[{"_id":"18515","project":[{"name":"Snapdragon Speciation","grant_number":"P32166","_id":"05959E1C-7A3F-11EA-A408-12923DDC885E"},{"name":"Understanding the evolution of continuous genomes","_id":"bd6958e0-d553-11ed-ba76-86eba6a76c00","grant_number":"101055327"}],"date_created":"2024-11-06T21:25:37Z","oa_version":"Published Version","file":[{"file_id":"18519","access_level":"open_access","content_type":"application/pdf","success":1,"date_updated":"2024-11-07T10:59:29Z","file_size":37019760,"date_created":"2024-11-07T10:59:29Z","checksum":"c32cf7bc75748d9c551d8eb70178bbec","relation":"main_file","file_name":"PhD_Thesis__Parvathy_071124_PDFA.pdf","creator":"psurendr"},{"file_id":"18520","access_level":"closed","date_updated":"2024-11-07T10:59:42Z","content_type":"application/zip","date_created":"2024-11-07T10:59:42Z","checksum":"4417e02d54084d89e75734e18caaa96d","file_size":41198857,"relation":"source_file","file_name":"PhD Thesis- Parvathy_071124.zip","creator":"psurendr"}],"OA_type":"gold","publication_identifier":{"issn":["2663-337X"]},"date_published":"2024-11-07T00:00:00Z","oa":1,"title":"Effect of population structure on neutral genetic variation and barriers to gene exchange","author":[{"first_name":"Parvathy","last_name":"Surendranadh","full_name":"Surendranadh, Parvathy","orcid":"0000-0001-6395-386X","id":"455235B8-F248-11E8-B48F-1D18A9856A87"}],"alternative_title":["ISTA Thesis"],"day":"07","department":[{"_id":"GradSch"},{"_id":"NiBa"}],"acknowledgement":"I also acknowledge the funding agencies Marie Curie COFUND Doctoral Fellowship,\r\nAustrian Science Fund FWF (grant P32166) and ERC (grant PR1000ERC02) for financially\r\nsupporting my research over the years.","degree_awarded":"PhD","OA_place":"publisher","user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_updated":"2026-04-07T12:56:52Z","tmp":{"short":"CC BY-NC-SA (4.0)","name":"Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International (CC BY-NC-SA 4.0)","image":"/images/cc_by_nc_sa.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-sa/4.0/legalcode"},"status":"public","type":"dissertation","corr_author":"1","publisher":"Institute of Science and Technology Austria","supervisor":[{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","last_name":"Barton","first_name":"Nicholas H"}],"publication_status":"published","has_accepted_license":"1","doi":"10.15479/at:ista:18515","abstract":[{"lang":"eng","text":"Understanding the role of evolutionary processes in shaping genetic variation has been a\r\nprimary goal in evolutionary genetics. In this regard, a key question is how genetically\r\ndistinct populations evolve in the face of gene flow, thereby generating genetic and\r\nphenotypic divergence and reproductive isolation (RI). This requires quantifying the role\r\nand relative contributions of prezygotic and postzygotic isolating mechanisms on the\r\nreduction of gene exchange between populations, and identifying regions in the genome\r\nthat mediate RI, which is often polygenic. Further, this needs distinguishing neutral and\r\nselected regions in the genome, and discerning how selection influences patterns of neutral\r\ndivergence.\r\nPopulation structure, defined as any deviation from panmixia, such as geographic distribution, movement and mating patterns of individuals, influences how genetic variation is\r\nstructured in space and shapes the neutral null model. Availability of large scale spatial\r\ngenomic datasets now enables us to detect signatures of population structure in genetic\r\ndata and infer population genetic parameters. Such inferences are crucial and have wide\r\napplications in biodiversity, conservation genetics, population management and medical\r\ngenetics. However, inferences are based on assumptions that do not always match the\r\ncomplex reality, thus leading to erroneous conclusions. Moreover, the role and interaction\r\nof heterogeneous population density and dispersal, which are ubiquitous in nature, has\r\nbeen challenging to study owing to their mathematical complexity. In such scenarios,\r\nfeedback between theory, data and simulations can prove to be useful.\r\nIn this thesis, I examine the effect of population structure on neutral genetic variation\r\nand barriers to gene exchange in hybridising populations, thereby bridging together the\r\nfields of spatial population genetics and speciation.\r\nDespite being a key concept in speciation, reproductive isolation (RI) lacks a quantitative\r\ndefinition and has been used and measured differently across different fields. Chapter 2\r\ngives a quantitative definition of RI, in terms of the effect of genetic differences on gene\r\nflow. We give analytical predictions for RI in a range of scenarios, in terms of effective migration rates for discrete populations and barrier strength for continuous populations.