[{"page":"4591-4599","external_id":{"arxiv":["2503.08849"]},"oa":1,"language":[{"iso":"eng"}],"date_created":"2025-09-07T22:01:35Z","publication_identifier":{"eissn":["2640-3498"]},"status":"public","month":"05","alternative_title":["PMLR"],"day":"01","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"short":"T. Wegel, F. Kovačević, A. Ţifrea, F. Yang, in:, The 28th International Conference on Artificial Intelligence and Statistics, ML Research Press, 2025, pp. 4591–4599.","mla":"Wegel, Tobias, et al. “Learning Pareto Manifolds in High Dimensions: How Can Regularization Help?” The 28th International Conference on Artificial Intelligence and Statistics, vol. 258, ML Research Press, 2025, pp. 4591–99.","apa":"Wegel, T., Kovačević, F., Ţifrea, A., & Yang, F. (2025). Learning Pareto manifolds in high dimensions: How can regularization help? In The 28th International Conference on Artificial Intelligence and Statistics (Vol. 258, pp. 4591–4599). Mai Khao, Thailand: ML Research Press.","ieee":"T. Wegel, F. Kovačević, A. Ţifrea, and F. Yang, “Learning Pareto manifolds in high dimensions: How can regularization help?,” in The 28th International Conference on Artificial Intelligence and Statistics, Mai Khao, Thailand, 2025, vol. 258, pp. 4591–4599.","chicago":"Wegel, Tobias, Filip Kovačević, Alexandru Ţifrea, and Fanny Yang. “Learning Pareto Manifolds in High Dimensions: How Can Regularization Help?” In The 28th International Conference on Artificial Intelligence and Statistics, 258:4591–99. ML Research Press, 2025.","ama":"Wegel T, Kovačević F, Ţifrea A, Yang F. Learning Pareto manifolds in high dimensions: How can regularization help? In: The 28th International Conference on Artificial Intelligence and Statistics. Vol 258. ML Research Press; 2025:4591-4599.","ista":"Wegel T, Kovačević F, Ţifrea A, Yang F. 2025. Learning Pareto manifolds in high dimensions: How can regularization help? The 28th International Conference on Artificial Intelligence and Statistics. AISTATS: Conference on Artificial Intelligence and Statistics, PMLR, vol. 258, 4591–4599."},"title":"Learning Pareto manifolds in high dimensions: How can regularization help?","_id":"20300","oa_version":"Preprint","publication_status":"published","OA_type":"green","abstract":[{"lang":"eng","text":"Simultaneously addressing multiple objectives is becoming increasingly important in modern machine learning. At the same time, data is often high-dimensional and costly to label. For a single objective such as prediction risk, conventional regularization techniques are known to improve generalization when the data exhibits low-dimensional structure like sparsity. However, it is largely unexplored how to leverage this structure in the context of multi-objective learning (MOL) with multiple competing objectives. In this work, we discuss how the application of vanilla regularization approaches can fail, and propose a two-stage MOL framework that can successfully leverage low-dimensional structure. We demonstrate its effectiveness experimentally for multi-distribution learning and fairness-risk trade-offs."}],"publisher":"ML Research Press","intvolume":" 258","conference":{"name":"AISTATS: Conference on Artificial Intelligence and Statistics","end_date":"2025-05-05","start_date":"2025-05-03","location":"Mai Khao, Thailand"},"OA_place":"repository","date_published":"2025-05-01T00:00:00Z","publication":"The 28th International Conference on Artificial Intelligence and Statistics","quality_controlled":"1","acknowledgement":"We thank Junhyung Park for valuable feedback on the manuscript. AT was supported by a PhD fellowship from the Swiss Data Science Center. TW was supported by the SNF Grant 204439. This work was done in part while TW and FY were visiting the Simons Institute for the Theory of\r\nComputing.","article_processing_charge":"No","arxiv":1,"department":[{"_id":"MaMo"}],"volume":258,"scopus_import":"1","type":"conference","year":"2025","date_updated":"2025-09-09T07:00:34Z","author":[{"first_name":"Tobias","full_name":"Wegel, Tobias","last_name":"Wegel"},{"first_name":"Filip","full_name":"Kovačević, Filip","id":"d0258e7b-50b8-11ef-ad56-8b9f537b6b1b","last_name":"Kovačević"},{"last_name":"Ţifrea","first_name":"Alexandru","full_name":"Ţifrea, Alexandru"},{"last_name":"Yang","full_name":"Yang, Fanny","first_name":"Fanny"}],"main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2503.08849","open_access":"1"}]},{"quality_controlled":"1","publication":"The 28th International Conference on Artificial Intelligence and Statistics","OA_place":"repository","date_published":"2025-05-01T00:00:00Z","intvolume":" 258","conference":{"name":"AISTATS: Conference on Artificial Intelligence and Statistics","end_date":"2025-05-05","start_date":"2025-05-03","location":"Mai Khao, Thailand"},"publisher":"ML Research Press","abstract":[{"lang":"eng","text":"We study privately releasing column sums of a d-dimensional table with entries from a universe χ undergoing T row updates, called histogram under continual release. Our mechanisms give better additive ℓ∞-error than existing mechanisms for a large class of queries and input streams. Our first contribution is an output-sensitive mechanism in the insertions-only model (χ = {0, 1}) for maintaining (i) the histogram or (ii) queries that do not require maintaining the entire histogram, such as the maximum or minimum column sum, the median, or any quantiles. The mechanism has an additive error of O(d log2 (dq∗) + log T) whp, where q∗ is the maximum output value over all time steps on this dataset. The mechanism does not require q∗ as input. This breaks the Ω(d log T) bound of prior work when q∗ ≪ T. Our second contribution is a mechanism for the turnstile model that admits negative entry updates (χ = {−1, 0, 1}). This mechanism has an additive error of O(d log2(dK) + log T) whp, where K is the number of times two consecutive data rows differ, and the mechanism does not require K as input. This is useful when monitoring inputs that only vary under unusual circumstances. For d = 1 this gives the first\r\nprivate mechanism with error O(log2 K + log T) for continual counting in the turnstile model, improving on the O(log2 n + log T) error bound by Dwork et al. (2015), where n is the number of ones in the stream, as well as allowing negative entries, while Dwork et al. (2015) can only handle nonnegative entries (χ = {0, 1}). "}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2302.11341"}],"date_updated":"2025-09-09T07:09:22Z","author":[{"full_name":"Henzinger, Monika H","first_name":"Monika H","id":"540c9bbd-f2de-11ec-812d-d04a5be85630","orcid":"0000-0002-5008-6530","last_name":"Henzinger"},{"full_name":"Sricharan, A. R.","first_name":"A. R.","last_name":"Sricharan"},{"last_name":"Steiner","first_name":"Teresa Anna","full_name":"Steiner, Teresa Anna"}],"year":"2025","scopus_import":"1","type":"conference","department":[{"_id":"MoHe"}],"volume":258,"arxiv":1,"acknowledgement":"MH: This project has received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme (MoDynStruct, No. 101019564) and the Austrian Science Fund (FWF) grant DOI 10.55776/Z422, grant DOI 10.55776/I5982, and grant DOI 10.55776/P33775 with additional funding from the netidee SCIENCE Stiftung, 2020–2024. TAS: This work was supported by a research grant (VIL51463)\r\nfrom VILLUM FONDEN.","article_processing_charge":"No","alternative_title":["PMLR"],"month":"05","status":"public","publication_identifier":{"eissn":["2640-3498"]},"date_created":"2025-09-07T22:01:35Z","language":[{"iso":"eng"}],"oa":1,"page":"1990-1998","external_id":{"arxiv":["2302.11341"]},"project":[{"name":"The design and evaluation of modern fully dynamic data structures","grant_number":"101019564","call_identifier":"H2020","_id":"bd9ca328-d553-11ed-ba76-dc4f890cfe62"},{"grant_number":"Z00422","_id":"34def286-11ca-11ed-8bc3-da5948e1613c","name":"Efficient algorithms"},{"_id":"bda196b2-d553-11ed-ba76-8e8ee6c21103","grant_number":"I05982","name":"Static and Dynamic Hierarchical Graph Decompositions"},{"grant_number":"P33775","_id":"bd9e3a2e-d553-11ed-ba76-8aa684ce17fe","name":"Fast Algorithms for a Reactive Network Layer"}],"OA_type":"green","publication_status":"published","oa_version":"Preprint","_id":"20301","title":"Differentially private continual release of histograms and related queries","ec_funded":1,"citation":{"ama":"Henzinger M, Sricharan AR, Steiner TA. Differentially private continual release of histograms and related queries. In: The 28th International Conference on Artificial Intelligence and Statistics. Vol 258. ML Research Press; 2025:1990-1998.","chicago":"Henzinger, Monika, A. R. Sricharan, and Teresa Anna Steiner. “Differentially Private Continual Release of Histograms and Related Queries.” In The 28th International Conference on Artificial Intelligence and Statistics, 258:1990–98. ML Research Press, 2025.","ista":"Henzinger M, Sricharan AR, Steiner TA. 2025. Differentially private continual release of histograms and related queries. The 28th International Conference on Artificial Intelligence and Statistics. AISTATS: Conference on Artificial Intelligence and Statistics, PMLR, vol. 258, 1990–1998.","apa":"Henzinger, M., Sricharan, A. R., & Steiner, T. A. (2025). Differentially private continual release of histograms and related queries. In The 28th International Conference on Artificial Intelligence and Statistics (Vol. 258, pp. 1990–1998). Mai Khao, Thailand: ML Research Press.","ieee":"M. Henzinger, A. R. Sricharan, and T. A. Steiner, “Differentially private continual release of histograms and related queries,” in The 28th International Conference on Artificial Intelligence and Statistics, Mai Khao, Thailand, 2025, vol. 258, pp. 1990–1998.","short":"M. Henzinger, A.R. Sricharan, T.A. Steiner, in:, The 28th International Conference on Artificial Intelligence and Statistics, ML Research Press, 2025, pp. 1990–1998.","mla":"Henzinger, Monika, et al. “Differentially Private Continual Release of Histograms and Related Queries.” The 28th International Conference on Artificial Intelligence and Statistics, vol. 258, ML Research Press, 2025, pp. 1990–98."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"01"},{"arxiv":1,"acknowledgement":"The authors would like to thank Stephen Burgess and Ashish Patel for helpful discussions at\r\nthe start of this research project, and Anton Rask Lundborg for helpful discussions on the\r\nuniform asymptotic results. This work was partially completed during SH’s research visit at\r\nNovo Nordisk. The authors would like to thank Jesper Ferkinghoff-Borg, Kang Li and Lewis\r\nMarsh for facilitating this visit and for discussing necessary concepts and tools in statistical\r\ngenetics at an early stage. SH and NP are supported by a research grant (0069071) from Novo\r\nNordisk Fonden. JB is funded at the University of Exeter by research grant MR/X011372/1.","article_processing_charge":"No","volume":258,"department":[{"_id":"FrLo"}],"scopus_import":"1","type":"conference","author":[{"full_name":"Huang, Shimeng","first_name":"Shimeng","last_name":"Huang","orcid":"0000-0001-6919-821X","id":"989c2a06-fb4e-11ef-a992-ab766442255b"},{"full_name":"Pfister, Niklas","first_name":"Niklas","last_name":"Pfister"},{"last_name":"Bowden","full_name":"Bowden, Jack","first_name":"Jack"}],"date_updated":"2025-09-09T07:47:13Z","year":"2025","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2410.12300","open_access":"1"}],"abstract":[{"text":"Observational genome-wide association studies are now widely used for causal inference in genetic epidemiology. To maintain privacy, such data is often only publicly available as summary statistics, and often studies for the endogenous covariates and the outcome are available separately. This has necessitated methods tailored to two-sample summary statistics. Current state-of-the-art methods modify linear instrumental variable (IV) regression---with genetic variants as instruments---to account for unmeasured confounding. However, since the endogenous covariates can be high dimensional, standard IV assumptions are generally insufficient to identify all causal effects simultaneously. We ensure identifiability by assuming the causal effects are sparse and propose a sparse causal effect two-sample IV estimator, spaceTSIV, adapting the spaceIV estimator by Pfister and Peters (2022) for two-sample summary statistics. We provide two methods, based on L0- and L1-penalization, respectively. We prove identifiability of the sparse causal effects in the two-sample setting and consistency of spaceTSIV. The performance of spaceTSIV is compared with existing two-sample IV methods in simulations. Finally, we showcase our methods using real proteomic and gene-expression data for drug-target discovery.","lang":"eng"}],"publisher":"ML Research Press","conference":{"name":"AISTATS: Conference on Artificial Intelligence and Statistics","end_date":"2025-05-05","start_date":"2025-05-03","location":"Mai Khao, Thailand"},"intvolume":" 258","publication":"The 28th International Conference on Artificial Intelligence and Statistics","OA_place":"repository","date_published":"2025-05-01T00:00:00Z","quality_controlled":"1","day":"01","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"chicago":"Huang, Shimeng, Niklas Pfister, and Jack Bowden. “Sparse Causal Effect Estimation Using Two-Sample Summary Statistics in the Presence of Unmeasured Confounding.” In The 28th International Conference on Artificial Intelligence and Statistics, 258:3394–3402. ML Research Press, 2025.","ama":"Huang S, Pfister N, Bowden J. Sparse causal effect estimation using two-sample summary statistics in the presence of unmeasured confounding. In: The 28th International Conference on Artificial Intelligence and Statistics. Vol 258. ML Research Press; 2025:3394-3402.","ista":"Huang S, Pfister N, Bowden J. 2025. Sparse causal effect estimation using two-sample summary statistics in the presence of unmeasured confounding. The 28th International Conference on Artificial Intelligence and Statistics. AISTATS: Conference on Artificial Intelligence and Statistics, PMLR, vol. 258, 3394–3402.","mla":"Huang, Shimeng, et al. “Sparse Causal Effect Estimation Using Two-Sample Summary Statistics in the Presence of Unmeasured Confounding.” The 28th International Conference on Artificial Intelligence and Statistics, vol. 258, ML Research Press, 2025, pp. 3394–402.","short":"S. Huang, N. Pfister, J. Bowden, in:, The 28th International Conference on Artificial Intelligence and Statistics, ML Research Press, 2025, pp. 3394–3402.","apa":"Huang, S., Pfister, N., & Bowden, J. (2025). Sparse causal effect estimation using two-sample summary statistics in the presence of unmeasured confounding. In The 28th International Conference on Artificial Intelligence and Statistics (Vol. 258, pp. 3394–3402). Mai Khao, Thailand: ML Research Press.","ieee":"S. Huang, N. Pfister, and J. Bowden, “Sparse causal effect estimation using two-sample summary statistics in the presence of unmeasured confounding,” in The 28th International Conference on Artificial Intelligence and Statistics, Mai Khao, Thailand, 2025, vol. 258, pp. 3394–3402."