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We thank the Vicoso group for their feedback on an early version of the manuscript. We are grateful to Kamil Jaron and Julia Gries for helpful discussions and for sharing their unpublished work. Computational resources and support were provided by the Scientific Computing Unit at ISTA.","oa_version":"Published Version","DOAJ_listed":"1","month":"03","date_created":"2026-03-23T15:05:42Z","date_updated":"2026-03-24T07:14:08Z","_id":"21486","doi":"10.1093/evlett/qrag003","status":"public","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","language":[{"iso":"eng"}],"article_type":"original","citation":{"apa":"Layana Franco, L. A., Toups, M. A., & Vicoso, B. (2026). Causes and consequences of sex-chromosome turnovers in Diptera. Evolution Letters. Oxford University Press. https://doi.org/10.1093/evlett/qrag003","short":"L.A. Layana Franco, M.A. Toups, B. 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We find that the majority of turnovers happened in the group Schizophora, which tend to have fewer genes on Muller element F (the chromosome homologous to the ancestral insect X chromosome) than lower dipterans, a factor previously hypothesized to facilitate turnover. Most derived X chromosomes have higher GC content than autosomes, consistent with a high prevalence of male achiasmy in Diptera. In addition, an excess of gene movement out of the X is detected for most of these new X chromosomes, and many of these moved genes have high testis expression in Drosophila, suggesting that out-of-X gene movement contributes to the long-term demasculinization of X chromosomes."}],"publisher":"Oxford University Press"},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"ddc":["570"],"project":[{"grant_number":"PAT 8748323","_id":"8ed82125-16d5-11f0-9cad-fbcae312235b","name":"Sex chromosomes in evolution and development"}],"publication_identifier":{"eissn":["2214-5753"],"issn":["2214-5745"]},"author":[{"id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A","first_name":"Melissa A","orcid":"0000-0002-9752-7380","last_name":"Toups"},{"id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","full_name":"Vicoso, Beatriz","last_name":"Vicoso","orcid":"0000-0002-4579-8306","first_name":"Beatriz"}],"day":"01","article_number":"101411","OA_type":"hybrid","corr_author":"1","file_date_updated":"2025-12-30T13:14:20Z","year":"2025","publication_status":"published","intvolume":" 72","article_processing_charge":"Yes (via OA deal)","external_id":{"isi":["001582424100001"]},"file":[{"file_id":"20917","access_level":"open_access","date_updated":"2025-12-30T13:14:20Z","date_created":"2025-12-30T13:14:20Z","file_name":"2025_CurrOpinionInsectScience_Toups.pdf","creator":"dernst","content_type":"application/pdf","relation":"main_file","success":1,"file_size":897079,"checksum":"262640abc34277686b56eb60102976f6"}],"scopus_import":"1","publication":"Current Opinion in Insect Science","PlanS_conform":"1","publisher":"Elsevier","abstract":[{"text":"Sex chromosomes have evolved many times throughout the tree of life, and understanding what has shaped their unusual morphological, sequence, and regulatory features has been a long-standing goal. Most early insights into insect sex chromosome biology came from a few model species, such as the fruit fly Drosophila melanogaster, which limited broad-scale evolutionary inferences. More recently, extensive comparative genomics studies have uncovered several unexpected patterns, which we highlight in this review. First, we describe the conservation of the ancestral X chromosome over 450 million years but also its recurrent turnover (i.e. its reversal to an autosome when a new X chromosome arose) in at least one order. We then summarize classical and more recent findings on how insects modulate the expression of X-linked genes following the degradation of the Y chromosome and how the diverse mechanisms of dosage compensation identified may elucidate important principles of sex chromosome regulatory evolution.","lang":"eng"}],"has_accepted_license":"1","date_published":"2025-12-01T00:00:00Z","quality_controlled":"1","department":[{"_id":"BeVi"}],"title":"Insect sex chromosome evolution: Conservation, turnover, and mechanisms of dosage compensation","type":"journal_article","OA_place":"publisher","citation":{"ama":"Toups MA, Vicoso B. Insect sex chromosome evolution: Conservation, turnover, and mechanisms of dosage compensation. Current Opinion in Insect Science. 2025;72. doi:10.1016/j.cois.2025.101411","ista":"Toups MA, Vicoso B. 2025. Insect sex chromosome evolution: Conservation, turnover, and mechanisms of dosage compensation. Current Opinion in Insect Science. 72, 101411.","ieee":"M. A. Toups and B. Vicoso, “Insect sex chromosome evolution: Conservation, turnover, and mechanisms of dosage compensation,” Current Opinion in Insect Science, vol. 72. Elsevier, 2025.","mla":"Toups, Melissa A., and Beatriz Vicoso. “Insect Sex Chromosome Evolution: Conservation, Turnover, and Mechanisms of Dosage Compensation.” Current Opinion in Insect Science, vol. 72, 101411, Elsevier, 2025, doi:10.1016/j.cois.2025.101411.","apa":"Toups, M. A., & Vicoso, B. (2025). Insect sex chromosome evolution: Conservation, turnover, and mechanisms of dosage compensation. Current Opinion in Insect Science. Elsevier. https://doi.org/10.1016/j.cois.2025.101411","short":"M.A. Toups, B. Vicoso, Current Opinion in Insect Science 72 (2025).","chicago":"Toups, Melissa A, and Beatriz Vicoso. “Insect Sex Chromosome Evolution: Conservation, Turnover, and Mechanisms of Dosage Compensation.” Current Opinion in Insect Science. Elsevier, 2025. https://doi.org/10.1016/j.cois.2025.101411."},"article_type":"review","language":[{"iso":"eng"}],"oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","isi":1,"status":"public","_id":"20182","doi":"10.1016/j.cois.2025.101411","date_updated":"2025-12-30T13:14:38Z","volume":72,"date_created":"2025-08-17T22:01:35Z","month":"12","acknowledgement":"This work was supported by an Austrian Research Fund (FWF) grant to B.V. (PAT 8748323) and by the Louisiana Board of Regents Research Competitiveness Subprogram (LEQSF(2025-28)-RD-A-20) to MAT.","oa_version":"Published Version"},{"external_id":{"pmid":["40946811"],"isi":["001583892100002"]},"article_processing_charge":"Yes (in subscription journal)","file":[{"content_type":"application/pdf","relation":"main_file","file_size":5844254,"success":1,"checksum":"764257db41865d19daec1935788f72d7","file_id":"20948","access_level":"open_access","date_created":"2026-01-05T13:09:01Z","date_updated":"2026-01-05T13:09:01Z","file_name":"2025_MatrixBiology_Ishikawa.pdf","creator":"dernst"}],"scopus_import":"1","PlanS_conform":"1","publication":"Matrix Biology","OA_type":"hybrid","file_date_updated":"2026-01-05T13:09:01Z","publication_status":"published","year":"2025","intvolume":" 141","author":[{"full_name":"Ishikawa, Yoshihiro","first_name":"Yoshihiro","last_name":"Ishikawa"},{"id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A","first_name":"Melissa A","last_name":"Toups","orcid":"0000-0002-9752-7380"},{"first_name":"Marwan N","orcid":"0000-0002-5328-7231","last_name":"Elkrewi","full_name":"Elkrewi, Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425"},{"first_name":"Allison L.","last_name":"Zajac","full_name":"Zajac, Allison L."},{"last_name":"Horne-Badovinac","first_name":"Sally","full_name":"Horne-Badovinac, Sally"},{"first_name":"Yutaka","last_name":"Matsubayashi","full_name":"Matsubayashi, Yutaka"}],"pmid":1,"day":"01","tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"ddc":["570"],"project":[{"name":"The highjacking of meiosis for asexual reproduction","grant_number":"F8810","_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396"}],"publication_identifier":{"issn":["0945-053X"],"eissn":["1569-1802"]},"month":"11","page":"101-113","issue":"11","oa_version":"Published Version","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.","article_type":"original","language":[{"iso":"eng"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"status":"public","isi":1,"doi":"10.1016/j.matbio.2025.09.002","_id":"20404","volume":141,"date_updated":"2026-01-05T13:09:08Z","date_created":"2025-09-28T22:01:26Z","title":"Evidence for the major role of PH4⍺EFB in the prolyl 4-hydroxylation of Drosophila collagen IV","type":"journal_article","citation":{"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","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.","short":"Y. Ishikawa, M.A. Toups, M.N. Elkrewi, A.L. Zajac, S. Horne-Badovinac, Y. Matsubayashi, Matrix Biology 141 (2025) 101–113.","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","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.","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.","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."