where the transition is more gradual. Finally, we present a scientifically optimized recipe based on our findings, enabling a consistently flawless execution of this classic dish."}],"publication_identifier":{"eissn":["1089-7666"],"issn":["1070-6631"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"}},{"external_id":{"pmid":["40664976"],"isi":["001529134300001"]},"publisher":"Springer Nature","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"project":[{"name":"Pushing from within: Control of cell shape, integrity and motility by cytoskeletal pushing forces","_id":"bd91e723-d553-11ed-ba76-fe7eeb2185fd","grant_number":"101071793"},{"grant_number":"944-2020","_id":"c092d618-5a5b-11eb-8a69-f92e1e843fc8","name":"Bioelectric patrolling: the role of the local membrane potential in immune cell migration"}],"PlanS_conform":"1","department":[{"_id":"MiSi"},{"_id":"NanoFab"},{"_id":"Bio"}],"citation":{"short":"P. Dos Reis Rodrigues, M. Avellaneda Sarrió, N. Canigova, F.R. Gärtner, K. Vaahtomeri, M. Riedl, I. de Vries, J. Merrin, R. Hauschild, Y. Fukui, A. Juanes Garcia, M.K. Sixt, Nature Immunology 26 (2025) 1258–1266.","ama":"Dos Reis Rodrigues P, Avellaneda Sarrió M, Canigova N, et al. Migrating immune cells globally coordinate protrusive forces. <i>Nature Immunology</i>. 2025;26:1258–1266. doi:<a href=\"https://doi.org/10.1038/s41590-025-02211-w\">10.1038/s41590-025-02211-w</a>","apa":"Dos Reis Rodrigues, P., Avellaneda Sarrió, M., Canigova, N., Gärtner, F. R., Vaahtomeri, K., Riedl, M., … Sixt, M. K. (2025). Migrating immune cells globally coordinate protrusive forces. <i>Nature Immunology</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41590-025-02211-w\">https://doi.org/10.1038/s41590-025-02211-w</a>","chicago":"Dos Reis Rodrigues, Patricia, Mario Avellaneda Sarrió, Nikola Canigova, Florian R Gärtner, Kari Vaahtomeri, Michael Riedl, Ingrid de Vries, et al. “Migrating Immune Cells Globally Coordinate Protrusive Forces.” <i>Nature Immunology</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41590-025-02211-w\">https://doi.org/10.1038/s41590-025-02211-w</a>.","ieee":"P. Dos Reis Rodrigues <i>et al.</i>, “Migrating immune cells globally coordinate protrusive forces,” <i>Nature Immunology</i>, vol. 26. Springer Nature, pp. 1258–1266, 2025.","ista":"Dos Reis Rodrigues P, Avellaneda Sarrió M, Canigova N, Gärtner FR, Vaahtomeri K, Riedl M, de Vries I, Merrin J, Hauschild R, Fukui Y, Juanes Garcia A, Sixt MK. 2025. Migrating immune cells globally coordinate protrusive forces. Nature Immunology. 26, 1258–1266.","mla":"Dos Reis Rodrigues, Patricia, et al. “Migrating Immune Cells Globally Coordinate Protrusive Forces.” <i>Nature Immunology</i>, vol. 26, Springer Nature, 2025, pp. 1258–1266, doi:<a href=\"https://doi.org/10.1038/s41590-025-02211-w\">10.1038/s41590-025-02211-w</a>."},"file_date_updated":"2025-07-31T08:00:33Z","volume":26,"_id":"20082","oa":1,"oa_version":"Published Version","author":[{"last_name":"Dos Reis Rodrigues","full_name":"Dos Reis Rodrigues, Patricia","orcid":"0000-0003-1681-508X","id":"26E95904-5160-11E9-9C0B-C5B0DC97E90F","first_name":"Patricia"},{"last_name":"Avellaneda Sarrió","first_name":"Mario","id":"DC4BA84C-56E6-11EA-AD5D-348C3DDC885E","full_name":"Avellaneda Sarrió, Mario","orcid":"0000-0001-6406-524X"},{"first_name":"Nikola","id":"3795523E-F248-11E8-B48F-1D18A9856A87","full_name":"Canigova, Nikola","orcid":"0000-0002-8518-5926","last_name":"Canigova"},{"id":"397A88EE-F248-11E8-B48F-1D18A9856A87","first_name":"Florian R","orcid":"0000-0001-6120-3723","full_name":"Gärtner, Florian R","last_name":"Gärtner"},{"last_name":"Vaahtomeri","orcid":"0000-0001-7829-3518","full_name":"Vaahtomeri, Kari","first_name":"Kari","id":"368EE576-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Riedl","orcid":"0000-0003-4844-6311","full_name":"Riedl, Michael","id":"3BE60946-F248-11E8-B48F-1D18A9856A87","first_name":"Michael"},{"first_name":"Ingrid","id":"4C7D837E-F248-11E8-B48F-1D18A9856A87","full_name":"De Vries, Ingrid","last_name":"De Vries"},{"last_name":"Merrin","first_name":"Jack","id":"4515C308-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5145-4609","full_name":"Merrin, Jack"},{"last_name":"Hauschild","first_name":"Robert","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87","full_name":"Hauschild, Robert","orcid":"0000-0001-9843-3522"},{"first_name":"Yoshinori","full_name":"Fukui, Yoshinori","last_name":"Fukui"},{"id":"40F05888-F248-11E8-B48F-1D18A9856A87","first_name":"Alba","full_name":"Juanes Garcia, Alba","orcid":"0000-0002-1009-9652","last_name":"Juanes Garcia"},{"orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael K","last_name":"Sixt"}],"publication_status":"published","type":"journal_article","OA_place":"publisher","related_material":{"link":[{"url":"https://ista.ac.at/en/news/bench-pressing-cells/","relation":"press_release","description":"News on ISTA website"}],"record":[{"relation":"dissertation_contains","id":"20149","status":"public"}]},"pmid":1,"article_processing_charge":"Yes (via OA deal)","quality_controlled":"1","acknowledgement":"This research was supported by the Scientific Service Units of ISTA through resources provided by the Imaging and Optics, Preclinical and Lab Support Facilities. In particular, we thank M. A. Symth and F. G. G. Leite, from the Virus Service Team, who helped generating the lentiviral particles used in this study. We thank all the members of the Sixt group for valuable discussions and feedback, in particular, I. Mayer, for helping with T cell isolation and Z. (P.) Li for providing the Actin–GFP DC line. We are also thankful to J. Mandl and C. Shen for their feedback during the writing of this manuscript. This work was supported by a European Research Council grant ERC-SyG 101071793 to M.S. M.J.A. was supported by an HFSP Postdoctoral Fellowship LTF 177 2021 and A.J.G. by a Lise Meitner Fellowship of the FWF (Austrian Science Fund). Y.F. was supported by the AMED-CREST (JP19gm1310005), the Medical Research Center Initiative for High Depth Omics and CURE:JPMXP1323015486 for MIB, Kyushu University. Open access funding provided by Institute of Science and Technology (IST Austria).","status":"public","has_accepted_license":"1","isi":1,"doi":"10.1038/s41590-025-02211-w","intvolume":"        26","file":[{"access_level":"open_access","date_created":"2025-07-31T08:00:33Z","relation":"main_file","date_updated":"2025-07-31T08:00:33Z","file_size":13514646,"creator":"dernst","checksum":"0c725123dca7797c682609bff2c4c5ac","file_name":"2025_NatureImmunology_ReisRodrigues.pdf","success":1,"file_id":"20096","content_type":"application/pdf"}],"OA_type":"hybrid","publication_identifier":{"eissn":["1529-2916"],"issn":["1529-2908"]},"abstract":[{"lang":"eng","text":"Efficient immune responses rely on the capacity of leukocytes to traverse diverse and complex tissues. To meet such changing environmental conditions, leukocytes usually adopt an ameboid configuration, using their forward-positioned nucleus as a probe to identify and follow the path of least resistance among pre-existing pores. We show that, in dense environments where even the largest pores preclude free passage, leukocytes position their nucleus behind the centrosome and organelles. The local compression imposed on the cell body by its surroundings triggers assembly of a central F-actin pool, located between cell front and nucleus. Central actin pushes outward to transiently dilate a path for organelles and nucleus. Pools of central and front actin are tightly coupled and experimental depletion of the central pool enhances actin accumulation and protrusion formation at the cell front. Although this shifted balance speeds up cells in permissive environments, migration in restrictive environments is impaired, as the unleashed leading edge dissociates from the trapped cell body. Our findings establish an actin regulatory loop that balances path dilation with advancement of the leading edge to maintain cellular coherence."}],"language":[{"iso":"eng"}],"corr_author":"1","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_published":"2025-08-01T00:00:00Z","month":"08","page":"1258–1266","ddc":["570"],"publication":"Nature Immunology","date_updated":"2026-04-28T13:26:50Z","date_created":"2025-07-27T22:01:26Z","title":"Migrating immune cells globally coordinate protrusive forces","day":"01","year":"2025","scopus_import":"1","article_type":"letter_note","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd"},{"publication":"Physical Review Letters","date_updated":"2026-04-28T13:28:02Z","date_created":"2025-06-22T22:02:06Z","ddc":["530"],"month":"06","date_published":"2025-06-13T00:00:00Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","scopus_import":"1","article_type":"original","year":"2025","day":"13","title":"Fully independent response in disordered solids","corr_author":"1","language":[{"iso":"eng"}],"publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"abstract":[{"text":"Unlike in crystals, it is difficult to trace emergent material properties of amorphous solids to their underlying structure. Nevertheless, one can tune features of a disordered spring network, ranging from bulk elastic constants to specific allosteric responses, through highly precise alterations of the structure. This has been understood through the notion of independent bond-level response—the observation that, in many cases, different springs have different effects on different properties. While this idea has motivated inverse design in numerous contexts, it has not been formalized and quantified in a general context that not just informs but enables and predicts inverse design. Here, we show how to quantify independent response by linearizing the simultaneous change in multiple emergent features, and introduce the much stronger notion of fully independent response. Remarkably, we find that the mechanical properties of disordered solids are always fully independent across a wide array of scenarios, regardless of the target features, tunable parameters, system size, dimensionality, and class of interactions. Furthermore, our formulation quantifies the susceptibility of features to parameter changes, which is correlated with the maximum linear tunability. We also demonstrate the implications for multifeature inverse design beyond the linear regime. These results formalize our understanding of a key fundamental difference between ordered and disordered solids while also creating a practical tool to both understand and perform inverse design.","lang":"eng"}],"file":[{"date_created":"2025-06-23T11:41:08Z","access_level":"open_access","file_size":1132625,"relation":"main_file","date_updated":"2025-06-23T11:41:08Z","success":1,"file_id":"19874","content_type":"application/pdf","file_name":"2025_PhysReviewLetters_Zu.pdf","creator":"dernst","checksum":"040b6779c91aac62c15a9b2cc417b360"}],"OA_type":"hybrid","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"quality_controlled":"1","article_processing_charge":"Yes (via OA deal)","article_number":"238201","related_material":{"link":[{"description":"News on ISTA website","url":"https://ista.ac.at/en/news/infinite-diversity-in-infinite-combinations/","relation":"press_release"}]},"OA_place":"publisher","type":"journal_article","author":[{"last_name":"Zu","first_name":"Mengjie","id":"26dd9e7c-e86a-11eb-a854-82ac731c9ae2","full_name":"Zu, Mengjie"},{"last_name":"Desai","id":"502cfd30-32c1-11ee-a9a4-d8dad5c6739e","first_name":"Aayush A","full_name":"Desai, Aayush A"},{"full_name":"Goodrich, Carl Peter","orcid":"0000-0002-1307-5074","id":"EB352CD2-F68A-11E9-89C5-A432E6697425","first_name":"Carl Peter","last_name":"Goodrich"}],"publication_status":"published","doi":"10.1103/PhysRevLett.134.238201","intvolume":"       134","isi":1,"issue":"23","acknowledgement":"We gratefully acknowledge Edouard Hannezo for helpful comments on the manuscript. The work was funded by the Institute of Science and Technology Austria.","has_accepted_license":"1","status":"public","arxiv":1,"external_id":{"isi":["001509005900006"],"arxiv":["2412.05031"]},"publisher":"American Physical Society","oa_version":"Published Version","_id":"19856","oa":1,"volume":134,"file_date_updated":"2025-06-23T11:41:08Z","department":[{"_id":"CaGo"},{"_id":"IlCa"}],"citation":{"ama":"Zu M, Desai AA, Goodrich CP. Fully independent response in disordered solids. <i>Physical Review Letters</i>. 2025;134(23). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.134.238201\">10.1103/PhysRevLett.134.238201</a>","apa":"Zu, M., Desai, A. A., &#38; Goodrich, C. P. (2025). Fully independent response in disordered solids. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.134.238201\">https://doi.org/10.1103/PhysRevLett.134.238201</a>","short":"M. Zu, A.A. Desai, C.P. Goodrich, Physical Review Letters 134 (2025).","chicago":"Zu, Mengjie, Aayush A Desai, and Carl Peter Goodrich. “Fully Independent Response in Disordered Solids.” <i>Physical Review Letters</i>. American Physical Society, 2025. <a href=\"https://doi.org/10.1103/PhysRevLett.134.238201\">https://doi.org/10.1103/PhysRevLett.134.238201</a>.","ieee":"M. Zu, A. A. Desai, and C. P. Goodrich, “Fully independent response in disordered solids,” <i>Physical Review Letters</i>, vol. 134, no. 23. American Physical Society, 2025.","mla":"Zu, Mengjie, et al. “Fully Independent Response in Disordered Solids.” <i>Physical Review Letters</i>, vol. 134, no. 23, 238201, American Physical Society, 2025, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.134.238201\">10.1103/PhysRevLett.134.238201</a>.","ista":"Zu M, Desai AA, Goodrich CP. 2025. Fully independent response in disordered solids. Physical Review Letters. 134(23), 238201."}},{"publisher":"Institute of Science and Technology Austria","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"M-Shop"},{"_id":"NanoFab"}],"file_date_updated":"2025-08-27T13:02:28Z","oa":1,"_id":"20149","oa_version":"Published Version","department":[{"_id":"GradSch"},{"_id":"MiSi"}],"citation":{"apa":"Dos Reis Rodrigues, P. (2025). <i>Coordination of protrusive forces in immune cell migration </i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20149\">https://doi.org/10.15479/AT-ISTA-20149</a>","short":"P. Dos Reis Rodrigues, Coordination of Protrusive Forces in Immune Cell Migration , Institute of Science and Technology Austria, 2025.","ama":"Dos Reis Rodrigues P. Coordination of protrusive forces in immune cell migration . 