},"_id":"20303","title":"Sparse causal effect estimation using two-sample summary statistics in the presence of unmeasured confounding","oa_version":"Preprint","OA_type":"green","publication_status":"published","oa":1,"external_id":{"arxiv":["2410.12300"]},"page":"3394-3402","language":[{"iso":"eng"}],"status":"public","date_created":"2025-09-07T22:01:35Z","publication_identifier":{"eissn":["2640-3498"]},"month":"05","alternative_title":["PMLR"]},{"abstract":[{"text":"Lipid membranes and membrane deformations are a long-standing area of research in soft matter and biophysics. Computer simulations have complemented analytical and experimental approaches as one of the pillars in the field. However, setting up and using membrane simulations can come with barriers due to the multidisciplinary effort involved and the vast choice of existing simulations models. In this review, we introduce the non-expert reader to coarse-grained membrane simulations at the mesoscale. Firstly, we give a concise overview of the modelling approaches to study fluid membranes, together with guidance to more specialized references. Secondly, we provide a conceptual guide on how to develop mesoscale membrane simulations. Lastly, we construct a hands-on tutorial on how to apply mesoscale membrane simulations, by providing a pedagogical examination of membrane tether pulling, shape and mechanics of membrane tubes, and membrane fluctuations with three different membrane models, and discussing them in terms of their scope and how resource-intensive they are. To ease the reader's venture into the field, we provide a repository with ready-to-run tutorials.","lang":"eng"}],"intvolume":" 21","publisher":"Royal Society of Chemistry","date_published":"2025-07-28T00:00:00Z","OA_place":"publisher","publication":"Soft Matter","ddc":["540"],"quality_controlled":"1","corr_author":"1","has_accepted_license":"1","article_processing_charge":"Yes (via OA deal)","acknowledgement":"We thank Oded Farago, Angelo Cacciuto, Jeriann Beiter and Pietro Sillano for helpful discussions and a critical reading of the manuscript. MMB and AP acknowledge funding by the European Unions Horizon 2020 research and innovation programme under Marie Skłodowska-Curie Grant Agreement No. 101034413. FF acknowledges financial support by the NOMIS foundation. BM and AŠ acknowledge funding by ERC Starting Grant “NEPA” 802960. MA and AŠ acknowledge funding by the Volkswagen Foundation Grant Az 96727.","arxiv":1,"type":"journal_article","scopus_import":"1","volume":21,"department":[{"_id":"AnSa"}],"isi":1,"year":"2025","author":[{"first_name":"Maitane","full_name":"Muñoz Basagoiti, Maitane","orcid":"0000-0003-1483-1457","last_name":"Muñoz Basagoiti","id":"1a8a7950-82cd-11ed-bd4f-9624c913a607"},{"id":"a0270b37-8f1a-11ec-95c7-8e710c59a4f3","orcid":"0000-0001-8501-6017","last_name":"Frey","first_name":"Felix F","full_name":"Frey, Felix F"},{"first_name":"Billie","full_name":"Meadowcroft, Billie","id":"a4725fd6-932b-11ed-81e2-c098c7f37ae1","last_name":"Meadowcroft","orcid":"0000-0003-3441-1337"},{"first_name":"Miguel","full_name":"Santana de Freitas Amaral, Miguel","id":"4f2d02dd-47a9-11ec-ad10-82820ed3f501","last_name":"Santana de Freitas Amaral"},{"full_name":"Prada, Adam","first_name":"Adam","last_name":"Prada","id":"a43ed60a-dd22-11ed-9bf7-b34133792ea9"},{"id":"bf63d406-f056-11eb-b41d-f263a6566d8b","orcid":"0000-0002-7854-2139","last_name":"Šarić","first_name":"Anđela","full_name":"Šarić, Anđela"}],"date_updated":"2025-12-30T10:16:52Z","external_id":{"isi":["001562846800001"],"arxiv":["2502.09798"]},"page":"7736-7756","oa":1,"project":[{"call_identifier":"H2020","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413","name":"IST-BRIDGE: International postdoctoral program"},{"call_identifier":"H2020","_id":"eba2549b-77a9-11ec-83b8-a81e493eae4e","grant_number":"802960","name":"Non-Equilibrium Protein Assembly: from Building Blocks to Biological Machines"},{"_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A","name":"NOMIS Fellowship Program"},{"name":"The evolution of trafficking: from archaea to eukaryotes","grant_number":"96752","_id":"eba0f67c-77a9-11ec-83b8-cc8501b3e222"}],"language":[{"iso":"eng"}],"doi":"10.1039/d5sm00148j","article_type":"original","file":[{"checksum":"590bedad19b6f6d40a7ee036a056a6d9","file_id":"20912","file_size":4841140,"success":1,"creator":"dernst","file_name":"2025_SoftMatter_MunozBasagoiti.pdf","access_level":"open_access","date_created":"2025-12-30T10:16:40Z","content_type":"application/pdf","date_updated":"2025-12-30T10:16:40Z","relation":"main_file"}],"publication_identifier":{"issn":["1744-683X"],"eissn":["1744-6848"]},"date_created":"2025-09-10T05:34:36Z","status":"public","issue":"40","month":"07","day":"28","ec_funded":1,"file_date_updated":"2025-12-30T10:16:40Z","citation":{"short":"M. Muñoz Basagoiti, F.F. Frey, B. Meadowcroft, M. Santana de Freitas Amaral, A. Prada, A. Šarić, Soft Matter 21 (2025) 7736–7756.","mla":"Muñoz Basagoiti, Maitane, et al. “A Tutorial for Mesoscale Computer Simulations of Lipid Membranes: Tether Pulling, Tubulation and Fluctuations.” Soft Matter, vol. 21, no. 40, Royal Society of Chemistry, 2025, pp. 7736–56, doi:10.1039/d5sm00148j.","apa":"Muñoz Basagoiti, M., Frey, F. F., Meadowcroft, B., Santana de Freitas Amaral, M., Prada, A., & Šarić, A. (2025). A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations. Soft Matter. Royal Society of Chemistry. https://doi.org/10.1039/d5sm00148j","ieee":"M. Muñoz Basagoiti, F. F. Frey, B. Meadowcroft, M. Santana de Freitas Amaral, A. Prada, and A. Šarić, “A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations,” Soft Matter, vol. 21, no. 40. Royal Society of Chemistry, pp. 7736–7756, 2025.","chicago":"Muñoz Basagoiti, Maitane, Felix F Frey, Billie Meadowcroft, Miguel Santana de Freitas Amaral, Adam Prada, and Anđela Šarić. “A Tutorial for Mesoscale Computer Simulations of Lipid Membranes: Tether Pulling, Tubulation and Fluctuations.” Soft Matter. Royal Society of Chemistry, 2025. https://doi.org/10.1039/d5sm00148j.","ama":"Muñoz Basagoiti M, Frey FF, Meadowcroft B, Santana de Freitas Amaral M, Prada A, Šarić A. A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations. Soft Matter. 2025;21(40):7736-7756. doi:10.1039/d5sm00148j","ista":"Muñoz Basagoiti M, Frey FF, Meadowcroft B, Santana de Freitas Amaral M, Prada A, Šarić A. 2025. A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations. Soft Matter. 21(40), 7736–7756."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","fulldoi":"https://doi.org/10.1039/d5sm00148j","title":"A tutorial for mesoscale computer simulations of lipid membranes: Tether pulling, tubulation and fluctuations","_id":"20318","publication_status":"published","OA_type":"hybrid","tmp":{"name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","short":"CC BY-NC (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"oa_version":"Published Version"},{"quality_controlled":"1","ddc":["550"],"has_accepted_license":"1","corr_author":"1","publication":"Journal of Advances in Modeling Earth Systems","OA_place":"publisher","date_published":"2025-09-01T00:00:00Z","intvolume":" 17","publisher":"Wiley","abstract":[{"lang":"eng","text":"The time needed by deep convection to bring the atmosphere back to equilibrium is called convective adjustment timescale or simply adjustment timescale, typically denoted by . In the Community Atmospheric Model|Community Atmosphere Model (CAM), is the convective available potential energy (CAPE) relaxation timescale and is 1 hr, worldwide. Observational evidence suggests that is generally longer than 1 hr. Further, continental and oceanic convection are different in terms of the vigor of updrafts and can have different longevities. So using hour worldwide in CAM has two potential caveats. A longer improves the simulation of the mean climate. However, it does not address the land‐ocean heterogeneity of atmospheric deep convection. We investigate the prescription of two different CAPE relaxation timescales for land ( hr) and ocean ( to 4 hr). It is arguably an extremely crude parameterization of boundary layer control on atmospheric convection. We contrast a suite of 5‐year‐long simulations with two different for land and ocean to having one globally. The choice of longer over ocean is guided by previous studies and inspired by observational pieces of evidence. Nonetheless, to complement our variable experiments, we perform a simulation with hr and hrs. Most importantly, our key findings are immune to the exact values of prescribed and . The CAM model, with two values , improves convective‐stratiform rainfall partitioning and the Madden–Julian oscillation propagation characteristics."}],"DOAJ_listed":"1","date_updated":"2025-09-10T08:14:28Z","author":[{"first_name":"BIDYUT B","full_name":"GOSWAMI, BIDYUT B","last_name":"GOSWAMI","orcid":"0000-0001-8602-3083","id":"3a4ac09c-6d61-11ec-bf66-884cde66b64b"},{"first_name":"Andrea","full_name":"Polesello, Andrea","id":"74c777f4-32da-11ee-b498-874db0835561","last_name":"Polesello"},{"id":"f978ccb0-3f7f-11eb-b193-b0e2bd13182b","orcid":"0000-0001-5836-5350","last_name":"Muller","full_name":"Muller, Caroline J","first_name":"Caroline J"}],"year":"2025","scopus_import":"1","type":"journal_article","acknowledged_ssus":[{"_id":"ScienComp"}],"volume":17,"department":[{"_id":"CaMu"}],"acknowledgement":"The authors gratefully acknowledge funding from the European Research Council (ERC) under the European Union's Horizon 2020 research and innovation program (Project CLUSTER, Grant 805041). This research was supported by the Scientific Service Units (SSU) of ISTA through resources provided by Scientific Computing (SciComp). We would like to thank Prof. Courtney Schumacher and Dr. Aaron Funk of Texas A&M University for their help in understanding the TRMM Radar data. The authors are grateful to two anonymous reviewers who helped improve the quality of this paper.","article_processing_charge":"Yes","issue":"9","month":"09","file":[{"file_name":"2025_JAMES_Goswami.pdf","access_level":"open_access","date_created":"2025-09-10T08:12:34Z","content_type":"application/pdf","relation":"main_file","date_updated":"2025-09-10T08:12:34Z","checksum":"5961d6290432c5ac0e8587ef07f30c9b","file_id":"20338","creator":"dernst","success":1,"file_size":2143025}],"status":"public","publication_identifier":{"eissn":["1942-2466"]},"date_created":"2025-09-10T05:36:16Z","language":[{"iso":"eng"}],"article_type":"original","doi":"10.1029/2025ms005035","oa":1,"project":[{"_id":"629205d8-2b32-11ec-9570-e1356ff73576","call_identifier":"H2020","grant_number":"805041","name":"Organization of CLoUdS, and implications of Tropical cyclones and for the Energetics of the tropics, in current and waRming climate"}],"publication_status":"published","OA_type":"gold","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"oa_version":"Published Version","_id":"20319","title":"An assessment of representing land‐ocean heterogeneity via CAPE relaxation timescale in the Community Atmospheric Model 6 (CAM6)","fulldoi":"https://doi.org/10.1029/2025ms005035","article_number":"e2025MS005035","citation":{"ista":"GOSWAMI BB, Polesello A, Muller CJ. 2025. An assessment of representing land‐ocean heterogeneity via CAPE relaxation timescale in the Community Atmospheric Model 6 (CAM6). Journal of Advances in Modeling Earth Systems. 17(9), e2025MS005035.","ama":"GOSWAMI BB, Polesello A, Muller CJ. An assessment of representing land‐ocean heterogeneity via CAPE relaxation timescale in the Community Atmospheric Model 6 (CAM6). Journal of Advances in Modeling Earth Systems. 2025;17(9). doi:10.1029/2025ms005035","chicago":"GOSWAMI, BIDYUT B, Andrea Polesello, and Caroline J Muller. “An Assessment of Representing Land‐ocean Heterogeneity via CAPE Relaxation Timescale in the Community Atmospheric Model 6 (CAM6).” Journal of Advances in Modeling Earth Systems. Wiley, 2025. https://doi.org/10.1029/2025ms005035.","short":"B.B. GOSWAMI, A. Polesello, C.J. Muller, Journal of Advances in Modeling Earth Systems 17 (2025).","mla":"GOSWAMI, BIDYUT B., et al. “An Assessment of Representing Land‐ocean Heterogeneity via CAPE Relaxation Timescale in the Community Atmospheric Model 6 (CAM6).” Journal of Advances in Modeling Earth Systems, vol. 17, no. 9, e2025MS005035, Wiley, 2025, doi:10.1029/2025ms005035.","ieee":"B. B. GOSWAMI, A. Polesello, and C. J. Muller, “An assessment of representing land‐ocean heterogeneity via CAPE relaxation timescale in the Community Atmospheric Model 6 (CAM6),” Journal of Advances in Modeling Earth Systems, vol. 17, no. 9. Wiley, 2025.","apa":"GOSWAMI, B. B., Polesello, A., & Muller, C. J. (2025). An assessment of representing land‐ocean heterogeneity via CAPE relaxation timescale in the Community Atmospheric Model 6 (CAM6). Journal of Advances in Modeling Earth Systems. Wiley. https://doi.org/10.1029/2025ms005035"},"ec_funded":1,"file_date_updated":"2025-09-10T08:12:34Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"01"},{"language":[{"iso":"eng"}],"doi":"10.1016/j.ejc.2025.104214","article_type":"original","oa":1,"external_id":{"arxiv":["2310.00931"],"isi":["001529769300002"]},"issue":"12","month":"12","file":[{"date_updated":"2025-12-30T10:18:56Z","relation":"main_file","content_type":"application/pdf","date_created":"2025-12-30T10:18:56Z","access_level":"open_access","file_name":"2025_EuropJournCombinatorics_Mies.pdf","file_size":737845,"creator":"dernst","success":1,"file_id":"20913","checksum":"b1536e9256c4510a0e21452032e43a26"}],"status":"public","date_created":"2025-09-10T05:36:50Z","publication_identifier":{"issn":["0195-6698"]},"citation":{"ista":"Mies S, Moore B, Smith-Roberge E. 2025. Beyond the pseudoforest strong Nine Dragon Tree theorem. European Journal of Combinatorics. 130(12), 104214.","ama":"Mies S, Moore B, Smith-Roberge E. Beyond the pseudoforest strong Nine Dragon Tree theorem. European Journal of Combinatorics. 2025;130(12). doi:10.1016/j.ejc.2025.104214","chicago":"Mies, Sebastian, Benjamin Moore, and Evelyne Smith-Roberge. “Beyond the Pseudoforest Strong Nine Dragon Tree Theorem.” European Journal of Combinatorics. Elsevier, 2025. https://doi.org/10.1016/j.ejc.2025.104214.","mla":"Mies, Sebastian, et al. “Beyond the Pseudoforest Strong Nine Dragon Tree Theorem.” European Journal of Combinatorics, vol. 130, no. 12, 104214, Elsevier, 2025, doi:10.1016/j.ejc.2025.104214.","short":"S. Mies, B. Moore, E. Smith-Roberge, European Journal of Combinatorics 130 (2025).","ieee":"S. Mies, B. Moore, and E. Smith-Roberge, “Beyond the pseudoforest strong Nine Dragon Tree theorem,” European Journal of Combinatorics, vol. 130, no. 12. Elsevier, 2025.","apa":"Mies, S., Moore, B., & Smith-Roberge, E. (2025). Beyond the pseudoforest strong Nine Dragon Tree theorem. European Journal of Combinatorics. Elsevier. https://doi.org/10.1016/j.ejc.2025.104214"},"file_date_updated":"2025-12-30T10:18:56Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"01","publication_status":"published","OA_type":"hybrid","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","_id":"20320","fulldoi":"https://doi.org/10.1016/j.ejc.2025.104214","title":"Beyond the pseudoforest strong Nine Dragon Tree theorem","article_number":"104214","intvolume":" 130","publisher":"Elsevier","abstract":[{"lang":"eng","text":"The pseudoforest version of the Strong Nine Dragon Tree Conjecture states that if a graph G has maximum average degree mad(G) = 2 maxH⊆G e(H)/v(H) at most 2(k + d/d+k+1), then it has a decomposition into k + 1 pseudoforests where in one pseudoforest F the components of F have at most d edges. This was proven in 2020 in Grout and Moore (2020). We strengthen this\r\ntheorem by showing that we can find such a decomposition where additionally F is acyclic, the diameter of the components of F is at most 2ℓ + 2, where ℓ =⌊d−1/k+1⌋, and at most 2ℓ + 1 if\r\nd ≡ 1 mod (k + 1). Furthermore, for any component K of F and any z ∈ N, we have diam(K) ≤ 2z if e(K) ≥ d − z(k − 1) + 1. We also show that both diameter bounds are best possible as an\r\nextension for both the Strong Nine Dragon Tree Conjecture for pseudoforests and its original conjecture for forests. In fact, they are still optimal even if we only enforce F to have any constant maximum degree, instead of enforcing every component of F to have at most d edges."