},"OA_place":"publisher","publisher":"Springer Nature","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","date_published":"2025-11-01T00:00:00Z","quality_controlled":"1","department":[{"_id":"BeVi"}]},{"status":"public","year":"2025","_id":"20780","doi":"10.15479/AT-ISTA-20780","date_updated":"2025-12-15T11:13:32Z","date_created":"2025-12-10T23:40:14Z","keyword":["Schizophora","sex chromosomes","sex-chromosome turnover","Diptera","genomic features","out-of-X movement."],"corr_author":"1","file_date_updated":"2025-12-11T11:00:53Z","acknowledged_ssus":[{"_id":"ScienComp"}],"user_id":"68b8ca59-c5b3-11ee-8790-cd641c68093d","oa":1,"oa_version":"None","month":"12","article_processing_charge":"No","file":[{"file_size":4575,"success":1,"checksum":"251e7aab01917c2ad2fbccf465492ea1","content_type":"application/zip","relation":"main_file","date_created":"2025-12-11T10:47:15Z","date_updated":"2025-12-11T10:47:15Z","creator":"llayanaf","file_name":"Perl_scripts.zip","file_id":"20799","access_level":"open_access"},{"file_id":"20800","access_level":"open_access","date_created":"2025-12-11T10:52:17Z","date_updated":"2025-12-11T10:52:17Z","file_name":"Supplementary_Datasets.zip","creator":"llayanaf","content_type":"application/zip","relation":"main_file","file_size":19052849,"success":1,"checksum":"daf1c03149dd170b14e5c8e109ee3c77"},{"relation":"main_file","content_type":"application/zip","checksum":"658d6e95a361b0a3db058b7b4e1733d4","file_size":566476,"success":1,"access_level":"open_access","file_id":"20801","creator":"llayanaf","file_name":"Supplementary_Tables.zip","date_created":"2025-12-11T10:52:11Z","date_updated":"2025-12-11T10:52:11Z"},{"file_size":1204,"success":1,"checksum":"2a2b92eb9fade0015719190596a8c5b7","content_type":"text/plain","relation":"main_file","date_created":"2025-12-11T11:00:53Z","date_updated":"2025-12-11T11:00:53Z","file_name":"README.txt","creator":"llayanaf","file_id":"20802","access_level":"open_access"}],"has_accepted_license":"1","date_published":"2025-12-01T00:00:00Z","department":[{"_id":"BeVi"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"publisher":"Institute of Science and Technology Austria","abstract":[{"text":"Sex-chromosome systems are highly variable across animals, but how they transition from one to another is not well understood. Diptera have undergone multiple sex-chromosome turnovers and expansions while maintaining their general chromosomal content, which makes them an ideal clade to study such transitions. We analysed more than 100 dipteran whole-genome assemblies and identified 4 new lineages that underwent sex-chromosome turnover (in addition to the 5 previously reported). We find the majority of turnovers happened in the group Schizophora, which tend to have fewer genes on the F element (the chromosome homologous to the ancestral insect X chromosome) than lower dipterans, a factor previously hypothesized to facilitate turnover. Most derived X chromosomes have higher GC content than autosomes, consistent with a high prevalence of male-achiasmy in Diptera. In addition, an excess of gene movement out of the X is detected for most of these new X chromosomes, and many of these moved genes have high testis expression in Drosophila, suggesting that out-of-X gene movement contributes to the long-term demasculinization of X chromosomes.","lang":"eng"}],"citation":{"chicago":"Layana Franco, Lorena Alexandra, Melissa A Toups, and Beatriz Vicoso. “Causes and Consequences of Sex-Chromosome Turnovers in Diptera.” Institute of Science and Technology Austria, 2025. https://doi.org/10.15479/AT-ISTA-20780.","mla":"Layana Franco, Lorena Alexandra, et al. Causes and Consequences of Sex-Chromosome Turnovers in Diptera. Institute of Science and Technology Austria, 2025, doi:10.15479/AT-ISTA-20780.","ieee":"L. A. Layana Franco, M. A. Toups, and B. Vicoso, “Causes and consequences of sex-chromosome turnovers in Diptera.” Institute of Science and Technology Austria, 2025.","apa":"Layana Franco, L. A., Toups, M. A., & Vicoso, B. (2025). Causes and consequences of sex-chromosome turnovers in Diptera. Institute of Science and Technology Austria. https://doi.org/10.15479/AT-ISTA-20780","short":"L.A. Layana Franco, M.A. Toups, B. Vicoso, (2025).","ista":"Layana Franco LA, Toups MA, Vicoso B. 2025. Causes and consequences of sex-chromosome turnovers in Diptera, Institute of Science and Technology Austria, 10.15479/AT-ISTA-20780.","ama":"Layana Franco LA, Toups MA, Vicoso B. Causes and consequences of sex-chromosome turnovers in Diptera. 2025. doi:10.15479/AT-ISTA-20780"},"author":[{"first_name":"Lorena Alexandra","orcid":"0000-0002-1253-6297","last_name":"Layana Franco","id":"02814589-eb8f-11eb-b029-a70074f3f18f","full_name":"Layana Franco, Lorena Alexandra"},{"first_name":"Melissa A","last_name":"Toups","orcid":"0000-0002-9752-7380","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A"},{"id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","full_name":"Vicoso, Beatriz","orcid":"0000-0002-4579-8306","last_name":"Vicoso","first_name":"Beatriz"}],"title":"Causes and consequences of sex-chromosome turnovers in Diptera","type":"research_data"},{"isi":1,"status":"public","doi":"10.1093/evolut/qpad169","_id":"14604","volume":77,"date_updated":"2025-09-09T13:32:06Z","date_created":"2023-11-26T23:00:54Z","article_type":"original","language":[{"iso":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa":1,"issue":"11","acknowledgement":"All computational analyses were performed on the server at Institute of Science and Technology Austria. We thank Marwan Elkrewi and Vincent Bett for analytical advice, and Tanja Schwander and Vincent Merel for useful discussions. We also thank Matthew Hahn for comments on an earlier version of the manuscript.","oa_version":"Published Version","month":"11","page":"2504-2511","has_accepted_license":"1","date_published":"2023-11-02T00:00:00Z","quality_controlled":"1","department":[{"_id":"BeVi"}],"publisher":"Oxford University Press","abstract":[{"lang":"eng","text":"Sex chromosomes have evolved independently multiple times, but why some are conserved for more than 100 million years whereas others turnover rapidly remains an open question. Here, we examine the homology of sex chromosomes across nine orders of insects, plus the outgroup springtails. We find that the X chromosome is likely homologous across insects and springtails; the only exception is in the Lepidoptera, which has lost the X and now has a ZZ/ZW sex-chromosome system. These results suggest the ancestral insect X chromosome has persisted for more than 450 million years—the oldest known sex chromosome to date. Further, we propose that the shrinking of gene content the dipteran X chromosome has allowed for a burst of sex-chromosome turnover that is absent from other speciose insect orders."}],"citation":{"chicago":"Toups, Melissa A, and Beatriz Vicoso. “The X Chromosome of Insects Likely Predates the Origin of Class Insecta.” Evolution. Oxford University Press, 2023. https://doi.org/10.1093/evolut/qpad169.","mla":"Toups, Melissa A., and Beatriz Vicoso. “The X Chromosome of Insects Likely Predates the Origin of Class Insecta.” Evolution, vol. 77, no. 11, Oxford University Press, 2023, pp. 2504–11, doi:10.1093/evolut/qpad169.","short":"M.A. Toups, B. Vicoso, Evolution 77 (2023) 2504–2511.","apa":"Toups, M. A., & Vicoso, B. (2023). The X chromosome of insects likely predates the origin of class Insecta. Evolution. Oxford University Press. https://doi.org/10.1093/evolut/qpad169","ieee":"M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the origin of class Insecta,” Evolution, vol. 77, no. 11. Oxford University Press, pp. 2504–2511, 2023.","ista":"Toups MA, Vicoso B. 2023. The X chromosome of insects likely predates the origin of class Insecta. Evolution. 77(11), 2504–2511.","ama":"Toups MA, Vicoso B. The X chromosome of insects likely predates the origin of class Insecta. Evolution. 