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20149\">10.15479/AT-ISTA-20149</a>","chicago":"Dos Reis Rodrigues, Patricia. “Coordination of Protrusive Forces in Immune Cell Migration .” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20149\">https://doi.org/10.15479/AT-ISTA-20149</a>.","ieee":"P. Dos Reis Rodrigues, “Coordination of protrusive forces in immune cell migration ,” Institute of Science and Technology Austria, 2025.","mla":"Dos Reis Rodrigues, Patricia. <i>Coordination of Protrusive Forces in Immune Cell Migration </i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20149\">10.15479/AT-ISTA-20149</a>.","ista":"Dos Reis Rodrigues P. 2025. Coordination of protrusive forces in immune cell migration . Institute of Science and Technology Austria."},"project":[{"grant_number":"101071793","_id":"bd91e723-d553-11ed-ba76-fe7eeb2185fd","name":"Pushing from within: Control of cell shape, integrity and motility by cytoskeletal pushing forces"}],"related_material":{"record":[{"status":"public","id":"10703","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"20082"}]},"OA_place":"publisher","supervisor":[{"orcid":"0000-0002-6620-9179","full_name":"Sixt, Michael K","id":"41E9FBEA-F248-11E8-B48F-1D18A9856A87","first_name":"Michael K","last_name":"Sixt"}],"article_processing_charge":"No","publication_status":"published","author":[{"id":"26E95904-5160-11E9-9C0B-C5B0DC97E90F","first_name":"Patricia","full_name":"Dos Reis Rodrigues, Patricia","orcid":"0000-0003-1681-508X","last_name":"Dos Reis Rodrigues"}],"type":"dissertation","doi":"10.15479/AT-ISTA-20149","has_accepted_license":"1","status":"public","acknowledgement":"I would like to acknowledge the\r\nfinancial support of the European Research Council through the ERC-SyG grant “Pushing from\r\nwithin: Control of cell shape, integrity and motility by cytoskeletal pushing forces”\r\n(01071793), which made this research possible. ","language":[{"iso":"eng"}],"alternative_title":["ISTA Thesis"],"corr_author":"1","file":[{"file_name":"2025_ReisRodrigues_Patricia_Thesis.pdf","creator":"prodrigu","checksum":"fda8a1070667c3562263f4867609b41b","file_id":"20232","success":1,"content_type":"application/pdf","date_created":"2025-08-27T12:59:10Z","access_level":"open_access","file_size":63885565,"relation":"main_file","date_updated":"2025-08-27T12:59:10Z"},{"file_id":"20233","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","creator":"prodrigu","checksum":"e8b65affcbce846a926454df4b2867b9","file_name":"2025_ReisRodrigues_Patricia_Thesis.docx","date_created":"2025-08-27T13:00:30Z","access_level":"closed","date_updated":"2025-08-27T13:02:28Z","relation":"source_file","file_size":50483434}],"abstract":[{"lang":"eng","text":"Immune responses depend on the coordinated and efficient migration of leukocytes. These\r\ncells, which are embedded and tightly confined within tissues, must navigate and traverse\r\ndiverse and complex three-dimensional environments. Leukocytes adapt their locomotory\r\nbehavior to the mechanical, geometrical, and biochemical characteristics of their\r\nsurroundings. In low-density environments, where the pore size of the interstitial matrix\r\nallows free passage, these cells position the nucleus directly behind the lamellipodium, the\r\nprotrusive actin structure that forms the leading front of the cell. In this configuration, they\r\nuse the nucleus as a gauge to identify the path of least resistance.\r\nHere, we show that in high-density environments, where the pore size precludes free passage\r\nof the cell body, leukocytes reposition the microtubule-organizing center (MTOC) and\r\nassociated organelles in front of the nucleus. In this configuration, they use actin structures\r\nprotruding orthogonally to the direction of migration in order to open a path for the cell body.\r\nWe identify two distinct actin populations that serve this purpose at different subcellular\r\nlocalizations. At the leading edge, local indentation of the plasma membrane leads to\r\nrecruitment of the Wiskott-Aldrich syndrome protein (WASp), which, via Arp2/3, results in\r\nthe formation of individual actin foci. At the cell body, actin polymerization is triggered by\r\nDOCK8, a Cdc42 exchange factor, resulting in the formation of a central actin pool.\r\nWe demonstrate that the central and peripheral actin pools are functionally communicating\r\nand that depletion of the central actin pool leads to increased actin accumulation at the cell\r\nfront, resulting in excessive extension of the leading edge."}],"license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","publication_identifier":{"issn":["2663-337X"]},"degree_awarded":"PhD","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND 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information-processing capability of the brain’s cellular network depends on the physical wiring pattern between neurons and their molecular and functional characteristics. Mapping neurons and resolving their individual synaptic connections can be achieved by volumetric imaging at nanoscale resolution with dense cellular labelling. Light microscopy is uniquely positioned to visualize specific molecules but dense, synapse-level circuit reconstruction by light microscopy has been out of reach due to limitations in resolution, contrast, and volumetric imaging capability. Here we developed light-microscopy based connectomics (LICONN). We integrated specifically engineered hydrogel embedding and expansion with comprehensive deep-learning based segmentation and analysis of connectivity, thus directly incorporating molecular information in synapse-level brain tissue reconstructions. LICONN will allow synapse-level brain tissue phenotyping in biological experiments in a readily adoptable manner.","lang":"eng"}],"license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","corr_author":"1","title":"Light-microscopy based connectomic reconstruction of mammalian brain tissue","day":"03","contributor":[{"last_name":"Tavakoli","orcid":"0000-0002-7667-6854","contributor_type":"researcher","first_name":"Mojtaba","id":"3A0A06F4-F248-11E8-B48F-1D18A9856A87"},{"id":"46E28B80-F248-11E8-B48F-1D18A9856A87","first_name":"Julia","contributor_type":"researcher","last_name":"Lyudchik"},{"contributor_type":"researcher","first_name":"Michal","last_name":"Januszewski"},{"last_name":"Vistunou","first_name":"Vitali","id":"7e146587-8972-11ed-ae7b-d7a32ea86a81","contributor_type":"researcher"},{"id":"40E7F008-F248-11E8-B48F-1D18A9856A87","first_name":"Nathalie","contributor_type":"researcher","last_name":"Agudelo Duenas"},{"last_name":"Vorlaufer","contributor_type":"researcher","id":"937696FA-C996-11E9-8C7C-CF13E6697425","first_name":"Jakob"},{"orcid":"0000-0003-1216-9105","contributor_type":"researcher","first_name":"Christoph M","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","last_name":"Sommer"},{"last_name":"Kreuzinger","contributor_type":"researcher","first_name":"Caroline","id":"382077BA-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Bárbara","id":"3B03AA1A-F248-11E8-B48F-1D18A9856A87","contributor_type":"researcher","last_name":"Oliveira"},{"first_name":"Alban","contributor_type":"researcher","last_name":"Cenameri"},{"last_name":"Novarino","first_name":"Gaia","id":"3E57A680-F248-11E8-B48F-1D18A9856A87","contributor_type":"researcher","orcid":"0000-0002-7673-7178"},{"contributor_type":"researcher","first_name":"Viren","last_name":"Jain"},{"last_name":"Danzl","first_name":"Johann G","id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","contributor_type":"researcher","orcid":"0000-0001-8559-3973"}],"year":"2025","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2025-03-03T00:00:00Z","month":"03","ddc":["570"],"date_created":"2024-12-20T09:22:20Z","date_updated":"2026-04-28T13:33:34Z","department":[{"_id":"JoDa"}],"citation":{"ieee":"J. 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(2025). Light-microscopy based connectomic reconstruction of mammalian brain tissue. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:18697\">https://doi.org/10.15479/AT:ISTA:18697</a>","chicago":"Danzl, Johann G, Julia Lyudchik, and Caroline Kreuzinger. “Light-Microscopy Based Connectomic Reconstruction of Mammalian Brain Tissue.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT:ISTA:18697\">https://doi.org/10.15479/AT:ISTA:18697</a>."},"file_date_updated":"2025-02-28T16:50:39Z","_id":"18697","oa":1,"oa_version":"Published Version","publisher":"Institute of Science and Technology Austria","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"ScienComp"},{"_id":"PreCl"},{"_id":"M-Shop"},{"_id":"E-Lib"}],"status":"public","has_accepted_license":"1","doi":"10.15479/AT:ISTA:18697","author":[{"first_name":"Johann G","id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","full_name":"Danzl, Johann G","orcid":"0000-0001-8559-3973","last_name":"Danzl"},{"last_name":"Lyudchik","first_name":"Julia","id":"46E28B80-F248-11E8-B48F-1D18A9856A87","full_name":"Lyudchik, Julia"},{"first_name":"Caroline","id":"382077BA-F248-11E8-B48F-1D18A9856A87","full_name":"Kreuzinger, Caroline","last_name":"Kreuzinger"}],"type":"research_data","related_material":{"record":[{"relation":"used_in_publication","id":"19704","status":"public"}],"link":[{"relation":"research_data","url":"https://pub.ista.ac.at/group_danzl/data/LICONN/","description":"Original datasets of large size (>10GB) and datasets in zarr/n5/ims/npz format are provided via this external link."}]},"OA_place":"repository","article_processing_charge":"No"},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"abstract":[{"lang":"eng","text":"The information-processing capability of the brain’s cellular network depends on the physical wiring pattern between neurons and their molecular and functional characteristics. Mapping neurons and resolving their individual synaptic connections can be achieved by volumetric imaging at nanoscale resolution1,2 with dense cellular labelling. Light microscopy is uniquely positioned to visualize specific molecules, but dense, synapse-level circuit reconstruction by light microscopy has been out of reach, owing to limitations in resolution, contrast and volumetric imaging capability. Here we describe light-microscopy-based connectomics (LICONN). We integrated specifically engineered hydrogel embedding and expansion with comprehensive deep-learning-based segmentation and analysis of connectivity, thereby directly incorporating molecular information into synapse-level reconstructions of brain tissue. LICONN will allow synapse-level phenotyping of brain tissue in biological experiments in a readily adoptable manner."}],"file":[{"file_name":"2025_Nature_Tavakoli.pdf","checksum":"ebc99d7108e728f46db0a009292675ef","creator":"dernst","content_type":"application/pdf","file_id":"19959","success":1,"date_updated":"2025-07-03T06:55:20Z","file_size":133201290,"relation":"main_file","access_level":"open_access","date_created":"2025-07-03T06:55:20Z"}],"OA_type":"hybrid","corr_author":"1","language":[{"iso":"eng"}],"day":"12","title":"Light-microscopy-based connectomic reconstruction of mammalian brain tissue","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","year":"2025","scopus_import":"1","article_type":"original","month":"06","ec_funded":1,"date_published":"2025-06-12T00:00:00Z","publication":"Nature","date_updated":"2026-04-28T13:33:34Z","date_created":"2025-05-18T22:02:51Z","page":"398-410","ddc":["570"],"project":[{"grant_number":"26137","_id":"6285a163-2b32-11ec-9570-8e204ca2dba5","name":"Studying Organelle Structure and Function at Nanoscale Resolution with Expansion Microscopy"},{"grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"International IST Doctoral Program"},{"name":"Toward an understanding of the brain interstitial system and the extracellular proteome in health and autism spectrum disorders","grant_number":"101044865","_id":"34ba8964-11ca-11ed-8bc3-e15864e7e9a6"},{"name":"Molecular Drug Targets","call_identifier":"FWF","_id":"26AA4EF2-B435-11E9-9278-68D0E5697425","grant_number":"W1232-B24"}],"PlanS_conform":"1","department":[{"_id":"JoDa"},{"_id":"GradSch"},{"_id":"Bio"},{"_id":"GaNo"}],"citation":{"ieee":"M. Tavakoli <i>et al.</i>, “Light-microscopy-based connectomic reconstruction of mammalian brain tissue,” <i>Nature</i>, vol. 642. Springer Nature, pp. 398–410, 2025.","mla":"Tavakoli, Mojtaba, et al. “Light-Microscopy-Based Connectomic Reconstruction of Mammalian Brain Tissue.” <i>Nature</i>, vol. 642, Springer Nature, 2025, pp. 398–410, doi:<a href=\"https://doi.org/10.1038/s41586-025-08985-1\">10.1038/s41586-025-08985-1</a>.","ista":"Tavakoli M, Lyudchik J, Januszewski M, Vistunou V, Agudelo Duenas N, Vorlaufer J, Sommer CM, Kreuzinger C, Oliveira B, Cenameri A, Novarino G, Jain V, Danzl JG. 2025. Light-microscopy-based connectomic reconstruction of mammalian brain tissue. Nature. 642, 398–410.","ama":"Tavakoli M, Lyudchik J, Januszewski M, et al. Light-microscopy-based connectomic reconstruction of mammalian brain tissue. <i>Nature</i>. 2025;642:398-410. doi:<a href=\"https://doi.org/10.1038/s41586-025-08985-1\">10.1038/s41586-025-08985-1</a>","short":"M. Tavakoli, J. Lyudchik, M. Januszewski, V. Vistunou, N. Agudelo Duenas, J. Vorlaufer, C.M. Sommer, C. Kreuzinger, B. Oliveira, A. Cenameri, G. Novarino, V. Jain, J.G. Danzl, Nature 642 (2025) 398–410.","apa":"Tavakoli, M., Lyudchik, J., Januszewski, M., Vistunou, V., Agudelo Duenas, N., Vorlaufer, J., … Danzl, J. G. (2025). Light-microscopy-based connectomic reconstruction of mammalian brain tissue. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-025-08985-1\">https://doi.org/10.1038/s41586-025-08985-1</a>","chicago":"Tavakoli, Mojtaba, Julia Lyudchik, Michał Januszewski, Vitali Vistunou, Nathalie Agudelo Duenas, Jakob Vorlaufer, Christoph M Sommer, et al. “Light-Microscopy-Based Connectomic Reconstruction of Mammalian Brain Tissue.” <i>Nature</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41586-025-08985-1\">https://doi.org/10.1038/s41586-025-08985-1</a>."