[{"main_file_link":[{"url":"https://arxiv.org/abs/2206.15240","open_access":"1"}],"publication_status":"epub_ahead","OA_type":"green","date_created":"2023-01-16T11:45:53Z","_id":"12312","date_updated":"2025-02-13T11:47:12Z","department":[{"_id":"TiBr"}],"issue":"2","year":"2024","day":"26","title":"On the local-global principle for isogenies of abelian surfaces","OA_place":"repository","external_id":{"arxiv":["2206.15240"]},"volume":30,"acknowledgement":"It is a pleasure to thank Samuele Anni for his interest in this project and for several discussions on the topic of this paper, which led in particular to Remark 6.30 and to a better understanding of the difficulties with [6]. We also thank John Cullinan for correspondence about [6] and Barinder Banwait for his many insightful comments on the first version of this paper. Finally, we thank the referee for their thorough reading of the manuscript.\r\nOpen access funding provided by Università di Pisa within the CRUI-CARE Agreement. The authors have been partially supported by MIUR (Italy) through PRIN 2017 “Geometric, algebraic and analytic methods in arithmetic\" and PRIN 2022 “Semiabelian varieties, Galois representations and related Diophantine problems\", and by the University of Pisa through PRA 2018-19 and 2022 “Spazi di moduli, rappresentazioni e strutture combinatorie\". The first author is a member of the INdAM group GNSAGA.","intvolume":"        30","publisher":"Springer Nature","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["4321-1234"],"issnl":["1022-1824"],"eissn":["1420-9020"]},"type":"journal_article","doi":"10.1007/s00029-023-00908-0","publication":"Selecta Mathematica","arxiv":1,"oa_version":"Preprint","language":[{"iso":"eng"}],"author":[{"first_name":"Davide","last_name":"Lombardo","full_name":"Lombardo, Davide"},{"full_name":"Verzobio, Matteo","last_name":"Verzobio","id":"7aa8f170-131e-11ed-88e1-a9efd01027cb","orcid":"0000-0002-0854-0306","first_name":"Matteo"}],"month":"01","scopus_import":"1","article_processing_charge":"Yes (via OA deal)","article_number":"18","quality_controlled":"1","article_type":"original","status":"public","date_published":"2024-01-26T00:00:00Z","abstract":[{"lang":"eng","text":"Let $\\ell$ be a prime number. We classify the subgroups $G$ of $\\operatorname{Sp}_4(\\mathbb{F}_\\ell)$ and $\\operatorname{GSp}_4(\\mathbb{F}_\\ell)$ that act irreducibly on $\\mathbb{F}_\\ell^4$, but such that every element of $G$ fixes an $\\mathbb{F}_\\ell$-vector subspace of dimension 1. We use this classification to prove that the local-global principle for isogenies of degree $\\ell$ between abelian surfaces over number fields holds in many cases -- in particular, whenever the abelian surface has non-trivial endomorphisms and $\\ell$ is large enough with respect to the field of definition. Finally, we prove that there exist arbitrarily large primes $\\ell$ for which some abelian surface\r\n$A/\\mathbb{Q}$ fails the local-global principle for isogenies of degree $\\ell$."}]},{"department":[{"_id":"SiHi"},{"_id":"RySh"}],"_id":"12875","date_updated":"2025-05-14T09:39:37Z","file_date_updated":"2024-02-06T13:56:15Z","project":[{"name":"Molecular Mechanisms of Neural Stem Cell Lineage Progression","_id":"059F6AB4-7A3F-11EA-A408-12923DDC885E","grant_number":"F07805"}],"date_created":"2023-04-27T09:41:48Z","license":"https://creativecommons.org/licenses/by/4.0/","pmid":1,"publication_status":"published","volume":112,"acknowledgement":"We thank Liqun Luo for his continued support, for providing essential resources for generating Fzd10-CreER mice which were generated in his laboratory, and for comments on the manuscript; W. Zhong for providing Nestin-Cre transgenic mouse line for this study; A. Heger for mouse colony management; R. Beattie and T. Asenov for designing and producing components of acute slice recovery chamber for MADM-CloneSeq experiments; and K. Leopold, J. Rodarte and N. Amberg for initial experiments, technical support and/or assistance. This study was supported by the Scientific Service Units (SSU) of IST Austria through resources provided by the Imaging & Optics Facility (IOF), Laboratory Support Facility (LSF), Miba Machine Shop, and Pre-clinical Facility (PCF). G.C. received funding from European Commission (IST plus postdoctoral fellowship). This work was supported by ISTA institutional\r\nfunds; the Austrian Science Fund Special Research Programmes (FWF SFB F78 Neuro Stem Modulation) to S.H. ","external_id":{"pmid":["38096816"]},"day":"17","title":"Multipotent progenitors instruct ontogeny of the superior colliculus","issue":"2","year":"2024","related_material":{"link":[{"relation":"press_release","description":"News on ISTA Website","url":"https://ista.ac.at/en/news/the-pedigree-of-brain-cells/"}]},"oa_version":"Published Version","publication":"Neuron","language":[{"iso":"eng"}],"page":"230-246.e11","doi":"10.1016/j.neuron.2023.11.009","acknowledged_ssus":[{"_id":"Bio"},{"_id":"M-Shop"},{"_id":"LifeSc"},{"_id":"PreCl"}],"publication_identifier":{"eisbn":["1234995621"],"issn":["0896-6273"],"issnl":["1234-5678"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","publisher":"Elsevier","oa":1,"intvolume":"       112","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"file":[{"checksum":"32b3788f7085cf44a84108d8faaff3ce","creator":"dernst","date_created":"2024-02-06T13:56:15Z","relation":"main_file","date_updated":"2024-02-06T13:56:15Z","file_name":"2024_Neuron_Cheung.pdf","success":1,"file_id":"14944","content_type":"application/pdf","access_level":"open_access","file_size":5942467}],"date_published":"2024-01-17T00:00:00Z","ddc":["570"],"abstract":[{"lang":"eng","text":"The superior colliculus (SC) in the mammalian midbrain is essential for multisensory integration and is composed of a rich diversity of excitatory and inhibitory neurons and glia. However, the developmental principles directing the generation of SC cell-type diversity are not understood. Here, we pursued systematic cell lineage tracing in silico and in vivo, preserving full spatial information, using genetic mosaic analysis with double markers (MADM)-based clonal analysis with single-cell sequencing (MADM-CloneSeq). The analysis of clonally related cell lineages revealed that radial glial progenitors (RGPs) in SC are exceptionally multipotent. Individual resident RGPs have the capacity to produce all excitatory and inhibitory SC neuron types, even at the stage of terminal division. While individual clonal units show no pre-defined cellular composition, the establishment of appropriate relative proportions of distinct neuronal types occurs in a PTEN-dependent manner. Collectively, our findings provide an inaugural framework at the single-RGP/-cell level of the mammalian SC ontogeny."}],"article_type":"comment","status":"public","quality_controlled":"1","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","scopus_import":"1","author":[{"full_name":"Cheung, Giselle T","last_name":"Cheung","orcid":"0000-0001-8457-2572","id":"471195F6-F248-11E8-B48F-1D18A9856A87","first_name":"Giselle T"},{"first_name":"Florian","orcid":"0000-0002-7462-0048","id":"48EA0138-F248-11E8-B48F-1D18A9856A87","last_name":"Pauler","full_name":"Pauler, Florian"},{"last_name":"Koppensteiner","full_name":"Koppensteiner, Peter","first_name":"Peter","orcid":"0000-0002-3509-1948","id":"3B8B25A8-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Krausgruber","full_name":"Krausgruber, Thomas","first_name":"Thomas"},{"full_name":"Streicher, Carmen","last_name":"Streicher","id":"36BCB99C-F248-11E8-B48F-1D18A9856A87","first_name":"Carmen"},{"full_name":"Schrammel, Martin","last_name":"Schrammel","id":"f13e7cae-e8bd-11ed-841a-96dedf69f46d","first_name":"Martin"},{"full_name":"Özgen, Natalie Y","last_name":"Özgen","id":"e68ece33-f6e0-11ea-865d-ae1031dcc090","first_name":"Natalie Y"},{"full_name":"Ivec, Alexis","last_name":"Ivec","id":"1d144691-e8be-11ed-9b33-bdd3077fad4c","first_name":"Alexis"},{"first_name":"Christoph","full_name":"Bock, Christoph","last_name":"Bock"},{"first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8761-9444","last_name":"Shigemoto","full_name":"Shigemoto, Ryuichi"},{"first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2279-1061","last_name":"Hippenmeyer","full_name":"Hippenmeyer, Simon"}],"month":"01"},{"publication_status":"published","date_created":"2023-08-22T14:19:59Z","oa":1,"conference":{"end_date":"2024-01-03","name":"CPAL: Conference on Parsimony and Learning","location":"Hong Kong, China","start_date":"2024-01-03"},"publication_identifier":{"issnl":["1234-4321"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"conference","file_date_updated":"2024-02-12T08:40:36Z","_id":"14213","date_updated":"2025-02-13T08:10:28Z","oa_version":"Published Version","publication":"1st Conference on Parsimony and Learning","arxiv":1,"language":[{"iso":"eng"}],"department":[{"_id":"FrLo"}],"author":[{"first_name":"Dong","last_name":"Lao","full_name":"Lao, Dong"},{"first_name":"Zhengyang","full_name":"Hu, Zhengyang","last_name":"Hu"},{"full_name":"Locatello, Francesco","last_name":"Locatello","orcid":"0000-0002-4850-0683","id":"26cfd52f-2483-11ee-8040-88983bcc06d4","first_name":"Francesco"},{"last_name":"Yang","full_name":"Yang, Yanchao","first_name":"Yanchao"},{"full_name":"Soatto, Stefano","last_name":"Soatto","first_name":"Stefano"}],"month":"01","article_processing_charge":"No","has_accepted_license":"1","year":"2024","day":"03","quality_controlled":"1","title":"Divided attention: Unsupervised multi-object discovery with contextually separated slots","status":"public","external_id":{"arxiv":["2304.01430"]},"date_published":"2024-01-03T00:00:00Z","ddc":["000"],"abstract":[{"text":"We introduce a method to segment the visual field into independently moving regions, trained with no ground truth or supervision. It consists of an adversarial conditional encoder-decoder architecture based on Slot Attention, modified to use the image as context to decode optical flow without attempting to reconstruct the image itself. In the resulting multi-modal representation, one modality (flow) feeds the encoder to produce separate latent codes (slots), whereas the other modality (image) conditions the decoder to generate the first (flow) from the slots. This design frees the representation from having to encode complex nuisance variability in the image due to, for instance, illumination and reflectance properties of the scene. Since customary autoencoding based on minimizing the reconstruction error does not preclude the entire flow from being encoded into a single slot, we modify the loss to an adversarial criterion based on Contextual Information Separation. The resulting min-max optimization fosters the separation of objects and their assignment to different attention slots, leading to Divided Attention, or DivA. DivA outperforms recent unsupervised multi-object motion segmentation methods while tripling run-time speed up to 104FPS and reducing the performance gap from supervised methods to 12% or less. DivA can handle different numbers of objects and different image sizes at training and test time, is invariant to permutation of object labels, and does not require explicit regularization.","lang":"eng"}],"file":[{"access_level":"open_access","file_size":8038511,"file_id":"14978","content_type":"application/pdf","success":1,"date_updated":"2024-02-12T08:40:36Z","file_name":"2024_CPAL_Lao.pdf","date_created":"2024-02-12T08:40:36Z","relation":"main_file","creator":"dernst","checksum":"8fad894c34f1b3d5a14fb8ffb12f7277"}]},{"doi":"10.1016/j.xplc.2023.100669","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["2590-3462"],"issnl":["1234-4567"]},"type":"journal_article","oa_version":"Published Version","publication":"Plant Communications","language":[{"iso":"eng"}],"ec_funded":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"publisher":"Elsevier","intvolume":"         5","article_type":"original","status":"public","quality_controlled":"1","file":[{"creator":"dernst","checksum":"edbc44c6d4a394d2bf70f92fdbb08f0a","relation":"main_file","date_created":"2024-01-30T12:59:57Z","success":1,"date_updated":"2024-01-30T12:59:57Z","file_name":"2023_PlantCommunications_Tang.pdf","file_size":2825565,"access_level":"open_access","content_type":"application/pdf","file_id":"14911"}],"date_published":"2024-01-08T00:00:00Z","ddc":["580"],"abstract":[{"lang":"eng","text":"The phytohormone auxin and its directional transport through tissues play a fundamental role in development of higher plants. This polar auxin transport predominantly relies on PIN-FORMED (PIN) auxin exporters. Hence, PIN polarization is crucial for development, but its evolution during the rise of morphological complexity in land plants remains unclear. Here, we performed a cross-species investigation by observing the trafficking and localization of endogenous and exogenous PINs in two bryophytes, Physcomitrium patens and Marchantia polymorpha, and in the flowering plant Arabidopsis thaliana. We confirmed that the GFP fusion did not compromise the auxin export function of all examined PINs by using radioactive auxin export assay and by observing the phenotypic changes in transgenic bryophytes. Endogenous PINs polarize to filamentous apices, while exogenous Arabidopsis PINs distribute symmetrically on the membrane in both bryophytes. In Arabidopsis root epidermis, bryophytic PINs show no defined polarity. Pharmacological interference revealed a strong cytoskeleton dependence of bryophytic but not Arabidopsis PIN polarization. The divergence of PIN polarization and trafficking is also observed within the bryophyte clade and between tissues of individual species. These results collectively reveal a divergence of PIN trafficking and polarity mechanisms throughout land plant evolution and a co-evolution of PIN sequence-based and cell-based polarity mechanisms."