2023;77(11):2504-2511. doi:10.1093/evolut/qpad169"},"title":"The X chromosome of insects likely predates the origin of class Insecta","type":"journal_article","year":"2023","publication_status":"published","intvolume":" 77","file_date_updated":"2023-11-28T08:12:15Z","scopus_import":"1","publication":"Evolution","external_id":{"isi":["001170341900014"],"pmid":["37738212"]},"article_processing_charge":"Yes (in subscription journal)","file":[{"success":1,"file_size":1399102,"checksum":"b66dc10edae92d38918d534e64dda77c","content_type":"application/pdf","relation":"main_file","date_updated":"2023-11-28T08:12:15Z","date_created":"2023-11-28T08:12:15Z","file_name":"2023_Evolution_Toups.pdf","creator":"dernst","file_id":"14618","access_level":"open_access"}],"ddc":["570"],"publication_identifier":{"eissn":["1558-5646"]},"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"author":[{"full_name":"Toups, Melissa A","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-9752-7380","last_name":"Toups","first_name":"Melissa A"},{"last_name":"Vicoso","orcid":"0000-0002-4579-8306","first_name":"Beatriz","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"}],"pmid":1,"related_material":{"record":[{"relation":"research_data","id":"14616","status":"public"},{"id":"14617","status":"public","relation":"research_data"}],"link":[{"relation":"software","url":"https://git.ista.ac.at/bvicoso/veryoldx"}]},"day":"02"},{"_id":"14616","year":"2023","doi":"10.5061/DRYAD.HX3FFBGKT","status":"public","date_created":"2023-11-28T08:01:53Z","date_updated":"2025-09-09T13:32:05Z","oa":1,"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa_version":"Published Version","article_processing_charge":"No","month":"09","license":"https://creativecommons.org/publicdomain/zero/1.0/","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5061/dryad.hx3ffbgkt"}],"date_published":"2023-09-15T00:00:00Z","has_accepted_license":"1","department":[{"_id":"BeVi"}],"ddc":["570"],"tmp":{"name":"Creative Commons Public Domain Dedication (CC0 1.0)","legal_code_url":"https://creativecommons.org/publicdomain/zero/1.0/legalcode","short":"CC0 (1.0)","image":"/images/cc_0.png"},"abstract":[{"text":"Sex chromosomes have evolved independently multiple times, but why some are conserved for more than 100 million years whereas others turnover rapidly remains an open question. Here, we examine the homology of sex chromosomes across nine orders of insects, plus the outgroup springtails. We find that the X chromosome is likely homologous across insects and springtails; the only exception is in the Lepidoptera, which has lost the X and now has a ZZ/ZW sex chromosome system. These results suggest the ancestral insect X chromosome has persisted for more than 450 million years – the oldest known sex chromosome to date. Further, we propose that the shrinking of gene content of the Dipteran X chromosome has allowed for a burst of sex-chromosome turnover that is absent from other speciose insect orders.","lang":"eng"}],"publisher":"Dryad","citation":{"short":"M.A. Toups, B. Vicoso, (2023).","mla":"Toups, Melissa A., and Beatriz Vicoso. The X Chromosome of Insects Likely Predates the Origin of Class Insecta. Dryad, 2023, doi:10.5061/DRYAD.HX3FFBGKT.","apa":"Toups, M. A., & Vicoso, B. (2023). The X chromosome of insects likely predates the origin of Class Insecta. Dryad. https://doi.org/10.5061/DRYAD.HX3FFBGKT","ieee":"M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the origin of Class Insecta.” Dryad, 2023.","chicago":"Toups, Melissa A, and Beatriz Vicoso. “The X Chromosome of Insects Likely Predates the Origin of Class Insecta.” Dryad, 2023. https://doi.org/10.5061/DRYAD.HX3FFBGKT.","ama":"Toups MA, Vicoso B. The X chromosome of insects likely predates the origin of Class Insecta. 2023. doi:10.5061/DRYAD.HX3FFBGKT","ista":"Toups MA, Vicoso B. 2023. The X chromosome of insects likely predates the origin of Class Insecta, Dryad, 10.5061/DRYAD.HX3FFBGKT."},"author":[{"full_name":"Toups, Melissa A","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","first_name":"Melissa A","orcid":"0000-0002-9752-7380","last_name":"Toups"},{"last_name":"Vicoso","orcid":"0000-0002-4579-8306","first_name":"Beatriz","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"}],"day":"15","type":"research_data_reference","related_material":{"record":[{"id":"14604","status":"public","relation":"used_in_publication"}]},"title":"The X chromosome of insects likely predates the origin of Class Insecta"},{"abstract":[{"text":"Sex chromosomes have evolved independently multiple times, but why some are conserved for more than 100 million years whereas others turnover rapidly remains an open question. Here, we examine the homology of sex chromosomes across nine orders of insects, plus the outgroup springtails. We find that the X chromosome is likely homologous across insects and springtails; the only exception is in the Lepidoptera, which has lost the X and now has a ZZ/ZW sex chromosome system. These results suggest the ancestral insect X chromosome has persisted for more than 450 million years – the oldest known sex chromosome to date. Further, we propose that the shrinking of gene content of the Dipteran X chromosome has allowed for a burst of sex-chromosome turnover that is absent from other speciose insect orders.","lang":"eng"}],"publisher":"Zenodo","department":[{"_id":"BeVi"}],"ddc":["570"],"date_published":"2023-09-15T00:00:00Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.5281/zenodo.8138705"}],"has_accepted_license":"1","day":"15","type":"research_data_reference","related_material":{"record":[{"relation":"used_in_publication","id":"14604","status":"public"}]},"title":"The X chromosome of insects likely predates the origin of Class Insecta","author":[{"id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A","orcid":"0000-0002-9752-7380","last_name":"Toups","first_name":"Melissa A"},{"last_name":"Vicoso","orcid":"0000-0002-4579-8306","first_name":"Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","full_name":"Vicoso, Beatriz"}],"citation":{"apa":"Toups, M. A., & Vicoso, B. (2023). The X chromosome of insects likely predates the origin of Class Insecta. Zenodo. https://doi.org/10.5281/ZENODO.8138705","mla":"Toups, Melissa A., and Beatriz Vicoso. The X Chromosome of Insects Likely Predates the Origin of Class Insecta. Zenodo, 2023, doi:10.5281/ZENODO.8138705.","ieee":"M. A. Toups and B. Vicoso, “The X chromosome of insects likely predates the origin of Class Insecta.” Zenodo, 2023.","short":"M.A. Toups, B. Vicoso, (2023).","chicago":"Toups, Melissa A, and Beatriz Vicoso. “The X Chromosome of Insects Likely Predates the Origin of Class Insecta.” Zenodo, 2023. https://doi.org/10.5281/ZENODO.8138705.","ama":"Toups MA, Vicoso B. The X chromosome of insects likely predates the origin of Class Insecta. 2023. doi:10.5281/ZENODO.8138705","ista":"Toups MA, Vicoso B. 2023. The X chromosome of insects likely predates the origin of Class Insecta, Zenodo, 10.5281/ZENODO.8138705."},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"date_created":"2023-11-28T08:04:03Z","date_updated":"2025-09-09T13:32:05Z","other_data_license":"MIT License","year":"2023","_id":"14617","doi":"10.5281/ZENODO.8138705","status":"public","article_processing_charge":"No","month":"09","oa_version":"Published Version"},{"ddc":["570"],"publication_identifier":{"issn":["0737-4038"],"eissn":["1537-1719"]},"project":[{"name":"The highjacking of meiosis for asexual reproduction","_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396","grant_number":"F8810"},{"grant_number":"ESP39 49461","_id":"ebb230e0-77a9-11ec-83b8-87a37e0241d3","name":"Mechanisms and Evolution of Reproductive Plasticity"}],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"related_material":{"link":[{"url":"https://ista.ac.at/en/news/on-the-hunt/","relation":"press_release","description":"News on ISTA webpage"}],"record":[{"relation":"research_data","id":"14614","status":"public"},{"id":"19386","status":"public","relation":"dissertation_contains"}]},"pmid":1,"day":"01","author":[{"orcid":"0000-0002-1197-8616","last_name":"Lasne","first_name":"Clementine","full_name":"Lasne, Clementine","id":"02225f57-50d2-11eb-9ed8-8c92b9a34237"},{"last_name":"Elkrewi","orcid":"0000-0002-5328-7231","first_name":"Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","full_name":"Elkrewi, Marwan N"},{"orcid":"0000-0002-9752-7380","last_name":"Toups","first_name":"Melissa A","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A"},{"id":"02814589-eb8f-11eb-b029-a70074f3f18f","full_name":"Layana Franco, Lorena Alexandra","orcid":"0000-0002-1253-6297","last_name":"Layana Franco","first_name":"Lorena Alexandra"},{"last_name":"Macon","first_name":"Ariana","id":"2A0848E2-F248-11E8-B48F-1D18A9856A87","full_name":"Macon, Ariana"},{"last_name":"Vicoso","orcid":"0000-0002-4579-8306","first_name":"Beatriz","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"}],"intvolume":" 40","year":"2023","publication_status":"published","file_date_updated":"2024-01-02T11:39:38Z","acknowledged_ssus":[{"_id":"ScienComp"}],"article_number":"msad245","corr_author":"1","publication":"Molecular Biology and Evolution","scopus_import":"1","file":[{"file_id":"14727","access_level":"open_access","date_updated":"2024-01-02T11:39:38Z","date_created":"2024-01-02T11:39:38Z","file_name":"2023_MolecularBioEvo_Lasne.pdf","creator":"dernst","content_type":"application/pdf","relation":"main_file","success":1,"file_size":8623505,"checksum":"47c1c72fb499f26ea52d216b242208c8"}],"article_processing_charge":"Yes","external_id":{"pmid":["37988296"],"isi":["001122489000003"]},"quality_controlled":"1","department":[{"_id":"BeVi"}],"has_accepted_license":"1","date_published":"2023-12-01T00:00:00Z","publisher":"Oxford