},"oa_version":"Published Version","_id":"19704","oa":1,"volume":642,"file_date_updated":"2025-07-03T06:55:20Z","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"},{"_id":"ScienComp"},{"_id":"PreCl"},{"_id":"M-Shop"},{"_id":"E-Lib"}],"external_id":{"isi":["001483477000001"],"pmid":["40335689"]},"publisher":"Springer Nature","status":"public","acknowledgement":"We thank S. Dorkenwald and P. Li for critical reading of the manuscript, S. Loomba for discussions and E. Miguel for support with data handling. We acknowledge support from ISTA’s scientific service units: Imaging and Optics, Lab Support, Scientific Computing, the preclinical facility, the Miba Machine Shop and the library. We acknowledge funding from the following sources: Austrian Science Fund (FWF) grant DK W1232 (J.G.D. and M.R.T.); Austrian Academy of Sciences DOC fellowship 26137 (M.R.T.); Gesellschaft für Forschungsförderung NÖ (NFB) grant LSC18-022 (J.G.D.); the European Union’s Horizon 2020 research and innovation programme and Marie Skłodowska-Curie Actions Fellowship 665385 (J.L.); and the European Union’s Horizon 2020 research and innovation programme and European Research Council (ERC) grant 101044865 ‘SecretAutism’ (G.N.).Open access funding provided by Institute of Science and Technology (IST Austria).","has_accepted_license":"1","doi":"10.1038/s41586-025-08985-1","intvolume":"       642","isi":1,"type":"journal_article","author":[{"last_name":"Tavakoli","id":"3A0A06F4-F248-11E8-B48F-1D18A9856A87","first_name":"Mojtaba","full_name":"Tavakoli, Mojtaba","orcid":"0000-0002-7667-6854"},{"full_name":"Lyudchik, Julia","first_name":"Julia","id":"46E28B80-F248-11E8-B48F-1D18A9856A87","last_name":"Lyudchik"},{"last_name":"Januszewski","first_name":"Michał","full_name":"Januszewski, Michał"},{"last_name":"Vistunou","id":"7e146587-8972-11ed-ae7b-d7a32ea86a81","first_name":"Vitali","full_name":"Vistunou, Vitali"},{"id":"40E7F008-F248-11E8-B48F-1D18A9856A87","first_name":"Nathalie","full_name":"Agudelo Duenas, Nathalie","last_name":"Agudelo Duenas"},{"first_name":"Jakob","id":"937696FA-C996-11E9-8C7C-CF13E6697425","full_name":"Vorlaufer, Jakob","orcid":"0009-0000-7590-3501","last_name":"Vorlaufer"},{"last_name":"Sommer","orcid":"0000-0003-1216-9105","full_name":"Sommer, Christoph M","id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","first_name":"Christoph M"},{"last_name":"Kreuzinger","full_name":"Kreuzinger, Caroline","first_name":"Caroline","id":"382077BA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Oliveira","id":"3B03AA1A-F248-11E8-B48F-1D18A9856A87","first_name":"Bárbara","full_name":"Oliveira, Bárbara"},{"first_name":"Alban","id":"9ac8f577-2357-11eb-997a-e566c5550886","full_name":"Cenameri, Alban","last_name":"Cenameri"},{"orcid":"0000-0002-7673-7178","full_name":"Novarino, Gaia","first_name":"Gaia","id":"3E57A680-F248-11E8-B48F-1D18A9856A87","last_name":"Novarino"},{"last_name":"Jain","full_name":"Jain, Viren","first_name":"Viren"},{"first_name":"Johann G","id":"42EFD3B6-F248-11E8-B48F-1D18A9856A87","full_name":"Danzl, Johann G","orcid":"0000-0001-8559-3973","last_name":"Danzl"}],"publication_status":"published","pmid":1,"article_processing_charge":"Yes (via OA deal)","quality_controlled":"1","related_material":{"record":[{"relation":"earlier_version","status":"public","id":"18677"},{"relation":"research_data","status":"public","id":"18697"}],"link":[{"description":"News on ISTA website","url":"https://ista.ac.at/en/news/piecing-together-the-brain-puzzle/","relation":"press_release"}]},"OA_place":"publisher"},{"citation":{"ieee":"J. Walker <i>et al.</i>, “Extensive N4 cytosine methylation is essential for Marchantia sperm function,” <i>Cell</i>, vol. 188, no. 11. Elsevier, p. 2890–2906.e14, 2025.","ista":"Walker J, Zhang J, Liu Y, Xu S, Yu Y, Vickers M, Ouyang W, Tálas J, Dolan L, Nakajima K, Feng X. 2025. Extensive N4 cytosine methylation is essential for Marchantia sperm function. Cell. 188(11), 2890–2906.e14.","mla":"Walker, James, et al. “Extensive N4 Cytosine Methylation Is Essential for Marchantia Sperm Function.” <i>Cell</i>, vol. 188, no. 11, Elsevier, 2025, p. 2890–2906.e14, doi:<a href=\"https://doi.org/10.1016/j.cell.2025.03.014\">10.1016/j.cell.2025.03.014</a>.","short":"J. Walker, J. Zhang, Y. Liu, S. Xu, Y. Yu, M. Vickers, W. Ouyang, J. Tálas, L. Dolan, K. Nakajima, X. Feng, Cell 188 (2025) 2890–2906.e14.","apa":"Walker, J., Zhang, J., Liu, Y., Xu, S., Yu, Y., Vickers, M., … Feng, X. (2025). Extensive N4 cytosine methylation is essential for Marchantia sperm function. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2025.03.014\">https://doi.org/10.1016/j.cell.2025.03.014</a>","ama":"Walker J, Zhang J, Liu Y, et al. Extensive N4 cytosine methylation is essential for Marchantia sperm function. <i>Cell</i>. 2025;188(11):2890-2906.e14. doi:<a href=\"https://doi.org/10.1016/j.cell.2025.03.014\">10.1016/j.cell.2025.03.014</a>","chicago":"Walker, James, Jingyi Zhang, Yalin Liu, Shujuan Xu, Yiming Yu, Martin Vickers, Weizhi Ouyang, et al. “Extensive N4 Cytosine Methylation Is Essential for Marchantia Sperm Function.” <i>Cell</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.cell.2025.03.014\">https://doi.org/10.1016/j.cell.2025.03.014</a>."},"PlanS_conform":"1","department":[{"_id":"XiFe"}],"project":[{"name":"Establishment, modulation and inheritance of sexual lineage specific DNA methylation in plants","call_identifier":"H2020","_id":"bdb51a6e-d553-11ed-ba76-c2025f3d5725","grant_number":"804981"}],"_id":"19602","oa_version":"Published Version","oa":1,"volume":188,"file_date_updated":"2025-12-29T13:40:32Z","acknowledged_ssus":[{"_id":"Bio"},{"_id":"ScienComp"}],"publisher":"Elsevier","external_id":{"isi":["001504744800006"],"pmid":["40209706"]},"issue":"11","status":"public","has_accepted_license":"1","acknowledgement":"We thank Sir Richard Roberts (NEB) for the kind gift of anti-4mC antibodies. We are also grateful to the JIC Small Molecule Mass Spectrometry (Lionel Hill) and Chemistry (Martin Rejzek) platforms as well as the High Resolution Metabolomics Laboratory (Manfred Beckmann, Aberystwyth University) for their assistance with LC-MS. Additionally, we acknowledge the assistance of the JIC Bioimaging Facility and ISTA Imaging and Optics Facility for microscopy. Finally, we appreciate the High Performance Computing resources provided by the ISTA Scientific Computing Facility and Norwich BioScience Institute Partnership Computing Infrastructure. This work was funded by a Sainsbury Charitable Foundation studentship (J.W.), a UKRI-BBSRC Doctoral Training Partnerships studentship (BBT0087171 to J.T.), a European Research Council Starting Grant (“SexMeth” 804981 to J.W., S.X., and X.F.), two Biotechnology and Biological Sciences Research Council (BBSRC) grants (BBS0096201 and BBP0135111 to J.Z., M.V., and X.F.), an EMBO Long Term Fellowship (Y.L.), an ISTA Bridge Fellowship (S.X.), and ISTA core funding (Y.Y. and X.F.).","intvolume":"       188","doi":"10.1016/j.cell.2025.03.014","isi":1,"type":"journal_article","publication_status":"published","author":[{"full_name":"Walker, James","first_name":"James","last_name":"Walker"},{"full_name":"Zhang, Jingyi","first_name":"Jingyi","last_name":"Zhang"},{"last_name":"Liu","first_name":"Yalin","full_name":"Liu, Yalin"},{"last_name":"Xu","full_name":"Xu, Shujuan","id":"9724dd9d-f591-11ee-bd51-e97ed0652286","first_name":"Shujuan"},{"id":"318e643b-8b61-11ed-b69e-aafa103ec8dd","first_name":"Yiming","full_name":"Yu, Yiming","orcid":"0000-0002-9919-7282","last_name":"Yu"},{"first_name":"Martin","full_name":"Vickers, Martin","last_name":"Vickers"},{"last_name":"Ouyang","first_name":"Weizhi","id":"fec73395-8b60-11ed-b69e-927fda99c743","full_name":"Ouyang, Weizhi"},{"first_name":"Judit","full_name":"Tálas, Judit","last_name":"Tálas"},{"first_name":"Liam","full_name":"Dolan, Liam","last_name":"Dolan"},{"full_name":"Nakajima, Keiji","first_name":"Keiji","last_name":"Nakajima"},{"full_name":"Feng, Xiaoqi","orcid":"0000-0002-4008-1234","first_name":"Xiaoqi","id":"e0164712-22ee-11ed-b12a-d80fcdf35958","last_name":"Feng"}],"quality_controlled":"1","article_processing_charge":"Yes (via OA deal)","pmid":1,"OA_place":"publisher","related_material":{"link":[{"description":"News on ISTA website","relation":"press_release","url":"https://ista.ac.at/en/news/from-bacterial-immunity-to-plant-sex/"}]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_identifier":{"eissn":["1097-4172"],"issn":["0092-8674"]},"abstract":[{"text":"N4-methylcytosine (4mC) is an important DNA modification in prokaryotes, but its relevance and even its presence in eukaryotes have been mysterious. Here we show that spermatogenesis in the liverwort Marchantia polymorpha involves two waves of extensive DNA methylation reprogramming. First, 5-methylcytosine (5mC) expands from transposons to the entire genome. Notably, the second wave installs 4mC throughout genic regions, covering over 50% of CG sites in sperm. 4mC requires a methyltransferase (MpDN4MT1a) that is specifically expressed during late spermiogenesis. Deletion of MpDN4MT1a alters the sperm transcriptome, causes sperm swimming and fertility defects, and impairs post-fertilization development. Our results reveal extensive 4mC in a eukaryote, identify a family of eukaryotic methyltransferases, and elucidate the biological functions of 4mC in reproductive development, thereby expanding the repertoire of functional eukaryotic DNA modifications.","lang":"eng"}],"OA_type":"hybrid","file":[{"date_created":"2025-12-29T13:40:32Z","access_level":"open_access","relation":"main_file","file_size":11622960,"date_updated":"2025-12-29T13:40:32Z","success":1,"file_id":"20871","content_type":"application/pdf","creator":"dernst","checksum":"0dcc2feb368dfe7c4890093366b2dacb","file_name":"2025_Cell_Walker.pdf"}],"corr_author":"1","language":[{"iso":"eng"}],"day":"29","title":"Extensive N4 cytosine methylation is essential for Marchantia sperm function","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","scopus_import":"1","year":"2025","article_type":"original","ec_funded":1,"month":"05","date_published":"2025-05-29T00:00:00Z","date_created":"2025-04-20T22:01:28Z","publication":"Cell","date_updated":"2026-04-28T13:36:51Z","ddc":["570"],"page":"2890-2906.e14"},{"language":[{"iso":"eng"}],"file":[{"date_updated":"2025-05-12T07:33:38Z","file_size":1028993,"relation":"main_file","date_created":"2025-05-12T07:33:38Z","access_level":"open_access","file_name":"2025_PhysReviewLetters_Kerschbaumer.pdf","checksum":"b7f581291e20f152d0efc64727314ca2","creator":"dernst","content_type":"application/pdf","file_id":"19677","success":1}],"OA_type":"hybrid","abstract":[{"text":"Persistent revivals recently observed in Rydberg atom simulators have challenged our understanding of thermalization and attracted much interest to the concept of quantum many-body scars (QMBSs). QMBSs are non-thermal highly excited eigenstates that coexist with typical eigenstates in the spectrum of many-body Hamiltonians, and have since been reported in multiple theoretical models, including the so-called PXP model, approximately realized by Rydberg simulators. At the same time, questions of how common QMBSs are and in what models they are physically realized remain open. In this Letter, we demonstrate that QMBSs exist in a broader family of models that includes and generalizes PXP to longer-range constraints and states with different periodicity. We show that in each model, multiple QMBS families can be found. Each of them relies on a different approximate algebra, leading to oscillatory dynamics in all cases. However, in contrast to the PXP model, their observation requires launching dynamics from weakly entangled initial states rather than from a product state. QMBSs reported here may be experimentally probed using Rydberg atom simulator in the regime of longer-range Rydberg blockades.","lang":"eng"}],"publication_identifier":{"issn":["0031-9007"],"eissn":["1079-7114"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"ddc":["530"],"publication":"Physical Review Letters","date_updated":"2026-04-28T13:34:57Z","date_created":"2025-05-11T22:02:38Z","date_published":"2025-04-22T00:00:00Z","month":"04","ec_funded":1,"article_type":"original","scopus_import":"1","year":"2025","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","title":"Quantum many-body scars beyond the PXP model in Rydberg simulators","day":"22","arxiv":1,"external_id":{"pmid":["40344113"],"isi":["001480669300011"],"arxiv":["2410.18913"]},"publisher":"American Physical Society","file_date_updated":"2025-05-12T07:33:38Z","volume":134,"_id":"19664","oa_version":"Published Version","oa":1,"project":[{"grant_number":"850899","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E","name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","call_identifier":"H2020"},{"call_identifier":"H2020","name":"IST-BRIDGE: International postdoctoral program","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413"}],"citation":{"ama":"Kerschbaumer A, Ljubotina M, Serbyn M, Desaules J-YM. Quantum many-body scars beyond the PXP model in Rydberg simulators. <i>Physical Review Letters</i>. 2025;134(16). doi:<a href=\"https://doi.org/10.1103/PhysRevLett.134.160401\">10.1103/PhysRevLett.134.160401</a>","apa":"Kerschbaumer, A., Ljubotina, M., Serbyn, M., &#38; Desaules, J.-Y. M. (2025). Quantum many-body scars beyond the PXP model in Rydberg simulators. <i>Physical Review Letters</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevLett.134.160401\">https://doi.org/10.1103/PhysRevLett.134.160401</a>","short":"A. Kerschbaumer, M. Ljubotina, M. Serbyn, J.-Y.M. Desaules, Physical Review Letters 134 (2025).","chicago":"Kerschbaumer, Aron, Marko Ljubotina, Maksym Serbyn, and Jean-Yves Marc Desaules. “Quantum Many-Body Scars beyond the PXP Model in Rydberg Simulators.” <i>Physical Review Letters</i>. American Physical Society, 2025. <a href=\"https://doi.org/10.1103/PhysRevLett.134.160401\">https://doi.org/10.1103/PhysRevLett.134.160401</a>.","ieee":"A. Kerschbaumer, M. Ljubotina, M. Serbyn, and J.