}],"quality_controlled":"1","ddc":["500"],"has_accepted_license":"1","corr_author":"1","publication":"European Journal of Combinatorics","OA_place":"publisher","date_published":"2025-12-01T00:00:00Z","arxiv":1,"acknowledgement":"This work was completed while Benjamin Moore was a postdoc at Charles University, supported by project 22-17398S (Flows and cycles in graphs on surfaces) of Czech Science Foundation, Czechia.","article_processing_charge":"Yes (via OA deal)","PlanS_conform":"1","isi":1,"date_updated":"2025-12-30T10:19:10Z","author":[{"first_name":"Sebastian","full_name":"Mies, Sebastian","last_name":"Mies"},{"last_name":"Moore","id":"6dc1a1be-bf1c-11ed-8d2b-d044840f49d6","first_name":"Benjamin","full_name":"Moore, Benjamin"},{"last_name":"Smith-Roberge","first_name":"Evelyne","full_name":"Smith-Roberge, Evelyne"}],"year":"2025","type":"journal_article","scopus_import":"1","volume":130,"department":[{"_id":"MaKw"}]},{"PlanS_conform":"1","acknowledgement":"The authors thank Alexey Krushelnitsky for useful discussions. C.P.J. thanks NSF (MCB-2303862) and NIH (R35GM156238 and S10OD012303) for funding. This research was supported by the Scientific Service Units (SSU) of Institute of Science and Technology Austria (ISTA) through resources provided by the Nuclear Magnetic Resonance and the Lab Support Facilities.","article_processing_charge":"Yes (via OA deal)","volume":147,"department":[{"_id":"PaSc"},{"_id":"NMR"}],"related_material":{"record":[{"status":"public","id":"19696","relation":"used_in_publication"}]},"scopus_import":"1","acknowledged_ssus":[{"_id":"NMR"},{"_id":"LifeSc"}],"type":"journal_article","date_updated":"2026-06-10T08:33:41Z","author":[{"last_name":"Tatman","id":"71cda2f3-e604-11ee-a1df-da10587eda3f","first_name":"Benjamin","full_name":"Tatman, Benjamin"},{"last_name":"Sridharan","first_name":"Vidhyalakshmi","full_name":"Sridharan, Vidhyalakshmi"},{"first_name":"Motilal","full_name":"Uttarkabat, Motilal","last_name":"Uttarkabat"},{"last_name":"Jaroniec","first_name":"Christopher P.","full_name":"Jaroniec, Christopher P."},{"full_name":"Ernst, Matthias","first_name":"Matthias","last_name":"Ernst"},{"first_name":"Petra","full_name":"Rovo, Petra","last_name":"Rovo","orcid":"0000-0001-8729-7326","id":"c316e53f-b965-11eb-b128-bb26acc59c00"},{"id":"7B541462-FAF6-11E9-A490-E8DFE5697425","orcid":"0000-0002-9350-7606","last_name":"Schanda","full_name":"Schanda, Paul","first_name":"Paul"}],"year":"2025","isi":1,"abstract":[{"text":"Microsecond-to-millisecond motions are instrumental for many biomolecular functions, including enzymatic activity and ligand binding. Bloch-McConnell Relaxation Dispersion (BMRD) Nuclear Magnetic Resonance (NMR) spectroscopy is a key technique for studying these dynamic processes. While BMRD experiments are routinely used to probe protein motions in solution, the experiment is more demanding in the solid state, where dipolar couplings complicate the spin dynamics. It is believed that high deuteration levels are required and sufficient to obtain accurate and quantitative data. Here we show that even under fast magic-angle spinning and high levels of deuteration artifactual “bumps” in 15N R1ρ BMRD profiles are common. The origin of these artifacts is identified as a second-order three-spin Mixed Rotational and Rotary Resonance (MIRROR) recoupling condition. These artifacts are found to be a significant confounding factor for the accurate quantification of microsecond protein dynamics using BMRD in the solid state. We show that the application of low-power continuous wave (CW) decoupling simultaneously with the 15N spin-lock leads to the suppression of these conditions and enables quantitative measurements of microsecond exchange in the solid state. Remarkably, the application of decoupling allows the measurement of accurate BMRD even in fully protonated proteins at 100 kHz MAS, thus extending the scope of μs dynamics measurements in MAS NMR.","lang":"eng"}],"publisher":"American Chemical Society","intvolume":" 147","publication":"Journal of the American Chemical Society","date_published":"2025-08-01T00:00:00Z","OA_place":"publisher","has_accepted_license":"1","corr_author":"1","quality_controlled":"1","ddc":["540"],"day":"01","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","file_date_updated":"2025-09-10T07:53:10Z","citation":{"ista":"Tatman B, Sridharan V, Uttarkabat M, Jaroniec CP, Ernst M, Rovo P, Schanda P. 2025. Bumps on the road: The way to clean relaxation dispersion magic-angle spinning NMR. Journal of the American Chemical Society. 147(32), 29315–29326.","ama":"Tatman B, Sridharan V, Uttarkabat M, et al. Bumps on the road: The way to clean relaxation dispersion magic-angle spinning NMR. Journal of the American Chemical Society. 2025;147(32):29315-29326. doi:10.1021/jacs.5c09057","chicago":"Tatman, Benjamin, Vidhyalakshmi Sridharan, Motilal Uttarkabat, Christopher P. Jaroniec, Matthias Ernst, Petra Rovo, and Paul Schanda. “Bumps on the Road: The Way to Clean Relaxation Dispersion Magic-Angle Spinning NMR.” Journal of the American Chemical Society. American Chemical Society, 2025. https://doi.org/10.1021/jacs.5c09057.","ieee":"B. Tatman et al., “Bumps on the road: The way to clean relaxation dispersion magic-angle spinning NMR,” Journal of the American Chemical Society, vol. 147, no. 32. American Chemical Society, pp. 29315–29326, 2025.","apa":"Tatman, B., Sridharan, V., Uttarkabat, M., Jaroniec, C. P., Ernst, M., Rovo, P., & Schanda, P. (2025). Bumps on the road: The way to clean relaxation dispersion magic-angle spinning NMR. Journal of the American Chemical Society. American Chemical Society. https://doi.org/10.1021/jacs.5c09057","mla":"Tatman, Benjamin, et al. “Bumps on the Road: The Way to Clean Relaxation Dispersion Magic-Angle Spinning NMR.” Journal of the American Chemical Society, vol. 147, no. 32, American Chemical Society, 2025, pp. 29315–26, doi:10.1021/jacs.5c09057.","short":"B. Tatman, V. Sridharan, M. Uttarkabat, C.P. Jaroniec, M. Ernst, P. Rovo, P. Schanda, Journal of the American Chemical Society 147 (2025) 29315–29326."},"_id":"20321","fulldoi":"https://doi.org/10.1021/jacs.5c09057","title":"Bumps on the road: The way to clean relaxation dispersion magic-angle spinning NMR","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","OA_type":"hybrid","publication_status":"published","pmid":1,"oa":1,"external_id":{"pmid":["40748291"],"isi":["001542746200001"]},"page":"29315-29326","article_type":"original","doi":"10.1021/jacs.5c09057","language":[{"iso":"eng"}],"status":"public","date_created":"2025-09-10T05:37:19Z","publication_identifier":{"eissn":["1520-5126"],"issn":["0002-7863"]},"file":[{"checksum":"b350d56ddddefea96cebd62c277c0ff5","success":1,"creator":"dernst","file_size":5235353,"file_id":"20337","date_created":"2025-09-10T07:53:10Z","file_name":"2025_JACS_Tatman.pdf","access_level":"open_access","relation":"main_file","date_updated":"2025-09-10T07:53:10Z","content_type":"application/pdf"}],"month":"08","issue":"32"},{"volume":406,"department":[{"_id":"LaEr"}],"related_material":{"record":[{"relation":"earlier_version","status":"public","id":"19547"},{"id":"20575","status":"public","relation":"dissertation_contains"}]},"scopus_import":"1","type":"journal_article","author":[{"orcid":"0000-0001-5366-9603","last_name":"Erdös","id":"4DBD5372-F248-11E8-B48F-1D18A9856A87","first_name":"László","full_name":"Erdös, László"},{"last_name":"Henheik","orcid":"0000-0003-1106-327X","id":"31d731d7-d235-11ea-ad11-b50331c8d7fb","full_name":"Henheik, Sven Joscha","first_name":"Sven Joscha"},{"id":"1949f904-edfb-11eb-afb5-e2dfddabb93b","last_name":"Riabov","first_name":"Volodymyr","full_name":"Riabov, Volodymyr"}],"date_updated":"2026-04-07T12:32:19Z","year":"2025","isi":1,"PlanS_conform":"1","arxiv":1,"article_processing_charge":"Yes (via OA deal)","acknowledgement":"We thank Giorgio Cipolloni for many productive discussions and the anonymous referees for several useful suggestions and spotting some typos. Open access funding provided by Institute of Science and Technology (IST Austria).","publication":"Communications in Mathematical Physics","OA_place":"publisher","date_published":"2025-09-01T00:00:00Z","has_accepted_license":"1","corr_author":"1","quality_controlled":"1","ddc":["510"],"abstract":[{"lang":"eng","text":"For correlated real symmetric or complex Hermitian random matrices, we prove that the local eigenvalue statistics at any cusp singularity are universal. Since the density of states typically exhibits only square root edge or cubic root cusp singularities, our result completes the proof of the Wigner–Dyson–Mehta universality conjecture in all spectral regimes for a very general class of random matrices. Previously only the bulk and the edge universality were established in this generality (Alt et al. in Ann Probab 48(2):963–1001, 2020), while cusp universality was proven only for Wigner-type matrices with independent entries (Cipolloni et al. in Pure Appl Anal 1:615–707, 2019; Erdős et al. in Commun. Math. Phys. 378:1203–1278, 2018). As our main technical input, we prove an optimal local law at the cusp using the Zigzag strategy, a recursive tandem of the characteristic flow method and a Green function comparison argument. Moreover, our proof of the optimal local law holds uniformly in the spectrum, thus we also provide a significantly simplified alternative proof of the local eigenvalue universality in the previously studied bulk (Erdős et al. in Forum Math. Sigma 7:E8, 2019) and edge (Alt et al. in Ann Probab 48(2):963–1001, 2020) regimes."}],"publisher":"Springer Nature","intvolume":" 406","_id":"20322","article_number":"253","fulldoi":"https://doi.org/10.1007/s00220-025-05417-z","title":"Cusp universality for correlated random matrices","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","publication_status":"published","OA_type":"hybrid","day":"01","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","citation":{"ieee":"L. Erdös, S. J. Henheik, and V. Riabov, “Cusp universality for correlated random matrices,” Communications in Mathematical Physics, vol. 406, no. 10. Springer Nature, 2025.","apa":"Erdös, L., Henheik, S. J., & Riabov, V. (2025). Cusp universality for correlated random matrices. Communications in Mathematical Physics. Springer Nature. https://doi.org/10.1007/s00220-025-05417-z","short":"L. Erdös, S.J. Henheik, V. Riabov, Communications in Mathematical Physics 406 (2025).","mla":"Erdös, László, et al. “Cusp Universality for Correlated Random Matrices.” Communications in Mathematical Physics, vol. 406, no. 10, 253, Springer Nature, 2025, doi:10.1007/s00220-025-05417-z.","ista":"Erdös L, Henheik SJ, Riabov V. 2025. Cusp universality for correlated random matrices. Communications in Mathematical Physics. 406(10), 253.","ama":"Erdös L, Henheik SJ, Riabov V. Cusp universality for correlated random matrices. Communications in Mathematical Physics. 2025;406(10). doi:10.1007/s00220-025-05417-z","chicago":"Erdös, László, Sven Joscha Henheik, and Volodymyr Riabov. “Cusp Universality for Correlated Random Matrices.” Communications in Mathematical Physics. Springer Nature, 2025. https://doi.org/10.1007/s00220-025-05417-z."},"file_date_updated":"2025-09-10T07:48:21Z","status":"public","date_created":"2025-09-10T05:38:17Z","publication_identifier":{"eissn":["1432-0916"],"issn":["0010-3616"]},"file":[{"file_size":1465827,"creator":"dernst","success":1,"file_id":"20336","checksum":"abd32af7b8ca6dc5b9080823a433986b","relation":"main_file","date_updated":"2025-09-10T07:48:21Z","content_type":"application/pdf","date_created":"2025-09-10T07:48:21Z","access_level":"open_access","file_name":"2025_CommMathPhysics_Erdoes.pdf"}],"month":"09","issue":"10","oa":1,"external_id":{"arxiv":["2410.06813"],"isi":["001565019000005"]},"language":[{"iso":"eng"}],"doi":"10.1007/s00220-025-05417-z","article_type":"original"},{"file":[{"checksum":"5059ad4d74e6327b84b5282a39d36774","success":1,"creator":"dernst","file_size":1698605,"file_id":"20911","date_created":"2025-12-30T10:12:17Z","file_name":"2025_MolecularEcology_Ellis.pdf","access_level":"open_access","relation":"main_file","date_updated":"2025-12-30T10:12:17Z","content_type":"application/pdf"}],"date_created":"2025-09-10T05:42:23Z","publication_identifier":{"eissn":["1365-294X"],"issn":["0962-1083"]},"status":"public","issue":"15","month":"09","external_id":{"isi":["001542913000001"],"pmid":["40751392"]},"oa":1,"language":[{"iso":"eng"}],"doi":"10.1111/mec.70051","article_type":"original","fulldoi":"https://doi.org/10.1111/mec.70051","article_number":"e70051","title":"Joint estimation of paternity, sibships and pollen dispersal in a snapdragon hybrid zone","_id":"20325","publication_status":"published","OA_type":"hybrid","pmid":1,"oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)","image":"/images/cc_by_nc_nd.png","short":"CC BY-NC-ND (4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode"},"day":"02","citation":{"apa":"Ellis, T., Field, D., & Barton, N. H. (2025). Joint estimation of paternity, sibships and pollen dispersal in a snapdragon hybrid zone. Molecular Ecology. Wiley. https://doi.org/10.1111/mec.70051","ieee":"T. Ellis, D. Field, and N. H. Barton, “Joint estimation of paternity, sibships and pollen dispersal in a snapdragon hybrid zone,” Molecular Ecology, vol. 34, no. 15. Wiley, 2025.","short":"T. Ellis, D. Field, N.H. Barton, Molecular Ecology 34 (2025).","mla":"Ellis, Thomas, et al. “Joint Estimation of Paternity, Sibships and Pollen Dispersal in a Snapdragon Hybrid Zone.” Molecular Ecology, vol. 34, no. 15, e70051, Wiley, 2025, doi:10.1111/mec.70051.","ama":"Ellis T, Field D, Barton NH. Joint estimation of paternity, sibships and pollen dispersal in a snapdragon hybrid zone. Molecular Ecology. 2025;34(15). doi:10.1111/mec.70051","chicago":"Ellis, Thomas, David Field, and Nicholas H Barton. “Joint Estimation of Paternity, Sibships and Pollen Dispersal in a Snapdragon Hybrid Zone.” Molecular Ecology. Wiley, 2025. https://doi.org/10.1111/mec.70051.","ista":"Ellis T, Field D, Barton NH. 2025. Joint estimation of paternity, sibships and pollen dispersal in a snapdragon hybrid zone. Molecular Ecology. 34(15), e70051."