University Press","abstract":[{"text":"Many insects carry an ancient X chromosome - the Drosophila Muller element F - that likely predates their origin. Interestingly, the X has undergone turnover in multiple fly species (Diptera) after being conserved for more than 450 MY. The long evolutionary distance between Diptera and other sequenced insect clades makes it difficult to infer what could have contributed to this sudden increase in rate of turnover. Here, we produce the first genome and transcriptome of a long overlooked sister-order to Diptera: Mecoptera. We compare the scorpionfly Panorpa cognata X-chromosome gene content, expression, and structure, to that of several dipteran species as well as more distantly-related insect orders (Orthoptera and Blattodea). We find high conservation of gene content between the mecopteran X and the dipteran Muller F element, as well as several shared biological features, such as the presence of dosage compensation and a low amount of genetic diversity, consistent with a low recombination rate. However, the two homologous X chromosomes differ strikingly in their size and number of genes they carry. Our results therefore support a common ancestry of the mecopteran and ancestral dipteran X chromosomes, and suggest that Muller element F shrank in size and gene content after the split of Diptera and Mecoptera, which may have contributed to its turnover in dipteran insects.","lang":"eng"}],"citation":{"short":"C. Lasne, M.N. Elkrewi, M.A. Toups, L.A. Layana Franco, A. Macon, B. Vicoso, Molecular Biology and Evolution 40 (2023).","ieee":"C. Lasne, M. N. Elkrewi, M. A. Toups, L. A. Layana Franco, A. Macon, and B. Vicoso, “The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome,” Molecular Biology and Evolution, vol. 40, no. 12. Oxford University Press, 2023.","mla":"Lasne, Clementine, et al. “The Scorpionfly (Panorpa Cognata) Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome.” Molecular Biology and Evolution, vol. 40, no. 12, msad245, Oxford University Press, 2023, doi:10.1093/molbev/msad245.","apa":"Lasne, C., Elkrewi, M. N., Toups, M. A., Layana Franco, L. A., Macon, A., & Vicoso, B. (2023). The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome. Molecular Biology and Evolution. Oxford University Press. https://doi.org/10.1093/molbev/msad245","chicago":"Lasne, Clementine, Marwan N Elkrewi, Melissa A Toups, Lorena Alexandra Layana Franco, Ariana Macon, and Beatriz Vicoso. “The Scorpionfly (Panorpa Cognata) Genome Highlights Conserved and Derived Features of the Peculiar Dipteran X Chromosome.” Molecular Biology and Evolution. Oxford University Press, 2023. https://doi.org/10.1093/molbev/msad245.","ama":"Lasne C, Elkrewi MN, Toups MA, Layana Franco LA, Macon A, Vicoso B. The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome. Molecular Biology and Evolution. 2023;40(12). doi:10.1093/molbev/msad245","ista":"Lasne C, Elkrewi MN, Toups MA, Layana Franco LA, Macon A, Vicoso B. 2023. The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome. Molecular Biology and Evolution. 40(12), msad245."},"title":"The scorpionfly (Panorpa cognata) genome highlights conserved and derived features of the peculiar dipteran X chromosome","type":"journal_article","volume":40,"date_updated":"2026-05-26T22:31:21Z","date_created":"2023-11-27T16:14:37Z","isi":1,"status":"public","doi":"10.1093/molbev/msad245","_id":"14613","language":[{"iso":"eng"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","oa":1,"article_type":"original","keyword":["Genetics","Molecular Biology","Ecology","Evolution","Behavior and Systematics"],"oa_version":"Published Version","acknowledgement":"We thank the Vicoso lab for their assistance with specimen collection, and Tim Connallon for valuable comments and suggestions on earlier versions of the manuscript. Computational resources and support were provided by the Scientific Computing unit at the ISTA. This research was supported by grants from the Austrian Science Foundation to C.L.\r\n(FWF ESP 39), and to B.V. (FWF SFB F88-10).","issue":"12","month":"12"},{"title":"Dioecy and chromosomal sex determination are maintained through allopolyploid speciation in the plant genus Mercurialis","type":"journal_article","citation":{"ama":"Toups MA, Vicoso B, Pannell JR. Dioecy and chromosomal sex determination are maintained through allopolyploid speciation in the plant genus Mercurialis. PLoS Genetics. 2022;18(7). doi:10.1371/journal.pgen.1010226","ista":"Toups MA, Vicoso B, Pannell JR. 2022. Dioecy and chromosomal sex determination are maintained through allopolyploid speciation in the plant genus Mercurialis. PLoS Genetics. 18(7), e1010226.","apa":"Toups, M. A., Vicoso, B., & Pannell, J. R. (2022). Dioecy and chromosomal sex determination are maintained through allopolyploid speciation in the plant genus Mercurialis. PLoS Genetics. Public Library of Science. https://doi.org/10.1371/journal.pgen.1010226","short":"M.A. Toups, B. Vicoso, J.R. Pannell, PLoS Genetics 18 (2022).","ieee":"M. A. Toups, B. Vicoso, and J. R. Pannell, “Dioecy and chromosomal sex determination are maintained through allopolyploid speciation in the plant genus Mercurialis,” PLoS Genetics, vol. 18, no. 7. Public Library of Science, 2022.","mla":"Toups, Melissa A., et al. “Dioecy and Chromosomal Sex Determination Are Maintained through Allopolyploid Speciation in the Plant Genus Mercurialis.” PLoS Genetics, vol. 18, no. 7, e1010226, Public Library of Science, 2022, doi:10.1371/journal.pgen.1010226.","chicago":"Toups, Melissa A, Beatriz Vicoso, and John R. Pannell. “Dioecy and Chromosomal Sex Determination Are Maintained through Allopolyploid Speciation in the Plant Genus Mercurialis.” PLoS Genetics. Public Library of Science, 2022. https://doi.org/10.1371/journal.pgen.1010226."},"publisher":"Public Library of Science","abstract":[{"text":"Polyploidization may precipitate dramatic changes to the genome, including chromosome rearrangements, gene loss, and changes in gene expression. In dioecious plants, the sex-determining mechanism may also be disrupted by polyploidization, with the potential evolution of hermaphroditism. However, while dioecy appears to have persisted through a ploidy transition in some species, it is unknown whether the newly formed polyploid maintained its sex-determining system uninterrupted, or whether dioecy re-evolved after a period of hermaphroditism. Here, we develop a bioinformatic pipeline using RNA-sequencing data from natural populations to demonstrate that the allopolyploid plant Mercurialis canariensis directly inherited its sex-determining region from one of its diploid progenitor species, M. annua, and likely remained dioecious through the transition. The sex-determining region of M. canariensis is smaller than that of its diploid progenitor, suggesting that the non-recombining region of M. annua expanded subsequent to the polyploid origin of M. canariensis. Homeologous pairs show partial sexual subfunctionalization. We discuss the possibility that gene duplicates created by polyploidization might contribute to resolving sexual antagonism.","lang":"eng"}],"has_accepted_license":"1","date_published":"2022-07-06T00:00:00Z","quality_controlled":"1","department":[{"_id":"BeVi"}],"month":"07","issue":"7","oa_version":"Published Version","acknowledgement":"JRP was supported by the Swiss National Science Foundation (https://www.snf.ch/en), Sinergia grant 26073998. BV was supported by the European Research Council (https://erc.europa.eu/) under the European Union’s Horizon 2020 research and innovation program, grant number 715257. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.