-Y. M. Desaules, “Quantum many-body scars beyond the PXP model in Rydberg simulators,” <i>Physical Review Letters</i>, vol. 134, no. 16. American Physical Society, 2025.","mla":"Kerschbaumer, Aron, et al. “Quantum Many-Body Scars beyond the PXP Model in Rydberg Simulators.” <i>Physical Review Letters</i>, vol. 134, no. 16, 160401, American Physical Society, 2025, doi:<a href=\"https://doi.org/10.1103/PhysRevLett.134.160401\">10.1103/PhysRevLett.134.160401</a>.","ista":"Kerschbaumer A, Ljubotina M, Serbyn M, Desaules J-YM. 2025. Quantum many-body scars beyond the PXP model in Rydberg simulators. Physical Review Letters. 134(16), 160401."},"department":[{"_id":"MaSe"}],"article_number":"160401","related_material":{"record":[{"relation":"research_data","id":"19623","status":"public"}],"link":[{"url":"https://ista.ac.at/en/news/a-sky-full-of-quantum-scars/","relation":"press_release","description":"News on ISTA website"}]},"OA_place":"publisher","pmid":1,"article_processing_charge":"Yes (via OA deal)","quality_controlled":"1","publication_status":"published","author":[{"last_name":"Kerschbaumer","id":"ade85a9c-3200-11ee-973b-91c1eb240410","first_name":"Aron","orcid":"0009-0002-2370-8661","full_name":"Kerschbaumer, Aron"},{"orcid":"0000-0003-0038-7068","full_name":"Ljubotina, Marko","first_name":"Marko","id":"F75EE9BE-5C90-11EA-905D-16643DDC885E","last_name":"Ljubotina"},{"id":"47809E7E-F248-11E8-B48F-1D18A9856A87","first_name":"Maksym","full_name":"Serbyn, Maksym","orcid":"0000-0002-2399-5827","last_name":"Serbyn"},{"id":"6c292945-a610-11ed-9eec-c3be1ad62a80","first_name":"Jean-Yves Marc","orcid":"0000-0002-3749-6375","full_name":"Desaules, Jean-Yves Marc","last_name":"Desaules"}],"type":"journal_article","isi":1,"doi":"10.1103/PhysRevLett.134.160401","intvolume":"       134","issue":"16","acknowledgement":"The authors are grateful to Zlatko Papić, Dolev Bluvstein, Nishad Maskara, Marcello Dalmonte, Thomas Iadecola, and Johannes Feldmeier for insightful discussions. A. K., M. L., and M. S. acknowledge support by the European Research Council under the European Union’s Horizon 2020 research and innovation program (Grant Agreement No. 850899). J.-Y. D. acknowledges funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 101034413.","status":"public","has_accepted_license":"1"},{"contributor":[{"last_name":"Kerschbaumer","contributor_type":"researcher","first_name":"Aron","id":"ade85a9c-3200-11ee-973b-91c1eb240410"},{"contributor_type":"researcher","first_name":"Marko","last_name":"Ljubotina"},{"last_name":"Serbyn","orcid":"0000-0002-2399-5827","contributor_type":"researcher","id":"47809E7E-F248-11E8-B48F-1D18A9856A87","first_name":"Maksym"},{"orcid":"0000-0002-3749-6375","contributor_type":"researcher","first_name":"Jean-Yves Marc","id":"6c292945-a610-11ed-9eec-c3be1ad62a80","last_name":"Desaules"}],"year":"2025","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","title":"Research Data for \"Quantum Many-Body Scars beyond the PXP Model in Rydberg Simulators\"","day":"24","ddc":["530"],"date_updated":"2026-04-28T13:34:56Z","date_created":"2025-04-24T19:58:46Z","date_published":"2025-04-24T00:00:00Z","month":"04","ec_funded":1,"keyword":["quantum many-body scars","non-equilibrium physics","Rydberg atoms"],"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png"},"corr_author":"1","file":[{"access_level":"open_access","date_created":"2025-05-05T07:14:17Z","date_updated":"2025-05-05T07:14:17Z","file_size":583478621,"relation":"main_file","file_name":"Data+Code.zip","creator":"jdesaule","checksum":"d073314c4dc95d93feaadbff188ce4a1","success":1,"file_id":"19646","content_type":"application/zip"},{"file_id":"19647","success":1,"content_type":"text/plain","creator":"jdesaule","checksum":"d386a2364fb1147ef6dad30ad029c080","file_name":"readme.txt","date_created":"2025-05-05T07:13:46Z","access_level":"open_access","date_updated":"2025-05-05T07:13:46Z","file_size":15856,"relation":"main_file"}],"abstract":[{"text":"Persistent revivals recently observed in Rydberg atom simulators have challenged our understanding of thermalization and attracted much interest to the concept of quantum many-body scars (QMBSs). QMBSs are non-thermal highly excited eigenstates that coexist with typical eigenstates in the spectrum of many-body Hamiltonians, and have since been reported in multiple theoretical models, including the so-called PXP model, approximately realized by Rydberg simulators. At the same time, questions of how common QMBSs are and in what models they are physically realized remain open. In this Letter, we demonstrate that QMBSs exist in a broader family of models that includes and generalizes PXP to longer-range constraints and states with different periodicity. We show that in each model, multiple QMBS families can be found. Each of them relies on a different approximate 𝔰𝔲⁡(2) algebra, leading to oscillatory dynamics in all cases. However, in contrast to the PXP model, their observation requires launching dynamics from weakly entangled initial states rather than from a product state. QMBSs reported here may be experimentally probed using Rydberg atom simulator in the regime of longer-range Rydberg blockades.","lang":"eng"}],"license":"https://creativecommons.org/licenses/by-nc/4.0/","doi":"10.15479/AT:ISTA:19623","has_accepted_license":"1","status":"public","acknowledgement":"The authors are grateful to Zlatko Papić, Dolev Bluvstein, Nishad Maskara, Marcello Dalmonte, Thomas Iadecola, and Johannes Feldmeier for insightful discussions. A. K., M. L., and M. S. acknowledge support by the European Research Council under the European Union’s Horizon 2020 research and innovation program (Grant Agreement No. 850899). J.-Y. D. acknowledges funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant Agreement No. 101034413.","related_material":{"record":[{"relation":"used_in_publication","status":"public","id":"19664"}]},"article_processing_charge":"No","author":[{"id":"6c292945-a610-11ed-9eec-c3be1ad62a80","first_name":"Jean-Yves Marc","full_name":"Desaules, Jean-Yves Marc","orcid":"0000-0002-3749-6375","last_name":"Desaules"}],"type":"research_data","file_date_updated":"2025-05-05T07:14:17Z","_id":"19623","oa":1,"oa_version":"None","project":[{"name":"IST-BRIDGE: International postdoctoral program","call_identifier":"H2020","grant_number":"101034413","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c"},{"grant_number":"850899","_id":"23841C26-32DE-11EA-91FC-C7463DDC885E","name":"Non-Ergodic Quantum Matter: Universality, Dynamics and Control","call_identifier":"H2020"}],"department":[{"_id":"MaSe"}],"citation":{"ieee":"J.-Y. M. Desaules, “Research Data for ‘Quantum Many-Body Scars beyond the PXP Model in Rydberg Simulators.’” Institute of Science and Technology Austria, 2025.","ista":"Desaules J-YM. 2025. Research Data for ‘Quantum Many-Body Scars beyond the PXP Model in Rydberg Simulators’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:19623\">10.15479/AT:ISTA:19623</a>.","mla":"Desaules, Jean-Yves Marc. <i>Research Data for “Quantum Many-Body Scars beyond the PXP Model in Rydberg Simulators.”</i> Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:19623\">10.15479/AT:ISTA:19623</a>.","apa":"Desaules, J.-Y. M. (2025). Research Data for “Quantum Many-Body Scars beyond the PXP Model in Rydberg Simulators.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:19623\">https://doi.org/10.15479/AT:ISTA:19623</a>","ama":"Desaules J-YM. Research Data for “Quantum Many-Body Scars beyond the PXP Model in Rydberg Simulators.” 2025. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:19623\">10.15479/AT:ISTA:19623</a>","short":"J.-Y.M. Desaules, (2025).","chicago":"Desaules, Jean-Yves Marc. “Research Data for ‘Quantum Many-Body Scars beyond the PXP Model in Rydberg Simulators.’” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT:ISTA:19623\">https://doi.org/10.15479/AT:ISTA:19623</a>."},"publisher":"Institute of Science and Technology Austria","acknowledged_ssus":[{"_id":"ScienComp"}]},{"acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"NanoFab"},{"_id":"ScienComp"},{"_id":"EM-Fac"},{"_id":"LifeSc"}],"publisher":"Springer Nature","external_id":{"pmid":["39972227"],"isi":["001428076100015"]},"department":[{"_id":"ScWa"},{"_id":"LifeSc"},{"_id":"EM-Fac"}],"citation":{"ista":"Sobarzo Ponce JCA, Pertl F, Balazs D, Costanzo T, Sauer M, Foelske A, Ostermann M, Pichler CM, Wang Y, Nagata Y, Bonn M, Waitukaitis SR. 2025. Spontaneous ordering of identical materials into a triboelectric series. Nature. 638(8051), 664–669.","mla":"Sobarzo Ponce, Juan Carlos A., et al. “Spontaneous Ordering of Identical Materials into a Triboelectric Series.” <i>Nature</i>, vol. 638, no. 8051, 664–669, Springer Nature, 2025, doi:<a href=\"https://doi.org/10.1038/s41586-024-08530-6\">10.1038/s41586-024-08530-6</a>.","ieee":"J. C. A. Sobarzo Ponce <i>et al.</i>, “Spontaneous ordering of identical materials into a triboelectric series,” <i>Nature</i>, vol. 638, no. 8051. Springer Nature, 2025.","chicago":"Sobarzo Ponce, Juan Carlos A, Felix Pertl, Daniel Balazs, Tommaso Costanzo, Markus Sauer, Annette Foelske, Markus Ostermann, et al. “Spontaneous Ordering of Identical Materials into a Triboelectric Series.” <i>Nature</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41586-024-08530-6\">https://doi.org/10.1038/s41586-024-08530-6</a>.","short":"J.C.A. Sobarzo Ponce, F. Pertl, D. Balazs, T. Costanzo, M. Sauer, A. Foelske, M. Ostermann, C.M. Pichler, Y. Wang, Y. Nagata, M. Bonn, S.R. Waitukaitis, Nature 638 (2025).","apa":"Sobarzo Ponce, J. C. A., Pertl, F., Balazs, D., Costanzo, T., Sauer, M., Foelske, A., … Waitukaitis, S. R. (2025). Spontaneous ordering of identical materials into a triboelectric series. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-024-08530-6\">https://doi.org/10.1038/s41586-024-08530-6</a>","ama":"Sobarzo Ponce JCA, Pertl F, Balazs D, et al. Spontaneous ordering of identical materials into a triboelectric series. <i>Nature</i>. 2025;638(8051). doi:<a href=\"https://doi.org/10.1038/s41586-024-08530-6\">10.1038/s41586-024-08530-6</a>"},"project":[{"call_identifier":"H2020","name":"Tribocharge: a multi-scale approach to an enduring problem in physics","_id":"0aa60e99-070f-11eb-9043-a6de6bdc3afa","grant_number":"949120"}],"oa_version":"Published Version","_id":"19278","oa":1,"volume":638,"file_date_updated":"2025-03-04T10:05:18Z","type":"journal_article","publication_status":"published","author":[{"full_name":"Sobarzo Ponce, Juan Carlos A","id":"4B807D68-AE37-11E9-AC72-31CAE5697425","first_name":"Juan Carlos A","last_name":"Sobarzo Ponce"},{"orcid":"0000-0003-0463-5794","full_name":"Pertl, Felix","first_name":"Felix","id":"6313aec0-15b2-11ec-abd3-ed67d16139af","last_name":"Pertl"},{"last_name":"Balazs","first_name":"Daniel","id":"302BADF6-85FC-11EA-9E3B-B9493DDC885E","full_name":"Balazs, Daniel","orcid":"0000-0001-7597-043X"},{"orcid":"0000-0001-9732-3815","full_name":"Costanzo, Tommaso","first_name":"Tommaso","id":"D93824F4-D9BA-11E9-BB12-F207E6697425","last_name":"Costanzo"},{"first_name":"Markus","full_name":"Sauer, Markus","last_name":"Sauer"},{"last_name":"Foelske","first_name":"Annette","full_name":"Foelske, Annette"},{"first_name":"Markus","full_name":"Ostermann, Markus","last_name":"Ostermann"},{"last_name":"Pichler","full_name":"Pichler, Christian M.","first_name":"Christian M."},{"last_name":"Wang","full_name":"Wang, Yongkang","first_name":"Yongkang"},{"last_name":"Nagata","first_name":"Yuki","full_name":"Nagata, Yuki"},{"full_name":"Bonn, Mischa","first_name":"Mischa","last_name":"Bonn"},{"first_name":"Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2299-3176","full_name":"Waitukaitis, Scott R","last_name":"Waitukaitis"}],"article_processing_charge":"Yes (via OA deal)","quality_controlled":"1","pmid":1,"OA_place":"publisher","related_material":{"link":[{"description":"News on ISTA website","url":"https://ista.ac.at/en/news/an-electrifying-turn-in-an-age-old-quest/","relation":"press_release"}],"record":[{"relation":"dissertation_contains","id":"20203","status":"public"}]},"article_number":"664-669","issue":"8051","status":"public","has_accepted_license":"1","acknowledgement":"This project has received financing from the European Research Council grant agreement no. 949120 under the European Union’s Horizon 2020 research and innovation programme. The Analytical Instrumentation Center of the TU Wien acknowledges support by the FFG project ‘ELSA’ under grant no. 884672. C.M.P. and M.O. acknowledge the state of Lower Austria and the European Regional Development Fund under grant no. WST3-F-542638/004-2021. This research was supported by the Scientific Service Units of the Institute of Science and Technology Austria through resources provided by the Miba Machine Shop, Nanofabrication Facility, Scientific Computing facility, Electron Microscopy Facility and Lab Support Facility. We thank J. Garcia-Suarez and G. Anciaux for the suggestion to look into the roughness power spectral density. We thank I.