},"file_date_updated":"2025-12-30T10:12:17Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","OA_place":"publisher","date_published":"2025-09-02T00:00:00Z","publication":"Molecular Ecology","ddc":["570"],"quality_controlled":"1","corr_author":"1","has_accepted_license":"1","abstract":[{"lang":"eng","text":"Inferring genealogical relationships of wild populations is useful because it gives direct estimates of mating patterns and variance in reproductive success. Inference can be improved by including information about parentage shared between siblings, or by modelling phenotypes or population data related to mating. However, we currently lack a framework to infer parent–offspring relationships, sibships and population parameters in a single analysis. To address this, we here extend a previous method, Fractional Analysis of Paternity and Sibships, to include population data for the case where one parent is known. We illustrate this with the example of pollen dispersal in a natural hybrid zone population of the snapdragon Antirrhinum majus. Pollen dispersal is leptokurtic, with half of mating events occurring within 30 m, but with a long tail of mating events up to 859 m. Using simulations, we find that both sibship and population information substantially improve pedigree reconstruction, and that we can expect to resolve median dispersal distances with high accuracy."}],"intvolume":" 34","publisher":"Wiley","scopus_import":"1","type":"journal_article","department":[{"_id":"NiBa"}],"volume":34,"isi":1,"year":"2025","date_updated":"2025-12-30T10:12:34Z","author":[{"first_name":"Thomas","full_name":"Ellis, Thomas","id":"3153D6D4-F248-11E8-B48F-1D18A9856A87","last_name":"Ellis","orcid":"0000-0002-8511-0254"},{"last_name":"Field","orcid":"0000-0002-4014-8478","id":"419049E2-F248-11E8-B48F-1D18A9856A87","full_name":"Field, David","first_name":"David"},{"full_name":"Barton, Nicholas H","first_name":"Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8548-5240","last_name":"Barton"}],"article_processing_charge":"Yes (via OA deal)","acknowledgement":"We thank a large number of field volunteers for maintaining the population sampling, and Tom White for assistance with seed collection. We thank Sylvia Rebel for plating tissue for DNA extraction, as well as Sean Stankowski and two anonymous reviewers for feedback on the manuscript. "},{"acknowledgement":"The authors are grateful to Fiona Burnell, Gaurav Gyawali, Zlatko Papić, Elliot Rosenberg, Pedram Roushan, Michael Schecter, and Una Šlanka for insightful discussions. J.-Y.D. acknowledges funding from the European Union's Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant No. 101034413. T.I. acknowledges support from the National Science Foundation under Grant No. DMR-2143635. J.C.H. acknowledges funding by the Emmy Noether Programme of the German Research Foundation (DFG) under Grant No. HA 8206/1-1.s, the Max Planck Society, the Deutsche Forschungsgemeinschaft (DFG, German Research Foundation) under Germany's Excellence Strategy–EXC-2111–390814868, and the European Research Council (ERC) under the European Union's Horizon Europe research and innovation program (Grant Agreement No. 101165667) ERC Starting Grant QuSiGauge. This work is part of the Quantum Computing for High-Energy Physics (QC4HEP) working group.","article_processing_charge":"Yes (via OA deal)","arxiv":1,"PlanS_conform":"1","scopus_import":"1","type":"journal_article","related_material":{"record":[{"id":"19791","status":"public","relation":"research_data"}]},"volume":112,"department":[{"_id":"MaSe"}],"isi":1,"year":"2025","author":[{"first_name":"Jean-Yves Marc","full_name":"Desaules, Jean-Yves Marc","last_name":"Desaules","orcid":"0000-0002-3749-6375","id":"6c292945-a610-11ed-9eec-c3be1ad62a80"},{"last_name":"Iadecola","first_name":"Thomas","full_name":"Iadecola, Thomas"},{"full_name":"Halimeh, Jad C.","first_name":"Jad C.","last_name":"Halimeh"}],"date_updated":"2025-09-30T14:34:43Z","abstract":[{"lang":"eng","text":"Confinement is a prominent phenomenon in condensed-matter and high-energy physics that has recently become the focus of quantum-simulation experiments of lattice gauge theories (LGTs). As such, a theoretical understanding of the effect of confinement on LGT dynamics is not only of fundamental importance but also can lend itself to upcoming experiments. Here we show how confinement in a Z2 LGT can be avoided by proximity to a resonance between the fermion mass and the electric field strength. Furthermore, we show that this local deconfinement can become global for certain initial conditions, where information transport occurs over the entire chain. In addition, we show how this can lead to strong quantum many-body scarring starting in different initial states. Our findings provide deeper insights into the nature of confinement in Z2 LGTs and can be tested on current and near-term quantum devices."}],"intvolume":" 112","publisher":"American Physical Society","OA_place":"publisher","date_published":"2025-07-01T00:00:00Z","publication":"Physical Review B","ddc":["530"],"quality_controlled":"1","corr_author":"1","has_accepted_license":"1","day":"01","ec_funded":1,"file_date_updated":"2025-09-10T06:47:23Z","citation":{"mla":"Desaules, Jean-Yves Marc, et al. “Mass-Assisted Local Deconfinement in a Confined Z2 Lattice Gauge Theory.” Physical Review B, vol. 112, no. 1, 014301, American Physical Society, 2025, doi:10.1103/mfg2-t6gb.","short":"J.-Y.M. Desaules, T. Iadecola, J.C. Halimeh, Physical Review B 112 (2025).","ieee":"J.-Y. M. Desaules, T. Iadecola, and J. C. Halimeh, “Mass-assisted local deconfinement in a confined Z2 lattice gauge theory,” Physical Review B, vol. 112, no. 1. American Physical Society, 2025.","apa":"Desaules, J.-Y. M., Iadecola, T., & Halimeh, J. C. (2025). Mass-assisted local deconfinement in a confined Z2 lattice gauge theory. Physical Review B. American Physical Society. https://doi.org/10.1103/mfg2-t6gb","ista":"Desaules J-YM, Iadecola T, Halimeh JC. 2025. Mass-assisted local deconfinement in a confined Z2 lattice gauge theory. Physical Review B. 112(1), 014301.","chicago":"Desaules, Jean-Yves Marc, Thomas Iadecola, and Jad C. Halimeh. “Mass-Assisted Local Deconfinement in a Confined Z2 Lattice Gauge Theory.” Physical Review B. American Physical Society, 2025. https://doi.org/10.1103/mfg2-t6gb.","ama":"Desaules J-YM, Iadecola T, Halimeh JC. Mass-assisted local deconfinement in a confined Z2 lattice gauge theory. Physical Review B. 2025;112(1). doi:10.1103/mfg2-t6gb"},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","fulldoi":"https://doi.org/10.1103/mfg2-t6gb","title":"Mass-assisted local deconfinement in a confined Z2 lattice gauge theory","article_number":"014301","_id":"20327","OA_type":"hybrid","publication_status":"published","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"external_id":{"isi":["001530465500007"],"arxiv":["2404.11645"]},"oa":1,"project":[{"name":"IST-BRIDGE: International postdoctoral program","call_identifier":"H2020","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c","grant_number":"101034413"}],"article_type":"original","doi":"10.1103/mfg2-t6gb","language":[{"iso":"eng"}],"file":[{"checksum":"dd919bb9c4c233eba047af4262e02835","file_size":3458424,"success":1,"creator":"dernst","file_id":"20333","date_created":"2025-09-10T06:47:23Z","access_level":"open_access","file_name":"2025_PhysReviewB_Desaules.pdf","relation":"main_file","date_updated":"2025-09-10T06:47:23Z","content_type":"application/pdf"}],"date_created":"2025-09-10T05:44:47Z","publication_identifier":{"issn":["2469-9950"],"eissn":["2469-9969"]},"status":"public","issue":"1","month":"07"},{"month":"09","issue":"36","date_created":"2025-09-10T05:47:13Z","publication_identifier":{"eissn":["1936-086X"],"issn":["1936-0851"]},"status":"public","file":[{"file_size":10956272,"success":1,"creator":"dernst","file_id":"20909","checksum":"81144f848478a130721e9ffa87b6831e","relation":"main_file","date_updated":"2025-12-30T09:35:44Z","content_type":"application/pdf","date_created":"2025-12-30T09:35:44Z","file_name":"2025_ACSNano_Ibanez.pdf","access_level":"open_access"}],"doi":"10.1021/acsnano.5c07838","language":[{"iso":"eng"}],"article_type":"review","project":[{"name":"HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery","_id":"9B8F7476-BA93-11EA-9121-9846C619BF3A"}],"page":" 31969–32051","external_id":{"pmid":["40902118"],"isi":["001562960800001"]},"oa":1,"oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"OA_type":"hybrid","pmid":1,"publication_status":"published","fulldoi":"https://doi.org/10.1021/acsnano.5c07838","title":"Prospects of nanoscience with nanocrystals: 2025 edition","_id":"20329","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2025-12-30T09:35:44Z","citation":{"short":"M. Ibáñez, S.C. Boehme, R. Buonsanti, J. De Roo, D.J. Milliron, S. Ithurria, A.L. Rogach, A. Cabot, M. Yarema, B.M. Cossairt, P. Reiss, D.V. Talapin, L. Protesescu, Z. Hens, I. Infante, M.I. Bodnarchuk, X. Ye, Y. Wang, H. Zhang, E. Lhuillier, V.I. Klimov, H. Utzat, G. Rainò, C.R. Kagan, M. Cargnello, J.S. Son, M.V. Kovalenko, ACS Nano 19 (2025) 31969–32051.","mla":"Ibáñez, Maria, et al. “Prospects of Nanoscience with Nanocrystals: 2025 Edition.” ACS Nano, vol. 19, no. 36, American Chemical Society, 2025, pp. 31969–32051, doi:10.1021/acsnano.5c07838.","apa":"Ibáñez, M., Boehme, S. C., Buonsanti, R., De Roo, J., Milliron, D. J., Ithurria, S., … Kovalenko, M. V. (2025). Prospects of nanoscience with nanocrystals: 2025 edition. ACS Nano. American Chemical Society. https://doi.org/10.1021/acsnano.5c07838","ieee":"M. Ibáñez et al., “Prospects of nanoscience with nanocrystals: 2025 edition,” ACS Nano, vol. 19, no. 36. American Chemical Society, pp. 31969–32051, 2025.","chicago":"Ibáñez, Maria, Simon C. Boehme, Raffaella Buonsanti, Jonathan De Roo, Delia J. Milliron, Sandrine Ithurria, Andrey L. Rogach, et al. “Prospects of Nanoscience with Nanocrystals: 2025 Edition.” ACS Nano. American Chemical Society, 2025. https://doi.org/10.1021/acsnano.5c07838.","ama":"Ibáñez M, Boehme SC, Buonsanti R, et al. Prospects of nanoscience with nanocrystals: 2025 edition. ACS Nano. 2025;19(36):31969–32051. doi:10.1021/acsnano.5c07838","ista":"Ibáñez M, Boehme SC, Buonsanti R, De Roo J, Milliron DJ, Ithurria S, Rogach AL, Cabot A, Yarema M, Cossairt BM, Reiss P, Talapin DV, Protesescu L, Hens Z, Infante I, Bodnarchuk MI, Ye X, Wang Y, Zhang H, Lhuillier E, Klimov VI, Utzat H, Rainò G, Kagan CR, Cargnello M, Son JS, Kovalenko MV. 2025. Prospects of nanoscience with nanocrystals: 2025 edition. ACS Nano. 19(36), 31969–32051."},"day":"03","corr_author":"1","has_accepted_license":"1","ddc":["540"],"quality_controlled":"1","OA_place":"publisher","date_published":"2025-09-03T00:00:00Z","publication":"ACS Nano","publisher":"American Chemical Society","intvolume":" 19","abstract":[{"text":"Nanocrystals (NCs) of various compositions have made important contributions to science and technology, with their impact recognized by the 2023 Nobel Prize in Chemistry for the discovery and synthesis of semiconductor quantum dots (QDs). Over four decades of research into NCs has led to numerous advancements in diverse fields, such as optoelectronics, catalysis, energy, medicine, and recently, quantum information and computing. The last 10 years since the predecessor perspective “Prospect of Nanoscience with Nanocrystals” was published in ACS Nano have seen NC research continuously evolve, yielding critical advances in fundamental understanding and practical applications. Mechanistic insights into NC formation have translated into precision control over NC size, shape, and composition. Emerging synthesis techniques have broadened the landscape of compounds obtainable in colloidal NC form. Sophistication in surface chemistry, jointly bolstered by theoretical models and experimental findings, has facilitated refined control over NC properties and represents a trusted gateway to enhanced NC stability and processability. The assembly of NCs into superlattices, along with two-dimensional (2D) photolithography and three-dimensional (3D) printing, has expanded their utility in creating materials with tailored properties. Applications of NCs are also flourishing, consolidating progress in fields targeted early on, such as optoelectronics and catalysis, and extending into areas ranging from quantum technology to phase-change memories. In this perspective, we review the extensive progress in research on NCs over the past decade and highlight key areas where future research may bring further breakthroughs.","lang":"eng"}],"year":"2025","date_updated":"2025-12-30T09:35:54Z","author":[{"id":"43C61214-F248-11E8-B48F-1D18A9856A87","last_name":"Ibáñez","orcid":"0000-0001-5013-2843","first_name":"Maria","full_name":"Ibáñez, Maria"},{"last_name":"Boehme","first_name":"Simon C.","full_name":"Boehme, Simon C."},{"full_name":"Buonsanti, Raffaella","first_name":"Raffaella","last_name":"Buonsanti"},{"first_name":"Jonathan","full_name":"De Roo, Jonathan","last_name":"De Roo"},{"full_name":"Milliron, Delia J.","first_name":"Delia J.","last_name":"Milliron"},{"last_name":"Ithurria","full_name":"Ithurria, Sandrine","first_name":"Sandrine"},{"last_name":"Rogach","first_name":"Andrey L.","full_name":"Rogach, Andrey L."},{"last_name":"Cabot","full_name":"Cabot, Andreu","first_name":"Andreu"},{"last_name":"Yarema","first_name":"Maksym","full_name":"Yarema, Maksym"},{"last_name":"Cossairt","first_name":"Brandi M.","full_name":"Cossairt, Brandi M."},{"first_name":"Peter","full_name":"Reiss, Peter","last_name":"Reiss"},{"last_name":"Talapin","first_name":"Dmitri V.","full_name":"Talapin, Dmitri V."