}],"scopus_import":"1","article_processing_charge":"Yes","author":[{"last_name":"Tang","full_name":"Tang, Han","first_name":"Han","id":"19BDF720-25A0-11EA-AC6E-928F3DDC885E","orcid":"0000-0001-6152-6637"},{"last_name":"Lu","full_name":"Lu, KJ","first_name":"KJ"},{"last_name":"Zhang","full_name":"Zhang, Y","first_name":"Y"},{"last_name":"Cheng","full_name":"Cheng, YL","first_name":"YL"},{"first_name":"SL","full_name":"Tu, SL","last_name":"Tu"},{"first_name":"Jiří","orcid":"0000-0002-8302-7596","id":"4159519E-F248-11E8-B48F-1D18A9856A87","last_name":"Friml","full_name":"Friml, Jiří"}],"month":"01","has_accepted_license":"1","article_number":"100669","_id":"14251","date_updated":"2025-07-02T12:51:02Z","file_date_updated":"2024-01-30T12:59:57Z","project":[{"name":"Tracing Evolution of Auxin Transport and Polarity in Plants","call_identifier":"H2020","_id":"261099A6-B435-11E9-9278-68D0E5697425","grant_number":"742985"}],"citation":{"ieee":"H. Tang, K. Lu, Y. Zhang, Y. Cheng, S. Tu, and J. Friml, “Divergence of trafficking and polarization mechanisms for PIN auxin transporters during land plant evolution,” <i>Plant Communications</i>, vol. 5, no. 1. Elsevier, 2024.","ama":"Tang H, Lu K, Zhang Y, Cheng Y, Tu S, Friml J. Divergence of trafficking and polarization mechanisms for PIN auxin transporters during land plant evolution. <i>Plant Communications</i>. 2024;5(1). doi:<a href=\"https://doi.org/10.1016/j.xplc.2023.100669\">10.1016/j.xplc.2023.100669</a>","mla":"Tang, Han, et al. “Divergence of Trafficking and Polarization Mechanisms for PIN Auxin Transporters during Land Plant Evolution.” <i>Plant Communications</i>, vol. 5, no. 1, 100669, Elsevier, 2024, doi:<a href=\"https://doi.org/10.1016/j.xplc.2023.100669\">10.1016/j.xplc.2023.100669</a>.","chicago":"Tang, Han, KJ Lu, Y Zhang, YL Cheng, SL Tu, and Jiří Friml. “Divergence of Trafficking and Polarization Mechanisms for PIN Auxin Transporters during Land Plant Evolution.” <i>Plant Communications</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.xplc.2023.100669\">https://doi.org/10.1016/j.xplc.2023.100669</a>.","apa":"Tang, H., Lu, K., Zhang, Y., Cheng, Y., Tu, S., &#38; Friml, J. (2024). Divergence of trafficking and polarization mechanisms for PIN auxin transporters during land plant evolution. <i>Plant Communications</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.xplc.2023.100669\">https://doi.org/10.1016/j.xplc.2023.100669</a>","ista":"Tang H, Lu K, Zhang Y, Cheng Y, Tu S, Friml J. 2024. Divergence of trafficking and polarization mechanisms for PIN auxin transporters during land plant evolution. Plant Communications. 5(1), 100669.","short":"H. Tang, K. Lu, Y. Zhang, Y. Cheng, S. Tu, J. Friml, Plant Communications 5 (2024)."},"department":[{"_id":"JiFr"}],"publication_status":"published","date_created":"2023-09-01T11:32:02Z","pmid":1,"external_id":{"pmid":["37528584"]},"day":"08","title":"Divergence of trafficking and polarization mechanisms for PIN auxin transporters during land plant evolution","volume":5,"acknowledgement":"This work was supported by the ERC grant (PR1023ERC02) to H. T. and J. F., and by the ministry of science and technology (grant number 110-2636-B-005-001) to K. J. L.","issue":"1","year":"2024"},{"publication_status":"published","main_file_link":[{"url":"https://doi.org/10.1101/2023.10.26.564092","open_access":"1"}],"date_created":"2023-10-31T13:30:20Z","pmid":1,"_id":"14479","date_updated":"2026-03-18T11:15:21Z","supplementarymaterial":"yes","citation":{"ama":"Csata E, Perez-Escudero A, Laury E, et al. Fungal infection alters collective nutritional intake of ant colonies. <i>Current Biology</i>. 2024;34(4):902-909.e6. doi:<a href=\"https://doi.org/10.1016/j.cub.2024.01.017\">10.1016/j.cub.2024.01.017</a>","mla":"Csata, Eniko, et al. “Fungal Infection Alters Collective Nutritional Intake of Ant Colonies.” <i>Current Biology</i>, vol. 34, no. 4, Elsevier, 2024, p. 902–909.e6, doi:<a href=\"https://doi.org/10.1016/j.cub.2024.01.017\">10.1016/j.cub.2024.01.017</a>.","chicago":"Csata, Eniko, Alfonso Perez-Escudero, Emmanuel Laury, Hanna Leitner, Gerard Latil, Juerge Heinze, Stephen Simpson, Sylvia Cremer, and Audrey Dussutour. “Fungal Infection Alters Collective Nutritional Intake of Ant Colonies.” <i>Current Biology</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.cub.2024.01.017\">https://doi.org/10.1016/j.cub.2024.01.017</a>.","apa":"Csata, E., Perez-Escudero, A., Laury, E., Leitner, H., Latil, G., Heinze, J., … Dussutour, A. (2024). Fungal infection alters collective nutritional intake of ant colonies. <i>Current Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cub.2024.01.017\">https://doi.org/10.1016/j.cub.2024.01.017</a>","ista":"Csata E, Perez-Escudero A, Laury E, Leitner H, Latil G, Heinze J, Simpson S, Cremer S, Dussutour A. 2024. Fungal infection alters collective nutritional intake of ant colonies. Current Biology. 34(4), 902–909.e6.","short":"E. Csata, A. Perez-Escudero, E. Laury, H. Leitner, G. Latil, J. Heinze, S. Simpson, S. Cremer, A. Dussutour, Current Biology 34 (2024) 902–909.e6.","ieee":"E. Csata <i>et al.</i>, “Fungal infection alters collective nutritional intake of ant colonies,” <i>Current Biology</i>, vol. 34, no. 4. Elsevier, p. 902–909.e6, 2024."},"department":[{"_id":"SyCr"}],"researchdata_availability":"unclear","dataavailabilitystatement":"no DAS","issue":"4","year":"2024","external_id":{"pmid":["38307022"]},"day":"26","title":"Fungal infection alters collective nutritional intake of ant colonies","volume":34,"acknowledgement":"We are sincerely grateful to the referees for their valuable comments and suggestions, which helped us to improve the paper. We are thankful to Jorgen Eilenberg and Nicolai V. Meyling for the fungal strain, to Simon Tragust, Abel Bernadou, and Brian Lazarro for insightful discussions, to Iago Sanmartín-Villar, Léa Briard, Céline Maitrel, and Nolwenn Rissen for their help with the experiments. Furthermore, we thank Anna V. Grasse for help with the immune gene expression analyses. We thank Sergio Ibarra for creating the graphical abstract. E.C. was supported by a Fyssen Foundation grant and the Alexander von Humboldt Foundation. A.D. was supported by the CNRS.","publisher":"Elsevier","oa":1,"intvolume":"        34","doi":"10.1016/j.cub.2024.01.017","page":"902-909.e6","publication_identifier":{"eissn":["1879-0445"],"issnl":["1234-5678"],"issn":["0960-9822"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","publication":"Current Biology","oa_version":"Preprint","language":[{"iso":"eng"}],"article_processing_charge":"No","scopus_import":"1","author":[{"last_name":"Csata","full_name":"Csata, Eniko","first_name":"Eniko"},{"last_name":"Perez-Escudero","full_name":"Perez-Escudero, Alfonso","first_name":"Alfonso"},{"first_name":"Emmanuel","last_name":"Laury","full_name":"Laury, Emmanuel"},{"first_name":"Hanna","id":"8fc5c6f6-5903-11ec-abad-c83f046253e7","last_name":"Leitner","full_name":"Leitner, Hanna"},{"last_name":"Latil","full_name":"Latil, Gerard","first_name":"Gerard"},{"first_name":"Juerge","full_name":"Heinze, Juerge","last_name":"Heinze"},{"first_name":"Stephen","last_name":"Simpson","full_name":"Simpson, Stephen"},{"first_name":"Sylvia","id":"2F64EC8C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-2193-3868","last_name":"Cremer","full_name":"Cremer, Sylvia"},{"first_name":"Audrey","last_name":"Dussutour","full_name":"Dussutour, Audrey"}],"month":"02","article_type":"original","status":"public","quality_controlled":"1","date_published":"2024-02-26T00:00:00Z","abstract":[{"lang":"eng","text":"In animals, parasitic infections impose significant fitness costs.1,2,3,4,5,6 Infected animals can alter their feeding behavior to resist infection,7,8,9,10,11,12 but parasites can manipulate animal foraging behavior to their own benefits.13,14,15,16 How nutrition influences host-parasite interactions is not well understood, as studies have mainly focused on the host and less on the parasite.9,12,17,18,19,20,21,22,23 We used the nutritional geometry framework24 to investigate the role of amino acids (AA) and carbohydrates (C) in a host-parasite system: the Argentine ant, Linepithema humile, and the entomopathogenic fungus, Metarhizium brunneum. First, using 18 diets varying in AA:C composition, we established that the fungus performed best on the high-amino-acid diet 1:4. Second, we found that the fungus reached this optimal diet when given various diet pairings, revealing its ability to cope with nutritional challenges. Third, we showed that the optimal fungal diet reduced the lifespan of healthy ants when compared with a high-carbohydrate diet but had no effect on infected ants. Fourth, we revealed that infected ant colonies, given a choice between the optimal fungal diet and a high-carbohydrate diet, chose the optimal fungal diet, whereas healthy colonies avoided it. Lastly, by disentangling fungal infection from host immune response, we demonstrated that infected ants foraged on the optimal fungal diet in response to immune activation and not as a result of parasite manipulation. Therefore, we revealed that infected ant colonies chose a diet that is costly for survival in the long term but beneficial in the short term—a form of collective self-medication."}]},{"has_accepted_license":"1","year":"2024","author":[{"full_name":"Elkrewi, Marwan N","last_name":"Elkrewi","orcid":"0000-0002-5328-7231","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","first_name":"Marwan N"}],"month":"01","retracted":"1","article_processing_charge":"No","date_published":"2024-01-02T00:00:00Z","abstract":[{"lang":"eng","text":"Since the commercialization of brine shrimp (genus Artemia) in the 1950s, this lineage, and in particular the model species Artemia franciscana, has been the subject of extensive research. However, our understanding of the genetic mechanisms underlying various aspects of their reproductive biology, including sex determination, are still lacking. This is partly due to the scarcity of genomic resources for Artemia species and crustaceans in general. Here, we present a chromosome-level genome assembly of Artemia franciscana (Kellogg 1906), from the Great Salt Lake, USA. The genome is 1GB, and the majority of the genome (81%) is scaffolded into 21 linkage groups using a previously published high-density linkage map. We performed coverage and FST analyses using male and female genomic and transcriptomic reads to quantify the extent of differentiation between the Z and W chromosomes. Additionally, we quantified the expression levels in male and female heads and gonads and found further evidence for dosage compensation in this species."}],"ddc":["576"],"day":"02","title":"Data from \"Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation\"","status":"public","publisher":"Institute of Science and Technology Austria","date_created":"2023-12-22T13:40:48Z","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"citation":{"short":"M.N. Elkrewi, (2024).","apa":"Elkrewi, M. N. (2024). Data from “Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:14705\">https://doi.org/10.15479/AT:ISTA:14705</a>","ista":"Elkrewi MN. 2024. Data from ‘Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:14705\">10.15479/AT:ISTA:14705</a>.","chicago":"Elkrewi, Marwan N. “Data from ‘Chromosome-Level Assembly of Artemia Franciscana Sheds Light on Sex-Chromosome Differentiation.’” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/AT:ISTA:14705\">https://doi.org/10.15479/AT:ISTA:14705</a>.","ama":"Elkrewi MN. Data from “Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation.” 2024. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14705\">10.15479/AT:ISTA:14705</a>","mla":"Elkrewi, Marwan N. <i>Data from “Chromosome-Level Assembly of Artemia Franciscana Sheds Light on Sex-Chromosome Differentiation.”</i> Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:14705\">10.15479/AT:ISTA:14705</a>.","ieee":"M. N. Elkrewi, “Data from ‘Chromosome-level assembly of Artemia franciscana sheds light on sex-chromosome differentiation.’” Institute of Science and Technology Austria, 2024."