-M. Strugaru for help with testing the device for Young’s modulus measurements. Open access funding provided by Institute of Science and Technology (IST Austria).","intvolume":"       638","doi":"10.1038/s41586-024-08530-6","isi":1,"publication_identifier":{"issn":["0028-0836"],"eissn":["1476-4687"]},"abstract":[{"text":"When two insulating, neutral materials are contacted and separated, they exchange electrical charge1. Experiments have long suggested that this ‘contact electrification’ is transitive, with different materials ordering into ‘triboelectric series’ based on the sign of charge acquired2. At the same time, the effect is plagued by unpredictability, preventing consensus on the mechanism and casting doubt on the rhyme and reason that series imply3. Here we expose an unanticipated connection between the unpredictability and order in contact electrification: nominally identical materials initially exchange charge randomly and intransitively, but—over repeated experiments—order into triboelectric series. We find that this evolution is driven by the act of contact itself—samples with more contacts in their history charge negatively to ones with fewer contacts. Capturing this ‘contact bias’ in a minimal model, we recreate both the initial randomness and ultimate order in numerical simulations and use it experimentally to force the appearance of a triboelectric series of our choosing. With a set of surface-sensitive techniques to search for the underlying alterations contact creates, we only find evidence of nanoscale morphological changes, pointing to a mechanism strongly coupled with mechanics. Our results highlight the centrality of contact history in contact electrification and suggest that focusing on the unpredictability that has long plagued the effect may hold the key to understanding it.","lang":"eng"}],"OA_type":"hybrid","file":[{"file_id":"19289","success":1,"content_type":"application/pdf","creator":"dernst","checksum":"fecf302274dd3218d3e7dd22f39a6c0c","file_name":"2025_Nature_Sobarzo.pdf","access_level":"open_access","date_created":"2025-03-04T10:05:18Z","file_size":3807415,"date_updated":"2025-03-04T10:05:18Z","relation":"main_file"}],"corr_author":"1","language":[{"iso":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"ec_funded":1,"month":"02","date_published":"2025-02-20T00:00:00Z","date_created":"2025-03-02T23:01:52Z","date_updated":"2026-04-28T13:44:56Z","publication":"Nature","ddc":["530"],"day":"20","title":"Spontaneous ordering of identical materials into a triboelectric series","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","scopus_import":"1","article_type":"original","year":"2025"},{"language":[{"iso":"eng"}],"corr_author":"1","OA_type":"hybrid","file":[{"file_name":"2025_Nature_Chen.pdf","checksum":"f5f18081003e7a1b8e372ecb7da82e7d","creator":"dernst","content_type":"application/pdf","file_id":"20132","success":1,"file_size":13549245,"date_updated":"2025-08-05T12:29:35Z","relation":"main_file","date_created":"2025-08-05T12:29:35Z","access_level":"open_access"}],"abstract":[{"text":"The phytohormone auxin (Aux) is a principal endogenous developmental signal in plants. It mediates transcriptional reprogramming by a well-established canonical signalling mechanism. TIR1/AFB auxin receptors are F-box subunits of an ubiquitin ligase complex; after auxin perception, they associate with Aux/IAA transcriptional repressors and ubiquitinate them for degradation, thus enabling the activation of auxin response factor (ARF) transcription factors1,2,3. Here we revise this paradigm by showing that without TIR1 adenylate cyclase (AC) activity4, auxin-induced degradation of Aux/IAAs is not sufficient to mediate the transcriptional auxin response. Abolishing the TIR1 AC activity does not affect auxin-induced degradation of Aux/IAAs but renders TIR1 non-functional in mediating transcriptional reprogramming and auxin-regulated development, including shoot, root, root hair growth and lateral root formation. Transgenic plants show that local cAMP production in the vicinity of the Aux/IAA–ARF complex by unrelated AC enzymes bypasses the need for auxin perception and is sufficient to induce ARF-mediated transcription. These discoveries revise the canonical model of auxin signalling and establish TIR1/AFB-produced cAMP as a second messenger essential for transcriptional reprograming.","lang":"eng"}],"publication_identifier":{"eissn":["1476-4687"],"issn":["0028-0836"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"ddc":["580"],"page":"1011-1016","date_created":"2025-03-19T09:44:39Z","date_updated":"2026-04-28T13:42:45Z","publication":"Nature","date_published":"2025-04-24T00:00:00Z","month":"04","article_type":"original","year":"2025","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","title":"TIR1-produced cAMP as a second messenger in transcriptional auxin signalling","day":"24","publisher":"Springer Nature","external_id":{"isi":["001437493900001"],"pmid":["40044868"]},"acknowledged_ssus":[{"_id":"LifeSc"},{"_id":"Bio"}],"file_date_updated":"2025-08-05T12:29:35Z","volume":640,"_id":"19421","oa_version":"Published Version","oa":1,"department":[{"_id":"JiFr"}],"citation":{"chicago":"Chen, Huihuang, Linlin Qi, Minxia Zou, Mengting Lu, M Kwiatkowski, Yuanrong Pei, K Jaworski, and Jiří Friml. “TIR1-Produced CAMP as a Second Messenger in Transcriptional Auxin Signalling.” <i>Nature</i>. Springer Nature, 2025. <a href=\"https://doi.org/10.1038/s41586-025-08669-w\">https://doi.org/10.1038/s41586-025-08669-w</a>.","short":"H. Chen, L. Qi, M. Zou, M. Lu, M. Kwiatkowski, Y. Pei, K. Jaworski, J. Friml, Nature 640 (2025) 1011–1016.","apa":"Chen, H., Qi, L., Zou, M., Lu, M., Kwiatkowski, M., Pei, Y., … Friml, J. (2025). TIR1-produced cAMP as a second messenger in transcriptional auxin signalling. <i>Nature</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41586-025-08669-w\">https://doi.org/10.1038/s41586-025-08669-w</a>","ama":"Chen H, Qi L, Zou M, et al. TIR1-produced cAMP as a second messenger in transcriptional auxin signalling. <i>Nature</i>. 2025;640:1011-1016. doi:<a href=\"https://doi.org/10.1038/s41586-025-08669-w\">10.1038/s41586-025-08669-w</a>","mla":"Chen, Huihuang, et al. “TIR1-Produced CAMP as a Second Messenger in Transcriptional Auxin Signalling.” <i>Nature</i>, vol. 640, Springer Nature, 2025, pp. 1011–16, doi:<a href=\"https://doi.org/10.1038/s41586-025-08669-w\">10.1038/s41586-025-08669-w</a>.","ista":"Chen H, Qi L, Zou M, Lu M, Kwiatkowski M, Pei Y, Jaworski K, Friml J. 2025. TIR1-produced cAMP as a second messenger in transcriptional auxin signalling. Nature. 640, 1011–1016.","ieee":"H. Chen <i>et al.</i>, “TIR1-produced cAMP as a second messenger in transcriptional auxin signalling,” <i>Nature</i>, vol. 640. Springer Nature, pp. 1011–1016, 2025."},"PlanS_conform":"1","project":[{"grant_number":"P37051","_id":"7bcece63-9f16-11ee-852c-ae94e099eeb6","name":"Guanylate cyclase activity of TIR1/AFBs auxin receptors"}],"related_material":{"record":[{"status":"public","id":"19478","relation":"dissertation_contains"}],"link":[{"description":"News on ISTA website","url":"https://ista.ac.at/en/news/updating-the-textbook/","relation":"press_release"}]},"OA_place":"publisher","quality_controlled":"1","article_processing_charge":"Yes (via OA deal)","pmid":1,"publication_status":"published","author":[{"full_name":"Chen, Huihuang","id":"83c96512-15b2-11ec-abd3-b7eede36184f","first_name":"Huihuang","last_name":"Chen"},{"last_name":"Qi","first_name":"Linlin","id":"44B04502-A9ED-11E9-B6FC-583AE6697425","full_name":"Qi, Linlin","orcid":"0000-0001-5187-8401"},{"last_name":"Zou","first_name":"Minxia","id":"5c243f41-03f3-11ec-841c-96faf48a7ef9","full_name":"Zou, Minxia"},{"first_name":"Mengting","id":"a8198a14-1ffe-11ee-8b67-d2bdff9d9178","full_name":"Lu, Mengting","last_name":"Lu"},{"last_name":"Kwiatkowski","full_name":"Kwiatkowski, M","first_name":"M"},{"full_name":"Pei, Yuanrong","id":"98605edc-6ce7-11ee-95f3-cc16b866efcd","first_name":"Yuanrong","last_name":"Pei"},{"last_name":"Jaworski","first_name":"K","full_name":"Jaworski, K"},{"last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","first_name":"Jiří","full_name":"Friml, Jiří","orcid":"0000-0002-8302-7596"}],"type":"journal_article","isi":1,"intvolume":"       640","doi":"10.1038/s41586-025-08669-w","has_accepted_license":"1","status":"public","acknowledgement":"We are grateful to J. Callis and H.-Q. Yang for sharing materials and to M. Estelle and S. Kepinski for inspiring discussions. This research was supported by the Laboratory Support Facility, the Plant Facility and the Imaging and Optics Facility of the Institute of Science and Technology Austria. This project has received funding from the European Research Council (101142681 CYNIPS) and Austrian Science Fund (P 37051-B). L.Q. was supported by the National Natural Science Foundation of China (grant no. 32470327). M.Z. was supported by the Interdisciplinary Project Committee of the Institute of Science and Technology Austria, and Y.P. was supported by an EMBO Postdoctoral Fellowship (ALTF 38-2023). Open access funding provided by Institute of Science and Technology (IST Austria)."},{"degree_awarded":"PhD","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"corr_author":"1","alternative_title":["ISTA Thesis"],"language":[{"iso":"eng"}],"publication_identifier":{"isbn":["978-3-99078-062-6"],"issn":["2663-337X"]},"abstract":[{"text":"Tribocharging, or contact electrification, is the phenomenon in which two initially neutral materials exchange electric charge through contact and subsequent separation. While it is widely observed in everyday life and crucial to numerous natural processes, even the most basic aspects of tribocharging are still a mystery—what are the charge carriers involved and what drives their exchange? This work spans three separate projects that address different aspects of tribocharging. First, we introduce a novel strategy combining Finite Element Method (FEM) simulations with Kelvin Probe Force Microscopy (KPFM) to quantitatively extract surface charge density from surface voltage maps. Second, we present a simple theoretical model that allows for the existence of triboelectric cycles, under the assumption that multiple charge carrying species are involved. Third, we present experimental evidence that identical materials can spontaneously evolve into a triboelectric series, driven by contact history. Modeling this behavior enables the replication of experimental results with simulations, and even experimentally forcing the appearance of a pre-designed series by manipulating contact history. Together, the findings from these projects challenge traditional views on tribocharging, provide new tools for probing it, and open up new avenues of research—all with the hopes of bringing us closer to understanding this puzzling phenomenon.","lang":"eng"}],"file":[{"file_name":"2025_Sobarzo_JuanCarlos_Thesis.pdf","checksum":"661b9d3786cfc985be811befc3262bf5","creator":"jsobarzo","content_type":"application/pdf","success":1,"file_id":"20237","date_updated":"2025-08-27T14:50:32Z","relation":"main_file","file_size":12667200,"access_level":"open_access","date_created":"2025-08-27T14:50:32Z"},{"file_name":"2025_Sobarzo_JuanCarlos_Thesis.zip","checksum":"ca2f24e6c3b55912982521707552a0f5","creator":"jsobarzo","content_type":"application/x-zip-compressed","file_id":"20238","file_size":18940521,"relation":"source_file","date_updated":"2025-08-28T08:19:07Z","access_level":"closed","date_created":"2025-08-27T14:50:32Z"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","year":"2025","day":"27","title":"Tribocharging of identical insulators : Triboelectric series, triboelectric cycles and surface charges","date_updated":"2026-04-28T13:44:56Z","date_created":"2025-08-21T11:42:59Z","page":"96","ddc":["530"],"month":"08","ec_funded":1,"date_published":"2025-08-27T00:00:00Z","oa_version":"Published Version","_id":"20203","oa":1,"file_date_updated":"2025-08-28T08:19:07Z","project":[{"call_identifier":"H2020","name":"Tribocharge: a multi-scale approach to an enduring problem in physics","_id":"0aa60e99-070f-11eb-9043-a6de6bdc3afa","grant_number":"949120"}],"citation":{"ieee":"J. C. A. Sobarzo Ponce, “Tribocharging of identical insulators : Triboelectric series, triboelectric cycles and surface charges,” Institute of Science and Technology Austria, 2025.","mla":"Sobarzo Ponce, Juan Carlos A. <i>Tribocharging of Identical Insulators : Triboelectric Series, Triboelectric Cycles and Surface Charges</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20203\">10.15479/AT-ISTA-20203</a>.","ista":"Sobarzo Ponce JCA. 2025. Tribocharging of identical insulators : Triboelectric series, triboelectric cycles and surface charges. Institute of Science and Technology Austria.","ama":"Sobarzo Ponce JCA. Tribocharging of identical insulators : Triboelectric series, triboelectric cycles and surface charges. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20203\">10.15479/AT-ISTA-20203</a>","short":"J.C.A. Sobarzo Ponce, Tribocharging of Identical Insulators : Triboelectric Series, Triboelectric Cycles and Surface Charges, Institute of Science and Technology Austria, 2025.","apa":"Sobarzo Ponce, J. C. A. (2025). <i>Tribocharging of identical insulators : Triboelectric series, triboelectric cycles and surface charges</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20203\">https://doi.org/10.15479/AT-ISTA-20203</a>","chicago":"Sobarzo Ponce, Juan Carlos A. “Tribocharging of Identical Insulators : Triboelectric Series, Triboelectric Cycles and Surface Charges.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20203\">https://doi.org/10.15479/AT-ISTA-20203</a>."},"department":[{"_id":"GradSch"},{"_id":"ScWa"}],"acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"NanoFab"},{"_id":"EM-Fac"},{"_id":"LifeSc"},{"_id":"ScienComp"}],"publisher":"Institute of Science and Technology Austria","doi":"10.15479/AT-ISTA-20203","status":"public","has_accepted_license":"1","acknowledgement":"The project in Chapter 2 has received funding from the European Research Council (ERC) under\r\nthe European Union’s Horizon 2020 research and innovation programme (Grant Agreement\r\nNo. 949120).\r\nThe project in Chapter 3 has received funding from the European Research Council (ERC) under\r\nthe European Union’s Horizon 2020 research and innovation programme (Grant Agreement\r\nNo. 949120).\r\nThe project in Chapter 4 has received financing from the European Research Council grant\r\nagreement No. 949120 under the European Union’s Horizon 2020 research and innovation\r\nprogramme. The Analytical Instrumentation Center of the TU Wien acknowledges support by\r\nthe FFG project ‘ELSA’ under grant no. 884672. C.M.P. and M.O. acknowledge the state\r\nof Lower Austria and the European Regional Development Fund under grant no. WST3-F542638/004-2021.