\r\nPlants were grown in Lausanne by Aline Revel, and RNA extraction and library preparation were performed by Dessislava Savova Bianchi. All sequencing and the IsoSeq3 analysis were carried out by Center for Integrative Genomics at the University of Lausanne. All other computational analyses were performed on the server at IST Austria.","article_type":"original","language":[{"iso":"eng"}],"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"isi":1,"status":"public","doi":"10.1371/journal.pgen.1010226","_id":"11703","volume":18,"date_updated":"2025-04-14T07:41:20Z","date_created":"2022-07-31T22:01:48Z","author":[{"id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A","first_name":"Melissa A","last_name":"Toups","orcid":"0000-0002-9752-7380"},{"first_name":"Beatriz","orcid":"0000-0002-4579-8306","last_name":"Vicoso","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Pannell, John R.","first_name":"John R.","last_name":"Pannell"}],"day":"06","pmid":1,"ec_funded":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"ddc":["570"],"project":[{"name":"Prevalence and Influence of Sexual Antagonism on Genome Evolution","grant_number":"715257","_id":"250BDE62-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"publication_identifier":{"eissn":["1553-7404"]},"article_processing_charge":"No","external_id":{"isi":["000886643100006"],"pmid":["35793353"]},"file":[{"content_type":"application/pdf","relation":"main_file","file_size":1620272,"success":1,"checksum":"aa4c137f82635e700856c359dccfaa0a","file_id":"11708","access_level":"open_access","date_created":"2022-08-01T07:49:25Z","date_updated":"2022-08-01T07:49:25Z","creator":"dernst","file_name":"2022_PLoSGenetics_Toups.pdf"}],"scopus_import":"1","publication":"PLoS Genetics","article_number":"e1010226","corr_author":"1","file_date_updated":"2022-08-01T07:49:25Z","publication_status":"published","year":"2022","intvolume":" 18"},{"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"ec_funded":1,"publication_identifier":{"issn":["1943-2631"]},"project":[{"name":"Prevalence and Influence of Sexual Antagonism on Genome Evolution","call_identifier":"H2020","_id":"250BDE62-B435-11E9-9278-68D0E5697425","grant_number":"715257"},{"grant_number":"F8810","_id":"34ae1506-11ca-11ed-8bc3-c14f4c474396","name":"The highjacking of meiosis for asexual reproduction"}],"ddc":["570"],"related_material":{"record":[{"status":"public","id":"11653","relation":"research_data"},{"status":"public","id":"19386","relation":"dissertation_contains"}]},"day":"01","pmid":1,"author":[{"full_name":"Elkrewi, Marwan N","id":"0B46FACA-A8E1-11E9-9BD3-79D1E5697425","last_name":"Elkrewi","orcid":"0000-0002-5328-7231","first_name":"Marwan N"},{"id":"5eba06f4-97d8-11ed-9f8f-d826ebdd9434","full_name":"Khauratovich, Uladzislava","first_name":"Uladzislava","last_name":"Khauratovich"},{"full_name":"Toups, Melissa A","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","first_name":"Melissa A","orcid":"0000-0002-9752-7380","last_name":"Toups"},{"id":"57854184-AAE0-11E9-8D04-98D6E5697425","full_name":"Bett, Vincent K","last_name":"Bett","first_name":"Vincent K"},{"first_name":"Andrea","last_name":"Mrnjavac","id":"353FAC84-AE61-11E9-8BFC-00D3E5697425","full_name":"Mrnjavac, Andrea"},{"id":"2A0848E2-F248-11E8-B48F-1D18A9856A87","full_name":"Macon, Ariana","first_name":"Ariana","last_name":"Macon"},{"full_name":"Fraisse, Christelle","id":"32DF5794-F248-11E8-B48F-1D18A9856A87","last_name":"Fraisse","orcid":"0000-0001-8441-5075","first_name":"Christelle"},{"full_name":"Sax, Luca","id":"701c5602-97d8-11ed-96b5-b52773c70189","last_name":"Sax","first_name":"Luca"},{"first_name":"Ann K","orcid":"0000-0001-8871-4961","last_name":"Huylmans","id":"4C0A3874-F248-11E8-B48F-1D18A9856A87","full_name":"Huylmans, Ann K"},{"full_name":"Hontoria, Francisco","first_name":"Francisco","last_name":"Hontoria"},{"first_name":"Beatriz","orcid":"0000-0002-4579-8306","last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","full_name":"Vicoso, Beatriz"}],"acknowledged_ssus":[{"_id":"ScienComp"}],"file_date_updated":"2023-01-30T08:59:58Z","corr_author":"1","article_number":"iyac123","intvolume":" 222","publication_status":"published","year":"2022","file":[{"creator":"dernst","file_name":"2022_Genetics_Elkrewi.pdf","date_updated":"2023-01-30T08:59:58Z","date_created":"2023-01-30T08:59:58Z","access_level":"open_access","file_id":"12440","checksum":"f79ff5383e882ea3f95f3da47a78029d","success":1,"file_size":1347136,"relation":"main_file","content_type":"application/pdf"}],"external_id":{"isi":["000850270300001"],"pmid":["35977389"]},"article_processing_charge":"No","publication":"Genetics","scopus_import":"1","abstract":[{"text":"Eurasian brine shrimp (genus Artemia) have closely related sexual and asexual lineages of parthenogenetic females, which produce rare males at low frequencies. Although they are known to have ZW chromosomes, these are not well characterized, and it is unclear whether they are shared across the clade. Furthermore, the underlying genetic architecture of the transmission of asexuality, which can occur when rare males mate with closely related sexual females, is not well understood. We produced a chromosome-level assembly for the sexual Eurasian species Artemia sinica and characterized in detail the pair of sex chromosomes of this species. We combined this new assembly with short-read genomic data for the sexual species Artemia sp. Kazakhstan and several asexual lineages of Artemia parthenogenetica, allowing us to perform an in-depth characterization of sex-chromosome evolution across the genus. We identified a small differentiated region of the ZW pair that is shared by all sexual and asexual lineages, supporting the shared ancestry of the sex chromosomes. We also inferred that recombination suppression has spread to larger sections of the chromosome independently in the American and Eurasian lineages. Finally, we took advantage of a rare male, which we backcrossed to sexual females, to explore the genetic basis of asexuality. Our results suggest that parthenogenesis is likely partly controlled by a locus on the Z chromosome, highlighting the interplay between sex determination and asexuality.","lang":"eng"}],"publisher":"Oxford University Press","department":[{"_id":"BeVi"}],"quality_controlled":"1","date_published":"2022-10-01T00:00:00Z","has_accepted_license":"1","type":"journal_article","title":"ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp","citation":{"apa":"Elkrewi, M. N., Khauratovich, U., Toups, M. A., Bett, V. K., Mrnjavac, A., Macon, A., … Vicoso, B. (2022). ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp. Genetics. Oxford University Press. https://doi.org/10.1093/genetics/iyac123","mla":"Elkrewi, Marwan N., et al. “ZW Sex-Chromosome Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.” Genetics, vol. 222, no. 2, iyac123, Oxford University Press, 2022, doi:10.1093/genetics/iyac123.","short":"M.N. Elkrewi, U. Khauratovich, M.A. Toups, V.K. Bett, A. Mrnjavac, A. Macon, C. Fraisse, L. Sax, A.K. Huylmans, F. Hontoria, B. Vicoso, Genetics 222 (2022).","ieee":"M. N. Elkrewi et al., “ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp,” Genetics, vol. 222, no. 2. Oxford University Press, 2022.","chicago":"Elkrewi, Marwan N, Uladzislava Khauratovich, Melissa A Toups, Vincent K Bett, Andrea Mrnjavac, Ariana Macon, Christelle Fraisse, et al. “ZW Sex-Chromosome Evolution and Contagious Parthenogenesis in Artemia Brine Shrimp.” Genetics. Oxford University Press, 2022. https://doi.org/10.1093/genetics/iyac123.","ama":"Elkrewi MN, Khauratovich U, Toups MA, et al. ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp. Genetics. 2022;222(2). doi:10.1093/genetics/iyac123","ista":"Elkrewi MN, Khauratovich U, Toups MA, Bett VK, Mrnjavac A, Macon A, Fraisse C, Sax L, Huylmans AK, Hontoria F, Vicoso B. 2022. ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp. Genetics. 222(2), iyac123."},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"language":[{"iso":"eng"}],"keyword":["Genetics"],"article_type":"original","date_created":"2023-01-16T09:56:10Z","volume":222,"date_updated":"2026-05-26T22:31:21Z","_id":"12248","doi":"10.1093/genetics/iyac123","isi":1,"status":"public","month":"10","oa_version":"Published Version","acknowledgement":"This work was supported by the European Research Council under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 715257) and by the Austrian Science Foundation (FWF SFB F88-10).\r\nWe thank the Vicoso group for comments on the manuscript and the ISTA Scientific computing team and the Vienna Biocenter Sequencing facility for technical support.","issue":"2"},{"has_accepted_license":"1","date_published":"2020-11-01T00:00:00Z","quality_controlled":"1","department":[{"_id":"BeVi"}],"publisher":"Wiley","abstract":[{"lang":"eng","text":"Sewall Wright developed FST for describing population differentiation and it has since been extended to many novel applications, including the detection of homomorphic sex chromosomes. However, there has been confusion regarding the expected estimate of FST for a fixed difference between the X‐ and Y‐chromosome when comparing males and females. Here, we attempt to resolve this confusion by contrasting two common FST estimators and explain why they yield different estimates when applied to the case of sex chromosomes. We show that this difference is true for many allele frequencies, but the situation characterized by fixed differences between the X‐ and Y‐chromosome is among the most extreme. To avoid additional confusion, we recommend that all authors using FST clearly state which estimator of FST their work uses."