},"oa_version":"Published Version","department":[{"_id":"GradSch"},{"_id":"BeVi"}],"related_material":{"record":[{"relation":"used_in_publication","id":"15009","status":"public"}]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","keyword":["sex chromosome evolution","genome assembly","dosage compensation"],"project":[{"_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396","name":"The highjacking of meiosis for asexual reproduction","grant_number":"F8810"}],"type":"research_data","contributor":[{"last_name":"Bett","id":"57854184-AAE0-11E9-8D04-98D6E5697425","contributor_type":"researcher","first_name":"Vincent K"},{"id":"2A0848E2-F248-11E8-B48F-1D18A9856A87","contributor_type":"project_member","first_name":"Ariana","last_name":"Macon"},{"last_name":"Vicoso","first_name":"Beatriz","orcid":"0000-0002-4579-8306","contributor_type":"supervisor","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"},{"id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","orcid":"0000-0002-5328-7231","contributor_type":"researcher","first_name":"Marwan N","last_name":"Elkrewi"}],"doi":"10.15479/AT:ISTA:14705","_id":"14705","date_updated":"2026-05-18T12:46:40Z"},{"oa":1,"publisher":"Institute of Science and Technology Austria","tmp":{"name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode","short":"CC BY-NC-SA (4.0)","image":"/images/cc_by_nc_sa.png"},"related_material":{"record":[{"status":"public","relation":"part_of_dissertation","id":"10658"},{"relation":"part_of_dissertation","id":"10787","status":"public"},{"id":"14732","relation":"part_of_dissertation","status":"public"}]},"oa_version":"Published Version","language":[{"iso":"eng"}],"ec_funded":1,"doi":"10.15479/at:ista:14711","page":"183","degree_awarded":"MS","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledged_ssus":[{"_id":"SSU"}],"publication_identifier":{"issn":["2663 - 337X"]},"type":"dissertation","has_accepted_license":"1","article_processing_charge":"No","author":[{"first_name":"Oluwafunmilola O","orcid":"0000-0003-1971-8314","id":"41AD96DC-F248-11E8-B48F-1D18A9856A87","last_name":"Olusanya","full_name":"Olusanya, Oluwafunmilola O"}],"month":"01","file":[{"date_updated":"2024-01-03T18:30:13Z","file_name":"FinalSubmission_Thesis_OLUSANYA.zip","content_type":"application/zip","file_id":"14730","file_size":16986244,"access_level":"closed","checksum":"de179b1c6758f182ff0c70d8b38c1501","creator":"oolusany","relation":"source_file","date_created":"2024-01-03T18:30:13Z"},{"content_type":"application/pdf","file_id":"14731","file_size":6460403,"access_level":"open_access","file_name":"FinalSubmission2_Thesis_OLUSANYA.pdf","date_updated":"2024-01-03T18:31:34Z","success":1,"relation":"main_file","date_created":"2024-01-03T18:31:34Z","checksum":"0e331585e3cd4823320aab4e69e64ccf","creator":"oolusany"}],"date_published":"2024-01-19T00:00:00Z","ddc":["576"],"abstract":[{"lang":"eng","text":"In nature, different species find their niche in a range of environments, each with its unique characteristics. While some thrive in uniform (homogeneous) landscapes where environmental conditions stay relatively consistent across space, others traverse the complexities of spatially heterogeneous terrains. Comprehending how species are distributed and how they interact within these landscapes holds the key to gaining insights into their evolutionary dynamics while also informing conservation and management strategies.\r\n\r\nFor species inhabiting heterogeneous landscapes, when the rate of dispersal is low compared to spatial fluctuations in selection pressure, localized adaptations may emerge. Such adaptation in response to varying selection strengths plays an important role in the persistence of populations in our rapidly changing world. Hence, species in nature are continuously in a struggle to adapt to local environmental conditions, to ensure their continued survival. Natural populations can often adapt in time scales short enough for evolutionary changes to influence ecological dynamics and vice versa, thereby creating a feedback between evolution and demography. The analysis of this feedback and the relative contributions of gene flow, demography, drift, and natural selection to genetic variation and differentiation has remained a recurring theme in evolutionary biology. Nevertheless, the effective role of these forces in maintaining variation and shaping patterns of diversity is not fully understood. Even in homogeneous environments devoid of local adaptations, such understanding remains elusive. Understanding this feedback is crucial, for example in determining the conditions under which extinction risk can be mitigated in peripheral populations subject to deleterious mutation accumulation at the edges of species’ ranges\r\nas well as in highly fragmented populations.\r\n\r\nIn this thesis we explore both uniform and spatially heterogeneous metapopulations, investigating and providing theoretical insights into the dynamics of local adaptation in the latter and examining the dynamics of load and extinction as well as the impact of joint ecological and evolutionary (eco-evolutionary) dynamics in the former. The thesis is divided into 5 chapters.\r\n\r\nChapter 1 provides a general introduction into the subject matter, clarifying concepts and ideas used throughout the thesis. In chapter 2, we explore how fast a species distributed across a heterogeneous landscape adapts to changing conditions marked by alterations in carrying capacity, selection pressure, and migration rate.\r\n\r\nIn chapter 3, we investigate how migration selection and drift influences adaptation and the maintenance of variation in a metapopulation with three habitats, an extension of previous models of adaptation in two habitats. We further develop analytical approximations for the critical threshold required for polymorphism to persist.\r\n\r\nThe focus of chapter 4 of the thesis is on understanding the interplay between ecology and evolution as coupled processes. We investigate how eco-evolutionary feedback between migration, selection, drift, and demography influences eco-evolutionary outcomes in marginal populations subject to deleterious mutation accumulation. Using simulations as well as theoretical approximations of the coupled dynamics of population size and allele frequency, we analyze how gene flow from a large mainland source influences genetic load and population size on an island (i.e., in a marginal population) under genetically realistic assumptions. Analyses of this sort are important because small isolated populations, are repeatedly affected by complex interactions between ecological and evolutionary processes, which can lead to their death. Understanding these interactions can therefore provide an insight into the conditions under which extinction risk can be mitigated in peripheral populations thus, contributing to conservation and restoration efforts.\r\n\r\nChapter 5 extends the analysis in chapter 4 to consider the dynamics of load (due to deleterious mutation accumulation) and extinction risk in a metapopulation. We explore the role of gene flow, selection, and dominance on load and extinction risk and further pinpoint critical thresholds required for metapopulation persistence.\r\n\r\nOverall this research contributes to our understanding of ecological and evolutionary mechanisms that shape species’ persistence in fragmented landscapes, a crucial foundation for successful conservation efforts and biodiversity management."}],"status":"public","date_created":"2023-12-26T22:49:53Z","license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","alternative_title":["ISTA Thesis"],"publication_status":"published","department":[{"_id":"NiBa"},{"_id":"GradSch"}],"_id":"14711","date_updated":"2025-05-26T09:05:10Z","file_date_updated":"2024-01-03T18:31:34Z","project":[{"grant_number":"665385","name":"International IST Doctoral Program","call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425"},{"name":"Causes and consequences of population fragmentation","_id":"c08d3278-5a5b-11eb-8a69-fdb09b55f4b8","grant_number":"P32896"},{"_id":"34c872fe-11ca-11ed-8bc3-8534b82131e6","name":"Polygenic Adaptation in a Metapopulation","grant_number":"26380"}],"year":"2024","supervisor":[{"last_name":"Barton","full_name":"Barton, Nicholas H","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Jitka","full_name":"Polechova, Jitka","last_name":"Polechova"},{"full_name":"Sachdeva, Himani","last_name":"Sachdeva","first_name":"Himani"}],"day":"19","title":"Local adaptation, genetic load and extinction in metapopulations"},{"date_updated":"2025-07-15T12:51:52Z","_id":"14769","project":[{"name":"The design and evaluation of modern fully dynamic data structures","call_identifier":"H2020","_id":"bd9ca328-d553-11ed-ba76-dc4f890cfe62","grant_number":"101019564"},{"_id":"34def286-11ca-11ed-8bc3-da5948e1613c","name":"Wittgenstein Award - Monika Henzinger","grant_number":"Z00422"},{"grant_number":"I05982","name":"Static and Dynamic Hierarchical Graph Decompositions","_id":"bda196b2-d553-11ed-ba76-8e8ee6c21103"},{"_id":"bd9e3a2e-d553-11ed-ba76-8aa684ce17fe","name":"Fast Algorithms for a Reactive Network Layer","grant_number":"P33775 "},{"name":"IST-BRIDGE: International postdoctoral program","call_identifier":"H2020","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413"}],"conference":{"start_date":"2024-01-07","location":"Alexandria, VA, United States","name":"ALENEX: Workshop on Algorithm Engineering and Experiments","end_date":"2024-01-08"},"department":[{"_id":"MoHe"}],"citation":{"ieee":"M. H. Henzinger, D. Saulpic, and L. Sidl, “Experimental evaluation of fully dynamic k-means via coresets,” in <i>2024 Proceedings of the Symposium on Algorithm Engineering and Experiments</i>, Alexandria, VA, United States, 2024, pp. 220–233.","ama":"Henzinger MH, Saulpic D, Sidl L. Experimental evaluation of fully dynamic k-means via coresets. In: <i>2024 Proceedings of the Symposium on Algorithm Engineering and Experiments</i>. Society for Industrial &#38; Applied Mathematics; 2024:220-233. doi:<a href=\"https://doi.org/10.1137/1.9781611977929.17\">10.1137/1.9781611977929.17</a>","mla":"Henzinger, Monika H., et al. “Experimental Evaluation of Fully Dynamic K-Means via Coresets.” <i>2024 Proceedings of the Symposium on Algorithm Engineering and Experiments</i>, Society for Industrial &#38; Applied Mathematics, 2024, pp. 220–33, doi:<a href=\"https://doi.org/10.1137/1.9781611977929.17\">10.1137/1.9781611977929.17</a>.","chicago":"Henzinger, Monika H, David Saulpic, and Leonhard Sidl. “Experimental Evaluation of Fully Dynamic K-Means via Coresets.” In <i>2024 Proceedings of the Symposium on Algorithm Engineering and Experiments</i>, 220–33. Society for Industrial &#38; Applied Mathematics, 2024. <a href=\"https://doi.org/10.1137/1.9781611977929.17\">https://doi.org/10.1137/1.9781611977929.17</a>.","ista":"Henzinger MH, Saulpic D, Sidl L. 2024. Experimental evaluation of fully dynamic k-means via coresets. 2024 Proceedings of the Symposium on Algorithm Engineering and Experiments. ALENEX: Workshop on Algorithm Engineering and Experiments, 220–233.","apa":"Henzinger, M. H., Saulpic, D., &#38; Sidl, L. (2024). Experimental evaluation of fully dynamic k-means via coresets. In <i>2024 Proceedings of the Symposium on Algorithm Engineering and Experiments</i> (pp. 220–233). Alexandria, VA, United States: Society for Industrial &#38; Applied Mathematics. <a href=\"https://doi.org/10.1137/1.9781611977929.17\">https://doi.org/10.1137/1.9781611977929.17</a>","short":"M.H. Henzinger, D. Saulpic, L. Sidl, in:, 2024 Proceedings of the Symposium on Algorithm Engineering and Experiments, Society for Industrial &#38; Applied Mathematics, 2024, pp. 220–233."},"publication_status":"published","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2310.18034","open_access":"1"}],"date_created":"2024-01-09T16:22:47Z","external_id":{"arxiv":["2310.18034"]},"title":"Experimental evaluation of fully dynamic k-means via coresets","day":"04","acknowledgement":"This   project   has   received   funding   from   the   Euro-pean  Research  Council  (ERC)  under  the  EuropeanUnion’s  Horizon  2020  research  and  innovation  programme  (Grant  agreement  No.   101019564  “The  De-sign  of  Modern  Fully  Dynamic  Data  Structures  (Mo-DynStruct)”  and  the  Austrian  Science  Fund  (FWF)project Z 422-N, project “Static and Dynamic Hierar-chical  Graph  Decompositions”,  I  5982-N,  and  project“Fast  Algorithms  for  a  Reactive  Network  Layer  (Re-actNet)”, P 33775-N, with additional funding from thenetidee SCIENCE Stiftung, 2020–2024.D.  Sauplic  has  received  funding  from  the  Euro-pean  Union’s  Horizon  2020  research  and  innovation programme under the Marie Sklodowska-Curie    grant    agreementNo 101034413.","year":"2024","page":"220-233","doi":"10.1137/1.9781611977929.17","type":"conference","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eisbn":["9781611977929"]},"ec_funded":1,"language":[{"iso":"eng"}],"publication":"2024 Proceedings of the Symposium on Algorithm Engineering and Experiments","oa_version":"Preprint","arxiv":1,"oa":1,"publisher":"Society for Industrial & Applied Mathematics","status":"public","quality_controlled":"1","abstract":[{"lang":"eng","text":"For a set of points in Rd, the Euclidean k-means problems consists of finding k centers such that the sum of distances squared from each data point to its closest center is minimized. Coresets are one the main tools developed recently to solve this problem in a big data context. They allow to compress the initial dataset while preserving its structure: running any algorithm on the coreset provides a guarantee almost equivalent to running it on the full data. In this work, we study coresets in a fully-dynamic setting: points are added and deleted with the goal to efficiently maintain a coreset with which a k-means solution can be computed. Based on an algorithm from Henzinger and Kale [ESA'20], we present an efficient and practical implementation of a fully dynamic coreset algorithm, that improves the running time by up to a factor of 20 compared to our non-optimized implementation of the algorithm by Henzinger and Kale, without sacrificing more than 7% on the quality of the k-means solution."