\r\n","article_processing_charge":"No","OA_place":"publisher","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"12109"},{"status":"public","id":"15322","relation":"part_of_dissertation"},{"relation":"part_of_dissertation","status":"public","id":"19278"}]},"supervisor":[{"last_name":"Waitukaitis","full_name":"Waitukaitis, Scott R","orcid":"0000-0002-2299-3176","first_name":"Scott R","id":"3A1FFC16-F248-11E8-B48F-1D18A9856A87"}],"type":"dissertation","author":[{"last_name":"Sobarzo Ponce","full_name":"Sobarzo Ponce, Juan Carlos A","id":"4B807D68-AE37-11E9-AC72-31CAE5697425","first_name":"Juan Carlos A"}],"publication_status":"published"},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"publication_identifier":{"issn":["0896-6273"],"eissn":["1097-4199"]},"abstract":[{"lang":"eng","text":"Hippocampal reactivation of waking neuronal assemblies in sleep is a key initial step of systems consolidation. Nevertheless, it is unclear whether reactivated assemblies are static or whether they reorganize gradually over prolonged sleep. We tracked reactivated CA1 assembly patterns over ∼20 h of sleep/rest periods and related them to assemblies seen before or after in a spatial learning paradigm using rats. We found that reactivated assembly patterns were gradually transformed and started to resemble those seen in the subsequent recall session. Periods of rapid eye movement (REM) sleep and non-REM (NREM) had antagonistic roles: whereas NREM accelerated the assembly drift, REM countered it. Moreover, only a subset of rate-changing pyramidal cells contributed to the drift, whereas stable-firing-rate cells maintained unaltered reactivation patterns. Our data suggest that prolonged sleep promotes the spontaneous reorganization of spatial assemblies, which can contribute to daily cognitive map changes or encoding new learning situations."}],"OA_type":"hybrid","file":[{"relation":"main_file","file_size":27047730,"date_updated":"2025-08-05T12:43:44Z","date_created":"2025-08-05T12:43:44Z","access_level":"open_access","content_type":"application/pdf","success":1,"file_id":"20133","checksum":"5e57852a45a78a751dd3a5e807bf015f","creator":"dernst","file_name":"2025_Neuron_Bollmann.pdf"}],"corr_author":"1","language":[{"iso":"eng"}],"day":"07","title":"Sleep stages antagonistically modulate reactivation drift","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","year":"2025","scopus_import":"1","article_type":"original","ec_funded":1,"month":"05","date_published":"2025-05-07T00:00:00Z","date_created":"2025-04-06T22:01:32Z","date_updated":"2026-04-28T13:39:22Z","publication":"Neuron","ddc":["570"],"page":"1446-1459.e6","PlanS_conform":"1","citation":{"ieee":"L. Bollmann, P. Baracskay, F. Stella, and J. L. Csicsvari, “Sleep stages antagonistically modulate reactivation drift,” <i>Neuron</i>, vol. 113, no. 9. Elsevier, p. 1446–1459.e6, 2025.","mla":"Bollmann, Lars, et al. “Sleep Stages Antagonistically Modulate Reactivation Drift.” <i>Neuron</i>, vol. 113, no. 9, Elsevier, 2025, p. 1446–1459.e6, doi:<a href=\"https://doi.org/10.1016/j.neuron.2025.02.025\">10.1016/j.neuron.2025.02.025</a>.","ista":"Bollmann L, Baracskay P, Stella F, Csicsvari JL. 2025. Sleep stages antagonistically modulate reactivation drift. Neuron. 113(9), 1446–1459.e6.","apa":"Bollmann, L., Baracskay, P., Stella, F., &#38; Csicsvari, J. L. (2025). Sleep stages antagonistically modulate reactivation drift. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2025.02.025\">https://doi.org/10.1016/j.neuron.2025.02.025</a>","ama":"Bollmann L, Baracskay P, Stella F, Csicsvari JL. Sleep stages antagonistically modulate reactivation drift. <i>Neuron</i>. 2025;113(9):1446-1459.e6. doi:<a href=\"https://doi.org/10.1016/j.neuron.2025.02.025\">10.1016/j.neuron.2025.02.025</a>","short":"L. Bollmann, P. Baracskay, F. Stella, J.L. Csicsvari, Neuron 113 (2025) 1446–1459.e6.","chicago":"Bollmann, Lars, Peter Baracskay, Federico Stella, and Jozsef L Csicsvari. “Sleep Stages Antagonistically Modulate Reactivation Drift.” <i>Neuron</i>. Elsevier, 2025. <a href=\"https://doi.org/10.1016/j.neuron.2025.02.025\">https://doi.org/10.1016/j.neuron.2025.02.025</a>."},"department":[{"_id":"JoCs"}],"project":[{"call_identifier":"FP7","name":"Memory-related information processing in neuronal circuits of the hippocampus and entorhinal cortex","grant_number":"281511","_id":"257A4776-B435-11E9-9278-68D0E5697425"},{"_id":"2654F984-B435-11E9-9278-68D0E5697425","grant_number":"I 3713-B27","name":"Interneuro plasticity during spatial learning","call_identifier":"FWF"}],"oa_version":"Published Version","_id":"19506","oa":1,"volume":113,"file_date_updated":"2025-08-05T12:43:44Z","publisher":"Elsevier","external_id":{"isi":["001510440400001"],"pmid":["40132588"]},"status":"public","issue":"9","acknowledgement":"We thank Andrea Cumpelik, Lisa Genzel, and Freya Ólafsdóttir for comments on an earlier version of the manuscript. This work was supported by the European Research Council (281511) and Austrian Science Fund (FWF I3713).","has_accepted_license":"1","intvolume":"       113","doi":"10.1016/j.neuron.2025.02.025","isi":1,"type":"journal_article","publication_status":"published","author":[{"last_name":"Bollmann","id":"47AD3038-F248-11E8-B48F-1D18A9856A87","first_name":"Lars","full_name":"Bollmann, Lars"},{"full_name":"Baracskay, Peter","first_name":"Peter","id":"361CC00E-F248-11E8-B48F-1D18A9856A87","last_name":"Baracskay"},{"last_name":"Stella","id":"39AF1E74-F248-11E8-B48F-1D18A9856A87","first_name":"Federico","orcid":"0000-0001-9439-3148","full_name":"Stella, Federico"},{"id":"3FA14672-F248-11E8-B48F-1D18A9856A87","first_name":"Jozsef L","full_name":"Csicsvari, Jozsef L","orcid":"0000-0002-5193-4036","last_name":"Csicsvari"}],"article_processing_charge":"Yes (via OA deal)","quality_controlled":"1","pmid":1,"related_material":{"link":[{"description":"News on ISTA website","relation":"press_release","url":"https://ista.ac.at/en/news/how-sleep-keeps-our-memories-fresh/"}]},"OA_place":"publisher"},{"article_number":"e2419273122","OA_place":"publisher","related_material":{"link":[{"url":"https://github.com/smml1996/algorithm_synthesis","relation":"software"},{"description":"News on ISTA website","relation":"press_release","url":"https://ista.ac.at/en/news/hardware-optimal-quantum-algorithms/"}]},"pmid":1,"quality_controlled":"1","article_processing_charge":"Yes (in subscription journal)","publication_status":"published","author":[{"last_name":"Muroya Lei","id":"a376de31-8972-11ed-ae7b-d0251c13c8ff","first_name":"Stefanie","full_name":"Muroya Lei, Stefanie"},{"last_name":"Chatterjee","full_name":"Chatterjee, Krishnendu","orcid":"0000-0002-4561-241X","first_name":"Krishnendu","id":"2E5DCA20-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Henzinger","id":"40876CD8-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas A","orcid":"0000-0002-2985-7724","full_name":"Henzinger, Thomas A"}],"type":"journal_article","isi":1,"doi":"10.1073/pnas.2419273122","intvolume":"       122","issue":"12","has_accepted_license":"1","status":"public","acknowledgement":"We thank the reviewers. In particular, they inspired us to analyze the reset and state-preparation problems, to compute optimal qubit mappings, and to apply our method to a quantum error correction scheme that includes both bitflip and phaseflip corrections. We also thank Raimundo Saona and Marek Chalupa for their time spent in insightful discussions. This research was partially supported by the European Research Council CoG 863818 (ForM-SMArt) grant.","external_id":{"isi":["001459435600001"],"pmid":["40106357"]},"publisher":"National Academy of Sciences","volume":122,"file_date_updated":"2025-04-07T11:42:22Z","_id":"19499","oa_version":"Published Version","oa":1,"project":[{"call_identifier":"H2020","name":"Formal Methods for Stochastic Models: Algorithms and Applications","_id":"0599E47C-7A3F-11EA-A408-12923DDC885E","grant_number":"863818"}],"department":[{"_id":"KrCh"},{"_id":"ToHe"}],"citation":{"chicago":"Muroya Lei, Stefanie, Krishnendu Chatterjee, and Thomas A Henzinger. “Hardware-Optimal Quantum Algorithms.” <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences, 2025. <a href=\"https://doi.org/10.1073/pnas.2419273122\">https://doi.org/10.1073/pnas.2419273122</a>.","ama":"Muroya Lei S, Chatterjee K, Henzinger TA. Hardware-optimal quantum algorithms. <i>Proceedings of the National Academy of Sciences</i>. 2025;122(12). doi:<a href=\"https://doi.org/10.1073/pnas.2419273122\">10.1073/pnas.2419273122</a>","apa":"Muroya Lei, S., Chatterjee, K., &#38; Henzinger, T. A. (2025). Hardware-optimal quantum algorithms. <i>Proceedings of the National Academy of Sciences</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2419273122\">https://doi.org/10.1073/pnas.2419273122</a>","short":"S. Muroya Lei, K. Chatterjee, T.A. Henzinger, Proceedings of the National Academy of Sciences 122 (2025).","ista":"Muroya Lei S, Chatterjee K, Henzinger TA. 2025. Hardware-optimal quantum algorithms. Proceedings of the National Academy of Sciences. 122(12), e2419273122.","mla":"Muroya Lei, Stefanie, et al. “Hardware-Optimal Quantum Algorithms.” <i>Proceedings of the National Academy of Sciences</i>, vol. 122, no. 12, e2419273122, National Academy of Sciences, 2025, doi:<a href=\"https://doi.org/10.1073/pnas.2419273122\">10.1073/pnas.2419273122</a>.","ieee":"S. Muroya Lei, K. Chatterjee, and T. A. Henzinger, “Hardware-optimal quantum algorithms,” <i>Proceedings of the National Academy of Sciences</i>, vol. 122, no. 12. National Academy of Sciences, 2025."},"ddc":["000"],"publication":"Proceedings of the National Academy of Sciences","date_updated":"2026-04-28T13:41:14Z","date_created":"2025-04-06T22:01:32Z","date_published":"2025-03-25T00:00:00Z","month":"03","ec_funded":1,"scopus_import":"1","article_type":"original","year":"2025","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","title":"Hardware-optimal quantum algorithms","day":"25","language":[{"iso":"eng"}],"corr_author":"1","file":[{"date_created":"2025-04-07T11:42:22Z","access_level":"open_access","relation":"main_file","date_updated":"2025-04-07T11:42:22Z","file_size":6805668,"success":1,"file_id":"19524","content_type":"application/pdf","file_name":"2025_PNAS_Muroya.pdf","creator":"dernst","checksum":"83501b8a65ee5fdd3f5604fc28eddc22"}],"OA_type":"hybrid","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"abstract":[{"text":"Quantum hardware is inherently fragile and noisy. We find that the accuracy of traditional quantum error correction algorithms can be improved depending on the hardware. Given different hardware specifications, we automatically synthesize hardware-optimal algorithms for parity correction, qubit resetting, and GHZ (Greenberger–Horne–Zeilinger) state preparation. Using stochastic techniques from computer science, our method presents a computational tool to compute exact accuracy guarantees and synthesize optimal algorithms that are often different from traditional ones. We also show that improvements can be gained with respect to the Qiskit transpiler as we compute the hardware-optimal qubit mapping for the GHZ state-preparation problem.","lang":"eng"}],"tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"}},{"type":"journal_article","author":[{"first_name":"Shengduo","id":"12ab8624-4c8a-11ec-9e11-e1ac2438f22f","full_name":"Xu, Shengduo","last_name":"Xu"},{"last_name":"Horta","full_name":"Horta, Sharona","first_name":"Sharona","id":"03a7e858-01b1-11ec-8b71-99ae6c4a05bc"},{"full_name":"Lawal, Abayomi Q","first_name":"Abayomi Q","id":"5bdaf946-5355-11ee-ae5a-8061700bd605","last_name":"Lawal"},{"full_name":"Maji, Krishnendu","first_name":"Krishnendu","id":"76bc9e9f-ba0b-11ee-8184-90edabd17a58","last_name":"Maji"},{"last_name":"Lorion","full_name":"Lorion, Magali","first_name":"Magali","id":"bc07ac4d-142e-11eb-a9d5-d72db792859d"},{"last_name":"Ibáñez","id":"43C61214-F248-11E8-B48F-1D18A9856A87","first_name":"Maria","full_name":"Ibáñez, Maria","orcid":"0000-0001-5013-2843"}],"publication_status":"published","article_processing_charge":"No","quality_controlled":"1","pmid":1,"related_material":{"link":[{"relation":"press_release","url":"https://ista.ac.at/en/news/cooling-materials-out-of-the-3d-printer/","description":"News on ISTA website"}]},"issue":"6736","acknowledgement":"This work was supported by the Scientific Service Units (SSU) of ISTA through resources provided by the Electron Microscopy Facility (EMF), the Lab Support Facility (LSF), the Communication & Events facility, the Miba Machine Shop, and the Nanofabrication Facility (NNF). The Mechanical Response of Materials (MRM) Service Unit of the Technical University of Wien is acknowledged for Mechanical tests. X. L. Yan and S. Bühler-Paschen (Institute of Solid-State Physics, Technical University of Wien) are acknowledged for granting us access to their equipment, which allowed us to perform independent corroborative measurements. M. Qin is acknowledged for help with Au deposition and wire bonding for samples used for PPMS measurements. The lab of B. Hof and Z. Lu is acknowledged for help with rheological properties measurements. The members of the Ibáñez research group, especially N. Jakhar, C. Fiedler, and T. Kleinhanns, are acknowledged for their feedback on the manuscript and fruitful discussions. This work was financially supported by ISTA and the Werner Siemens Foundation.","status":"public","intvolume":"       387","doi":"10.1126/science.ads0426","isi":1,"acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"LifeSc"},{"_id":"M-Shop"},{"_id":"NanoFab"}],"publisher":"AAAS","external_id":{"pmid":["39977506"],"isi":["001514422600026"]},"department":[{"_id":"MaIb"}],"citation":{"mla":"Xu, Shengduo, et al. “Interfacial Bonding Enhances Thermoelectric Cooling in 3D-Printed Materials.” <i>Science</i>, vol. 387, no. 6736, AAAS, 2025, pp. 845–50, doi:<a href=\"https://doi.org/10.1126/science.ads0426\">10.1126/science.ads0426</a>.","ista":"Xu S, Horta S, Lawal AQ, Maji K, Lorion M, Ibáñez M. 2025. Interfacial bonding enhances thermoelectric cooling in 3D-printed materials. Science. 387(6736), 845–850.","ieee":"S. Xu, S. Horta, A. Q. Lawal, K. Maji, M. Lorion, and M. Ibáñez, “Interfacial bonding enhances thermoelectric cooling in 3D-printed materials,” <i>Science</i>, vol. 387, no. 6736. AAAS, pp. 845–850, 2025.","chicago":"Xu, Shengduo, Sharona Horta, Abayomi Q Lawal, Krishnendu Maji, Magali Lorion, and Maria Ibáñez. “Interfacial Bonding Enhances Thermoelectric Cooling in 3D-Printed Materials.” <i>Science</i>. AAAS, 2025. <a href=\"https://doi.org/10.1126/science.ads0426\">https://doi.org/10.1126/science.ads0426</a>.","apa":"Xu, S., Horta, S., Lawal, A. Q., Maji, K., Lorion, M., &#38; Ibáñez, M. (2025). Interfacial bonding enhances thermoelectric cooling in 3D-printed materials. <i>Science</i>. AAAS. <a href=\"https://doi.org/10.1126/science.ads0426\">https://doi.org/10.1126/science.ads0426</a>","short":"S. Xu, S. Horta, A.Q. Lawal, K. Maji, M. Lorion, M. Ibáñez, Science 387 (2025) 845–850.","ama":"Xu S, Horta S, Lawal AQ, Maji K, Lorion M, Ibáñez M. Interfacial bonding enhances thermoelectric cooling in 3D-printed materials. <i>Science</i>. 