}],"citation":{"ista":"Gammerdinger WJ, Toups MA, Vicoso B. 2020. Disagreement in FST estimators: A case study from sex chromosomes. Molecular Ecology Resources. 20(6), 1517–1525.","ama":"Gammerdinger WJ, Toups MA, Vicoso B. Disagreement in FST estimators: A case study from sex chromosomes. Molecular Ecology Resources. 2020;20(6):1517-1525. doi:10.1111/1755-0998.13210","chicago":"Gammerdinger, William J, Melissa A Toups, and Beatriz Vicoso. “Disagreement in FST Estimators: A Case Study from Sex Chromosomes.” Molecular Ecology Resources. Wiley, 2020. https://doi.org/10.1111/1755-0998.13210.","ieee":"W. J. Gammerdinger, M. A. Toups, and B. Vicoso, “Disagreement in FST estimators: A case study from sex chromosomes,” Molecular Ecology Resources, vol. 20, no. 6. Wiley, pp. 1517–1525, 2020.","short":"W.J. Gammerdinger, M.A. Toups, B. Vicoso, Molecular Ecology Resources 20 (2020) 1517–1525.","mla":"Gammerdinger, William J., et al. “Disagreement in FST Estimators: A Case Study from Sex Chromosomes.” Molecular Ecology Resources, vol. 20, no. 6, Wiley, 2020, pp. 1517–25, doi:10.1111/1755-0998.13210.","apa":"Gammerdinger, W. J., Toups, M. A., & Vicoso, B. (2020). Disagreement in FST estimators: A case study from sex chromosomes. Molecular Ecology Resources. Wiley. https://doi.org/10.1111/1755-0998.13210"},"title":"Disagreement in FST estimators: A case study from sex chromosomes","type":"journal_article","isi":1,"status":"public","_id":"8099","doi":"10.1111/1755-0998.13210","date_updated":"2025-04-15T08:18:38Z","volume":20,"date_created":"2020-07-07T08:56:16Z","article_type":"original","language":[{"iso":"eng"}],"oa":1,"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","issue":"6","oa_version":"Published Version","month":"11","page":"1517-1525","ddc":["570"],"project":[{"name":"ISTplus - Postdoctoral Fellowships","grant_number":"754411","_id":"260C2330-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"},{"name":"Sex chromosome evolution under male- and female- heterogamety","grant_number":"P28842-B22","_id":"250ED89C-B435-11E9-9278-68D0E5697425","call_identifier":"FWF"}],"publication_identifier":{"issn":["1755-098X"],"eissn":["1755-0998"]},"ec_funded":1,"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"author":[{"last_name":"Gammerdinger","orcid":"0000-0001-9638-1220","first_name":"William J","id":"3A7E01BC-F248-11E8-B48F-1D18A9856A87","full_name":"Gammerdinger, William J"},{"orcid":"0000-0002-9752-7380","last_name":"Toups","first_name":"Melissa A","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A"},{"first_name":"Beatriz","orcid":"0000-0002-4579-8306","last_name":"Vicoso","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"}],"day":"01","pmid":1,"publication_status":"published","year":"2020","intvolume":" 20","corr_author":"1","file_date_updated":"2020-11-26T11:46:43Z","scopus_import":"1","publication":"Molecular Ecology Resources","external_id":{"pmid":["32543001"],"isi":["000545451200001"]},"article_processing_charge":"Yes (via OA deal)","file":[{"content_type":"application/pdf","relation":"main_file","success":1,"file_size":820428,"checksum":"3d87ebb8757dcd504f20c618b72e6575","file_id":"8814","access_level":"open_access","date_updated":"2020-11-26T11:46:43Z","date_created":"2020-11-26T11:46:43Z","file_name":"2020_MolecularEcologyRes_Gammerdinger.pdf","creator":"dernst"}]},{"day":"01","related_material":{"record":[{"status":"public","id":"6060","relation":"popular_science"}]},"author":[{"full_name":"Huylmans, Ann K","id":"4C0A3874-F248-11E8-B48F-1D18A9856A87","first_name":"Ann K","last_name":"Huylmans","orcid":"0000-0001-8871-4961"},{"first_name":"Melissa A","last_name":"Toups","orcid":"0000-0002-9752-7380","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A"},{"last_name":"Macon","first_name":"Ariana","full_name":"Macon, Ariana","id":"2A0848E2-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Gammerdinger, William J","id":"3A7E01BC-F248-11E8-B48F-1D18A9856A87","last_name":"Gammerdinger","orcid":"0000-0001-9638-1220","first_name":"William J"},{"orcid":"0000-0002-4579-8306","last_name":"Vicoso","first_name":"Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87","full_name":"Vicoso, Beatriz"}],"project":[{"name":"Prevalence and Influence of Sexual Antagonism on Genome Evolution","grant_number":"715257","_id":"250BDE62-B435-11E9-9278-68D0E5697425","call_identifier":"H2020"}],"publication_identifier":{"eissn":["1759-6653"]},"ddc":["570"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"ec_funded":1,"publication":"Genome biology and evolution","scopus_import":"1","file":[{"access_level":"open_access","file_id":"6446","file_name":"2019_GBE_Huylmans.pdf","creator":"dernst","date_created":"2019-05-14T08:29:38Z","date_updated":"2020-07-14T12:47:29Z","relation":"main_file","content_type":"application/pdf","checksum":"7d0ede297b6741f3dc89cd59017c7642","file_size":1256303}],"external_id":{"isi":["000476569800003"]},"article_processing_charge":"No","intvolume":" 11","year":"2019","publication_status":"published","acknowledged_ssus":[{"_id":"ScienComp"}],"file_date_updated":"2020-07-14T12:47:29Z","citation":{"ama":"Huylmans AK, Toups MA, Macon A, Gammerdinger WJ, Vicoso B. Sex-biased gene expression and dosage compensation on the Artemia franciscana Z-chromosome. Genome biology and evolution. 2019;11(4):1033-1044. doi:10.1093/gbe/evz053","ista":"Huylmans AK, Toups MA, Macon A, Gammerdinger WJ, Vicoso B. 2019. Sex-biased gene expression and dosage compensation on the Artemia franciscana Z-chromosome. Genome biology and evolution. 11(4), 1033–1044.","mla":"Huylmans, Ann K., et al. “Sex-Biased Gene Expression and Dosage Compensation on the Artemia Franciscana Z-Chromosome.” Genome Biology and Evolution, vol. 11, no. 4, Oxford University Press, 2019, pp. 1033–44, doi:10.1093/gbe/evz053.","apa":"Huylmans, A. K., Toups, M. A., Macon, A., Gammerdinger, W. J., & Vicoso, B. (2019). Sex-biased gene expression and dosage compensation on the Artemia franciscana Z-chromosome. Genome Biology and Evolution. Oxford University Press. https://doi.org/10.1093/gbe/evz053","ieee":"A. K. Huylmans, M. A. Toups, A. Macon, W. J. Gammerdinger, and B. Vicoso, “Sex-biased gene expression and dosage compensation on the Artemia franciscana Z-chromosome,” Genome biology and evolution, vol. 11, no. 4. Oxford University Press, pp. 1033–1044, 2019.","short":"A.K. Huylmans, M.A. Toups, A. Macon, W.J. Gammerdinger, B. Vicoso, Genome Biology and Evolution 11 (2019) 1033–1044.","chicago":"Huylmans, Ann K, Melissa A Toups, Ariana Macon, William J Gammerdinger, and Beatriz Vicoso. “Sex-Biased Gene Expression and Dosage Compensation on the Artemia Franciscana Z-Chromosome.” Genome Biology and Evolution. Oxford University Press, 2019. https://doi.org/10.1093/gbe/evz053."},"type":"journal_article","title":"Sex-biased gene expression and dosage compensation on the Artemia franciscana Z-chromosome","department":[{"_id":"BeVi"}],"quality_controlled":"1","date_published":"2019-04-01T00:00:00Z","has_accepted_license":"1","abstract":[{"text":"Males and females of Artemia franciscana, a crustacean commonly used in the aquarium trade, are highly dimorphic. Sex is determined by a pair of ZW chromosomes, but the nature and extent of differentiation of these chromosomes is unknown. Here, we characterize the Z chromosome by detecting genomic regions that show lower genomic coverage in female than in male samples, and regions that harbor an excess of female-specific SNPs. We detect many Z-specific genes, which no longer have homologs on the W, but also Z-linked genes that appear to have diverged very recently from their existing W-linked homolog. We assess patterns of male and female expression in two tissues with extensive morphological dimorphism, gonads, and heads. In agreement with their morphology, sex-biased expression is common in both tissues. Interestingly, the Z chromosome is not enriched for sex-biased genes, and seems to in fact have a mechanism of dosage compensation that leads to equal expression in males and in females. Both of these patterns are contrary to most ZW systems studied so far, making A. franciscana an excellent model for investigating the interplay between the evolution of sexual dimorphism and dosage compensation, as well as Z chromosome evolution in general.","lang":"eng"}],"publisher":"Oxford University Press","oa_version":"Published Version","issue":"4","page":"1033-1044","month":"04","date_created":"2019-05-13T07:58:38Z","volume":11,"date_updated":"2025-04-14T07:41:21Z","doi":"10.1093/gbe/evz053","_id":"6418","isi":1,"status":"public","user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","oa":1,"language":[{"iso":"eng"}]},{"publication_status":"published","year":"2019","intvolume":" 