}],"date_published":"2024-01-04T00:00:00Z","scopus_import":"1","article_processing_charge":"No","month":"01","author":[{"first_name":"Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","orcid":"0000-0002-5008-6530","last_name":"Henzinger","full_name":"Henzinger, Monika H"},{"last_name":"Saulpic","full_name":"Saulpic, David","first_name":"David","id":"f8e48cf0-b0ff-11ed-b0e9-b4c35598f964"},{"first_name":"Leonhard","id":"8b563fd0-b441-11ee-9101-a3891c61efa6","last_name":"Sidl","full_name":"Sidl, Leonhard"}]},{"article_type":"original","status":"public","quality_controlled":"1","file":[{"date_created":"2024-01-17T11:03:00Z","relation":"main_file","creator":"dernst","checksum":"ef79173b45eeaf984ffa61ef2f8a52ab","access_level":"open_access","file_size":2336595,"file_id":"14825","content_type":"application/pdf","success":1,"date_updated":"2024-01-17T11:03:00Z","file_name":"2024_NatureComm_Valentini.pdf"}],"date_published":"2024-01-02T00:00:00Z","ddc":["530"],"abstract":[{"text":"Superconductor/semiconductor hybrid devices have attracted increasing interest in the past years. Superconducting electronics aims to complement semiconductor technology, while hybrid architectures are at the forefront of new ideas such as topological superconductivity and protected qubits. In this work, we engineer the induced superconductivity in two-dimensional germanium hole gas by varying the distance between the quantum well and the aluminum. We demonstrate a hard superconducting gap and realize an electrically and flux tunable superconducting diode using a superconducting quantum interference device (SQUID). This allows to tune the current phase relation (CPR), to a regime where single Cooper pair tunneling is suppressed, creating a sin(2y) CPR. Shapiro experiments complement this interpretation and the microwave drive allows to create a diode with ≈ 100% efficiency. The reported results open up the path towards integration of spin qubit devices, microwave resonators and (protected) superconducting qubits on  the same silicon technology compatible platform.","lang":"eng"}],"scopus_import":"1","article_processing_charge":"Yes","author":[{"full_name":"Valentini, Marco","last_name":"Valentini","id":"C0BB2FAC-D767-11E9-B658-BC13E6697425","first_name":"Marco"},{"id":"71616374-A8E9-11E9-A7CA-09ECE5697425","first_name":"Oliver","full_name":"Sagi, Oliver","last_name":"Sagi"},{"full_name":"Baghumyan, Levon","last_name":"Baghumyan","id":"7aa1f788-b527-11ee-aa9e-e6111a79e0c7","first_name":"Levon"},{"full_name":"de Gijsel, Thijs","last_name":"de Gijsel","id":"a0ece13c-b527-11ee-929d-bad130106eee","first_name":"Thijs"},{"first_name":"Jason","id":"4C9ACE7A-F248-11E8-B48F-1D18A9856A87","last_name":"Jung","full_name":"Jung, Jason"},{"full_name":"Calcaterra, Stefano","last_name":"Calcaterra","first_name":"Stefano"},{"first_name":"Andrea","last_name":"Ballabio","full_name":"Ballabio, Andrea"},{"last_name":"Aguilera Servin","full_name":"Aguilera Servin, Juan L","first_name":"Juan L","orcid":"0000-0002-2862-8372","id":"2A67C376-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Aggarwal","full_name":"Aggarwal, Kushagra","first_name":"Kushagra","orcid":"0000-0001-9985-9293","id":"b22ab905-3539-11eb-84c3-fc159dcd79cb"},{"first_name":"Marian","id":"396A1950-F248-11E8-B48F-1D18A9856A87","last_name":"Janik","full_name":"Janik, Marian"},{"id":"38756BB2-F248-11E8-B48F-1D18A9856A87","first_name":"Thomas","full_name":"Adletzberger, Thomas","last_name":"Adletzberger"},{"first_name":"Rubén","last_name":"Seoane Souto","full_name":"Seoane Souto, Rubén"},{"first_name":"Martin","full_name":"Leijnse, Martin","last_name":"Leijnse"},{"last_name":"Danon","full_name":"Danon, Jeroen","first_name":"Jeroen"},{"first_name":"Constantin","full_name":"Schrade, Constantin","last_name":"Schrade"},{"first_name":"Erik","full_name":"Bakkers, Erik","last_name":"Bakkers"},{"full_name":"Chrastina, Daniel","last_name":"Chrastina","first_name":"Daniel"},{"first_name":"Giovanni","full_name":"Isella, Giovanni","last_name":"Isella"},{"full_name":"Katsaros, Georgios","last_name":"Katsaros","orcid":"0000-0001-8342-202X","id":"38DB5788-F248-11E8-B48F-1D18A9856A87","first_name":"Georgios"}],"month":"01","has_accepted_license":"1","article_number":"169","doi":"10.1038/s41467-023-44114-0","acknowledged_ssus":[{"_id":"M-Shop"},{"_id":"NanoFab"}],"publication_identifier":{"eissn":["2041-1723"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","APC_amount":"12345","publication":"Nature Communications","oa_version":"Published Version","ec_funded":1,"language":[{"iso":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"publisher":"Springer Nature","oa":1,"intvolume":"        15","external_id":{"pmid":["38167818"],"oaworkID":["w4390499170"]},"day":"02","title":"Parity-conserving Cooper-pair transport and ideal superconducting diode in planar germanium","volume":15,"acknowledgement":"We acknowledge Alexander Brinkmann, Alessandro Crippa, Francesco Giazotto, Andrew Higginbotham, Andrea Iorio, Giordano Scappucci, Christian Schonenberger, and Lukas Splitthoff for helpful discussions. We thank Marcel Verheijen for the support in the TEM analysis. This research and related results were made possible with the support of the NOMIS\r\nFoundation. It was supported by the Scientific Service Units of ISTA through resources provided by the MIBA Machine Shop and the nanofabrication facility, the European Union’s Horizon 2020 research andinnovation programme under Grant Agreement No 862046, the HORIZONRIA\r\n101069515 project, the European Innovation Council Pathfinder grant no. 101115315 (QuKiT), and the FWF Projects #P-32235, #P-36507 and #F-8606. For the purpose of open access, the authors have applied a CC BY public copyright licence to any Author Accepted Manuscript version arising from this submission. R.S.S. acknowledges Spanish CM “Talento Program\"\r\nProject No. 2022-T1/IND-24070. J.J. acknowledges European Research Council TOCINA 834290.","researchdata_availability":"yes","dataavailabilitystatement":"All experimental data included in this work are available at https://zenodo.org/records/10119346.","year":"2024","_id":"14793","date_updated":"2026-02-26T11:39:00Z","supplementarymaterial":"yes","project":[{"name":"TOPOLOGICALLY PROTECTED AND SCALABLE QUANTUM BITS","_id":"237E5020-32DE-11EA-91FC-C7463DDC885E","call_identifier":"H2020","grant_number":"862046"},{"_id":"34c0acea-11ca-11ed-8bc3-8775e10fd452","name":"Integrated GermaNIum quanTum tEchnology","grant_number":"101069515"},{"name":"Quantum bits with Kitaev Transmons","_id":"bdc2ca30-d553-11ed-ba76-cf164a5bb811","grant_number":"101115315"},{"name":"Towards scalable hut wire quantum devices","_id":"237B3DA4-32DE-11EA-91FC-C7463DDC885E","call_identifier":"FWF","grant_number":"P32235"},{"_id":"bd8bd29e-d553-11ed-ba76-f0070d4b237a","name":"Merging spin and superconducting qubits in planar Ge","grant_number":"P36507"},{"grant_number":"F8606","_id":"34a66131-11ca-11ed-8bc3-a31681c6b03e","name":"Conventional and unconventional topological superconductors"}],"file_date_updated":"2024-01-17T11:03:00Z","citation":{"chicago":"Valentini, Marco, Oliver Sagi, Levon Baghumyan, Thijs de Gijsel, Jason Jung, Stefano Calcaterra, Andrea Ballabio, et al. “Parity-Conserving Cooper-Pair Transport and Ideal Superconducting Diode in Planar Germanium.” <i>Nature Communications</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1038/s41467-023-44114-0\">https://doi.org/10.1038/s41467-023-44114-0</a>.","mla":"Valentini, Marco, et al. “Parity-Conserving Cooper-Pair Transport and Ideal Superconducting Diode in Planar Germanium.” <i>Nature Communications</i>, vol. 15, 169, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1038/s41467-023-44114-0\">10.1038/s41467-023-44114-0</a>.","ama":"Valentini M, Sagi O, Baghumyan L, et al. Parity-conserving Cooper-pair transport and ideal superconducting diode in planar germanium. <i>Nature Communications</i>. 2024;15. doi:<a href=\"https://doi.org/10.1038/s41467-023-44114-0\">10.1038/s41467-023-44114-0</a>","short":"M. Valentini, O. Sagi, L. Baghumyan, T. de Gijsel, J. Jung, S. Calcaterra, A. Ballabio, J.L. Aguilera Servin, K. Aggarwal, M. Janik, T. Adletzberger, R. Seoane Souto, M. Leijnse, J. Danon, C. Schrade, E. Bakkers, D. Chrastina, G. Isella, G. Katsaros, Nature Communications 15 (2024).","apa":"Valentini, M., Sagi, O., Baghumyan, L., de Gijsel, T., Jung, J., Calcaterra, S., … Katsaros, G. (2024). Parity-conserving Cooper-pair transport and ideal superconducting diode in planar germanium. <i>Nature Communications</i>. Springer Nature. <a href=\"https://doi.org/10.1038/s41467-023-44114-0\">https://doi.org/10.1038/s41467-023-44114-0</a>","ista":"Valentini M, Sagi O, Baghumyan L, de Gijsel T, Jung J, Calcaterra S, Ballabio A, Aguilera Servin JL, Aggarwal K, Janik M, Adletzberger T, Seoane Souto R, Leijnse M, Danon J, Schrade C, Bakkers E, Chrastina D, Isella G, Katsaros G. 2024. Parity-conserving Cooper-pair transport and ideal superconducting diode in planar germanium. Nature Communications. 15, 169.","ieee":"M. Valentini <i>et al.</i>, “Parity-conserving Cooper-pair transport and ideal superconducting diode in planar germanium,” <i>Nature Communications</i>, vol. 15. Springer Nature, 2024."},"department":[{"_id":"GeKa"}],"publication_status":"published","date_created":"2024-01-14T23:00:56Z","pmid":1},{"date_updated":"2025-08-11T11:49:30Z","_id":"14794","project":[{"_id":"2625A13E-B435-11E9-9278-68D0E5697425","name":"Molecular Mechanisms of Radial Neuronal Migration","grant_number":"24812"}],"department":[{"_id":"SiHi"}],"citation":{"ieee":"A. H. Hansen and S. Hippenmeyer, “Time-lapse imaging of cortical projection neuron migration in mice using mosaic analysis with double markers,” <i>STAR Protocols</i>, vol. 5, no. 1. Elsevier, 2024.","ama":"Hansen AH, Hippenmeyer S. Time-lapse imaging of cortical projection neuron migration in mice using mosaic analysis with double markers. <i>STAR Protocols</i>. 2024;5(1). doi:<a href=\"https://doi.org/10.1016/j.xpro.2023.102795\">10.1016/j.xpro.2023.102795</a>","mla":"Hansen, Andi H., and Simon Hippenmeyer. “Time-Lapse Imaging of Cortical Projection Neuron Migration in Mice Using Mosaic Analysis with Double Markers.” <i>STAR Protocols</i>, vol. 5, no. 1, 102795, Elsevier, 2024, doi:<a href=\"https://doi.org/10.1016/j.xpro.2023.102795\">10.1016/j.xpro.2023.102795</a>.","chicago":"Hansen, Andi H, and Simon Hippenmeyer. “Time-Lapse Imaging of Cortical Projection Neuron Migration in Mice Using Mosaic Analysis with Double Markers.” <i>STAR Protocols</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.xpro.2023.102795\">https://doi.org/10.1016/j.xpro.2023.102795</a>.","apa":"Hansen, A. H., &#38; Hippenmeyer, S. (2024). Time-lapse imaging of cortical projection neuron migration in mice using mosaic analysis with double markers. <i>STAR Protocols</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.xpro.2023.102795\">https://doi.org/10.1016/j.xpro.2023.102795</a>","ista":"Hansen AH, Hippenmeyer S. 2024. Time-lapse imaging of cortical projection neuron migration in mice using mosaic analysis with double markers. STAR Protocols. 5(1), 102795.","short":"A.H. Hansen, S. Hippenmeyer, STAR Protocols 5 (2024)."},"publication_status":"epub_ahead","main_file_link":[{"url":"https://doi.org/10.1016/j.xpro.2023.102795","open_access":"1"}],"date_created":"2024-01-14T23:00:56Z","pmid":1,"external_id":{"oaworkID":["34426698 "],"pmid":["38165800"]},"title":"Time-lapse imaging of cortical projection neuron migration in mice using mosaic analysis with double markers","day":"01","acknowledgement":"We thank Florian Pauler for discussion and his expert technical support. This research was supported by the Scientific Service Units (SSU) at IST Austria through resources provided by the Imaging and Optics Facility (IOF) and Preclinical Facility (PCF). A.H.H. was a recipient of a DOC Fellowship (24812) of the Austrian Academy of Sciences.","volume":5,"year":"2024","issue":"1","doi":"10.1016/j.xpro.2023.102795","type":"journal_article","acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["2666-1667"]},"related_material":{"link":[{"url":"http://github.com/hippenmeyerlab","relation":"software"}]},"language":[{"iso":"eng"}],"oa_version":"Published Version","publication":"STAR Protocols","oa":1,"publisher":"Elsevier","intvolume":"         5","status":"public","article_type":"review","quality_controlled":"1","abstract":[{"text":"Mosaic analysis with double markers (MADM) technology enables the sparse labeling of genetically defined neurons. We present a protocol for time-lapse imaging of cortical projection neuron migration in mice using MADM. We describe steps for the isolation, culturing, and 4D imaging of neuronal dynamics in MADM-labeled brain tissue. While this protocol is compatible with other single-cell labeling methods, the MADM approach provides a genetic platform for the functional assessment of cell-autonomous candidate gene function and the relative contribution of non-cell-autonomous effects.