2025;387(6736):845-850. doi:<a href=\"https://doi.org/10.1126/science.ads0426\">10.1126/science.ads0426</a>"},"project":[{"_id":"9B8F7476-BA93-11EA-9121-9846C619BF3A","name":"HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery"}],"oa_version":"None","_id":"19364","volume":387,"month":"02","date_published":"2025-02-20T00:00:00Z","date_created":"2025-03-09T23:01:26Z","date_updated":"2026-04-28T13:43:53Z","publication":"Science","page":"845-850","day":"20","title":"Interfacial bonding enhances thermoelectric cooling in 3D-printed materials","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","year":"2025","scopus_import":"1","article_type":"original","abstract":[{"lang":"eng","text":"Thermoelectric coolers (TECs) are pivotal in modern heat management but face limitations in efficiency and manufacturing scalability. We address these challenges by using an extrusion-based 3D printing technique to fabricate high-performance thermoelectric materials. Our ink formulations ensure the integrity of the 3D-printed structure and effective particle bonding during sintering, achieving record-high figure of merit (zT) values of 1.42 for p-type bismuth antimony telluride [(Bi,Sb)2Te3] and 1.3 for n-type silver selenide (Ag2Se) materials at room temperature. The resulting TEC demonstrates a cooling temperature gradient of 50°C in air. Moreover, this scalable and cost-effective method circumvents energy-intensive and time-consuming steps, such as ingot preparation and subsequently machining processes, offering a transformative solution for thermoelectric device production and heralding a new era of efficient and sustainable thermoelectric technologies."}],"publication_identifier":{"eissn":["1095-9203"]},"OA_type":"closed access","corr_author":"1","language":[{"iso":"eng"}]},{"status":"public","acknowledgement":"This project was funded by the European Research Council Advanced Grant (ETAP-742985),\r\nEuropean Research Council (ERC; 101142681 CYNIPS), Austrian Science Fund (FWF; P\r\n37051-B).","has_accepted_license":"1","doi":"10.15479/AT-ISTA-19478","author":[{"full_name":"Chen, Huihuang","first_name":"Huihuang","id":"83c96512-15b2-11ec-abd3-b7eede36184f","last_name":"Chen"}],"publication_status":"published","type":"dissertation","supervisor":[{"orcid":"0000-0002-8302-7596","full_name":"Friml, Jiří","first_name":"Jiří","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml"}],"related_material":{"record":[{"relation":"part_of_dissertation","id":"13212","status":"public"},{"relation":"part_of_dissertation","status":"public","id":"19421"}]},"OA_place":"publisher","article_processing_charge":"No","project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020"},{"name":"Guanylate cyclase activity of TIR1/AFBs auxin receptors","_id":"7bcece63-9f16-11ee-852c-ae94e099eeb6","grant_number":"P37051"},{"_id":"8f347782-16d5-11f0-9cad-8c19706ee739","grant_number":"101142681","name":"Cyclic nucleotides as second messengers in plants"}],"citation":{"mla":"Chen, Huihuang. <i>The CAMP Second Messenger in Auxin Signalling</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19478\">10.15479/AT-ISTA-19478</a>.","ista":"Chen H. 2025. The cAMP second messenger in auxin signalling. Institute of Science and Technology Austria.","ieee":"H. Chen, “The cAMP second messenger in auxin signalling,” Institute of Science and Technology Austria, 2025.","chicago":"Chen, Huihuang. “The CAMP Second Messenger in Auxin Signalling.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-19478\">https://doi.org/10.15479/AT-ISTA-19478</a>.","short":"H. Chen, The CAMP Second Messenger in Auxin Signalling, Institute of Science and Technology Austria, 2025.","ama":"Chen H. The cAMP second messenger in auxin signalling. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-19478\">10.15479/AT-ISTA-19478</a>","apa":"Chen, H. (2025). <i>The cAMP second messenger in auxin signalling</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-19478\">https://doi.org/10.15479/AT-ISTA-19478</a>"},"department":[{"_id":"GradSch"},{"_id":"JiFr"}],"file_date_updated":"2025-04-09T13:53:38Z","oa_version":"Published Version","_id":"19478","publisher":"Institute of Science and Technology Austria","acknowledged_ssus":[{"_id":"Bio"},{"_id":"LifeSc"}],"title":"The cAMP second messenger in auxin signalling","day":"04","year":"2025","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_published":"2025-04-04T00:00:00Z","month":"04","ec_funded":1,"page":"118","ddc":["580"],"date_updated":"2026-04-28T13:42:45Z","date_created":"2025-04-04T07:48:24Z","degree_awarded":"PhD","file":[{"file_id":"19526","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","creator":"hchen","checksum":"b154973663a1bba505683faab7ae5ead","file_name":"Thesis_0403_Huihuang.docx","access_level":"closed","date_created":"2025-04-08T08:00:07Z","relation":"source_file","date_updated":"2025-04-08T08:22:37Z","file_size":16344814},{"file_size":8482147,"date_updated":"2025-04-09T13:53:38Z","relation":"main_file","access_level":"closed","date_created":"2025-04-08T08:00:06Z","embargo_to":"local","embargo":"2026-10-08","content_type":"application/pdf","file_id":"19527","file_name":"Thesis_0406_PDFA_Huihuang_1.pdf","checksum":"0099565f024388830c125ec17375c1a0","creator":"hchen"}],"publication_identifier":{"issn":["2663-337X"]},"alternative_title":["ISTA Thesis"],"language":[{"iso":"eng"}],"corr_author":"1"},{"month":"12","date_published":"2025-12-01T00:00:00Z","date_created":"2026-04-12T22:01:48Z","publication":"Compositio Mathematica","date_updated":"2026-05-04T09:42:57Z","ddc":["510"],"page":"3089-3139","day":"01","title":"Resolution of the quadratic Littlewood–Offord problem","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2025","article_type":"original","scopus_import":"1","publication_identifier":{"issn":["0010-437X"],"eissn":["1570-5846"]},"abstract":[{"text":"Consider a quadratic polynomial Q(ξ1, . . . , ξn) of independent Rademacher random variables ξ1, . . . , ξn. To what extent can Q(ξ1, . . . , ξn) concentrate on a single value? This quadratic version of the classical Littlewood–Offord problem was popularised by Costello, Tao and Vu in their study of symmetric random matrices. In this paper, we obtain an essentially optimal bound for this problem, as conjectured by Nguyen and Vu. Specifically, if Q(ξ1, . . . , ξn) ‘robustly depends on at least m of the ξi’ in the sense that there is no way to pin down the value of Q(ξ1, . . . , ξn) by fixing values for fewer than m of the variables ξi, then we have Pr[Q(ξ1, . . . , ξn) = 0] ≤ O(1/√m). This also implies a similar result in the case where ξ1, . . . , ξn have arbitrary distributions. Our proof combines a number of ideas that may be of independent interest, including an inductive decoupling scheme that reduces quadratic anticoncentration problems\r\nto high-dimensional linear anticoncentration problems. Also, one application of our main result is the resolution of a conjecture of Alon, Hefetz, Krivelevich and Tyomkyn related to graph inducibility. ","lang":"eng"}],"OA_type":"hybrid","file":[{"file_name":"2025_CompositioMath_Kwan.pdf","checksum":"bd3415bb435da9d0b39f6f9a18c61abb","creator":"dernst","content_type":"application/pdf","success":1,"file_id":"21787","relation":"main_file","date_updated":"2026-05-04T09:41:25Z","file_size":858727,"access_level":"open_access","date_created":"2026-05-04T09:41:25Z"}],"corr_author":"1","language":[{"iso":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"type":"journal_article","author":[{"id":"5fca0887-a1db-11eb-95d1-ca9d5e0453b3","first_name":"Matthew Alan","orcid":"0000-0002-4003-7567","full_name":"Kwan, Matthew Alan","last_name":"Kwan"},{"full_name":"Sauermann, Lisa","first_name":"Lisa","last_name":"Sauermann"}],"publication_status":"published","quality_controlled":"1","article_processing_charge":"Yes (via OA deal)","OA_place":"publisher","status":"public","issue":"12","has_accepted_license":"1","acknowledgement":"We would like to thank the anonymous referee for a number of helpful comments and suggestions. Matthew Kwan was supported by ERC Starting Grant “RANDSTRUCT” No. 101076777. Lisa Sauermann was supported in part by NSF Award DMS-2100157 and a Sloan Research Fellowship, and in part by the DFG Heisenberg Program.","intvolume":"       161","doi":"10.1112/S0010437X25102789","publisher":"Cambridge University Press","external_id":{"arxiv":["2312.13826"]},"arxiv":1,"PlanS_conform":"1","department":[{"_id":"MaKw"}],"citation":{"short":"M.A. Kwan, L. Sauermann, Compositio Mathematica 161 (2025) 3089–3139.","apa":"Kwan, M. A., &#38; Sauermann, L. (2025). Resolution of the quadratic Littlewood–Offord problem. <i>Compositio Mathematica</i>. Cambridge University Press. <a href=\"https://doi.org/10.1112/S0010437X25102789\">https://doi.org/10.1112/S0010437X25102789</a>","ama":"Kwan MA, Sauermann L. Resolution of the quadratic Littlewood–Offord problem. <i>Compositio Mathematica</i>. 2025;161(12):3089-3139. doi:<a href=\"https://doi.org/10.1112/S0010437X25102789\">10.1112/S0010437X25102789</a>","chicago":"Kwan, Matthew Alan, and Lisa Sauermann. “Resolution of the Quadratic Littlewood–Offord Problem.” <i>Compositio Mathematica</i>. Cambridge University Press, 2025. <a href=\"https://doi.org/10.1112/S0010437X25102789\">https://doi.org/10.1112/S0010437X25102789</a>.","ieee":"M. A. Kwan and L. Sauermann, “Resolution of the quadratic Littlewood–Offord problem,” <i>Compositio Mathematica</i>, vol. 161, no. 12. Cambridge University Press, pp. 3089–3139, 2025.","mla":"Kwan, Matthew Alan, and Lisa Sauermann. “Resolution of the Quadratic Littlewood–Offord Problem.” <i>Compositio Mathematica</i>, vol. 161, no. 12, Cambridge University Press, 2025, pp. 3089–139, doi:<a href=\"https://doi.org/10.1112/S0010437X25102789\">10.1112/S0010437X25102789</a>.","ista":"Kwan MA, Sauermann L. 2025. Resolution of the quadratic Littlewood–Offord problem. Compositio Mathematica. 161(12), 3089–3139."},"project":[{"name":"Randomness and structure in combinatorics","grant_number":"101076777","_id":"bd95085b-d553-11ed-ba76-e55d3349be45"}],"oa_version":"Published Version","_id":"21706","oa":1,"file_date_updated":"2026-05-04T09:41:25Z","volume":161},{"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png"},"degree_awarded":"PhD","abstract":[{"text":"Complex 3D shapes can be created by morphing flat 2D configurations. Such deformations\r\neither preserve the intrinsic material geometry (e.g., folding paper) or modify it through\r\nlocalized contraction. Once transformed, the 3D shape can be further controlled to achieve a\r\ntarget functionality. A key challenge is to take the material specifications and the actuation\r\nprocess as input to automatically design the target 3D shape and its functionality. This thesis\r\npresents two novel computational pipelines for the design and control of shape-morphing\r\nstructures used to create functional prototypes.\r\nThe first pipeline borrows from the art of origami to fold paper into intricate shapes and\r\napplies this principle to make 3D lighting displays. We introduce, PCBend a computational\r\ndesign approach that covers a surface with individually addressable RGB LEDs, effectively\r\nforming a low-resolution surface by folding rigid printed circuit boards (PCBs). We optimize\r\ncut patterns on PCBs to act as hinges and co-design LED placement, circuit routing, and\r\nfabrication constraints to produce PCB blueprints. The PCBs are fabricated using automated\r\nstandard manufacturing services with LEDs embedded on them. Finally, the fabricated PCBs\r\nare cut along the contour and folded onto a 3D-printed support. The 3D lighting display is\r\nthen controlled to display complex surface light patterns.\r\nCreating 3D shapes through folding is only possible if their planar configuration, called ”unfolding” exists without any distortion or overlap. Existing methods often permit distortion\r\nor require multiple patches, which are unsuitable for fabrication pipelines that rely on folding\r\nnon-stretchable materials. We reinforce such fabrication pipelines by providing a geometric\r\nrelaxation to the problem, where the input shape is modified to admit overlap-free unfolding.\r\nThe second fabrication pipeline extends shape morphing to soft robotics by emulating nature’s\r\nblueprint of distributed actuation. Inspired by vertebrates, we build musculoskeletal robots\r\nusing modular active actuators, employing Liquid Crystal Elastomers (LCEs) as shrinkable\r\nartificial muscles integrated with 3D-printed bones. The chemical composition of LCEs is\r\naltered to enable untethered actuation through infrared radiation, allowing active control of\r\nindividual muscles and their corresponding bones. The combined motion of individual bones\r\ndefines the robot’s overall shape and functionality. Our proposed system significantly expands\r\nboth the design and control spaces of soft robots, which we harness using our computational\r\ndesign tools. We build several physical robots that exhibit complex shape morphing and varied\r\nterrain navigation, showcasing the versatility of our pipeline.\r\nThis thesis explores applications ranging from intricate light patterns displayed on 3D shapes\r\nformed by folding rigid PCBs to untethered robots that use contractile muscles to exhibit\r\nshape morphing and locomotion. Through these examples, the thesis highlights how computational design and distributed actuation, integrated with novel materials, can transform\r\npassive structures into functional prototypes.","lang":"eng"}],"publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-065-7"]},"file":[{"success":1,"file_id":"20284","content_type":"application/pdf","creator":"mbhargav","checksum":"5baf8ca46c86a94fc8380ff1007aabd4","file_name":"2025-Bhargava-Manas-Thesis.pdf","date_created":"2025-09-03T10:40:52Z","access_level":"open_access","date_updated":"2025-09-03T10:40:52Z","relation":"main_file","file_size":161436245},{"date_updated":"2025-09-04T09:22:29Z","relation":"source_file","file_size":198831315,"access_level":"closed","date_created":"2025-09-03T13:18:05Z","file_name":"manas_phd_thesis_source_files.zip","checksum":"66878fafbc0074f88ddd18f24a9fc647","creator":"mbhargav","content_type":"application/x-zip-compressed","file_id":"20285"}],"corr_author":"1","alternative_title":["ISTA Thesis"],"language":[{"iso":"eng"}],"day":"02","title":"Design and control of deformable structures : From PCB lighting displays to elastomer robots","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","year":"2025","ec_funded":1,"month":"09","date_published":"2025-09-02T00:00:00Z","date_created":"2025-09-02T14:48:39Z","date_updated":"2026-05-04T12:41:53Z","ddc":["000"],"page":"96","citation":{"short":"M. Bhargava, Design and Control of Deformable Structures : From PCB Lighting Displays to Elastomer Robots, Institute of Science and Technology Austria, 2025.","apa":"Bhargava, M. (2025). <i>Design and control of deformable structures : From PCB lighting displays to elastomer robots</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT-ISTA-20276\">https://doi.org/10.15479/AT-ISTA-20276</a>","ama":"Bhargava M. Design and control of deformable structures : From PCB lighting displays to elastomer robots. 