123","scopus_import":"1","publication":"Annals of botany","external_id":{"pmid":["30289430"],"isi":["000493043500004"]},"article_processing_charge":"No","publication_identifier":{"eissn":["1095-8290"],"issn":["0305-7364"]},"author":[{"full_name":"Cossard, Guillaume","last_name":"Cossard","first_name":"Guillaume"},{"id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A","orcid":"0000-0002-9752-7380","last_name":"Toups","first_name":"Melissa A"},{"last_name":"Pannell","first_name":"John ","full_name":"Pannell, John "}],"day":"04","pmid":1,"_id":"6710","doi":"10.1093/aob/mcy183","status":"public","isi":1,"date_created":"2019-07-28T21:59:15Z","date_updated":"2023-08-29T06:42:22Z","volume":123,"article_type":"original","oa":1,"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"issue":"7","oa_version":"Published Version","month":"06","page":"1119-1131","main_file_link":[{"url":"https://doi.org/10.1093/aob/mcy183","open_access":"1"}],"date_published":"2019-06-04T00:00:00Z","department":[{"_id":"BeVi"}],"quality_controlled":"1","abstract":[{"lang":"eng","text":"Sexual dimorphism in morphology, physiology or life history traits is common in dioecious plants at reproductive maturity, but it is typically inconspicuous or absent in juveniles. Although plants of different sexes probably begin to diverge in gene expression both before their reproduction commences and before dimorphism becomes readily apparent, to our knowledge transcriptome-wide differential gene expression has yet to be demonstrated for any angiosperm species."}],"publisher":"Oxford University Press","citation":{"ista":"Cossard G, Toups MA, Pannell J. 2019. Sexual dimorphism and rapid turnover in gene expression in pre-reproductive seedlings of a dioecious herb. Annals of botany. 123(7), 1119–1131.","ama":"Cossard G, Toups MA, Pannell J. Sexual dimorphism and rapid turnover in gene expression in pre-reproductive seedlings of a dioecious herb. Annals of botany. 2019;123(7):1119-1131. doi:10.1093/aob/mcy183","chicago":"Cossard, Guillaume, Melissa A Toups, and John Pannell. “Sexual Dimorphism and Rapid Turnover in Gene Expression in Pre-Reproductive Seedlings of a Dioecious Herb.” Annals of Botany. Oxford University Press, 2019. https://doi.org/10.1093/aob/mcy183.","ieee":"G. Cossard, M. A. Toups, and J. Pannell, “Sexual dimorphism and rapid turnover in gene expression in pre-reproductive seedlings of a dioecious herb,” Annals of botany, vol. 123, no. 7. Oxford University Press, pp. 1119–1131, 2019.","apa":"Cossard, G., Toups, M. A., & Pannell, J. (2019). Sexual dimorphism and rapid turnover in gene expression in pre-reproductive seedlings of a dioecious herb. Annals of Botany. Oxford University Press. https://doi.org/10.1093/aob/mcy183","mla":"Cossard, Guillaume, et al. “Sexual Dimorphism and Rapid Turnover in Gene Expression in Pre-Reproductive Seedlings of a Dioecious Herb.” Annals of Botany, vol. 123, no. 7, Oxford University Press, 2019, pp. 1119–31, doi:10.1093/aob/mcy183.","short":"G. Cossard, M.A. Toups, J. Pannell, Annals of Botany 123 (2019) 1119–1131."},"type":"journal_article","title":"Sexual dimorphism and rapid turnover in gene expression in pre-reproductive seedlings of a dioecious herb"},{"project":[{"name":"Prevalence and Influence of Sexual Antagonism on Genome Evolution","_id":"250BDE62-B435-11E9-9278-68D0E5697425","call_identifier":"H2020","grant_number":"715257"}],"publication_identifier":{"eissn":["1943-2631"],"issn":["0016-6731"]},"ec_funded":1,"day":"01","pmid":1,"author":[{"first_name":"Paris","last_name":"Veltsos","full_name":"Veltsos, Paris"},{"first_name":"Kate E.","last_name":"Ridout","full_name":"Ridout, Kate E."},{"last_name":"Toups","orcid":"0000-0002-9752-7380","first_name":"Melissa A","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A"},{"full_name":"González-Martínez, Santiago C.","last_name":"González-Martínez","first_name":"Santiago C."},{"last_name":"Muyle","first_name":"Aline","full_name":"Muyle, Aline"},{"first_name":"Olivier","last_name":"Emery","full_name":"Emery, Olivier"},{"first_name":"Pasi","last_name":"Rastas","full_name":"Rastas, Pasi"},{"first_name":"Vojtech","last_name":"Hudzieczek","full_name":"Hudzieczek, Vojtech"},{"full_name":"Hobza, Roman","first_name":"Roman","last_name":"Hobza"},{"first_name":"Boris","last_name":"Vyskot","full_name":"Vyskot, Boris"},{"full_name":"Marais, Gabriel A. B.","first_name":"Gabriel A. B.","last_name":"Marais"},{"full_name":"Filatov, Dmitry A.","last_name":"Filatov","first_name":"Dmitry A."},{"full_name":"Pannell, John R.","first_name":"John R.","last_name":"Pannell"}],"intvolume":" 212","publication_status":"published","year":"2019","publication":"Genetics","scopus_import":"1","external_id":{"isi":["000474809300015"],"pmid":["31113811"]},"article_processing_charge":"No","quality_controlled":"1","department":[{"_id":"BeVi"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1534/genetics.119.302045"}],"date_published":"2019-07-01T00:00:00Z","publisher":"Genetics Society of America","abstract":[{"text":"Suppressed recombination allows divergence between homologous sex chromosomes and the functionality of their genes. Here, we reveal patterns of the earliest stages of sex-chromosome evolution in the diploid dioecious herb Mercurialis annua on the basis of cytological analysis, de novo genome assembly and annotation, genetic mapping, exome resequencing of natural populations, and transcriptome analysis. The genome assembly contained 34,105 expressed genes, of which 10,076 were assigned to linkage groups. Genetic mapping and exome resequencing of individuals across the species range both identified the largest linkage group, LG1, as the sex chromosome. Although the sex chromosomes of M. annua are karyotypically homomorphic, we estimate that about one-third of the Y chromosome, containing 568 transcripts and spanning 22.3 cM in the corresponding female map, has ceased recombining. Nevertheless, we found limited evidence for Y-chromosome degeneration in terms of gene loss and pseudogenization, and most X- and Y-linked genes appear to have diverged in the period subsequent to speciation between M. annua and its sister species M. huetii, which shares the same sex-determining region. Taken together, our results suggest that the M. annua Y chromosome has at least two evolutionary strata: a small old stratum shared with M. huetii, and a more recent larger stratum that is probably unique to M. annua and that stopped recombining ∼1 MYA. Patterns of gene expression within the nonrecombining region are consistent with the idea that sexually antagonistic selection may have played a role in favoring suppressed recombination.","lang":"eng"}],"citation":{"chicago":"Veltsos, Paris, Kate E. Ridout, Melissa A Toups, Santiago C. González-Martínez, Aline Muyle, Olivier Emery, Pasi Rastas, et al. “Early Sex-Chromosome Evolution in the Diploid Dioecious Plant Mercurialis Annua.” Genetics. Genetics Society of America, 2019. https://doi.org/10.1534/genetics.119.302045.","short":"P. Veltsos, K.E. Ridout, M.A. Toups, S.C. González-Martínez, A. Muyle, O. Emery, P. Rastas, V. Hudzieczek, R. Hobza, B. Vyskot, G.A.B. Marais, D.A. Filatov, J.R. Pannell, Genetics 212 (2019) 815–835.","ieee":"P. Veltsos et al., “Early sex-chromosome evolution in the diploid dioecious plant Mercurialis annua,” Genetics, vol. 212, no. 3. Genetics Society of America, pp. 815–835, 2019.","apa":"Veltsos, P., Ridout, K. E., Toups, M. A., González-Martínez, S. C., Muyle, A., Emery, O., … Pannell, J. R. (2019). Early sex-chromosome evolution in the diploid dioecious plant Mercurialis annua. Genetics. Genetics Society of America. https://doi.org/10.1534/genetics.119.302045","mla":"Veltsos, Paris, et al. “Early Sex-Chromosome Evolution in the Diploid Dioecious Plant Mercurialis Annua.” Genetics, vol. 212, no. 3, Genetics Society of America, 2019, pp. 815–35, doi:10.1534/genetics.119.302045.","ista":"Veltsos P, Ridout KE, Toups MA, González-Martínez SC, Muyle A, Emery O, Rastas P, Hudzieczek V, Hobza R, Vyskot B, Marais GAB, Filatov DA, Pannell JR. 2019. Early sex-chromosome evolution in the diploid dioecious plant Mercurialis annua. Genetics. 212(3), 815–835.","ama":"Veltsos P, Ridout KE, Toups MA, et al. Early sex-chromosome evolution in the diploid dioecious plant Mercurialis annua. Genetics. 