},{"last_name":"Protesescu","full_name":"Protesescu, Loredana","first_name":"Loredana"},{"last_name":"Hens","first_name":"Zeger","full_name":"Hens, Zeger"},{"first_name":"Ivan","full_name":"Infante, Ivan","last_name":"Infante"},{"full_name":"Bodnarchuk, Maryna I.","first_name":"Maryna I.","last_name":"Bodnarchuk"},{"last_name":"Ye","full_name":"Ye, Xingchen","first_name":"Xingchen"},{"last_name":"Wang","full_name":"Wang, Yuanyuan","first_name":"Yuanyuan"},{"last_name":"Zhang","first_name":"Hao","full_name":"Zhang, Hao"},{"last_name":"Lhuillier","full_name":"Lhuillier, Emmanuel","first_name":"Emmanuel"},{"full_name":"Klimov, Victor I.","first_name":"Victor I.","last_name":"Klimov"},{"first_name":"Hendrik","full_name":"Utzat, Hendrik","last_name":"Utzat"},{"first_name":"Gabriele","full_name":"Rainò, Gabriele","last_name":"Rainò"},{"full_name":"Kagan, Cherie R.","first_name":"Cherie R.","last_name":"Kagan"},{"first_name":"Matteo","full_name":"Cargnello, Matteo","last_name":"Cargnello"},{"first_name":"Jae Sung","full_name":"Son, Jae Sung","last_name":"Son"},{"first_name":"Maksym V.","full_name":"Kovalenko, Maksym V.","last_name":"Kovalenko"}],"isi":1,"volume":19,"department":[{"_id":"MaIb"}],"scopus_import":"1","type":"journal_article","PlanS_conform":"1","article_processing_charge":"Yes (via OA deal)","acknowledgement":"This article was inspired by the discussions and presentations at the NaNaX10 (Nanoscience with Nanocrystals) conference held in the Institute of Science and Technology of Austria (ISTA), July 3–7, 2023. M.I. acknowledges financial support from the Werner Siemens Foundation (WSS) and Abayomi Lawal, Christine Fiedler, Ihor Cherniukh, Francesco Milillo, Navita Jakhar, and Magali Lorion for all their help in editing this manuscript. M.I. would also like to acknowledge Christine Fiedler for the design of the TOC. S.C.B. acknowledges Dr. Dmitry Dirin for proofreading and the Weizmann-ETH Zurich Bridge Program for financial support. A.C. thanks Linlin Yang for drafting Figure 6 and acknowledges support from the project Sydecat with reference PID2022-136883OB-C22 under MCIN/AEI/10.13039/501100011033/FEDER, UE, and to the Departament de Recerca i Universitats of the Generalitat de Catalunya (2021 SGR 01581). M.C. acknowledges support from the Sloan Foundation, BASF Corporation, the Novo Nordisk Foundation CO2 Research Center (CORC), and the US Department of Energy, Chemical Sciences, Geosciences and Biosciences Division of the Office of Basic Energy Sciences, via the SUNCAT Center for Interface Science and Catalysis. D.V.T. acknowledges support from the U.S. National Science Foundation under Grant Number CHE-2404291. V.I.K. acknowledges support by the Solar Photochemistry Program of the Chemical Sciences, Biosciences and Geosciences Division, Office of Basic Energy Sciences, Office of Science, U.S. Department of Energy (overview of studies of spin-exchange interactions in Mn-doped QDs) and the Laboratory Directed Research and Development (LDRD) program at Los Alamos National Laboratory under project 20250443ER (overview of QD optical gain and lasing studies). E.L. acknowledges financial from the ERC grant blackQD (grant no. 756225) and AQDtive (grant no. 101086358), and from French state funds managed by the ANR through the grants Bright (ANR-21-CE24-0012-02), MixDferro (ANR-21-CE09-0029), Quicktera (ANR-22-CE09-0018), E-map (ANR-23-CE50-0025), DIRAC (ANR-24-ASM1-0001), camIR (ANR-24-CE42-2757), and Piquant (ANR-24-CE09-0786). L.P. acknowledges financial support from SOLAR NL, funded by the National Growth Fund in The Netherlands. G.R. acknowledges funding from the Swiss National Science Foundation (Grant No. 200021_192308, “Q-Light─Engineered Quantum Light Sources with Nanocrystal Assemblies”). P.R. acknowledges funding from European Union’s Horizon research and innovation program under grant agreement 101135704 (HortiQD project) and from the French Research Agency ANR (grant ANR-24-CE09-0786-01 PIQUANT). A.L.R. acknowledges financial support from the Innovation and Technology Commission of Hong Kong (ITS/027/22MX), and from the Research Grant Council of Hong Kong SAR through the RGC Senior Research Fellow Scheme (SRFS 2324-1S04). J.S.S. acknowledges financial support from the National Research Foundation of Korea (NRF) grant funded by the Ministry of Science and ICT (2022R1A2C3009129). X.Y. acknowledges support from the U.S. National Science Foundation under awards DMR-2102526 and CBET-2223453. Y.W. acknowledges the support from the Science and Technology Program in Jiangsu Province (BK20232041) and the National Natural Science Foundation of China (22171132 and 52472165). M.Y. acknowledges funding by the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation programme, grant agreement No. 852751. I.I., Z.H. and M.K acknowledge the European Commission for funding (MSCA-DN Track The Twin, grant agreement 101168820). Z.H. acknowledges funding from the FWO-Vlaanderen (research projects G0B2921N and G0C5723N) and Ghent University (BOF-GOA 01G02124). H.Z. acknowledges W. Liu for editing Figure 19 and the financial support from Beijing Natural Science Foundation (JQ24003)."},{"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Puixeu Sala G, Hayward L. 2025. The relationship between sexual dimorphism and intersex correlation: Do models support intuition? Genetics. 231(3), iyaf175.","ama":"Puixeu Sala G, Hayward L. The relationship between sexual dimorphism and intersex correlation: Do models support intuition? Genetics. 2025;231(3). doi:10.1093/genetics/iyaf175","chicago":"Puixeu Sala, Gemma, and Laura Hayward. “The Relationship between Sexual Dimorphism and Intersex Correlation: Do Models Support Intuition?” Genetics. Oxford University Press, 2025. https://doi.org/10.1093/genetics/iyaf175.","short":"G. Puixeu Sala, L. Hayward, Genetics 231 (2025).","mla":"Puixeu Sala, Gemma, and Laura Hayward. “The Relationship between Sexual Dimorphism and Intersex Correlation: Do Models Support Intuition?” Genetics, vol. 231, no. 3, iyaf175, Oxford University Press, 2025, doi:10.1093/genetics/iyaf175.","ieee":"G. Puixeu Sala and L. Hayward, “The relationship between sexual dimorphism and intersex correlation: Do models support intuition?,” Genetics, vol. 231, no. 3. Oxford University Press, 2025.","apa":"Puixeu Sala, G., & Hayward, L. (2025). The relationship between sexual dimorphism and intersex correlation: Do models support intuition? Genetics. Oxford University Press. https://doi.org/10.1093/genetics/iyaf175"},"file_date_updated":"2026-01-05T13:03:18Z","ec_funded":1,"day":"01","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"publication_status":"published","OA_type":"hybrid","_id":"20330","fulldoi":"https://doi.org/10.1093/genetics/iyaf175","title":"The relationship between sexual dimorphism and intersex correlation: Do models support intuition?","article_number":"iyaf175","article_type":"original","doi":"10.1093/genetics/iyaf175","language":[{"iso":"eng"}],"project":[{"name":"Sexual conflict: resolution, constraints and biomedical implications","_id":"9B9DFC9E-BA93-11EA-9121-9846C619BF3A","grant_number":"25817"},{"call_identifier":"H2020","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","name":"International IST Doctoral Program"},{"_id":"bd6958e0-d553-11ed-ba76-86eba6a76c00","grant_number":"101055327","name":"Understanding the evolution of continuous genomes"}],"oa":1,"external_id":{"isi":["001598595000001"]},"month":"11","issue":"3","status":"public","date_created":"2025-09-10T05:48:04Z","publication_identifier":{"issn":["1943-2631"]},"file":[{"content_type":"application/pdf","date_updated":"2026-01-05T13:03:18Z","relation":"main_file","file_name":"2025_Genetics_Puixeu.pdf","access_level":"open_access","date_created":"2026-01-05T13:03:18Z","file_id":"20946","file_size":1550562,"creator":"dernst","success":1,"checksum":"bbb73bbf8617812d4d8db4af92be9538"}],"PlanS_conform":"1","article_processing_charge":"Yes (via OA deal)","acknowledgement":"We thank Tim Connallon for useful discussions and correspondence, Himani Sachdeva and Nick Barton for comments on the manuscript and the Scientific Computing unit at ISTA for technical support. GP is the recipient of a DOC Fellowship of the Austrian Academy of Sciences at the Institute of Science and Technology Austria (DOC 25817) and received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Skłodowska-Curie Grant (agreement no. 665385). LH received funding from the European Research Council, under the HaplotypeStructure Grant (grant no. 101055327) to Nick Barton.","author":[{"full_name":"Puixeu Sala, Gemma","first_name":"Gemma","orcid":"0000-0001-8330-1754","last_name":"Puixeu Sala","id":"33AB266C-F248-11E8-B48F-1D18A9856A87"},{"id":"fc885ee5-24bf-11eb-ad7b-bcc5104c0c1b","last_name":"Hayward","first_name":"Laura","full_name":"Hayward, Laura"}],"date_updated":"2026-01-05T13:04:07Z","year":"2025","isi":1,"department":[{"_id":"BeVi"},{"_id":"NiBa"}],"volume":231,"type":"journal_article","scopus_import":"1","publisher":"Oxford University Press","intvolume":" 231","abstract":[{"text":"The evolution of sexual dimorphism (the difference in average trait values between females and males, SD), is often thought to be constrained by shared genetic architecture between the sexes. Indeed, it is commonly expected that SD should negatively correlate with the intersex correlation (the genetic correlation between effects of segregating variants in females and males, r fm), either because (1) traits with ancestrally low r fm are less constrained in their ability to respond to sex-specific selection and thus evolve to be more dimorphic, or because (2) sex-specific selection, driving sexual dimorphism evolution, also acts to reduce r fm. Despite the intuitive appeal and prominence of these ideas, their generality and the conditions in which they hold remain unclear. Here, we develop models incorporating sex-specific stabilizing selection, mutation and genetic drift to examine the relationship between r fm and SD. We show that the two commonly-discussed mechanisms with the potential to generate a negative correlation between SD and r fm could just as easily generate a positive association, since the standard line of reasoning hinges on a hidden assumption that sex-specific adaptation more frequently favors increased dimorphism than reduced dimorphism. Our results provide, to our knowledge, the first mechanistic framework for understanding the conditions under which a correlation between r fm and SD may arise and offer a compelling explanation for inconsistent empirical evidence. We also make the intriguing observation that—even when selection between the two sexes is identical—drift generates nonzero SD. We quantify this effect and discuss its significance.","lang":"eng"}],"has_accepted_license":"1","corr_author":"1","quality_controlled":"1","ddc":["570"],"publication":"Genetics","date_published":"2025-11-01T00:00:00Z","OA_place":"publisher"},{"article_number":"691","fulldoi":"https://doi.org/10.1038/s43247-025-02611-8","title":"Snowfall decrease in recent years undermines glacier health and meltwater resources in the Northwestern Pamirs","_id":"20348","publication_status":"published","pmid":1,"OA_type":"gold","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"day":"02","citation":{"short":"A. Jouberton, T. Shaw, E. Miles, M. Kneib, S. Fugger, P. Buri, M. McCarthy, A. Kayumov, H. Navruzshoev, A. Halimov, K. Kabutov, F. Homidov, F. Pellicciotti, Communications Earth and Environment 6 (2025).","mla":"Jouberton, Achille, et al. “Snowfall Decrease in Recent Years Undermines Glacier Health and Meltwater Resources in the Northwestern Pamirs.” Communications Earth and Environment, vol. 6, 691, Springer Nature, 2025, doi:10.1038/s43247-025-02611-8.","apa":"Jouberton, A., Shaw, T., Miles, E., Kneib, M., Fugger, S., Buri, P., … Pellicciotti, F. (2025). Snowfall decrease in recent years undermines glacier health and meltwater resources in the Northwestern Pamirs. Communications Earth and Environment. Springer Nature. https://doi.org/10.1038/s43247-025-02611-8","ieee":"A. Jouberton et al., “Snowfall decrease in recent years undermines glacier health and meltwater resources in the Northwestern Pamirs,” Communications Earth and Environment, vol. 6. Springer Nature, 2025.","chicago":"Jouberton, Achille, Thomas Shaw, Evan Miles, Marin Kneib, Stefan Fugger, Pascal Buri, Michael McCarthy, et al. “Snowfall Decrease in Recent Years Undermines Glacier Health and Meltwater Resources in the Northwestern Pamirs.” Communications Earth and Environment. Springer Nature, 2025. https://doi.org/10.1038/s43247-025-02611-8.","ama":"Jouberton A, Shaw T, Miles E, et al. Snowfall decrease in recent years undermines glacier health and meltwater resources in the Northwestern Pamirs. Communications Earth and Environment. 2025;6. doi:10.1038/s43247-025-02611-8","ista":"Jouberton A, Shaw T, Miles E, Kneib M, Fugger S, Buri P, McCarthy M, Kayumov A, Navruzshoev H, Halimov A, Kabutov K, Homidov F, Pellicciotti F. 2025. Snowfall decrease in recent years undermines glacier health and meltwater resources in the Northwestern Pamirs. Communications Earth and Environment. 6, 691."},"file_date_updated":"2025-09-15T08:16:09Z","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","file":[{"file_id":"20356","file_size":3840094,"creator":"dernst","success":1,"checksum":"62f9740c6cf564879006f4d97b58b608","content_type":"application/pdf","date_updated":"2025-09-15T08:16:09Z","relation":"main_file","file_name":"2025_CommEarthEnvir_Jouberton.pdf","access_level":"open_access","date_created":"2025-09-15T08:16:09Z"}],"date_created":"2025-09-14T22:01:31Z","publication_identifier":{"eissn":["2662-4435"]},"status":"public","month":"09","external_id":{"pmid":["40910036"],"isi":["001563848700001"]},"oa":1,"article_type":"original","language":[{"iso":"eng"}],"doi":"10.1038/s43247-025-02611-8","type":"journal_article","scopus_import":"1","department":[{"_id":"FrPe"}],"volume":6,"related_material":{"link":[{"url":"https://ista.ac.at/en/news/the-tipping-of-the-last-resilient-glaciers/","relation":"press_release","description":"News on ISTA website"}]},"isi":1,"year":"2025","date_updated":"2026-04-28T13:25:55Z","author":[{"full_name":"Jouberton, Achille","first_name":"Achille","last_name":"Jouberton","id":"f2426a39-920b-11f0-ac40-cbeda2086b9c"},{"first_name":"Thomas","full_name":"Shaw, Thomas","id":"3caa3f91-1f03-11ee-96ce-e0e553054d6e","last_name":"Shaw","orcid":"0000-0001-7640-6152"},{"last_name":"Miles","full_name":"Miles, Evan","first_name":"Evan"},{"last_name":"Kneib","full_name":"Kneib, Marin","first_name":"Marin"},{"full_name":"Fugger, Stefan","first_name":"Stefan","last_name":"Fugger","id":"86698d64-c4c6-11ee-af02-cdf1e6a7d31f"},{"last_name":"Buri","id":"317987aa-9421-11ee-ac5a-b941b041abba","first_name":"Pascal","full_name":"Buri, Pascal"},{"last_name":"Mccarthy","id":"22a2674a-61ce-11ee-94b5-d18813baf16f","full_name":"Mccarthy, Michael","first_name":"Michael"},{"last_name":"Kayumov","first_name":"Abdulhamid","full_name":"Kayumov, Abdulhamid"},{"last_name":"Navruzshoev","full_name":"Navruzshoev, Hofiz","first_name":"Hofiz"},{"first_name":"Ardamehr","full_name":"Halimov, Ardamehr","last_name":"Halimov"},{"last_name":"Kabutov","first_name":"Khusrav","full_name":"Kabutov, Khusrav"},{"last_name":"Homidov","full_name":"Homidov, Farrukh","first_name":"Farrukh"},{"id":"b28f055a-81ea-11ed-b70c-a9fe7f7b0e70","orcid":"0000-0002-5554-8087","last_name":"Pellicciotti","full_name":"Pellicciotti, Francesca","first_name":"Francesca"}],"acknowledgement":"This work was made possible with funding from the Swiss National Science Foundation (ASCENT Project 189890, Understanding snow, glacier and rivers response to climate in High Mountain Asia). It was also supported by the ERC Consolidator RAVEN project No. 772751, Rapid mass losses of debris-covered glaciers in High Mountain Asia. Fieldwork funding support for the repeated visits to Tajikistan was also received from the Swiss Polar Institute Flagship Programme PAMIR (SPI-FLAG-2021-001) and the Swiss National Science Foundation (HOPE Project 183633, High-elevation precipitation in High Mountain Asia). We would like to thank Firdavs Vosidov, Ubaydullo Ubaydulloev, Tojiddin Rasulzoda and Iskandarov Handullo from the Center for the Research of Glaciers, Tajik National Academy of Sciences (CRG-TAS), for their invaluable support over multiple field campaigns at the study site. We thank Nazrialo Sheralizoda, current director of CRG-TAS, and Tomas Saks from the University of Fribourg for their support in enabling and coordinating the ongoing collaborative monitoring and measurements at the site. Marin Kneib acknowledges the funding from the Swiss National Science Foundation (SNSF) under the Contribution of avalanches to glacier mass