\r\n\r\nFor complete details on the use and execution of this protocol, please refer to Hansen et al. (2022),1 Contreras et al. (2021),2 and Amberg and Hippenmeyer (2021).3","lang":"eng"}],"date_published":"2024-01-01T00:00:00Z","article_processing_charge":"Yes","scopus_import":"1","month":"01","author":[{"full_name":"Hansen, Andi H","last_name":"Hansen","id":"38853E16-F248-11E8-B48F-1D18A9856A87","first_name":"Andi H"},{"first_name":"Simon","id":"37B36620-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2279-1061","last_name":"Hippenmeyer","full_name":"Hippenmeyer, Simon"}],"article_number":"102795"},{"intvolume":"        34","publisher":"Elsevier","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"ec_funded":1,"language":[{"iso":"eng"}],"oa_version":"Published Version","arxiv":1,"publication":"Current Biology","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["1879-0445"],"issn":["0960-9822"]},"acknowledged_ssus":[{"_id":"Bio"},{"_id":"PreCl"}],"page":"171-182.e8","doi":"10.1016/j.cub.2023.11.067","has_accepted_license":"1","month":"01","author":[{"full_name":"Arslan, Feyza N","last_name":"Arslan","id":"49DA7910-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5809-9566","first_name":"Feyza N"},{"id":"3A9DB764-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-6005-1561","first_name":"Edouard B","full_name":"Hannezo, Edouard B","last_name":"Hannezo"},{"last_name":"Merrin","full_name":"Merrin, Jack","first_name":"Jack","id":"4515C308-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5145-4609"},{"id":"462D4284-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7309-9724","first_name":"Martin","full_name":"Loose, Martin","last_name":"Loose"},{"id":"39427864-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-0912-4566","first_name":"Carl-Philipp J","full_name":"Heisenberg, Carl-Philipp J","last_name":"Heisenberg"}],"article_processing_charge":"Yes (via OA deal)","scopus_import":"1","ddc":["570"],"abstract":[{"lang":"eng","text":"Metazoan development relies on the formation and remodeling of cell-cell contacts. Dynamic reorganization of adhesion receptors and the actomyosin cell cortex in space and time plays a central role in cell-cell contact formation and maturation. Nevertheless, how this process is mechanistically achieved when new contacts are formed remains unclear. Here, by building a biomimetic assay composed of progenitor cells adhering to supported lipid bilayers functionalized with E-cadherin ectodomains, we show that cortical F-actin flows, driven by the depletion of myosin-2 at the cell contact center, mediate the dynamic reorganization of adhesion receptors and cell cortex at the contact. E-cadherin-dependent downregulation of the small GTPase RhoA at the forming contact leads to both a depletion of myosin-2 and a decrease of F-actin at the contact center. At the contact rim, in contrast, myosin-2 becomes enriched by the retraction of bleb-like protrusions, resulting in a cortical tension gradient from the contact rim to its center. This tension gradient, in turn, triggers centrifugal F-actin flows, leading to further accumulation of F-actin at the contact rim and the progressive redistribution of E-cadherin from the contact center to the rim. Eventually, this combination of actomyosin downregulation and flows at the contact determines the characteristic molecular organization, with E-cadherin and F-actin accumulating at the contact rim, where they are needed to mechanically link the contractile cortices of the adhering cells."}],"date_published":"2024-01-08T00:00:00Z","file":[{"file_id":"14813","content_type":"application/pdf","access_level":"open_access","file_size":5183861,"file_name":"2024_CurrentBiology_Arslan.pdf","date_updated":"2024-01-16T10:53:31Z","success":1,"date_created":"2024-01-16T10:53:31Z","relation":"main_file","checksum":"51220b76d72a614208f84bdbfbaf9b72","creator":"dernst"}],"quality_controlled":"1","status":"public","article_type":"original","date_created":"2024-01-14T23:00:56Z","publication_status":"published","department":[{"_id":"CaHe"},{"_id":"EdHa"},{"_id":"MaLo"},{"_id":"NanoFab"}],"citation":{"ieee":"F. N. Arslan, E. B. Hannezo, J. Merrin, M. Loose, and C.-P. J. Heisenberg, “Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts,” <i>Current Biology</i>, vol. 34, no. 1. Elsevier, p. 171–182.e8, 2024.","chicago":"Arslan, Feyza N, Edouard B Hannezo, Jack Merrin, Martin Loose, and Carl-Philipp J Heisenberg. “Adhesion-Induced Cortical Flows Pattern E-Cadherin-Mediated Cell Contacts.” <i>Current Biology</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.cub.2023.11.067\">https://doi.org/10.1016/j.cub.2023.11.067</a>.","mla":"Arslan, Feyza N., et al. “Adhesion-Induced Cortical Flows Pattern E-Cadherin-Mediated Cell Contacts.” <i>Current Biology</i>, vol. 34, no. 1, Elsevier, 2024, p. 171–182.e8, doi:<a href=\"https://doi.org/10.1016/j.cub.2023.11.067\">10.1016/j.cub.2023.11.067</a>.","ama":"Arslan FN, Hannezo EB, Merrin J, Loose M, Heisenberg C-PJ. Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts. <i>Current Biology</i>. 2024;34(1):171-182.e8. doi:<a href=\"https://doi.org/10.1016/j.cub.2023.11.067\">10.1016/j.cub.2023.11.067</a>","short":"F.N. Arslan, E.B. Hannezo, J. Merrin, M. Loose, C.-P.J. Heisenberg, Current Biology 34 (2024) 171–182.e8.","ista":"Arslan FN, Hannezo EB, Merrin J, Loose M, Heisenberg C-PJ. 2024. Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts. Current Biology. 34(1), 171–182.e8.","apa":"Arslan, F. N., Hannezo, E. B., Merrin, J., Loose, M., &#38; Heisenberg, C.-P. J. (2024). Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts. <i>Current Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cub.2023.11.067\">https://doi.org/10.1016/j.cub.2023.11.067</a>"},"project":[{"_id":"260F1432-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Interaction and feedback between cell mechanics and fate specification in vertebrate gastrulation","grant_number":"742573"}],"file_date_updated":"2024-01-16T10:53:31Z","date_updated":"2025-07-22T14:58:27Z","_id":"14795","year":"2024","issue":"1","acknowledgement":"We are grateful to Edwin Munro for their feedback and help with the single particle analysis. We thank members of the Heisenberg and Loose labs for their help and feedback on the manuscript, notably Xin Tong for making the PCS2-mCherry-AHPH plasmid. Finally, we thank the Aquatics and Imaging & Optics facilities of ISTA for their continuous support, especially Yann Cesbron for assistance with the laser cutter. This work was supported by an ERC\r\nAdvanced Grant (MECSPEC) to C.-P.H.","corr_author":"1","volume":34,"title":"Adhesion-induced cortical flows pattern E-cadherin-mediated cell contacts","day":"08","external_id":{"arxiv":["2410.03589"]}},{"date_created":"2024-01-14T23:00:57Z","publication_status":"epub_ahead","main_file_link":[{"open_access":"1","url":"https://doi.org/10.1007/s00440-023-01254-0"}],"citation":{"mla":"Clozeau, Nicolas, and Francesco Mattesini. “Annealed Quantitative Estimates for the Quadratic 2D-Discrete Random Matching Problem.” <i>Probability Theory and Related Fields</i>, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1007/s00440-023-01254-0\">10.1007/s00440-023-01254-0</a>.","ama":"Clozeau N, Mattesini F. Annealed quantitative estimates for the quadratic 2D-discrete random matching problem. <i>Probability Theory and Related Fields</i>. 2024. doi:<a href=\"https://doi.org/10.1007/s00440-023-01254-0\">10.1007/s00440-023-01254-0</a>","chicago":"Clozeau, Nicolas, and Francesco Mattesini. “Annealed Quantitative Estimates for the Quadratic 2D-Discrete Random Matching Problem.” <i>Probability Theory and Related Fields</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/s00440-023-01254-0\">https://doi.org/10.1007/s00440-023-01254-0</a>.","ista":"Clozeau N, Mattesini F. 2024. Annealed quantitative estimates for the quadratic 2D-discrete random matching problem. Probability Theory and Related Fields.","apa":"Clozeau, N., &#38; Mattesini, F. (2024). Annealed quantitative estimates for the quadratic 2D-discrete random matching problem. <i>Probability Theory and Related Fields</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s00440-023-01254-0\">https://doi.org/10.1007/s00440-023-01254-0</a>","short":"N. Clozeau, F. Mattesini, Probability Theory and Related Fields (2024).","ieee":"N. Clozeau and F. Mattesini, “Annealed quantitative estimates for the quadratic 2D-discrete random matching problem,” <i>Probability Theory and Related Fields</i>. Springer Nature, 2024."},"department":[{"_id":"JuFi"}],"_id":"14797","date_updated":"2025-08-12T12:22:41Z","project":[{"grant_number":"948819","name":"Bridging Scales in Random Materials","_id":"0aa76401-070f-11eb-9043-b5bb049fa26d","call_identifier":"H2020"}],"year":"2024","acknowledgement":"NC has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (Grant agreement No 948819).\r\nFM is supported by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) through the SPP 2265 Random Geometric Systems. FM has been funded by the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany’s Excellence Strategy EXC 2044 -390685587, Mathematics Münster: Dynamics–Geometry–Structure. FM has been funded by the Max Planck Institute for Mathematics in the Sciences.","external_id":{"arxiv":["2303.00353"]},"day":"04","title":"Annealed quantitative estimates for the quadratic 2D-discrete random matching problem","oa":1,"publisher":"Springer Nature","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa_version":"Published Version","publication":"Probability Theory and Related Fields","arxiv":1,"ec_funded":1,"language":[{"iso":"eng"}],"doi":"10.1007/s00440-023-01254-0","publication_identifier":{"eissn":["1432-2064"],"issn":["0178-8051"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","keyword":["Troll","Norway","Fjell"],"type":"journal_article","has_accepted_license":"1","article_processing_charge":"Yes (in subscription journal)","scopus_import":"1","author":[{"full_name":"Clozeau, Nicolas","last_name":"Clozeau","id":"fea1b376-906f-11eb-847d-b2c0cf46455b","first_name":"Nicolas"},{"full_name":"Mattesini, Francesco","last_name":"Mattesini","first_name":"Francesco"}],"month":"01","date_published":"2024-01-04T00:00:00Z","abstract":[{"lang":"eng","text":"We study a random matching problem on closed compact  2 -dimensional Riemannian manifolds (with respect to the squared Riemannian distance), with samples of random points whose common law is absolutely continuous with respect to the volume measure with strictly positive and bounded density. We show that given two sequences of numbers  n  and  m=m(n)  of points, asymptotically equivalent as  n  goes to infinity, the optimal transport plan between the two empirical measures  μn  and  νm  is quantitatively well-approximated by  (Id,exp(∇hn))#μn  where  hn  solves a linear elliptic PDE obtained by a regularized first-order linearization of the Monge-Ampère equation. This is obtained in the case of samples of correlated random points for which a stretched exponential decay of the  α -mixing coefficient holds and for a class of discrete-time Markov chains having a unique absolutely continuous invariant measure with respect to the volume measure."}],"ddc":["510"],"article_type":"original","status":"public","quality_controlled":"1"},{"has_accepted_license":"1","author":[{"first_name":"Fritz R","id":"2E054C4C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-4947-8924","last_name":"Diorico","full_name":"Diorico, Fritz R"},{"first_name":"Artem","id":"0f02ed6a-b514-11ee-b891-8379c5f19cb7","last_name":"Zhutov","full_name":"Zhutov, Artem"},{"orcid":"0000-0002-2031-204X","id":"4C02D85E-F248-11E8-B48F-1D18A9856A87","first_name":"Onur","full_name":"Hosten, Onur","last_name":"Hosten"}],"month":"01","article_processing_charge":"Yes","date_published":"2024-01-20T00:00:00Z","abstract":[{"text":"Frequency-stable lasers form the back bone of precision measurements in science and technology. Such lasers typically attain their stability through frequency locking to reference cavities. State-of-the-art locking performances to date had been achieved using frequency modulation based methods, complemented with active drift cancellation systems. We demonstrate an all passive, modulation-free laser-cavity locking technique (squash locking) that utilizes changes in spatial beam ellipticity for error signal generation, and a coherent polarization post-selection for noise resilience. By comparing two identically built proof-of-principle systems, we show a frequency locking instability of 5×10<jats:sup>−7</jats:sup> relative to the cavity linewidth at 10 s averaging. The results surpass the demonstrated performances of methods engineered over the last five decades, potentially enabling an advancement in the precision control of lasers, while creating avenues for bridging the performance gaps between industrial grade lasers with scientific ones due to the afforded simplicity and scalability.","lang":"eng"}],"ddc":["530"],"file":[{"date_updated":"2024-01-17T08:53:16Z","file_name":"2023_Optica_Diorico.pdf","success":1,"content_type":"application/pdf","file_id":"14824","file_size":4558986,"access_level":"open_access","checksum":"eb99ca7d0fe73e22f121875175546ed7","creator":"dernst","relation":"main_file","date_created":"2024-01-17T08:53:16Z"}],"quality_controlled":"1","article_type":"original","status":"public","intvolume":"        11","publisher":"Optica Publishing Group","oa":1,"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"publication":"Optica","arxiv":1,"oa_version":"Published Version","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","keyword":["Atomic and Molecular Physics","and Optics","Electronic","Optical and Magnetic Materials"],"publication_identifier":{"issn":["2334-2536"]},"type":"journal_article","doi":"10.1364/optica.507451","page":"26-31","issue":"1","year":"2024","volume":11,"acknowledgement":"We thank Rishabh Sahu and Sebastian Wald for technical contributions to the experiment. Funding by Institute of Science and Technology Austria.","day":"20","title":"Laser-cavity locking utilizing beam ellipticity: accessing the 10<sup>−7</sup> instability scale relative to cavity linewidth","external_id":{"arxiv":["2202.13212"]},"date_created":"2024-01-15T10:25:38Z","publication_status":"published","department":[{"_id":"OnHo"}],"file_date_updated":"2024-01-17T08:53:16Z","_id":"14802","date_updated":"2024-08-19T09:52:20Z"},{"date_created":"2024-01-16T14:25:21Z","alternative_title":["ISTA Thesis"],"publication_status":"published","citation":{"chicago":"Chiossi, Heloisa S. C. “Adaptive Hierarchical Representations in the Hippocampus.” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/at:ista:14821\">https://doi.org/10.15479/at:ista:14821</a>.","mla":"Chiossi, Heloisa S. C. <i>Adaptive Hierarchical Representations in the Hippocampus</i>. Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/at:ista:14821\">10.15479/at:ista:14821</a>.","ama":"Chiossi HSC. Adaptive hierarchical representations in the hippocampus. 2024. doi:<a href=\"https://doi.org/10.15479/at:ista:14821\">10.15479/at:ista:14821</a>","short":"H.S.C. Chiossi, Adaptive Hierarchical Representations in the Hippocampus, Institute of Science and Technology Austria, 2024.","apa":"Chiossi, H. S. C. (2024). <i>Adaptive hierarchical representations in the hippocampus</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14821\">https://doi.org/10.15479/at:ista:14821</a>","ista":"Chiossi HSC. 2024. Adaptive hierarchical representations in the hippocampus. Institute of Science and Technology Austria.","ieee":"H. S. C. Chiossi, “Adaptive hierarchical representations in the hippocampus,” Institute of Science and Technology Austria, 2024."},"department":[{"_id":"GradSch"},{"_id":"JoCs"}],"_id":"14821","date_updated":"2024-02-01T09:50:29Z","project":[{"grant_number":"665385","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"International IST Doctoral Program"}],"file_date_updated":"2024-01-19T11:04:05Z","year":"2024","supervisor":[{"id":"3FA14672-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-5193-4036","first_name":"Jozsef L","full_name":"Csicsvari, Jozsef L","last_name":"Csicsvari"}],"day":"19","title":"Adaptive hierarchical representations in the hippocampus","publisher":"Institute of Science and Technology Austria","oa_version":"Published Version","ec_funded":1,"language":[{"iso":"eng"}],"page":"89","degree_awarded":"PhD","doi":"10.15479/at:ista:14821","user_id":"8b945eb4-e2f2-11eb-945a-df72226e66a9","publication_identifier":{"issn":["2663 - 337X"]},"type":"dissertation","has_accepted_license":"1","article_processing_charge":"No","author":[{"last_name":"Chiossi","full_name":"Chiossi, Heloisa","first_name":"Heloisa","id":"2BBA502C-F248-11E8-B48F-1D18A9856A87"}],"month":"01","file":[{"relation":"source_file","date_created":"2024-01-19T11:04:05Z","creator":"hchiossi","checksum":"d3fa3de1abd5af5204c13e9d55375615","file_size":8656268,"access_level":"closed","content_type":"application/vnd.openxmlformats-officedocument.wordprocessingml.document","file_id":"14838","date_updated":"2024-01-19T11:04:05Z","file_name":"PhD_Thesis_190124.docx"},{"file_name":"PhD_Thesis_190124.pdf","date_updated":"2024-01-19T11:03:59Z","embargo_to":"open_access","file_size":6567275,"access_level":"closed","content_type":"application/pdf","file_id":"14839","creator":"hchiossi","checksum":"13adc8dcfb5b6b18107f89f0a98fa8bd","embargo":"2025-01-19","relation":"main_file","date_created":"2024-01-19T11:03:59Z"}],"date_published":"2024-01-19T00:00:00Z","ddc":["570"],"status":"public"},{"issue":"1","year":"2024","volume":187,"acknowledgement":"We are grateful to Asuka Shitaku and Eri Koide for generating and sharing the Marchantia PRAF-mCitrine line and Peng-Cheng Wang for sharing the Arabidopsis raf mutant. We are grateful to our team members for discussions and helpful advice. This work was supported by funding from the Netherlands Organization for Scientific Research (NWO): VICI grant 865.14.001 and ENW-KLEIN OCENW.KLEIN.027 grants to D.W.; VENI grant VI.VENI.212.003 to A.K.; the European Research Council AdG DIRNDL (contract number 833867) to D.W.; CoG CATCH to J.S.; StG CELLONGATE (contract 803048) to M.F.; and AdG ETAP (contract 742985) to J.F.; MEXT KAKENHI grant number JP19H05675 to T.K.; JSPS KAKENHI grant number JP20H03275 to R.N.; Takeda Science Foundation to R.N.; and the Austrian Science Fund (FWF, P29988) to J.F.","external_id":{"pmid":["38128538"]},"day":"04","title":"RAF-like protein kinases mediate a deeply conserved, rapid auxin response","date_created":"2024-01-17T12:45:40Z","license":"https://creativecommons.org/licenses/by-nc/4.0/","pmid":1,"publication_status":"published","citation":{"ieee":"A. Kuhn <i>et al.</i>, “RAF-like protein kinases mediate a deeply conserved, rapid auxin response,” <i>Cell</i>, vol. 187, no. 1. Elsevier, p. 130–148.e17, 2024.","chicago":"Kuhn, Andre, Mark Roosjen, Sumanth Mutte, Shiv Mani Dubey, Vanessa Polet Carrillo Carrasco, Sjef Boeren, Aline Monzer, et al. “RAF-like Protein Kinases Mediate a Deeply Conserved, Rapid Auxin Response.” <i>Cell</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.cell.2023.11.021\">https://doi.org/10.1016/j.cell.2023.11.021</a>.","ama":"Kuhn A, Roosjen M, Mutte S, et al. RAF-like protein kinases mediate a deeply conserved, rapid auxin response. <i>Cell</i>. 2024;187(1):130-148.e17. doi:<a href=\"https://doi.org/10.1016/j.cell.2023.11.021\">10.1016/j.cell.2023.11.021</a>","mla":"Kuhn, Andre, et al. “RAF-like Protein Kinases Mediate a Deeply Conserved, Rapid Auxin Response.” <i>Cell</i>, vol. 187, no. 1, Elsevier, 2024, p. 130–148.e17, doi:<a href=\"https://doi.org/10.1016/j.cell.2023.11.021\">10.1016/j.cell.2023.11.021</a>.","short":"A. Kuhn, M. Roosjen, S. Mutte, S.M. Dubey, V.P. Carrillo Carrasco, S. Boeren, A. Monzer, J. Koehorst, T. Kohchi, R. Nishihama, M. Fendrych, J. Sprakel, J. Friml, D. Weijers, Cell 187 (2024) 130–148.e17.","apa":"Kuhn, A., Roosjen, M., Mutte, S., Dubey, S. M., Carrillo Carrasco, V. P., Boeren, S., … Weijers, D. (2024). RAF-like protein kinases mediate a deeply conserved, rapid auxin response. <i>Cell</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.cell.2023.11.021\">https://doi.org/10.1016/j.cell.2023.11.021</a>","ista":"Kuhn A, Roosjen M, Mutte S, Dubey SM, Carrillo Carrasco VP, Boeren S, Monzer A, Koehorst J, Kohchi T, Nishihama R, Fendrych M, Sprakel J, Friml J, Weijers D. 2024. RAF-like protein kinases mediate a deeply conserved, rapid auxin response. Cell. 187(1), 130–148.e17."},"department":[{"_id":"JiFr"}],"_id":"14826","date_updated":"2024-01-22T13:43:40Z","project":[{"grant_number":"742985","_id":"261099A6-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Tracing Evolution of Auxin Transport and Polarity in Plants"},{"call_identifier":"FWF","_id":"262EF96E-B435-11E9-9278-68D0E5697425","name":"RNA-directed DNA methylation in plant development","grant_number":"P29988"}],"file_date_updated":"2024-01-22T13:41:41Z","has_accepted_license":"1","scopus_import":"1","article_processing_charge":"Yes (in subscription journal)","author":[{"first_name":"Andre","last_name":"Kuhn","full_name":"Kuhn, Andre"},{"last_name":"Roosjen","full_name":"Roosjen, Mark","first_name":"Mark"},{"first_name":"Sumanth","last_name":"Mutte","full_name":"Mutte, Sumanth"},{"full_name":"Dubey, Shiv Mani","last_name":"Dubey","first_name":"Shiv Mani"},{"first_name":"Vanessa Polet","last_name":"Carrillo Carrasco","full_name":"Carrillo Carrasco, Vanessa Polet"},{"first_name":"Sjef","full_name":"Boeren, Sjef","last_name":"Boeren"},{"last_name":"Monzer","full_name":"Monzer, Aline","first_name":"Aline","id":"2DB5D88C-D7B3-11E9-B8FD-7907E6697425"},{"last_name":"Koehorst","full_name":"Koehorst, Jasper","first_name":"Jasper"},{"first_name":"Takayuki","full_name":"Kohchi, Takayuki","last_name":"Kohchi"},{"last_name":"Nishihama","full_name":"Nishihama, Ryuichi","first_name":"Ryuichi"},{"full_name":"Fendrych, Matyas","last_name":"Fendrych","id":"43905548-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9767-8699","first_name":"Matyas"},{"first_name":"Joris","full_name":"Sprakel, Joris","last_name":"Sprakel"},{"full_name":"Friml, Jiří","last_name":"Friml","id":"4159519E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8302-7596","first_name":"Jiří"},{"first_name":"Dolf","full_name":"Weijers, Dolf","last_name":"Weijers"}],"month":"01","file":[{"success":1,"date_updated":"2024-01-22T13:41:41Z","file_name":"2024_Cell_Kuhn.pdf","file_size":13194060,"access_level":"open_access","content_type":"application/pdf","file_id":"14874","creator":"dernst","checksum":"06fd236a9ee0b46ccb05f44695bfc34b","relation":"main_file","date_created":"2024-01-22T13:41:41Z"}],"date_published":"2024-01-04T00:00:00Z","abstract":[{"text":"The plant-signaling molecule auxin triggers fast and slow cellular responses across land plants and algae. The nuclear auxin pathway mediates gene expression and controls growth and development in land plants, but this pathway is absent from algal sister groups. Several components of rapid responses have been identified in Arabidopsis, but it is unknown if these are part of a conserved mechanism. We recently identified a fast, proteome-wide phosphorylation response to auxin. Here, we show that this response occurs across 5 land plant and algal species and converges on a core group of shared targets. We found conserved rapid physiological responses to auxin in the same species and identified rapidly accelerated fibrosarcoma (RAF)-like protein kinases as central mediators of auxin-triggered phosphorylation across species. Genetic analysis connects this kinase to both auxin-triggered protein phosphorylation and rapid cellular response, thus identifying an ancient mechanism for fast auxin responses in the green lineage.","lang":"eng"}],"ddc":["580"],"article_type":"original","status":"public","quality_controlled":"1","oa":1,"publisher":"Elsevier","intvolume":"       187","tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","short":"CC BY-NC (4.0)"},"publication":"Cell","oa_version":"Published Version","ec_funded":1,"language":[{"iso":"eng"}],"page":"130-148.e17","doi":"10.1016/j.cell.2023.11.021","publication_identifier":{"issn":["0092-8674"],"eissn":["1097-4172"]},"keyword":["General Biochemistry","Genetics and Molecular Biology"],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article"},{"scopus_import":"1","article_processing_charge":"No","author":[{"first_name":"Gundegowda Kalligowdanadoddi","full_name":"Kiran, Gundegowda Kalligowdanadoddi","last_name":"Kiran"},{"id":"12d625da-9cb3-11ed-9667-af09d37d3f0a","orcid":"0000-0003-2209-5269","first_name":"Saurabh","full_name":"Singh, Saurabh","last_name":"Singh"},{"first_name":"Neelima","last_name":"Mahato","full_name":"Mahato, Neelima"},{"full_name":"Sreekanth, Thupakula Venkata Madhukar","last_name":"Sreekanth","first_name":"Thupakula Venkata Madhukar"},{"first_name":"Gowra Raghupathy","full_name":"Dillip, Gowra Raghupathy","last_name":"Dillip"},{"full_name":"Yoo, Kisoo","last_name":"Yoo","first_name":"Kisoo"},{"last_name":"Kim","full_name":"Kim, Jonghoon","first_name":"Jonghoon"}],"month":"01","date_published":"2024-01-08T00:00:00Z","abstract":[{"text":"Production of hydrogen at large scale requires development of non-noble, inexpensive, and high-performing catalysts for constructing water-splitting devices. Herein, we report the synthesis of Zn-doped NiO heterostructure (ZnNiO) catalysts at room temperature via a coprecipitation method followed by drying (at 80 °C, 6 h) and calcination at an elevated temperature of 400 °C for 5 h under three distinct conditions, namely, air, N2, and vacuum. The vacuum-synthesized catalyst demonstrates a low overpotential of 88 mV at −10 mA cm–2 and a small Tafel slope of 73 mV dec–1 suggesting relatively higher charge transfer kinetics for hydrogen evolution reactions (HER) compared with the specimens synthesized under N2 or O2 atmosphere. It also demonstrates an oxygen evolution (OER) overpotential of 260 mV at 10 mA cm–2 with a low Tafel slope of 63 mV dec–1. In a full-cell water-splitting device, the vacuum-synthesized ZnNiO heterostructure demonstrates a cell voltage of 1.94 V at 50 mA cm–2 and shows remarkable stability over 24 h at a high current density of 100 mA cm–2. It is also demonstrated in this study that Zn-doping, surface, and interface engineering in transition-metal oxides play a crucial role in efficient electrocatalytic water splitting. Also, the results obtained from density functional theory (DFT + U = 0–8 eV), where U is the on-site Coulomb repulsion parameter also known as Hubbard U, based electronic structure calculations confirm that Zn doping constructively modifies the electronic structure, in both the valence band and the conduction band, and found to be suitable in tailoring the carrier’s effective masses of electrons and holes. The decrease in electron’s effective masses together with large differences between the effective masses of electrons and holes is noticed, which is found to be mainly responsible for achieving the best water-splitting performance from a 9% Zn-doped NiO sample prepared under vacuum.","lang":"eng"}],"article_type":"original","status":"public","quality_controlled":"1","publisher":"American Chemical Society","isi":1,"intvolume":"         