2025. doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20276\">10.15479/AT-ISTA-20276</a>","chicago":"Bhargava, Manas. “Design and Control of Deformable Structures : From PCB Lighting Displays to Elastomer Robots.” Institute of Science and Technology Austria, 2025. <a href=\"https://doi.org/10.15479/AT-ISTA-20276\">https://doi.org/10.15479/AT-ISTA-20276</a>.","ieee":"M. Bhargava, “Design and control of deformable structures : From PCB lighting displays to elastomer robots,” Institute of Science and Technology Austria, 2025.","mla":"Bhargava, Manas. <i>Design and Control of Deformable Structures : From PCB Lighting Displays to Elastomer Robots</i>. Institute of Science and Technology Austria, 2025, doi:<a href=\"https://doi.org/10.15479/AT-ISTA-20276\">10.15479/AT-ISTA-20276</a>.","ista":"Bhargava M. 2025. Design and control of deformable structures : From PCB lighting displays to elastomer robots. Institute of Science and Technology Austria."},"department":[{"_id":"GradSch"},{"_id":"BeBi"}],"project":[{"name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling","call_identifier":"H2020","_id":"24F9549A-B435-11E9-9278-68D0E5697425","grant_number":"715767"}],"oa":1,"_id":"20276","oa_version":"Published Version","file_date_updated":"2025-09-04T09:22:29Z","publisher":"Institute of Science and Technology Austria","acknowledgement":"Financial support was provided by the European Research Council (ERC) under grant agreement No 715767 - MATERIALIZABLE: Intelligent fabrication-oriented Computational Design\r\nand Modeling that I gratefully acknowledge.\r\n","has_accepted_license":"1","status":"public","doi":"10.15479/AT-ISTA-20276","type":"dissertation","author":[{"full_name":"Bhargava, Manas","orcid":"0009-0007-6138-6890","first_name":"Manas","id":"FF8FA64C-AA6A-11E9-99AD-50D4E5697425","last_name":"Bhargava"}],"publication_status":"published","article_processing_charge":"No","related_material":{"record":[{"relation":"part_of_dissertation","status":"public","id":"13049"},{"relation":"part_of_dissertation","status":"public","id":"18565"},{"status":"public","id":"20286","relation":"part_of_dissertation"}]},"OA_place":"publisher","supervisor":[{"first_name":"Bernd","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","full_name":"Bickel, Bernd","last_name":"Bickel"}]},{"citation":{"chicago":"Bhargava, Manas, Camille Schreck, M. Freire, P. A. Hugron, S. Lefebvre, S. Sellán, and Bernd Bickel. “Mesh Simplification for Unfolding.” <i>Computer Graphics Forum</i>. Wiley, 2025. <a href=\"https://doi.org/10.1111/cgf.15269\">https://doi.org/10.1111/cgf.15269</a>.","ama":"Bhargava M, Schreck C, Freire M, et al. Mesh simplification for unfolding. <i>Computer Graphics Forum</i>. 2025;44(1). doi:<a href=\"https://doi.org/10.1111/cgf.15269\">10.1111/cgf.15269</a>","apa":"Bhargava, M., Schreck, C., Freire, M., Hugron, P. A., Lefebvre, S., Sellán, S., &#38; Bickel, B. (2025). Mesh simplification for unfolding. <i>Computer Graphics Forum</i>. Wiley. <a href=\"https://doi.org/10.1111/cgf.15269\">https://doi.org/10.1111/cgf.15269</a>","short":"M. Bhargava, C. Schreck, M. Freire, P.A. Hugron, S. Lefebvre, S. Sellán, B. Bickel, Computer Graphics Forum 44 (2025).","ista":"Bhargava M, Schreck C, Freire M, Hugron PA, Lefebvre S, Sellán S, Bickel B. 2025. Mesh simplification for unfolding. Computer Graphics Forum. 44(1), e15269.","mla":"Bhargava, Manas, et al. “Mesh Simplification for Unfolding.” <i>Computer Graphics Forum</i>, vol. 44, no. 1, e15269, Wiley, 2025, doi:<a href=\"https://doi.org/10.1111/cgf.15269\">10.1111/cgf.15269</a>.","ieee":"M. Bhargava <i>et al.</i>, “Mesh simplification for unfolding,” <i>Computer Graphics Forum</i>, vol. 44, no. 1. Wiley, 2025."},"department":[{"_id":"GradSch"},{"_id":"BeBi"}],"volume":44,"file_date_updated":"2025-04-16T09:06:45Z","oa_version":"Published Version","_id":"18565","oa":1,"external_id":{"arxiv":["2408.06944"],"isi":["001357046100001"]},"publisher":"Wiley","arxiv":1,"has_accepted_license":"1","status":"public","issue":"1","acknowledgement":"Researchers from INRIA received support from the DORNELL Inria Challenge. Silvia Sellán acknowledges support from NSERC Vanier Doctoral Scholarship and an MIT SoE Postdoctoral Fellowship for Engineering Excellence.","isi":1,"doi":"10.1111/cgf.15269","intvolume":"        44","publication_status":"published","author":[{"last_name":"Bhargava","full_name":"Bhargava, Manas","orcid":"0009-0007-6138-6890","first_name":"Manas","id":"FF8FA64C-AA6A-11E9-99AD-50D4E5697425"},{"full_name":"Schreck, Camille","id":"2B14B676-F248-11E8-B48F-1D18A9856A87","first_name":"Camille","last_name":"Schreck"},{"first_name":"M.","full_name":"Freire, M.","last_name":"Freire"},{"last_name":"Hugron","full_name":"Hugron, P. A.","first_name":"P. A."},{"first_name":"S.","full_name":"Lefebvre, S.","last_name":"Lefebvre"},{"full_name":"Sellán, S.","first_name":"S.","last_name":"Sellán"},{"last_name":"Bickel","first_name":"Bernd","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","full_name":"Bickel, Bernd"}],"type":"journal_article","article_number":"e15269","related_material":{"record":[{"relation":"dissertation_contains","id":"20276","status":"public"}]},"OA_place":"publisher","quality_controlled":"1","article_processing_charge":"Yes (via OA deal)","keyword":["fabrication","single patch unfolding","mesh simplification"],"tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","short":"CC BY-NC (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png"},"file":[{"relation":"main_file","file_size":36999751,"date_updated":"2024-11-19T09:23:20Z","date_created":"2024-11-19T09:23:20Z","access_level":"open_access","content_type":"video/mp4","file_id":"18567","success":1,"file_name":"Mesh_Simplification_For_Unfolding_cgf_submission_supplemental_video.mp4","checksum":"34acdd9bfbe43f00eb6c7656afef3ac6","creator":"mbhargav"},{"file_size":5188265,"relation":"main_file","date_updated":"2025-04-16T09:06:45Z","date_created":"2025-04-16T09:06:45Z","access_level":"open_access","content_type":"application/pdf","file_id":"19576","success":1,"file_name":"2025_CompGraphicsForum_Bhargava.pdf","checksum":"efb06b01bae37f470954601bc004374d","creator":"dernst"}],"OA_type":"hybrid","publication_identifier":{"eissn":["1467-8659"],"issn":["0167-7055"]},"abstract":[{"lang":"eng","text":"We present a computational approach for unfolding 3D shapes isometrically into the plane as a single patch without overlapping triangles. This is a hard, sometimes impossible, problem, which existing methods are forced to soften by allowing for map distortions or multiple patches. Instead, we propose a geometric relaxation of the problem: We modify the input shape until it admits an overlap‐free unfolding. We achieve this by locally displacing vertices and collapsing edges, guided by the unfolding process. We validate our algorithm quantitatively and qualitatively on a large dataset of complex shapes and show its proficiency by fabricating real shapes from paper."}],"language":[{"iso":"eng"}],"corr_author":"1","title":"Mesh simplification for unfolding","day":"01","article_type":"original","scopus_import":"1","year":"2025","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","date_published":"2025-02-01T00:00:00Z","month":"02","ddc":["006"],"publication":"Computer Graphics Forum","date_updated":"2026-05-04T12:41:52Z","date_created":"2024-11-19T09:14:32Z"},{"abstract":[{"lang":"eng","text":"Natural organisms utilize distributed actuation through their musculoskeletal\r\nsystems to adapt their gait for traversing diverse terrains or to morph their\r\nbodies for varied tasks. A longstanding challenge in robotics is to emulate\r\nthis capability of natural organisms, which has motivated the development of\r\nnumerous soft robotic systems. However, such systems are generally optimized\r\nfor a single functionality, lack the ability to change form or function on\r\ndemand, or remain tethered to bulky control systems. To address these\r\nlimitations, we present a framework for designing and controlling robots that\r\nutilize distributed actuation. We propose a novel building block that\r\nintegrates 3D-printed bones with liquid crystal elastomer (LCE) muscles as\r\nlightweight actuators, enabling the modular assembly of musculoskeletal robots.\r\nWe developed LCE rods that contract in response to infrared radiation, thereby\r\nproviding localized, untethered control over the distributed skeletal network\r\nand producing global deformations of the robot. To fully capitalize on the\r\nextensive design space, we introduce two computational tools: one for\r\noptimizing the robot's skeletal graph to achieve multiple target deformations,\r\nand another for co-optimizing skeletal designs and control gaits to realize\r\ndesired locomotion. We validate our framework by constructing several robots\r\nthat demonstrate complex shape morphing, diverse control schemes, and\r\nenvironmental adaptability. Our system integrates advances in modular material\r\nbuilding, untethered and distributed control, and computational design to\r\nintroduce a new generation of robots that brings us closer to the capabilities\r\nof living organisms."}],"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2508.05410","open_access":"1"}],"corr_author":"1","language":[{"iso":"eng"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"month":"08","ec_funded":1,"date_published":"2025-08-31T00:00:00Z","publication":"arXiv","date_updated":"2026-05-04T12:41:52Z","date_created":"2025-09-04T09:14:11Z","day":"31","title":"Computational design and fabrication of modular robots with untethered control","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","year":"2025","external_id":{"arxiv":["2508.05410"]},"arxiv":1,"project":[{"_id":"24F9549A-B435-11E9-9278-68D0E5697425","grant_number":"715767","name":"MATERIALIZABLE: Intelligent fabrication-oriented Computational Design and Modeling","call_identifier":"H2020"}],"citation":{"ieee":"M. Bhargava <i>et al.</i>, “Computational design and fabrication of modular robots with untethered control,” <i>arXiv</i>. .","mla":"Bhargava, Manas, et al. “Computational Design and Fabrication of Modular Robots with Untethered Control.” <i>ArXiv</i>, doi:<a href=\"https://doi.org/10.48550/arXiv.2508.05410\">10.48550/arXiv.2508.05410</a>.","ista":"Bhargava M, Hiraki T, Strugaru I-M, Zhang Y, Piovarci M, Daraio C, Iwai D, Bickel B. Computational design and fabrication of modular robots with untethered control. arXiv, <a href=\"https://doi.org/10.48550/arXiv.2508.05410\">10.48550/arXiv.2508.05410</a>.","apa":"Bhargava, M., Hiraki, T., Strugaru, I.-M., Zhang, Y., Piovarci, M., Daraio, C., … Bickel, B. (n.d.). Computational design and fabrication of modular robots with untethered control. <i>arXiv</i>. <a href=\"https://doi.org/10.48550/arXiv.2508.05410\">https://doi.org/10.48550/arXiv.2508.05410</a>","ama":"Bhargava M, Hiraki T, Strugaru I-M, et al. Computational design and fabrication of modular robots with untethered control. <i>arXiv</i>. doi:<a href=\"https://doi.org/10.48550/arXiv.2508.05410\">10.48550/arXiv.2508.05410</a>","short":"M. Bhargava, T. Hiraki, I.-M. Strugaru, Y. Zhang, M. Piovarci, C. Daraio, D. Iwai, B. Bickel, ArXiv (n.d.).","chicago":"Bhargava, Manas, Takefumi Hiraki, Irina-Malina Strugaru, Yuhan Zhang, Michael Piovarci, Chiara Daraio, Daisuke Iwai, and Bernd Bickel. “Computational Design and Fabrication of Modular Robots with Untethered Control.” <i>ArXiv</i>, n.d. <a href=\"https://doi.org/10.48550/arXiv.2508.05410\">https://doi.org/10.48550/arXiv.2508.05410</a>."},"department":[{"_id":"BeBi"}],"_id":"20286","oa":1,"oa_version":"Preprint","type":"preprint","publication_status":"draft","author":[{"last_name":"Bhargava","first_name":"Manas","id":"FF8FA64C-AA6A-11E9-99AD-50D4E5697425","orcid":"0009-0007-6138-6890","full_name":"Bhargava, Manas"},{"first_name":"Takefumi","full_name":"Hiraki, Takefumi","last_name":"Hiraki"},{"id":"2afc607f-f128-11eb-9611-8f2a0dfcf074","first_name":"Irina-Malina","full_name":"Strugaru, Irina-Malina","last_name":"Strugaru"},{"last_name":"Zhang","first_name":"Yuhan","full_name":"Zhang, Yuhan"},{"orcid":"0000-0002-5062-4474","full_name":"Piovarci, Michael","id":"62E473F4-5C99-11EA-A40E-AF823DDC885E","first_name":"Michael","last_name":"Piovarci"},{"last_name":"Daraio","full_name":"Daraio, Chiara","first_name":"Chiara"},{"full_name":"Iwai, Daisuke","first_name":"Daisuke","last_name":"Iwai"},{"first_name":"Bernd","id":"49876194-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6511-9385","full_name":"Bickel, Bernd","last_name":"Bickel"}],"article_processing_charge":"No","OA_place":"repository","related_material":{"record":[{"relation":"dissertation_contains","id":"20276","status":"public"}]},"acknowledgement":"The authors express gratitude to Magali Lorion for assisting in the initial fabrication of LCEs,\r\nPengbin Tang for providing the code for simulating discrete elastic rods, the Imaging and\r\nOptics Facility at ISTA for assisting with the spectrometry measurements, and the MIBA\r\nmachine shop at ISTA for their support in manufacturing various devices.\r\nFunding: This project was supported by the European Research Council (ERC) under\r\nthe European Union’s Horizon 2020 research and innovation program (Grant Agreement No.\r\n715767 -– MATERIALIZABLE).","status":"public","doi":"10.48550/arXiv.2508.05410"}]