balance (CAIRN) Postdoc Mobility program (grant agreement P500PN_210739). We extend our thanks to Hamish Pritchard and Federico Covi at BAS for their help with the processing of lake water pressure data. Finally, we thank the photographer Jason Klimatsas for the photos he took which we use in Fig. 1b and Supplementary Fig. S1. Pleiades stereo imagery was acquired through the CNES ISIS programme.","article_processing_charge":"Yes","PlanS_conform":"1","date_published":"2025-09-02T00:00:00Z","OA_place":"publisher","publication":"Communications Earth and Environment","ddc":["550"],"quality_controlled":"1","corr_author":"1","has_accepted_license":"1","DOAJ_listed":"1","abstract":[{"text":"Central Asia hosts some of the world’s last relatively healthy mountain glaciers and is heavily dependent on snow and ice melt for downstream water supply, though the causes of this stable glacier state are not known. We combine recent in-situ observations, climate reanalysis and remote sensing data to force a land-surface model to reconstruct glacier changes over the last two decades (1999–2023) and disentangle their causes over a benchmark glacierized catchment in Tajikistan. We show that snowfall and snow depth have been substantially lower since 2018, leading to a decline in glacier health and reduced runoff generation. Remote-sensing observations confirm wider snow depletion across the Northwestern Pamirs, suggesting that a lack of snowfall might be a cause of mass losses regionally. Our results provide an explanation for the recent decline in glacier health in the region, and reinforce the need to better understand the variability of precipitation.","lang":"eng"}],"intvolume":" 6","publisher":"Springer Nature"},{"intvolume":" 175","publisher":"Elsevier","abstract":[{"text":"Oogenesis – the formation and development of an oocyte – is fundamental to reproduction and embryonic development. Due to its accessibility to genetic manipulations and the ability to culture and experimentally manipulate oocytes ex vivo, zebrafish has emerged as a powerful vertebrate model system for studying oogenesis. In this review, we provide a comprehensive overview of zebrafish oogenesis, from early germ cell formation to oocyte maturation and fertilization. We discuss recent advances in uncovering the molecular and cellular mechanisms driving this complex process and highlight key knowledge gaps that remain to be addressed.","lang":"eng"}],"ddc":["570"],"quality_controlled":"1","corr_author":"1","has_accepted_license":"1","OA_place":"publisher","date_published":"2025-12-01T00:00:00Z","publication":"Seminars in Cell and Developmental Biology","article_processing_charge":"Yes (via OA deal)","acknowledgement":"We thank Carolina Camelo for making schematics for this review.","PlanS_conform":"1","isi":1,"year":"2025","author":[{"first_name":"Laura","full_name":"Hofmann, Laura","last_name":"Hofmann","id":"b88d43f2-dc74-11ea-a0a7-e41b7912e031"},{"id":"39427864-F248-11E8-B48F-1D18A9856A87","last_name":"Heisenberg","orcid":"0000-0002-0912-4566","first_name":"Carl-Philipp J","full_name":"Heisenberg, Carl-Philipp J"}],"date_updated":"2025-12-30T10:21:13Z","scopus_import":"1","type":"journal_article","department":[{"_id":"CaHe"}],"volume":175,"language":[{"iso":"eng"}],"article_type":"review","doi":"10.1016/j.semcdb.2025.103650","external_id":{"pmid":["40913907"],"isi":["001567260100001"]},"oa":1,"month":"12","file":[{"success":1,"creator":"dernst","file_size":2778561,"file_id":"20914","checksum":"80ea6cbb004853bb1e87db3422a74aca","date_updated":"2025-12-30T10:21:00Z","relation":"main_file","content_type":"application/pdf","date_created":"2025-12-30T10:21:00Z","access_level":"open_access","file_name":"2025_SemCellDevBiology_Hofmann.pdf"}],"publication_identifier":{"issn":["1084-9521"],"eissn":["1096-3634"]},"date_created":"2025-09-14T22:01:32Z","status":"public","citation":{"mla":"Hofmann, Laura, and Carl-Philipp J. Heisenberg. “Decoding Zebrafish Oogenesis: From Primordial Germ Cell Development to Fertilization.” Seminars in Cell and Developmental Biology, vol. 175, 103650, Elsevier, 2025, doi:10.1016/j.semcdb.2025.103650.","short":"L. Hofmann, C.-P.J. Heisenberg, Seminars in Cell and Developmental Biology 175 (2025).","ieee":"L. Hofmann and C.-P. J. Heisenberg, “Decoding zebrafish oogenesis: From primordial germ cell development to fertilization,” Seminars in Cell and Developmental Biology, vol. 175. Elsevier, 2025.","apa":"Hofmann, L., & Heisenberg, C.-P. J. (2025). Decoding zebrafish oogenesis: From primordial germ cell development to fertilization. Seminars in Cell and Developmental Biology. Elsevier. https://doi.org/10.1016/j.semcdb.2025.103650","ista":"Hofmann L, Heisenberg C-PJ. 2025. Decoding zebrafish oogenesis: From primordial germ cell development to fertilization. Seminars in Cell and Developmental Biology. 175, 103650.","chicago":"Hofmann, Laura, and Carl-Philipp J Heisenberg. “Decoding Zebrafish Oogenesis: From Primordial Germ Cell Development to Fertilization.” Seminars in Cell and Developmental Biology. Elsevier, 2025. https://doi.org/10.1016/j.semcdb.2025.103650.","ama":"Hofmann L, Heisenberg C-PJ. Decoding zebrafish oogenesis: From primordial germ cell development to fertilization. Seminars in Cell and Developmental Biology. 2025;175. doi:10.1016/j.semcdb.2025.103650"},"file_date_updated":"2025-12-30T10:21:00Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"01","pmid":1,"OA_type":"hybrid","publication_status":"published","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","fulldoi":"https://doi.org/10.1016/j.semcdb.2025.103650","title":"Decoding zebrafish oogenesis: From primordial germ cell development to fertilization","article_number":"103650","_id":"20349"},{"acknowledgement":"The authors appreciated the critical comments from the\r\nreferee, which encouraged V.V. to embark upon a new code development\r\nsprint. V.V. gratefully acknowledges support from the Research Foundation\r\nFlanders (FWO) under grant agreement N◦1156923N (PhD Fellowship) and\r\nN\r\n◦K233724N (Travel grant). D.M.B. gratefully acknowledges support from\r\nthe Research Foundation Flanders (FWO; grant number: 1286521N), and UK\r\nResearch and Innovation (UKRI) in the form of a Frontier Research grant under\r\nthe UK government’s ERC Horizon Europe funding guarantee (SYMPHONY;\r\ngrant number: EP/Y031059/1), and a Royal Society University Research Fellowship (URF; grant number: URF\\R1\\231631). S.B.D. acknowledges funding from\r\nthe European Union’s Horizon 2020 research and innovation programme under\r\nthe Marie Skłodowska-Curie grant agreement No 101034413. L.B. gratefully\r\nacknowledges support from the European Research Council (ERC) under the\r\nHorizon Europe programme (Calcifer; Starting Grant agreement N◦101165631).\r\nS.M. acknowledges support from the PLATO CNES grant at CEA/DAp.C.A.\r\nacknowledges financial support from the Research Foundation Flanders (FWO)\r\nunder grant K802922N (Sabbatical leave); she is grateful for the kind hospitality\r\noffered by CEA/Saclay during her sabbatical work visits in the spring of 2023.\r\nThe research leading to these results has received funding from the European\r\nResearch Council (ERC) under the Horizon Europe programme (Synergy Grant\r\nagreement N◦101071505: 4D-STAR). While funded by the European Union,\r\nviews and opinions expressed are however those of the author(s) only and do\r\nnot necessarily reflect those of the European Union or the European Research\r\nCouncil. Neither the European Union nor the granting authority can be held\r\nresponsible for them. The TESS data presented in this paper were obtained from\r\nthe Mikulski Archive for Space Telescopes (MAST) at the Space Telescope Science Institute (STScI), which is operated by the Association of Universities for\r\nResearch in Astronomy, Inc., under NASA contract NAS5-26555. Support to\r\nMAST for these data is provided by the NASA Office of Space Science via grant\r\nNAG5-7584 and by other grants and contracts. Funding for the TESS mission\r\nwas provided by the NASA Explorer Program.","article_processing_charge":"No","arxiv":1,"PlanS_conform":"1","isi":1,"year":"2025","author":[{"last_name":"Vanlaer","full_name":"Vanlaer, V.","first_name":"V."},{"last_name":"Bowman","full_name":"Bowman, D. M.","first_name":"D. M."},{"first_name":"S.","full_name":"Burssens, S.","last_name":"Burssens"},{"last_name":"Das","orcid":"0000-0003-0896-7972","id":"9ce7c423-dacf-11ed-8942-e09c6cb27149","full_name":"Das, Srijan B","first_name":"Srijan B"},{"first_name":"Lisa Annabelle","full_name":"Bugnet, Lisa Annabelle","id":"d9edb345-f866-11ec-9b37-d119b5234501","orcid":"0000-0003-0142-4000","last_name":"Bugnet"},{"last_name":"Mathis","first_name":"S.","full_name":"Mathis, S."},{"first_name":"C.","full_name":"Aerts, C.","last_name":"Aerts"}],"date_updated":"2026-02-16T12:12:53Z","type":"journal_article","scopus_import":"1","department":[{"_id":"LiBu"}],"volume":701,"intvolume":" 701","publisher":"EDP Sciences","abstract":[{"lang":"eng","text":"Context. Rotation plays an important role in stellar evolution. However, the mechanisms behind the transport of angular momentum in stars at various stages of their evolution are not well understood. To improve our understanding of these processes, it is necessary to measure and validate the internal rotation profiles of stars across different stages of evolution and mass regimes.\r\nAims. Our aim is to constrain the internal rotation profile of the 12-M⊙ β Cep pulsator HD 192575 from the observed pulsational multiplets and the asymmetries of their component frequencies.\r\nMethods. We updated the forward asteroseismic modelling of HD 192575 based on new TESS observations. We inverted the rotation profile from the symmetric part of the splittings and computed the multiplet asymmetries due to the Coriolis force and stellar deformation, which we treated perturbatively. We compared the computed asymmetries with the observed asymmetries.\r\nResults. Our new forward asteroseismic modelling is in agreement with previous results but with increased uncertainties, partially due to increased frequency precision, which required us to relax certain constraints. Ambiguity in the mode identification is the main source of the uncertainty, which also affects the inferred rotation profiles. Almost all acceptable rotation profiles occur in the regime below 0.4 d−1 and favour weak radial differential rotation, with a ratio of core to envelope rotation of less than 2. We find that the quality of the match between the observed and theoretically predicted mode asymmetries is strongly dependent on the mode identification and the internal structure of the star.\r\nConclusions. Our results offer the first detailed rotation inversion for a β Cep pulsator. They show that the rotation profile and the mode asymmetries provide a valuable tool for further constraining the evolutionary properties of HD 192575, and in particular the details of angular momentum transport in massive stars."}],"ddc":["520"],"quality_controlled":"1","has_accepted_license":"1","OA_place":"publisher","date_published":"2025-09-01T00:00:00Z","publication":"Astronomy & Astrophysics","citation":{"chicago":"Vanlaer, V., D. M. Bowman, S. Burssens, Srijan B Das, Lisa Annabelle Bugnet, S. Mathis, and C. Aerts. “Interior Rotation Modelling of the β Cep Pulsator HD 192575 Including Multiplet Asymmetries.” Astronomy & Astrophysics. EDP Sciences, 2025. https://doi.org/10.1051/0004-6361/202452885.","ama":"Vanlaer V, Bowman DM, Burssens S, et al. Interior rotation modelling of the β Cep pulsator HD 192575 including multiplet asymmetries. Astronomy & Astrophysics. 2025;701. doi:10.1051/0004-6361/202452885","ista":"Vanlaer V, Bowman DM, Burssens S, Das SB, Bugnet LA, Mathis S, Aerts C. 2025. Interior rotation modelling of the β Cep pulsator HD 192575 including multiplet asymmetries. Astronomy & Astrophysics. 701, A5.","apa":"Vanlaer, V., Bowman, D. M., Burssens, S., Das, S. B., Bugnet, L. A., Mathis, S., & Aerts, C. (2025). Interior rotation modelling of the β Cep pulsator HD 192575 including multiplet asymmetries. Astronomy & Astrophysics. EDP Sciences. https://doi.org/10.1051/0004-6361/202452885","ieee":"V. Vanlaer et al., “Interior rotation modelling of the β Cep pulsator HD 192575 including multiplet asymmetries,” Astronomy & Astrophysics, vol. 701. EDP Sciences, 2025.","mla":"Vanlaer, V., et al. “Interior Rotation Modelling of the β Cep Pulsator HD 192575 Including Multiplet Asymmetries.” Astronomy & Astrophysics, vol. 701, A5, EDP Sciences, 2025, doi:10.1051/0004-6361/202452885.","short":"V. Vanlaer, D.M. Bowman, S. Burssens, S.B. Das, L.A. Bugnet, S. Mathis, C. Aerts, Astronomy & Astrophysics 701 (2025)."},"ec_funded":1,"file_date_updated":"2025-09-15T06:58:09Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","day":"01","OA_type":"diamond","publication_status":"published","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","title":"Interior rotation modelling of the β Cep pulsator HD 192575 including multiplet asymmetries","fulldoi":"https://doi.org/10.1051/0004-6361/202452885","article_number":"A5","_id":"20350","article_type":"original","doi":"10.1051/0004-6361/202452885","language":[{"iso":"eng"}],"external_id":{"isi":["001561561200007"],"arxiv":["2506.19948"]},"oa":1,"project":[{"name":"IST-BRIDGE: International postdoctoral program","grant_number":"101034413","call_identifier":"H2020","_id":"fc2ed2f7-9c52-11eb-aca3-c01059dda49c"},{"name":"Unveiling the mysteries of stellar dynamics: a pioneering journey in magnetoasteroseismology","_id":"914d8549-16d5-11f0-9cad-bbe6324c93a9","grant_number":"101165631"}],"month":"09","file":[{"date_created":"2025-09-15T06:58:09Z","file_name":"2025_AstronomyAstrophysics_Vanlaer.pdf","access_level":"open_access","date_updated":"2025-09-15T06:58:09Z","relation":"main_file","content_type":"application/pdf","checksum":"9ee9f34cf86305602d6cb3e07a1cc1a6","file_size":3175077,"success":1,"creator":"dernst","file_id":"20354"}],"date_created":"2025-09-14T22:01:32Z","publication_identifier":{"issn":["0004-6361"],"eissn":["1432-0746"]},"status":"public"},{"title":"Mechanistic adaptation of the metazoan RabGEFs Mon1-Ccz1 and Fuzzy-Inturned","fulldoi":"https://doi.org/10.1126/sciadv.adx2893","_id":"20351","publication_status":"published","OA_type":"gold","pmid":1,"oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"day":"29","file_date_updated":"2025-09-15T07:23:12Z","citation":{"ista":"Wilmes S, Tönjes J, Drechsler M, Ruf A, Schäfer JH, Lürick A, Januliene D, Apelt S, Di Iorio D, Wegner SV, Loose M, Moeller A, Paululat A, Kümmel D. 2025. Mechanistic adaptation of the metazoan RabGEFs Mon1-Ccz1 and Fuzzy-Inturned. Science Advances. 11(35), eadx2893.","chicago":"Wilmes, Stephan, Jesse Tönjes, Maik Drechsler, Anita Ruf, Jan Hannes Schäfer, Anna Lürick, Dovile Januliene, et al. “Mechanistic Adaptation of the Metazoan RabGEFs Mon1-Ccz1 and Fuzzy-Inturned.” Science Advances. AAAS, 2025. https://doi.org/10.1126/sciadv.adx2893.","ama":"Wilmes S, Tönjes J, Drechsler M, et al. Mechanistic adaptation of the metazoan RabGEFs Mon1-Ccz1 and Fuzzy-Inturned. Science Advances. 