7","publication":"ACS Applied Energy Materials","oa_version":"None","language":[{"iso":"eng"}],"doi":"10.1021/acsaem.3c02519","page":"214-229","keyword":["Electrical and Electronic Engineering","Materials Chemistry","Electrochemistry","Energy Engineering and Power Technology","Chemical Engineering (miscellaneous)"],"publication_identifier":{"issn":["2574-0962"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","type":"journal_article","issue":"1","year":"2024","volume":7,"acknowledgement":"This work was supported by the Technology Innovation Program (20011622, Development of Battery System Applied High-Efficiency Heat Control Polymer and Part Component) funded by the Ministry of Trade, Industry & Energy (MOTIE, Korea). Author acknowledge to Prof. Tsunehiro Takeuchi from Toyota Technological Institute, Nagoya, Japan for the support of computational resources.","external_id":{"oaworkID":["w4389780443"],"isi":["001138342900001"]},"day":"08","title":"Interface engineering modulation combined with electronic structure modification of Zn-doped NiO heterostructure for efficient water-splitting activity","date_created":"2024-01-17T12:48:35Z","publication_status":"published","citation":{"short":"G.K. Kiran, S. Singh, N. Mahato, T.V.M. Sreekanth, G.R. Dillip, K. Yoo, J. Kim, ACS Applied Energy Materials 7 (2024) 214–229.","apa":"Kiran, G. K., Singh, S., Mahato, N., Sreekanth, T. V. M., Dillip, G. R., Yoo, K., &#38; Kim, J. (2024). Interface engineering modulation combined with electronic structure modification of Zn-doped NiO heterostructure for efficient water-splitting activity. <i>ACS Applied Energy Materials</i>. American Chemical Society. <a href=\"https://doi.org/10.1021/acsaem.3c02519\">https://doi.org/10.1021/acsaem.3c02519</a>","ista":"Kiran GK, Singh S, Mahato N, Sreekanth TVM, Dillip GR, Yoo K, Kim J. 2024. Interface engineering modulation combined with electronic structure modification of Zn-doped NiO heterostructure for efficient water-splitting activity. ACS Applied Energy Materials. 7(1), 214–229.","chicago":"Kiran, Gundegowda Kalligowdanadoddi, Saurabh Singh, Neelima Mahato, Thupakula Venkata Madhukar Sreekanth, Gowra Raghupathy Dillip, Kisoo Yoo, and Jonghoon Kim. “Interface Engineering Modulation Combined with Electronic Structure Modification of Zn-Doped NiO Heterostructure for Efficient Water-Splitting Activity.” <i>ACS Applied Energy Materials</i>. American Chemical Society, 2024. <a href=\"https://doi.org/10.1021/acsaem.3c02519\">https://doi.org/10.1021/acsaem.3c02519</a>.","ama":"Kiran GK, Singh S, Mahato N, et al. Interface engineering modulation combined with electronic structure modification of Zn-doped NiO heterostructure for efficient water-splitting activity. <i>ACS Applied Energy Materials</i>. 2024;7(1):214-229. doi:<a href=\"https://doi.org/10.1021/acsaem.3c02519\">10.1021/acsaem.3c02519</a>","mla":"Kiran, Gundegowda Kalligowdanadoddi, et al. “Interface Engineering Modulation Combined with Electronic Structure Modification of Zn-Doped NiO Heterostructure for Efficient Water-Splitting Activity.” <i>ACS Applied Energy Materials</i>, vol. 7, no. 1, American Chemical Society, 2024, pp. 214–29, doi:<a href=\"https://doi.org/10.1021/acsaem.3c02519\">10.1021/acsaem.3c02519</a>.","ieee":"G. K. Kiran <i>et al.</i>, “Interface engineering modulation combined with electronic structure modification of Zn-doped NiO heterostructure for efficient water-splitting activity,” <i>ACS Applied Energy Materials</i>, vol. 7, no. 1. American Chemical Society, pp. 214–229, 2024."},"department":[{"_id":"MaIb"}],"_id":"14828","date_updated":"2025-07-22T14:07:29Z"},{"scopus_import":"1","article_processing_charge":"Yes","author":[{"last_name":"Radler","full_name":"Radler, Philipp","first_name":"Philipp","orcid":"0000-0001-9198-2182 ","id":"40136C2A-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Loose, Martin","last_name":"Loose","id":"462D4284-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-7309-9724","first_name":"Martin"}],"month":"01","has_accepted_license":"1","article_number":"151380","article_type":"review","status":"public","quality_controlled":"1","date_published":"2024-01-12T00:00:00Z","ddc":["570"],"abstract":[{"text":"Bacteria divide by binary fission. The protein machine responsible for this process is the divisome, a transient assembly of more than 30 proteins in and on the surface of the cytoplasmic membrane. Together, they constrict the cell envelope and remodel the peptidoglycan layer to eventually split the cell into two. For Escherichia coli, most molecular players involved in this process have probably been identified, but obtaining the quantitative information needed for a mechanistic understanding can often not be achieved from experiments in vivo alone. Since the discovery of the Z-ring more than 30 years ago, in vitro reconstitution experiments have been crucial to shed light on molecular processes normally hidden in the complex environment of the living cell. In this review, we summarize how rebuilding the divisome from purified components – or at least parts of it - have been instrumental to obtain the detailed mechanistic understanding of the bacterial cell division machinery that we have today.","lang":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","short":"CC BY (4.0)","image":"/images/cc_by.png"},"oa":1,"publisher":"Elsevier","intvolume":"       103","doi":"10.1016/j.ejcb.2023.151380","publication_identifier":{"issn":["0171-9335"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","keyword":["Cell Biology","General Medicine","Histology","Pathology and Forensic Medicine"],"type":"journal_article","publication":"European Journal of Cell Biology","oa_version":"Published Version","language":[{"iso":"eng"}],"issue":"1","year":"2024","external_id":{"pmid":["38218128"]},"day":"12","title":"A dynamic duo: Understanding the roles of FtsZ and FtsA for Escherichia coli cell division through in vitro approaches","volume":103,"acknowledgement":"We acknowledge members of the Loose laboratory at ISTA for helpful discussions—in particular M. Kojic for his insightful comments. This work was supported by the Austrian Science Fund (FWF P34607) to M.L.","publication_status":"epub_ahead","main_file_link":[{"url":"https://doi.org/10.1016/j.ejcb.2023.151380","open_access":"1"}],"date_created":"2024-01-18T08:16:43Z","pmid":1,"_id":"14834","date_updated":"2024-01-23T08:37:13Z","project":[{"_id":"fc38323b-9c52-11eb-aca3-ff8afb4a011d","name":"Understanding bacterial cell division by in vitro\r\nreconstitution","grant_number":"P34607"}],"citation":{"short":"P. Radler, M. Loose, European Journal of Cell Biology 103 (2024).","apa":"Radler, P., &#38; Loose, M. (2024). A dynamic duo: Understanding the roles of FtsZ and FtsA for Escherichia coli cell division through in vitro approaches. <i>European Journal of Cell Biology</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.ejcb.2023.151380\">https://doi.org/10.1016/j.ejcb.2023.151380</a>","ista":"Radler P, Loose M. 2024. A dynamic duo: Understanding the roles of FtsZ and FtsA for Escherichia coli cell division through in vitro approaches. European Journal of Cell Biology. 103(1), 151380.","chicago":"Radler, Philipp, and Martin Loose. “A Dynamic Duo: Understanding the Roles of FtsZ and FtsA for Escherichia Coli Cell Division through in Vitro Approaches.” <i>European Journal of Cell Biology</i>. Elsevier, 2024. <a href=\"https://doi.org/10.1016/j.ejcb.2023.151380\">https://doi.org/10.1016/j.ejcb.2023.151380</a>.","ama":"Radler P, Loose M. A dynamic duo: Understanding the roles of FtsZ and FtsA for Escherichia coli cell division through in vitro approaches. <i>European Journal of Cell Biology</i>. 2024;103(1). doi:<a href=\"https://doi.org/10.1016/j.ejcb.2023.151380\">10.1016/j.ejcb.2023.151380</a>","mla":"Radler, Philipp, and Martin Loose. “A Dynamic Duo: Understanding the Roles of FtsZ and FtsA for Escherichia Coli Cell Division through in Vitro Approaches.” <i>European Journal of Cell Biology</i>, vol. 103, no. 1, 151380, Elsevier, 2024, doi:<a href=\"https://doi.org/10.1016/j.ejcb.2023.151380\">10.1016/j.ejcb.2023.151380</a>.","ieee":"P. Radler and M. Loose, “A dynamic duo: Understanding the roles of FtsZ and FtsA for Escherichia coli cell division through in vitro approaches,” <i>European Journal of Cell Biology</i>, vol. 103, no. 1. Elsevier, 2024."},"department":[{"_id":"MaLo"}]},{"issue":"3","year":"2024","volume":121,"acknowledgement":"This work was supported by an ERC Consolidator Grant (SYNAPSEEK) to T.P.V., the NOMIS Foundation through the NOMIS Fellowships program at IST Austria to C.B.C., a Jefferson Synaptic Biology Center Pilot Project Grant to M.C., NIH NINDS U54 NS108874 (PI, Alfred L. George), and NIH NINDS R01 NS122887 to E.M.G. The computations were enabled by resources provided by the Swedish National Infrastructure for Computing (SNIC) at the PDC Center for High-Performance Computing, KTH Royal Institute of Technology, partially funded by the Swedish Research Council through grant agreement no. 2018-05973. We thank Akshay Sridhar for the fruitful discussion of the project.","day":"16","title":"A structurally precise mechanism links an epilepsy-associated KCNC2 potassium channel mutation to interneuron dysfunction","external_id":{"pmid":["38194456"]},"pmid":1,"date_created":"2024-01-21T23:00:56Z","publication_status":"published","citation":{"ieee":"J. Clatot <i>et al.</i>, “A structurally precise mechanism links an epilepsy-associated KCNC2 potassium channel mutation to interneuron dysfunction,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 121, no. 3. Proceedings of the National Academy of Sciences, 2024.","short":"J. Clatot, C. Currin, Q. Liang, T. Pipatpolkai, S.L. Massey, I. Helbig, L. Delemotte, T.P. Vogels, M. Covarrubias, E.M. Goldberg, Proceedings of the National Academy of Sciences of the United States of America 121 (2024).","ista":"Clatot J, Currin C, Liang Q, Pipatpolkai T, Massey SL, Helbig I, Delemotte L, Vogels TP, Covarrubias M, Goldberg EM. 2024. A structurally precise mechanism links an epilepsy-associated KCNC2 potassium channel mutation to interneuron dysfunction. Proceedings of the National Academy of Sciences of the United States of America. 121(3), e2307776121.","apa":"Clatot, J., Currin, C., Liang, Q., Pipatpolkai, T., Massey, S. L., Helbig, I., … Goldberg, E. M. (2024). A structurally precise mechanism links an epilepsy-associated KCNC2 potassium channel mutation to interneuron dysfunction. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. Proceedings of the National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2307776121\">https://doi.org/10.1073/pnas.2307776121</a>","chicago":"Clatot, Jerome, Christopher Currin, Qiansheng Liang, Tanadet Pipatpolkai, Shavonne L. Massey, Ingo Helbig, Lucie Delemotte, Tim P Vogels, Manuel Covarrubias, and Ethan M. Goldberg. “A Structurally Precise Mechanism Links an Epilepsy-Associated KCNC2 Potassium Channel Mutation to Interneuron Dysfunction.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. Proceedings of the National Academy of Sciences, 2024. <a href=\"https://doi.org/10.1073/pnas.2307776121\">https://doi.org/10.1073/pnas.2307776121</a>.","mla":"Clatot, Jerome, et al. “A Structurally Precise Mechanism Links an Epilepsy-Associated KCNC2 Potassium Channel Mutation to Interneuron Dysfunction.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 121, no. 3, e2307776121, Proceedings of the National Academy of Sciences, 2024, doi:<a href=\"https://doi.org/10.1073/pnas.2307776121\">10.1073/pnas.2307776121</a>.","ama":"Clatot J, Currin C, Liang Q, et al. A structurally precise mechanism links an epilepsy-associated KCNC2 potassium channel mutation to interneuron dysfunction. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2024;121(3). doi:<a href=\"https://doi.org/10.1073/pnas.2307776121\">10.1073/pnas.2307776121</a>"},"department":[{"_id":"TiVo"}],"project":[{"name":"Learning the shape of synaptic plasticity rules for neuronal architectures and function through machine learning.","call_identifier":"H2020","_id":"0aacfa84-070f-11eb-9043-d7eb2c709234","grant_number":"819603"}],"_id":"14841","date_updated":"2024-01-23T10:20:40Z","article_number":"e2307776121","author":[{"last_name":"Clatot","full_name":"Clatot, Jerome","first_name":"Jerome"},{"first_name":"Christopher","id":"e8321fc5-3091-11eb-8a53-83f309a11ac9","orcid":"0000-0002-4809-5059","last_name":"Currin","full_name":"Currin, Christopher"},{"full_name":"Liang, Qiansheng","last_name":"Liang","first_name":"Qiansheng"},{"last_name":"Pipatpolkai","full_name":"Pipatpolkai, Tanadet","first_name":"Tanadet"},{"full_name":"Massey, Shavonne L.","last_name":"Massey","first_name":"Shavonne L."},{"first_name":"Ingo","last_name":"Helbig","full_name":"Helbig, Ingo"},{"full_name":"Delemotte, Lucie","last_name":"Delemotte","first_name":"Lucie"},{"first_name":"Tim P","id":"CB6FF8D2-008F-11EA-8E08-2637E6697425","orcid":"0000-0003-3295-6181","last_name":"Vogels","full_name":"Vogels, Tim P"},{"last_name":"Covarrubias","full_name":"Covarrubias, Manuel","first_name":"Manuel"},{"last_name":"Goldberg","full_name":"Goldberg, Ethan M.","first_name":"Ethan M."