2019;212(3):815-835. doi:10.1534/genetics.119.302045"},"title":"Early sex-chromosome evolution in the diploid dioecious plant Mercurialis annua","type":"journal_article","volume":212,"date_updated":"2025-04-14T07:41:20Z","date_created":"2020-01-29T16:15:44Z","isi":1,"status":"public","_id":"7400","doi":"10.1534/genetics.119.302045","language":[{"iso":"eng"}],"oa":1,"user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","article_type":"original","oa_version":"Published Version","issue":"3","page":"815-835","month":"07"},{"pmid":1,"day":"01","author":[{"first_name":"Melissa A","last_name":"Toups","orcid":"0000-0002-9752-7380","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A"},{"full_name":"Rodrigues, Nicolas","last_name":"Rodrigues","first_name":"Nicolas"},{"full_name":"Perrin, Nicolas","first_name":"Nicolas","last_name":"Perrin"},{"first_name":"Mark","last_name":"Kirkpatrick","full_name":"Kirkpatrick, Mark"}],"publication_identifier":{"eissn":["1365-294X"],"issn":["0962-1083"]},"publication":"Molecular Ecology","external_id":{"pmid":["30576024"],"isi":["000468200800004"]},"article_processing_charge":"No","intvolume":" 28","year":"2019","publication_status":"published","citation":{"ama":"Toups MA, Rodrigues N, Perrin N, Kirkpatrick M. A reciprocal translocation radically reshapes sex‐linked inheritance in the common frog. Molecular Ecology. 2019;28(8):1877-1889. doi:10.1111/mec.14990","ista":"Toups MA, Rodrigues N, Perrin N, Kirkpatrick M. 2019. A reciprocal translocation radically reshapes sex‐linked inheritance in the common frog. Molecular Ecology. 28(8), 1877–1889.","mla":"Toups, Melissa A., et al. “A Reciprocal Translocation Radically Reshapes Sex‐linked Inheritance in the Common Frog.” Molecular Ecology, vol. 28, no. 8, Wiley, 2019, pp. 1877–89, doi:10.1111/mec.14990.","short":"M.A. Toups, N. Rodrigues, N. Perrin, M. Kirkpatrick, Molecular Ecology 28 (2019) 1877–1889.","apa":"Toups, M. A., Rodrigues, N., Perrin, N., & Kirkpatrick, M. (2019). A reciprocal translocation radically reshapes sex‐linked inheritance in the common frog. Molecular Ecology. Wiley. https://doi.org/10.1111/mec.14990","ieee":"M. A. Toups, N. Rodrigues, N. Perrin, and M. Kirkpatrick, “A reciprocal translocation radically reshapes sex‐linked inheritance in the common frog,” Molecular Ecology, vol. 28, no. 8. Wiley, pp. 1877–1889, 2019.","chicago":"Toups, Melissa A, Nicolas Rodrigues, Nicolas Perrin, and Mark Kirkpatrick. “A Reciprocal Translocation Radically Reshapes Sex‐linked Inheritance in the Common Frog.” Molecular Ecology. Wiley, 2019. https://doi.org/10.1111/mec.14990."},"type":"journal_article","title":"A reciprocal translocation radically reshapes sex‐linked inheritance in the common frog","department":[{"_id":"BeVi"}],"quality_controlled":"1","date_published":"2019-04-01T00:00:00Z","abstract":[{"text":"X and Y chromosomes can diverge when rearrangements block recombination between them. Here we present the first genomic view of a reciprocal translocation that causes two physically unconnected pairs of chromosomes to be coinherited as sex chromosomes. In a population of the common frog (Rana temporaria), both pairs of X and Y chromosomes show extensive sequence differentiation, but not degeneration of the Y chromosomes. A new method based on gene trees shows both chromosomes are sex‐linked. Furthermore, the gene trees from the two Y chromosomes have identical topologies, showing they have been coinherited since the reciprocal translocation occurred. Reciprocal translocations can thus reshape sex linkage on a much greater scale compared with inversions, the type of rearrangement that is much better known in sex chromosome evolution, and they can greatly amplify the power of sexually antagonistic selection to drive genomic rearrangement. Two more populations show evidence of other rearrangements, suggesting that this species has unprecedented structural polymorphism in its sex chromosomes.","lang":"eng"}],"publisher":"Wiley","oa_version":"None","issue":"8","page":"1877-1889","month":"04","date_created":"2020-01-30T10:33:05Z","date_updated":"2023-09-06T15:00:13Z","volume":28,"doi":"10.1111/mec.14990","_id":"7421","isi":1,"status":"public","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","language":[{"iso":"eng"}],"article_type":"original"},{"publist_id":"7714","author":[{"first_name":"Wen","last_name":"Ma","full_name":"Ma, Wen"},{"full_name":"Veltsos, Paris","last_name":"Veltsos","first_name":"Paris"},{"last_name":"Toups","orcid":"0000-0002-9752-7380","first_name":"Melissa A","id":"4E099E4E-F248-11E8-B48F-1D18A9856A87","full_name":"Toups, Melissa A"},{"full_name":"Rodrigues, Nicolas","first_name":"Nicolas","last_name":"Rodrigues"},{"first_name":"Roberto","last_name":"Sermier","full_name":"Sermier, Roberto"},{"first_name":"Daniel","last_name":"Jeffries","full_name":"Jeffries, Daniel"},{"full_name":"Perrin, Nicolas","first_name":"Nicolas","last_name":"Perrin"}],"day":"12","ddc":["570"],"tmp":{"legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","short":"CC BY (4.0)"},"scopus_import":"1","publication":"Genes","external_id":{"isi":["000436494200026"]},"article_processing_charge":"No","file":[{"file_size":3985796,"checksum":"423069beb1cd3cdd25bf3f464b38f1d7","content_type":"application/pdf","relation":"main_file","date_created":"2019-02-01T07:52:28Z","date_updated":"2020-07-14T12:45:22Z","creator":"dernst","file_name":"2018_Genes_Ma.pdf","file_id":"5905","access_level":"open_access"}],"publication_status":"published","year":"2018","intvolume":" 9","article_number":"294","file_date_updated":"2020-07-14T12:45:22Z","citation":{"chicago":"Ma, Wen, Paris Veltsos, Melissa A Toups, Nicolas Rodrigues, Roberto Sermier, Daniel Jeffries, and Nicolas Perrin. “Tissue Specificity and Dynamics of Sex Biased Gene Expression in a Common Frog Population with Differentiated, yet Homomorphic, Sex Chromosomes.” Genes. MDPI, 2018. https://doi.org/10.3390/genes9060294.","short":"W. Ma, P. Veltsos, M.A. Toups, N. Rodrigues, R. Sermier, D. Jeffries, N. Perrin, Genes 9 (2018).","mla":"Ma, Wen, et al. “Tissue Specificity and Dynamics of Sex Biased Gene Expression in a Common Frog Population with Differentiated, yet Homomorphic, Sex Chromosomes.” Genes, vol. 9, no. 6, 294, MDPI, 2018, doi:10.3390/genes9060294.","ieee":"W. Ma et al., “Tissue specificity and dynamics of sex biased gene expression in a common frog population with differentiated, yet homomorphic, sex chromosomes,” Genes, vol. 9, no. 6. MDPI, 2018.","apa":"Ma, W., Veltsos, P., Toups, M. A., Rodrigues, N., Sermier, R., Jeffries, D., & Perrin, N. (2018). Tissue specificity and dynamics of sex biased gene expression in a common frog population with differentiated, yet homomorphic, sex chromosomes. Genes. MDPI. https://doi.org/10.3390/genes9060294","ista":"Ma W, Veltsos P, Toups MA, Rodrigues N, Sermier R, Jeffries D, Perrin N. 2018. Tissue specificity and dynamics of sex biased gene expression in a common frog population with differentiated, yet homomorphic, sex chromosomes. Genes. 9(6), 294.","ama":"Ma W, Veltsos P, Toups MA, et al. Tissue specificity and dynamics of sex biased gene expression in a common frog population with differentiated, yet homomorphic, sex chromosomes. Genes. 2018;9(6). doi:10.3390/genes9060294"},"type":"journal_article","title":"Tissue specificity and dynamics of sex biased gene expression in a common frog population with differentiated, yet homomorphic, sex chromosomes","date_published":"2018-06-12T00:00:00Z","has_accepted_license":"1","department":[{"_id":"BeVi"}],"quality_controlled":"1","abstract":[{"text":"Sex-biased genes are central to the study of sexual selection, sexual antagonism, and sex chromosome evolution. We describe a comprehensive de novo assembled transcriptome in the common frog Rana temporaria based on five developmental stages and three adult tissues from both sexes, obtained from a population with karyotypically homomorphic but genetically differentiated sex chromosomes. This allows the study of sex-biased gene expression throughout development, and its effect on the rate of gene evolution while accounting for pleiotropic expression, which is known to negatively correlate with the evolutionary rate. Overall, sex-biased genes had little overlap among developmental stages and adult tissues. Late developmental stages and gonad tissues had the highest numbers of stage-or tissue-specific genes. We find that pleiotropic gene expression is a better predictor than sex bias for the evolutionary rate of genes, though it often interacts with sex bias. Although genetically differentiated, the sex chromosomes were not enriched in sex-biased genes, possibly due to a very recent arrest of XY recombination. These results extend our understanding of the developmental dynamics, tissue specificity, and genomic localization of sex-biased genes.","lang":"eng"}],"publisher":"MDPI","issue":"6","oa_version":"Published Version","month":"06","doi":"10.3390/genes9060294","_id":"199","status":"public","isi":1,"date_created":"2018-12-11T11:45:09Z","volume":9,"date_updated":"2024-12-11T13:13:35Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","oa":1,"language":[{"iso":"eng"}]}]