2025;11(35):eadx2893. doi:10.1126/sciadv.adx2893","short":"S. Wilmes, J. Tönjes, M. Drechsler, A. Ruf, J.H. Schäfer, A. Lürick, D. Januliene, S. Apelt, D. Di Iorio, S.V. Wegner, M. Loose, A. Moeller, A. Paululat, D. Kümmel, Science Advances 11 (2025) eadx2893.","mla":"Wilmes, Stephan, et al. “Mechanistic Adaptation of the Metazoan RabGEFs Mon1-Ccz1 and Fuzzy-Inturned.” Science Advances, vol. 11, no. 35, AAAS, 2025, p. eadx2893, doi:10.1126/sciadv.adx2893.","ieee":"S. Wilmes et al., “Mechanistic adaptation of the metazoan RabGEFs Mon1-Ccz1 and Fuzzy-Inturned,” Science Advances, vol. 11, no. 35. AAAS, p. eadx2893, 2025.","apa":"Wilmes, S., Tönjes, J., Drechsler, M., Ruf, A., Schäfer, J. H., Lürick, A., … Kümmel, D. (2025). Mechanistic adaptation of the metazoan RabGEFs Mon1-Ccz1 and Fuzzy-Inturned. Science Advances. AAAS. https://doi.org/10.1126/sciadv.adx2893"},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","file":[{"checksum":"a3de801f3c6c1deadd7099d965db799a","file_id":"20355","success":1,"creator":"dernst","file_size":3434827,"access_level":"open_access","file_name":"2025_ScienceAdvance_Wilmes.pdf","date_created":"2025-09-15T07:23:12Z","content_type":"application/pdf","date_updated":"2025-09-15T07:23:12Z","relation":"main_file"}],"date_created":"2025-09-14T22:01:32Z","publication_identifier":{"eissn":["2375-2548"]},"status":"public","issue":"35","month":"08","external_id":{"isi":["001559806100033"],"pmid":["40864718"]},"page":"eadx2893","oa":1,"project":[{"grant_number":"101045340","_id":"bd6ae2ca-d553-11ed-ba76-a4aa239da5ee","name":"Synthetic and structural biology of Rab GTPase networks"}],"language":[{"iso":"eng"}],"article_type":"original","doi":"10.1126/sciadv.adx2893","type":"journal_article","scopus_import":"1","volume":11,"department":[{"_id":"MaLo"}],"isi":1,"year":"2025","author":[{"last_name":"Wilmes","full_name":"Wilmes, Stephan","first_name":"Stephan"},{"last_name":"Tönjes","first_name":"Jesse","full_name":"Tönjes, Jesse"},{"last_name":"Drechsler","first_name":"Maik","full_name":"Drechsler, Maik"},{"first_name":"Anita","full_name":"Ruf, Anita","last_name":"Ruf"},{"first_name":"Jan Hannes","full_name":"Schäfer, Jan Hannes","last_name":"Schäfer"},{"last_name":"Lürick","first_name":"Anna","full_name":"Lürick, Anna"},{"last_name":"Januliene","full_name":"Januliene, Dovile","first_name":"Dovile"},{"first_name":"Steven","full_name":"Apelt, Steven","last_name":"Apelt"},{"last_name":"Di Iorio","first_name":"Daniele","full_name":"Di Iorio, Daniele"},{"last_name":"Wegner","full_name":"Wegner, Seraphine V.","first_name":"Seraphine V."},{"last_name":"Loose","orcid":"0000-0001-7309-9724","id":"462D4284-F248-11E8-B48F-1D18A9856A87","first_name":"Martin","full_name":"Loose, Martin"},{"last_name":"Moeller","first_name":"Arne","full_name":"Moeller, Arne"},{"first_name":"Achim","full_name":"Paululat, Achim","last_name":"Paululat"},{"full_name":"Kümmel, Daniel","first_name":"Daniel","last_name":"Kümmel"}],"date_updated":"2025-09-30T14:40:27Z","article_processing_charge":"Yes","acknowledgement":"We thank A.-M. Lawrence-Dörner and B. Berkenfeld for technical assistance and the members of the Kümmel Lab for constructive feedback. We are grateful to C. Ungermann and L. Langemeyer for insightful discussions and to F. Barr for providing plasmids encoding Fuzzy, Inturned, Rab23, and Rsg1. The template clone Flag-ciBAR1 was a gift from K.-I. Takemaru (Addgene, plasmid #200440). We thank the Bloomington Drosophila Stock center (BDSC) and DSHB for providing fly stocks and antibodies. This work was supported by the German Research Foundation (DFG) through the grants SFB1557-P10 (D.K.), SFB1557-P11 (A.M.), and SFB1577-P6, PA517/12-2, PA517/14-1, PA517/15-1, and PA517/16-1 (A.P.). Cryo-EM data were collected at the infrastructure of the University of Osnabrück, funded by the DFG (project number 455249646). J.-H.S. was supported by the Friedrich-Ebert Foundation. M.L. acknowledges funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement number 101045340).","PlanS_conform":"1","OA_place":"publisher","date_published":"2025-08-29T00:00:00Z","publication":"Science Advances","ddc":["570"],"quality_controlled":"1","has_accepted_license":"1","DOAJ_listed":"1","abstract":[{"lang":"eng","text":"Rab GTPases organize intracellular trafficking and provide identity to organelles. Their spatiotemporal activation by guanine nucleotide exchange factors (GEFs) is tightly controlled to ensure fidelity. Our structural and functional comparison of the tri-longin domain RabGEFs Mon1-Ccz1 and Fuzzy-Inturned reveals the molecular basis for their target specificity. Both complexes rely on a conserved sequence motif of their substrate GTPases for the catalytic mechanism, while secondary interactions allow discrimination between targets. We also find that dimeric Mon1-Ccz1 from fungi and the metazoan homologs with the additional third subunit RMC1/Bulli bind membranes through electrostatic interactions via distinct interfaces. Protein-lipid interaction studies and functional characterization in flies reveal an essential function of RMC1/Bulli as mediator of GEF complex membrane recruitment. In the case of Fuzzy-Inturned, reconstitution experiments demonstrate that the BAR (Bin-Amphiphysin-Rvs) domain protein CiBAR1 can support membrane recruitment of the GEF. Collectively, our study demonstrates the molecular basis for the adaptation of TLD-RabGEFs to different cellular functions."}],"intvolume":" 11","publisher":"AAAS"},{"oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"OA_type":"hybrid","publication_status":"published","title":"Nucleosomes specify co-factor access to p53","fulldoi":"https://doi.org/10.1016/j.molcel.2025.06.027","_id":"20374","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"ista":"Chakraborty D, Sandate CR, Isbel L, Kempf G, Weiss J, Cavadini S, Kater L, Seebacher J, Kozicka Z, Stoos L, Grand RS, Schübeler D, Michael AK, Thomä NH. 2025. Nucleosomes specify co-factor access to p53. Molecular Cell. 85(15), 2919–2936.e12.","ama":"Chakraborty D, Sandate CR, Isbel L, et al. Nucleosomes specify co-factor access to p53. Molecular Cell. 2025;85(15):2919-2936.e12. doi:10.1016/j.molcel.2025.06.027","chicago":"Chakraborty, Deyasini, Colby R. Sandate, Luke Isbel, Georg Kempf, Joscha Weiss, Simone Cavadini, Lukas Kater, et al. “Nucleosomes Specify Co-Factor Access to P53.” Molecular Cell. Elsevier, 2025. https://doi.org/10.1016/j.molcel.2025.06.027.","ieee":"D. Chakraborty et al., “Nucleosomes specify co-factor access to p53,” Molecular Cell, vol. 85, no. 15. Elsevier, p. 2919–2936.e12, 2025.","apa":"Chakraborty, D., Sandate, C. R., Isbel, L., Kempf, G., Weiss, J., Cavadini, S., … Thomä, N. H. (2025). Nucleosomes specify co-factor access to p53. Molecular Cell. Elsevier. https://doi.org/10.1016/j.molcel.2025.06.027","short":"D. Chakraborty, C.R. Sandate, L. Isbel, G. Kempf, J. Weiss, S. Cavadini, L. Kater, J. Seebacher, Z. Kozicka, L. Stoos, R.S. Grand, D. Schübeler, A.K. Michael, N.H. Thomä, Molecular Cell 85 (2025) 2919–2936.e12.","mla":"Chakraborty, Deyasini, et al. “Nucleosomes Specify Co-Factor Access to P53.” Molecular Cell, vol. 85, no. 15, Elsevier, 2025, p. 2919–2936.e12, doi:10.1016/j.molcel.2025.06.027."},"file_date_updated":"2025-09-24T07:54:03Z","day":"07","month":"08","issue":"15","date_created":"2025-09-23T08:56:13Z","publication_identifier":{"issn":["1097-2765"]},"status":"public","file":[{"date_created":"2025-09-24T07:54:03Z","access_level":"open_access","file_name":"2025_MolecularCell_Chakraborty.pdf","date_updated":"2025-09-24T07:54:03Z","relation":"main_file","content_type":"application/pdf","checksum":"e60390ca629b350af3221d4718ca6534","file_size":41813494,"success":1,"creator":"dernst","file_id":"20386"}],"language":[{"iso":"eng"}],"doi":"10.1016/j.molcel.2025.06.027","article_type":"original","page":"2919-2936.e12","oa":1,"year":"2025","author":[{"last_name":"Chakraborty","full_name":"Chakraborty, Deyasini","first_name":"Deyasini"},{"last_name":"Sandate","first_name":"Colby R.","full_name":"Sandate, Colby R."},{"full_name":"Isbel, Luke","first_name":"Luke","last_name":"Isbel"},{"last_name":"Kempf","full_name":"Kempf, Georg","first_name":"Georg"},{"last_name":"Weiss","first_name":"Joscha","full_name":"Weiss, Joscha"},{"first_name":"Simone","full_name":"Cavadini, Simone","last_name":"Cavadini"},{"last_name":"Kater","full_name":"Kater, Lukas","first_name":"Lukas"},{"full_name":"Seebacher, Jan","first_name":"Jan","last_name":"Seebacher"},{"last_name":"Kozicka","first_name":"Zuzanna","full_name":"Kozicka, Zuzanna"},{"full_name":"Stoos, Lisa","first_name":"Lisa","last_name":"Stoos"},{"last_name":"Grand","full_name":"Grand, Ralph S.","first_name":"Ralph S."},{"last_name":"Schübeler","full_name":"Schübeler, Dirk","first_name":"Dirk"},{"id":"6437c950-2a03-11ee-914d-d6476dd7b75c","last_name":"Michael","orcid":"0000-0002-6080-839X","full_name":"Michael, Alicia","first_name":"Alicia"},{"full_name":"Thomä, Nicolas H.","first_name":"Nicolas H.","last_name":"Thomä"}],"date_updated":"2025-09-24T08:21:55Z","department":[{"_id":"AlMi"}],"volume":85,"scopus_import":"1","type":"journal_article","PlanS_conform":"1","article_processing_charge":"Yes (in subscription journal)","acknowledgement":"We thank M. Schütz for laboratory management, organization, and assistance with manuscript editing. We are grateful to all Thomä and Schübeler lab members. We thank Ulrich Hassiepen from Novartis for his support and insightful discussions on the kinetic analysis. This work was supported by funding from the European Research Council (ERC), under the European Union’s H2020 research program (NucEM, grant no. 884331); the Swiss National Science Foundation (SNF, grant no. 310030_301206 and 310030_214852); Krebsforschung (KFS, grant no. KFS-5933-08-2023); Novartis Research Foundation (to N.H.T.); the Novartis Freenovation (grant no. FN23-0000000514 to C.R.S.); the National Health and Medical Research Council CJ Martin Fellowship (APP1148380); the EU Horizon 2020 Research and Innovation Program under the Marie Sklodowska-Curie grant (grant no. 748760); the South Australian immunoGENomics Cancer Institute grant funding from the Australian Government; and the Sylvia and Charles Viertel Charitable Foundation Senior Medical Research Fellowship (to L.I.).","has_accepted_license":"1","ddc":["570"],"quality_controlled":"1","date_published":"2025-08-07T00:00:00Z","OA_place":"publisher","publication":"Molecular Cell","publisher":"Elsevier","intvolume":" 85","abstract":[{"text":"Pioneer transcription factors (TFs) engage chromatinized DNA motifs. However, it is unclear how the resultant TF-nucleosome complexes are decoded by co-factors. In humans, the TF p53 regulates cell-cycle progression, apoptosis, and the DNA damage response, with a large fraction of p53-bound sites residing in nucleosome-harboring inaccessible chromatin. We examined the interaction of chromatin-bound p53 with co-factors belonging to the ubiquitin proteasome system (UPS). At two distinct motif locations on the nucleosome (super-helical location [SHL]−5.7 and SHL+5.9), the E3 ubiquitin ligase E6-E6AP was unable to bind nucleosome-engaged p53. The deubiquitinase USP7, on the other hand, readily engages nucleosome-bound p53 in vitro and in cells. A corresponding cryo-electron microscopy (cryo-EM) structure shows USP7 engaged with p53 and nucleosomes. Our work illustrates how chromatin imposes a co-factor-selective barrier for p53 interactors, whereby flexibly tethered interaction domains of co-factors and TFs govern compatibility between co-factors, TFs, and chromatin.","lang":"eng"}]},{"year":"2025","date_updated":"2026-05-20T07:56:59Z","author":[{"id":"3C5A959A-F248-11E8-B48F-1D18A9856A87","last_name":"Vasudevan","first_name":"Mukund","full_name":"Vasudevan, Mukund"},{"id":"3D85B7C4-F248-11E8-B48F-1D18A9856A87","last_name":"Paranjape","full_name":"Paranjape, Chaitanya S","first_name":"Chaitanya S"},{"last_name":"Sitte","id":"0ba0f1f2-9cfe-11f0-bee6-f95318d225b0","first_name":"Michael Philip","full_name":"Sitte, Michael Philip"},{"first_name":"Gökhan","full_name":"Yalniz, Gökhan","orcid":"0000-0002-8490-9312","last_name":"Yalniz","id":"66E74FA2-D8BF-11E9-8249-8DE2E5697425"},{"first_name":"Björn","full_name":"Hof, Björn","id":"3A374330-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-2057-2754","last_name":"Hof"}],"isi":1,"volume":16,"department":[{"_id":"BjHo"}],"scopus_import":"1","type":"journal_article","PlanS_conform":"1","acknowledgement":"This work was supported by a grant from the Simons Foundation (662960, BH). We thank Yohann Duguet for helpful discussions, Baofang Song for the initial adaptation of openpipeflow57 to the channel geometry, and Ashley P. Willis for openpipeflow57.","article_processing_charge":"Yes","arxiv":1,"corr_author":"1","has_accepted_license":"1","ddc":["532"],"quality_controlled":"1","OA_place":"publisher","date_published":"2025-09-26T00:00:00Z","publication":"Nature Communications","publisher":"Springer Nature","intvolume":" 16","DOAJ_listed":"1","abstract":[{"text":"The recent classification of the onset of turbulence as a directed percolation (DP) phase transition has been applied to all major shear flows including pipe, channel, Couette and boundary layer flows. A cornerstone of the DP analogy is the memoryless (Poisson) property of turbulent sites. We here show that, for the classic case of channel flow, neither the decay nor the proliferation of turbulent stripes is memoryless. As demonstrated by a standard analysis of the respective survival curves, isolated channel stripes, in the immediate vicinity of the critical point, age. Consequently, the one to one mapping between turbulent stripes and active DP-sites is not fulfilled in this low Reynolds number regime. In addition, the interpretation of turbulence as a chaotic saddle with supertransient properties, the basis of recent theoretical progress, does not apply to individual localized stripes. The discrepancy between channel flow and the transition models established for pipe and Couette flow, illustrates that seemingly minor geometrical differences between flows can give rise to instabilities and growth mechanisms that fundamentally alter the nature of the transition to turbulence.","lang":"eng"}],"tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"oa_version":"Published Version","APC_amount":"7068 EUR","OA_type":"gold","publication_status":"published","article_number":"8447","fulldoi":"https://doi.org/10.1038/s41467-025-63044-7","title":"Aging and memory of transitional turbulence","_id":"20402","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"mla":"Vasudevan, Mukund, et al. “Aging and Memory of Transitional Turbulence.” Nature Communications, vol. 16, 8447, Springer Nature, 2025, doi:10.1038/s41467-025-63044-7.","short":"M. Vasudevan, C.S. Paranjape, M.P. Sitte, G. Yalniz, B. Hof, Nature Communications 16 (2025).","apa":"Vasudevan, M., Paranjape, C. S., Sitte, M. P., Yalniz, G., & Hof, B. (2025). Aging and memory of transitional turbulence. Nature Communications. Springer Nature. https://doi.org/10.1038/s41467-025-63044-7","ieee":"M. Vasudevan, C. S. Paranjape, M. P. Sitte, G. Yalniz, and B. Hof, “Aging and memory of transitional turbulence,” Nature Communications, vol. 16. Springer Nature, 2025.","ama":"Vasudevan M, Paranjape CS, Sitte MP, Yalniz G, Hof B. Aging and memory of transitional turbulence. Nature Communications. 