}],"month":"01","article_processing_charge":"No","scopus_import":"1","date_published":"2024-01-16T00:00:00Z","abstract":[{"lang":"eng","text":"De novo heterozygous variants in KCNC2 encoding the voltage-gated potassium (K+) channel subunit Kv3.2 are a recently described cause of developmental and epileptic encephalopathy (DEE). A de novo variant in KCNC2 c.374G > A (p.Cys125Tyr) was identified via exome sequencing in a patient with DEE. Relative to wild-type Kv3.2, Kv3.2-p.Cys125Tyr induces K+ currents exhibiting a large hyperpolarizing shift in the voltage dependence of activation, accelerated activation, and delayed deactivation consistent with a relative stabilization of the open conformation, along with increased current density. Leveraging the cryogenic electron microscopy (cryo-EM) structure of Kv3.1, molecular dynamic simulations suggest that a strong π-π stacking interaction between the variant Tyr125 and Tyr156 in the α-6 helix of the T1 domain promotes a relative stabilization of the open conformation of the channel, which underlies the observed gain of function. A multicompartment computational model of a Kv3-expressing parvalbumin-positive cerebral cortex fast-spiking γ-aminobutyric acidergic (GABAergic) interneuron (PV-IN) demonstrates how the Kv3.2-Cys125Tyr variant impairs neuronal excitability and dysregulates inhibition in cerebral cortex circuits to explain the resulting epilepsy."}],"quality_controlled":"1","article_type":"original","status":"public","intvolume":"       121","publisher":"Proceedings of the National Academy of Sciences","oa_version":"None","publication":"Proceedings of the National Academy of Sciences of the United States of America","ec_funded":1,"language":[{"iso":"eng"}],"related_material":{"link":[{"relation":"software","url":"https://github.com/ChrisCurrin/pv-kcnc2 "}]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["1091-6490"]},"type":"journal_article","doi":"10.1073/pnas.2307776121"},{"month":"01","author":[{"first_name":"JingJing","id":"2C4E65C8-F248-11E8-B48F-1D18A9856A87","last_name":"Chen","full_name":"Chen, JingJing"},{"full_name":"Kaufmann, Walter","last_name":"Kaufmann","orcid":"0000-0001-9735-5315","id":"3F99E422-F248-11E8-B48F-1D18A9856A87","first_name":"Walter"},{"first_name":"Chong","id":"3DFD581A-F248-11E8-B48F-1D18A9856A87","last_name":"Chen","full_name":"Chen, Chong"},{"full_name":"Arai, Itaru","last_name":"Arai","id":"32A73F6C-F248-11E8-B48F-1D18A9856A87","first_name":"Itaru"},{"last_name":"Kim","full_name":"Kim, Olena","first_name":"Olena","id":"3F8ABDDA-F248-11E8-B48F-1D18A9856A87"},{"last_name":"Shigemoto","full_name":"Shigemoto, Ryuichi","first_name":"Ryuichi","id":"499F3ABC-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8761-9444"},{"orcid":"0000-0001-5001-4804","id":"353C1B58-F248-11E8-B48F-1D18A9856A87","first_name":"Peter M","full_name":"Jonas, Peter M","last_name":"Jonas"}],"scopus_import":"1","article_processing_charge":"No","abstract":[{"text":"The coupling between Ca2+ channels and release sensors is a key factor defining the signaling properties of a synapse. However, the coupling nanotopography at many synapses remains unknown, and it is unclear how it changes during development. To address these questions, we examined coupling at the cerebellar inhibitory basket cell (BC)-Purkinje cell (PC) synapse. Biophysical analysis of transmission by paired recording and intracellular pipette perfusion revealed that the effects of exogenous Ca2+ chelators decreased during development, despite constant reliance of release on P/Q-type Ca2+ channels. Structural analysis by freeze-fracture replica labeling (FRL) and transmission electron microscopy (EM) indicated that presynaptic P/Q-type Ca2+ channels formed nanoclusters throughout development, whereas docked vesicles were only clustered at later developmental stages. Modeling suggested a developmental transformation from a more random to a more clustered coupling nanotopography. Thus, presynaptic signaling developmentally approaches a point-to-point configuration, optimizing speed, reliability, and energy efficiency of synaptic transmission.","lang":"eng"}],"date_published":"2024-01-11T00:00:00Z","quality_controlled":"1","status":"public","article_type":"original","publisher":"Elsevier","language":[{"iso":"eng"}],"ec_funded":1,"publication":"Neuron","oa_version":"None","related_material":{"link":[{"url":"https://ista.ac.at/en/news/synapses-brought-to-the-point/","description":"News on ISTA Website","relation":"press_release"}]},"type":"journal_article","acknowledged_ssus":[{"_id":"EM-Fac"},{"_id":"PreCl"},{"_id":"M-Shop"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["0896-6273"],"eissn":["1097-4199"]},"doi":"10.1016/j.neuron.2023.12.002","year":"2024","acknowledgement":"We thank Drs. David DiGregorio and Erwin Neher for critically reading an earlier version of the manuscript, Ralf Schneggenburger for helpful discussions, Benjamin Suter and Katharina Lichter for support with image analysis, Chris Wojtan for advice on numerical solution of partial differential equations, Maria Reva for help with Ripley analysis, Alois Schlögl for programming, and Akari Hagiwara and Toshihisa Ohtsuka for anti-ELKS antibody. We are grateful to Florian Marr, Christina Altmutter, and Vanessa Zheden for excellent technical assistance and to Eleftheria Kralli-Beller for manuscript editing. This research was supported by the Scientific Services Units (SSUs) of ISTA (Electron Microscopy Facility, Preclinical Facility, and Machine Shop). The project received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 692692), the Fonds zur Förderung der Wissenschaftlichen Forschung (Z 312-B27, Wittgenstein award; P 36232-B), all to P.J., and a DOC fellowship of the Austrian Academy of Sciences to J.-J.C.","title":"Developmental transformation of Ca2+ channel-vesicle nanotopography at a central GABAergic synapse","day":"11","external_id":{"pmid":["38215739"]},"pmid":1,"date_created":"2024-01-21T23:00:56Z","publication_status":"inpress","department":[{"_id":"PeJo"},{"_id":"EM-Fac"},{"_id":"RySh"}],"citation":{"ieee":"J. Chen <i>et al.</i>, “Developmental transformation of Ca2+ channel-vesicle nanotopography at a central GABAergic synapse,” <i>Neuron</i>. Elsevier.","chicago":"Chen, JingJing, Walter Kaufmann, Chong Chen, itaru Arai, Olena Kim, Ryuichi Shigemoto, and Peter M Jonas. “Developmental Transformation of Ca2+ Channel-Vesicle Nanotopography at a Central GABAergic Synapse.” <i>Neuron</i>. Elsevier, n.d. <a href=\"https://doi.org/10.1016/j.neuron.2023.12.002\">https://doi.org/10.1016/j.neuron.2023.12.002</a>.","ama":"Chen J, Kaufmann W, Chen C, et al. Developmental transformation of Ca2+ channel-vesicle nanotopography at a central GABAergic synapse. <i>Neuron</i>. doi:<a href=\"https://doi.org/10.1016/j.neuron.2023.12.002\">10.1016/j.neuron.2023.12.002</a>","mla":"Chen, JingJing, et al. “Developmental Transformation of Ca2+ Channel-Vesicle Nanotopography at a Central GABAergic Synapse.” <i>Neuron</i>, Elsevier, doi:<a href=\"https://doi.org/10.1016/j.neuron.2023.12.002\">10.1016/j.neuron.2023.12.002</a>.","short":"J. Chen, W. Kaufmann, C. Chen,  itaru Arai, O. Kim, R. Shigemoto, P.M. Jonas, Neuron (n.d.).","ista":"Chen J, Kaufmann W, Chen C, Arai  itaru, Kim O, Shigemoto R, Jonas PM. Developmental transformation of Ca2+ channel-vesicle nanotopography at a central GABAergic synapse. Neuron.","apa":"Chen, J., Kaufmann, W., Chen, C., Arai,  itaru, Kim, O., Shigemoto, R., &#38; Jonas, P. M. (n.d.). Developmental transformation of Ca2+ channel-vesicle nanotopography at a central GABAergic synapse. <i>Neuron</i>. Elsevier. <a href=\"https://doi.org/10.1016/j.neuron.2023.12.002\">https://doi.org/10.1016/j.neuron.2023.12.002</a>"},"project":[{"grant_number":"692692","_id":"25B7EB9E-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"Biophysics and circuit function of a giant cortical glumatergic synapse"},{"_id":"25C5A090-B435-11E9-9278-68D0E5697425","call_identifier":"FWF","name":"The Wittgenstein Prize","grant_number":"Z00312"},{"grant_number":"P36232","_id":"bd88be38-d553-11ed-ba76-81d5a70a6ef5","name":"Mechanisms of GABA release in hippocampal circuits"},{"_id":"26B66A3E-B435-11E9-9278-68D0E5697425","name":"Development of nanodomain coupling between Ca2+ channels and release sensors at a central inhibitory synapse","grant_number":"25383"}],"date_updated":"2024-03-05T09:31:24Z","_id":"14843"},{"month":"01","author":[{"last_name":"Dome","full_name":"Dome, Tibor","first_name":"Tibor","orcid":"0000-0003-2586-3702","id":"7e3293e2-b9dc-11ee-97a9-cd73400f6994"},{"orcid":"0000-0003-0393-5525","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","first_name":"Artem","full_name":"Volosniev, Artem","last_name":"Volosniev"},{"last_name":"Ghazaryan","full_name":"Ghazaryan, Areg","first_name":"Areg","id":"4AF46FD6-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-9666-3543"},{"first_name":"Laleh","id":"3C325E5E-F248-11E8-B48F-1D18A9856A87","last_name":"Safari","full_name":"Safari, Laleh"},{"last_name":"Schmidt","full_name":"Schmidt, Richard","first_name":"Richard"},{"orcid":"0000-0002-6990-7802","id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","first_name":"Mikhail","full_name":"Lemeshko, Mikhail","last_name":"Lemeshko"}],"scopus_import":"1","article_processing_charge":"No","article_number":"014102","quality_controlled":"1","status":"public","article_type":"original","abstract":[{"lang":"eng","text":"We study a linear rotor in a bosonic bath within the angulon formalism. Our focus is on systems where isotropic or anisotropic impurity-boson interactions support a shallow bound state. To study the fate of the angulon in the vicinity of bound-state formation, we formulate a beyond-linear-coupling angulon Hamiltonian. First, we use it to study attractive, spherically symmetric impurity-boson interactions for which the linear rotor can be mapped onto a static impurity. The well-known polaron formalism provides an adequate description in this limit. Second, we consider anisotropic potentials, and show that the presence of a shallow bound state with pronounced anisotropic character leads to a many-body instability that washes out the angulon dynamics."}],"date_published":"2024-01-01T00:00:00Z","intvolume":"       109","publisher":"American Physical Society","type":"journal_article","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["2469-9969"],"issn":["2469-9950"]},"doi":"10.1103/PhysRevB.109.014102","language":[{"iso":"eng"}],"ec_funded":1,"oa_version":"None","publication":"Physical Review B","year":"2024","issue":"1","title":"Linear rotor in an ideal Bose gas near the threshold for binding","day":"01","acknowledgement":"We would like to thank G. Bighin, I. Cherepanov, E. Paerschke, and E. Yakaboylu for insightful discussions on a wide range of topics. This work has been supported by the European Research Council (ERC) Starting Grant No. 801770 (ANGULON). A.G. and A.G.V. acknowledge support from the European Union’s Horizon 2020 research and innovation\r\nprogram under the Marie Skłodowska-Curie Grant Agreement No. 754411. Numerical calculations were performed on the Euler cluster managed by the HPC team at ETH Zurich.\r\nR.S. acknowledges support by the Deutsche Forschungsgemeinschaft under Germany’s Excellence Strategy Grant No. EXC 2181/1-390900948 (the Heidelberg STRUCTURES Excellence Cluster). T.D. acknowledges support from the Isaac Newton Studentship and the Science and Technology Facilities Council under Grant No. ST/V50659X/1.","volume":109,"publication_status":"published","date_created":"2024-01-21T23:00:57Z","project":[{"name":"Angulon: physics and applications of a new quasiparticle","_id":"2688CF98-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"801770"},{"grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","name":"ISTplus - Postdoctoral Fellowships"}],"date_updated":"2024-01-23T10:51:09Z","_id":"14845","department":[{"_id":"MiLe"}],"citation":{"ieee":"T. Dome, A. Volosniev, A. Ghazaryan, L. Safari, R. Schmidt, and M. Lemeshko, “Linear rotor in an ideal Bose gas near the threshold for binding,” <i>Physical Review B</i>, vol. 109, no. 1. American Physical Society, 2024.","ama":"Dome T, Volosniev A, Ghazaryan A, Safari L, Schmidt R, Lemeshko M. Linear rotor in an ideal Bose gas near the threshold for binding. <i>Physical Review B</i>. 2024;109(1). doi:<a href=\"https://doi.org/10.1103/PhysRevB.109.014102\">10.1103/PhysRevB.109.014102</a>","mla":"Dome, Tibor, et al. “Linear Rotor in an Ideal Bose Gas near the Threshold for Binding.” <i>Physical Review B</i>, vol. 109, no. 1, 014102, American Physical Society, 2024, doi:<a href=\"https://doi.org/10.1103/PhysRevB.109.014102\">10.1103/PhysRevB.109.014102</a>.","chicago":"Dome, Tibor, Artem Volosniev, Areg Ghazaryan, Laleh Safari, Richard Schmidt, and Mikhail Lemeshko. “Linear Rotor in an Ideal Bose Gas near the Threshold for Binding.” <i>Physical Review B</i>. American Physical Society, 2024. <a href=\"https://doi.org/10.1103/PhysRevB.109.014102\">https://doi.org/10.1103/PhysRevB.109.014102</a>.","apa":"Dome, T., Volosniev, A., Ghazaryan, A., Safari, L., Schmidt, R., &#38; Lemeshko, M. (2024). Linear rotor in an ideal Bose gas near the threshold for binding. <i>Physical Review B</i>. American Physical Society. <a href=\"https://doi.org/10.1103/PhysRevB.109.014102\">https://doi.org/10.1103/PhysRevB.109.014102</a>","ista":"Dome T, Volosniev A, Ghazaryan A, Safari L, Schmidt R, Lemeshko M. 2024. Linear rotor in an ideal Bose gas near the threshold for binding. Physical Review B. 109(1), 014102.","short":"T. Dome, A. Volosniev, A. Ghazaryan, L. Safari, R. Schmidt, M. Lemeshko, Physical Review B 109 (2024)."}}]