2025;16. doi:10.1038/s41467-025-63044-7","chicago":"Vasudevan, Mukund, Chaitanya S Paranjape, Michael Philip Sitte, Gökhan Yalniz, and Björn Hof. “Aging and Memory of Transitional Turbulence.” Nature Communications. Springer Nature, 2025. https://doi.org/10.1038/s41467-025-63044-7.","ista":"Vasudevan M, Paranjape CS, Sitte MP, Yalniz G, Hof B. 2025. Aging and memory of transitional turbulence. Nature Communications. 16, 8447."},"file_date_updated":"2025-09-27T13:32:03Z","day":"26","month":"09","publication_identifier":{"eissn":["2041-1723"]},"date_created":"2025-09-27T13:27:31Z","status":"public","file":[{"checksum":"945926ead9cde464435d456427e2869e","file_id":"20403","file_size":2226082,"creator":"gyalniz","access_level":"open_access","file_name":"s41467-025-63044-7.pdf","date_created":"2025-09-27T13:32:03Z","content_type":"application/pdf","relation":"main_file","date_updated":"2025-09-27T13:32:03Z"}],"doi":"10.1038/s41467-025-63044-7","article_type":"original","language":[{"iso":"eng"}],"project":[{"_id":"238598C6-32DE-11EA-91FC-C7463DDC885E","grant_number":"662960","name":"Revisiting the Turbulence Problem Using Statistical Mechanics"},{"_id":"B67AFEDC-15C9-11EA-A837-991A96BB2854","name":"IST Austria Open Access Fund"}],"external_id":{"isi":["001582555200041"],"arxiv":["2112.06537"]},"oa":1},{"language":[{"iso":"eng"}],"article_type":"original","doi":"10.1016/j.matbio.2025.09.002","project":[{"_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396","grant_number":"F8810","name":"The highjacking of meiosis for asexual reproduction"}],"page":"101-113","external_id":{"isi":["001583892100002"],"pmid":["40946811"]},"oa":1,"month":"11","issue":"11","date_created":"2025-09-28T22:01:26Z","publication_identifier":{"issn":["0945-053X"],"eissn":["1569-1802"]},"status":"public","file":[{"success":1,"creator":"dernst","file_size":5844254,"file_id":"20948","checksum":"764257db41865d19daec1935788f72d7","date_updated":"2026-01-05T13:09:01Z","relation":"main_file","content_type":"application/pdf","date_created":"2026-01-05T13:09:01Z","file_name":"2025_MatrixBiology_Ishikawa.pdf","access_level":"open_access"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","citation":{"short":"Y. Ishikawa, M.A. Toups, M.N. Elkrewi, A.L. Zajac, S. Horne-Badovinac, Y. Matsubayashi, Matrix Biology 141 (2025) 101–113.","mla":"Ishikawa, Yoshihiro, et al. “Evidence for the Major Role of PH4⍺EFB in the Prolyl 4-Hydroxylation of Drosophila Collagen IV.” Matrix Biology, vol. 141, no. 11, Springer Nature, 2025, pp. 101–13, doi:10.1016/j.matbio.2025.09.002.","apa":"Ishikawa, Y., Toups, M. A., Elkrewi, M. N., Zajac, A. L., Horne-Badovinac, S., & Matsubayashi, Y. (2025). Evidence for the major role of PH4⍺EFB in the prolyl 4-hydroxylation of Drosophila collagen IV. Matrix Biology. Springer Nature. https://doi.org/10.1016/j.matbio.2025.09.002","ieee":"Y. Ishikawa, M. A. Toups, M. N. Elkrewi, A. L. Zajac, S. Horne-Badovinac, and Y. Matsubayashi, “Evidence for the major role of PH4⍺EFB in the prolyl 4-hydroxylation of Drosophila collagen IV,” Matrix Biology, vol. 141, no. 11. Springer Nature, pp. 101–113, 2025.","ama":"Ishikawa Y, Toups MA, Elkrewi MN, Zajac AL, Horne-Badovinac S, Matsubayashi Y. Evidence for the major role of PH4⍺EFB in the prolyl 4-hydroxylation of Drosophila collagen IV. Matrix Biology. 2025;141(11):101-113. doi:10.1016/j.matbio.2025.09.002","chicago":"Ishikawa, Yoshihiro, Melissa A Toups, Marwan N Elkrewi, Allison L. Zajac, Sally Horne-Badovinac, and Yutaka Matsubayashi. “Evidence for the Major Role of PH4⍺EFB in the Prolyl 4-Hydroxylation of Drosophila Collagen IV.” Matrix Biology. Springer Nature, 2025. https://doi.org/10.1016/j.matbio.2025.09.002.","ista":"Ishikawa Y, Toups MA, Elkrewi MN, Zajac AL, Horne-Badovinac S, Matsubayashi Y. 2025. Evidence for the major role of PH4⍺EFB in the prolyl 4-hydroxylation of Drosophila collagen IV. Matrix Biology. 141(11), 101–113."},"file_date_updated":"2026-01-05T13:09:01Z","day":"01","oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"OA_type":"hybrid","pmid":1,"publication_status":"published","title":"Evidence for the major role of PH4⍺EFB in the prolyl 4-hydroxylation of Drosophila collagen IV","fulldoi":"https://doi.org/10.1016/j.matbio.2025.09.002","_id":"20404","publisher":"Springer Nature","intvolume":" 141","abstract":[{"lang":"eng","text":"Collagens are fundamental components of extracellular matrices, requiring precise intracellular post-translational modifications for proper function. Among the modifications, prolyl 4-hydroxylation is critical to stabilise the collagen triple helix. In humans, this reaction is mediated by collagen prolyl 4-hydroxylases (P4Hs). While humans possess three genes encoding these enzymes (P4H⍺s), Drosophila melanogaster harbour at least 26 candidates for collagen P4H⍺s despite its simple genome, and it is poorly understood which of them are actually working on collagen in the fly. In this study, we addressed this question by carrying out thorough bioinformatic and biochemical analyses. We demonstrate that among the 26 potential collagen P4H⍺s, PH4⍺EFB shares the highest homology with vertebrate collagen P4H⍺s. Furthermore, while collagen P4Hs and their substrates must exist in the same cells, our transcriptomic analyses at the tissue and single cell levels showed a global co-expression of PH4⍺EFB but not the other P4H⍺-related genes with the collagen IV genes. Moreover, expression of PH4⍺EFB during embryogenesis was found to precede that of collagen IV, presumably enabling efficient collagen modification by PH4⍺EFB. Finally, biochemical assays confirm that PH4⍺EFB binds collagen, supporting its direct role in collagen IV modification. Collectively, we identify PH4⍺EFB as the primary and potentially constitutive prolyl 4-hydroxylase responsible for collagen IV biosynthesis in Drosophila. Our findings highlight the remarkably simple nature of Drosophila collagen IV biosynthesis, which may serve as a blueprint for defining the minimal requirements for collagen engineering."}],"has_accepted_license":"1","ddc":["570"],"quality_controlled":"1","date_published":"2025-11-01T00:00:00Z","OA_place":"publisher","publication":"Matrix Biology","PlanS_conform":"1","article_processing_charge":"Yes (in subscription journal)","acknowledgement":"This project was supported by the All May See Foundation 7031,182 to YI, the Louisiana Board of Regents Support Fund: Research Competitiveness Subprogram to MAT, Austrian science fund (FWF) as part of the SFB Meiosis consortium FWF SFB F88-10 to Beatriz Vicoso (supported ME), American Heart Association 16POST2726018 and American Cancer Society 132,123-PF-18–025–01-CSM postdoctoral fellowships to ALZ, National Institutes of Health R01 GM136961 and R35 GM148485 to SH-B, and the Academy of Medical Sciences/the Wellcome Trust/ the Government Department of Business, Energy and Industrial Strategy/the British Heart Foundation/Diabetes UK Springboard Award SBF008\\1115 to YM. \r\nComputational analyses of single-nucleus transcriptome data were performed on the high performance computer (HPC) at Bournemouth University, the HPC at Institute of Science and Technology Austria, and the high-performance computational resources provided by the Louisiana Optical Network Infrastructure (http://www.loni.org). The authors are grateful to the researchers who published the transcriptome datasets [48,49,52,55] that became the essential bases for this study, to FlyBase for curating the datasets in an easily accessible format, and the Drosophila Genomics Resource Center (DGRC), supported by NIH grant 2P40OD010949, for providing the D17 cell line used in this research. The authors thank Kristian Koski (University of Oulu, Finland) for crucial advice on the domain structure of collagen P4H⍺s, and Ryusuke Niwa and Ryo Hoshino (University of Tsukuba, Japan) for helpful discussions on SP.","year":"2025","date_updated":"2026-01-05T13:09:08Z","author":[{"full_name":"Ishikawa, Yoshihiro","first_name":"Yoshihiro","last_name":"Ishikawa"},{"orcid":"0000-0002-9752-7380","last_name":"Toups","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A","first_name":"Melissa A"},{"first_name":"Marwan N","full_name":"Elkrewi, Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","orcid":"0000-0002-5328-7231","last_name":"Elkrewi"},{"full_name":"Zajac, Allison L.","first_name":"Allison L.","last_name":"Zajac"},{"first_name":"Sally","full_name":"Horne-Badovinac, Sally","last_name":"Horne-Badovinac"},{"last_name":"Matsubayashi","full_name":"Matsubayashi, Yutaka","first_name":"Yutaka"}],"isi":1,"department":[{"_id":"BeVi"}],"volume":141,"type":"journal_article","scopus_import":"1"},{"date_updated":"2025-12-01T12:59:51Z","author":[{"first_name":"Dusan","full_name":"Lorenc, Dusan","id":"40D8A3E6-F248-11E8-B48F-1D18A9856A87","last_name":"Lorenc"},{"orcid":"0000-0003-0393-5525","last_name":"Volosniev","id":"37D278BC-F248-11E8-B48F-1D18A9856A87","first_name":"Artem","full_name":"Volosniev, Artem"},{"last_name":"Zhumekenov","first_name":"Ayan A.","full_name":"Zhumekenov, Ayan A."},{"last_name":"Lee","orcid":"0000-0002-6962-8598","id":"BB243B88-D767-11E9-B658-BC13E6697425","first_name":"Seungho","full_name":"Lee, Seungho"},{"id":"43C61214-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-5013-2843","last_name":"Ibáñez","first_name":"Maria","full_name":"Ibáñez, Maria"},{"last_name":"Bakr","full_name":"Bakr, Osman M.","first_name":"Osman M."},{"id":"37CB05FA-F248-11E8-B48F-1D18A9856A87","last_name":"Lemeshko","orcid":"0000-0002-6990-7802","first_name":"Mikhail","full_name":"Lemeshko, Mikhail"},{"first_name":"Zhanybek","full_name":"Alpichshev, Zhanybek","id":"45E67A2A-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-7183-5203","last_name":"Alpichshev"}],"year":"2025","isi":1,"volume":12,"department":[{"_id":"MaIb"},{"_id":"MiLe"},{"_id":"ZhAl"}],"acknowledged_ssus":[{"_id":"EM-Fac"}],"type":"journal_article","scopus_import":"1","PlanS_conform":"1","arxiv":1,"acknowledgement":"A.G.V. thanks Peter Balling for useful discussions. This research was supported by the Scientific Service Units (SSU) of ISTA through resources provided by the Electron Microscopy Facility (EMF), and by the Werner Siemens Foundation (WSS) for financial support.","article_processing_charge":"Yes (via OA deal)","has_accepted_license":"1","corr_author":"1","quality_controlled":"1","ddc":["540","530"],"publication":"ACS Photonics","date_published":"2025-08-11T00:00:00Z","OA_place":"publisher","publisher":"American Chemical Society","intvolume":" 12","abstract":[{"text":"Dielectric breakdown of physical vacuum (Schwinger effect) is the textbook demonstration of compatibility of Relativity and Quantum theory. Although observing this effect is still practically unachievable, its analogue generalizations have been shown to be more readily attainable. This paper demonstrates that a gapped Dirac semiconductor, methylammonium lead-bromide perovskite (MAPbBr3), exhibits analogue dynamic Schwinger effect. Tunneling ionization under deep subgap mid-infrared irradiation leads to intense photoluminescence in the visible range, in full agreement with quasi-adiabatic theory. In addition to revealing a gapped extended system suitable for studying the analogue Schwinger effect, this observation holds great potential for nonperturbative field sensing, i.e., sensing electric fields through nonperturbative light-matter interactions. First, this paper illustrates this by measuring the local deviation from the nominally cubic phase of a perovskite single crystal, which can be interpreted in terms of frozen-in fields. Next, it is shown that analogue dynamic Schwinger effect can be used for nonperturbative amplification of nonparametric upconversion process in perovskites driven simultaneously by multiple optical fields. This discovery demonstrates the potential for material response beyond perturbation theory in the tunneling regime, offering extremely sensitive light detection and amplification across an ultrabroad spectral range not accessible by conventional devices.","lang":"eng"}],"oa_version":"Published Version","tmp":{"name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"OA_type":"hybrid","publication_status":"published","_id":"20405","title":"Observation of analogue dynamic Schwinger effect and non-perturbative light sensing in lead halide perovskites","fulldoi":"https://doi.org/10.1021/acsphotonics.5c01360","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","file_date_updated":"2025-10-20T11:02:21Z","citation":{"ieee":"D. Lorenc et al., “Observation of analogue dynamic Schwinger effect and non-perturbative light sensing in lead halide perovskites,” ACS Photonics, vol. 12, no. 9. American Chemical Society, pp. 5220–5230, 2025.","apa":"Lorenc, D., Volosniev, A., Zhumekenov, A. A., Lee, S., Ibáñez, M., Bakr, O. M., … Alpichshev, Z. (2025). Observation of analogue dynamic Schwinger effect and non-perturbative light sensing in lead halide perovskites. ACS Photonics. American Chemical Society. https://doi.org/10.1021/acsphotonics.5c01360","short":"D. Lorenc, A. Volosniev, A.A. Zhumekenov, S. Lee, M. Ibáñez, O.M. Bakr, M. Lemeshko, Z. Alpichshev, ACS Photonics 12 (2025) 5220–5230.","mla":"Lorenc, Dusan, et al. “Observation of Analogue Dynamic Schwinger Effect and Non-Perturbative Light Sensing in Lead Halide Perovskites.” ACS Photonics, vol. 12, no. 9, American Chemical Society, 2025, pp. 5220–30, doi:10.1021/acsphotonics.5c01360.","ista":"Lorenc D, Volosniev A, Zhumekenov AA, Lee S, Ibáñez M, Bakr OM, Lemeshko M, Alpichshev Z. 2025. Observation of analogue dynamic Schwinger effect and non-perturbative light sensing in lead halide perovskites. ACS Photonics. 12(9), 5220–5230.","ama":"Lorenc D, Volosniev A, Zhumekenov AA, et al. Observation of analogue dynamic Schwinger effect and non-perturbative light sensing in lead halide perovskites. ACS Photonics. 2025;12(9):5220-5230. doi:10.1021/acsphotonics.5c01360","chicago":"Lorenc, Dusan, Artem Volosniev, Ayan A. Zhumekenov, Seungho Lee, Maria Ibáñez, Osman M. Bakr, Mikhail Lemeshko, and Zhanybek Alpichshev. “Observation of Analogue Dynamic Schwinger Effect and Non-Perturbative Light Sensing in Lead Halide Perovskites.” ACS Photonics. American Chemical Society, 2025. https://doi.org/10.1021/acsphotonics.5c01360."},"day":"11","month":"08","issue":"9","status":"public","date_created":"2025-09-28T22:01:26Z","publication_identifier":{"eissn":["2330-4022"]},"file":[{"content_type":"application/pdf","date_updated":"2025-10-20T11:02:21Z","relation":"main_file","file_name":"2025_ACSPhotonics_Lorenc.pdf","access_level":"open_access","date_created":"2025-10-20T11:02:21Z","file_id":"20502","creator":"dernst","success":1,"file_size":6609950,"checksum":"d42476279287a9a2f8aeafaef032f4a7"}],"article_type":"original","doi":"10.1021/acsphotonics.5c01360","language":[{"iso":"eng"}],"project":[{"_id":"9B8F7476-BA93-11EA-9121-9846C619BF3A","name":"HighTE: The Werner Siemens Laboratory for the High Throughput Discovery of Semiconductors for Waste Heat Recovery"}],"oa":1,"page":"5220-5230","external_id":{"isi":["001547359300001"],"arxiv":["2406.05032"]}}]