\r\nIn addition to this, we discuss current measures of RI and their limitations, and propose\r\nthe need for new measures that combine organismal and genetic perspectives of RI.\r\nIn chapter 3, I examine the combined effect of assortative mating, sexual selection\r\nand viability selection on RI. For this, we consider a polygenic ‘magic’ trait under a\r\nmainland-island model. We obtain novel theoretical predictions for molecular divergence\r\nin terms of effective migration rates, which bears a simple relationship to measurable\r\nfitness components of migrants and various early generation hybrids. We explore the\r\nconditions under which local adaptation can be maintained despite maladaptive gene flow\r\nand quantify the relative contributions of viability and sexual selection to genome-wide\r\nbarriers to gene flow.\r\nThe next two chapters of the thesis focus on a hybrid zone of Antirrhinum majus that\r\nconsist of two subspecies- the magenta flowered A. m. pseudomajus and the yellow\r\nflowered A.m. striatum. Previous studies have suggested that flower colour is target of\r\npollinator mediated selection and is influenced only by few genes. While these regions\r\nshow high genetic differentiation between the subspecies, the rest of the genome is seen\r\nto be well mixed. Chapter 4 examines the effects of heterogeneous population density\r\nand leptokurtic dispersal on isolation by distance and the distribution of heterozygosity\r\nby focusing on non-flower colour markers.\r\nChapter 5 analyses cline shapes and associations among 6 focal flower colour markers to\r\nunderstand how selection and dispersal maintain this hybrid zone. We see sharp coincident\r\nstepped clines at all loci and positive associations throughout the hybrid zone, contrary to\r\nthe expected patterns from diffusive gene flow. With a novel scheme of inferring dispersal\r\ncombined with multilocus simulations, we show that stepped clines do not reflect genetic\r\nbarriers to gene flow, but are rather a result of long-distance migration. This framework\r\nallows us to get realistic estimates gene flow and selection and shows how traditional cline\r\nanalysis may lead to inaccurate conclusions when assumptions of the theory are not met.\r\nOverall, this thesis investigates how different features of population structure leave\r\ndetectable signatures in genetic variation, namely in patterns of isolation by distance,\r\nlinkage disequilibrium and genetic divergence. It also highlights how effective migration\r\nrates provide useful way of analysing polygenic architectures and shed new light into\r\nhybrid zones. In doing so, I identify scenarios when simple models become insufficient\r\nand suggest possibe directions by combining genetic data with simulations."}],"citation":{"ieee":"P. Surendranadh, “Effect of population structure on neutral genetic variation and barriers to gene exchange,” Institute of Science and Technology Austria, 2024.","chicago":"Surendranadh, Parvathy. “Effect of Population Structure on Neutral Genetic Variation and Barriers to Gene Exchange.” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/at:ista:18515\">https://doi.org/10.15479/at:ista:18515</a>.","ista":"Surendranadh P. 2024. Effect of population structure on neutral genetic variation and barriers to gene exchange. Institute of Science and Technology Austria.","ama":"Surendranadh P. Effect of population structure on neutral genetic variation and barriers to gene exchange. 2024. doi:<a href=\"https://doi.org/10.15479/at:ista:18515\">10.15479/at:ista:18515</a>","short":"P. Surendranadh, Effect of Population Structure on Neutral Genetic Variation and Barriers to Gene Exchange, Institute of Science and Technology Austria, 2024.","mla":"Surendranadh, Parvathy. <i>Effect of Population Structure on Neutral Genetic Variation and Barriers to Gene Exchange</i>. Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/at:ista:18515\">10.15479/at:ista:18515</a>.","apa":"Surendranadh, P. (2024). <i>Effect of population structure on neutral genetic variation and barriers to gene exchange</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:18515\">https://doi.org/10.15479/at:ista:18515</a>"},"license":"https://creativecommons.org/licenses/by-nc-sa/4.0/","article_processing_charge":"No","file_date_updated":"2024-11-07T10:59:42Z","page":"219","month":"11","year":"2024","ddc":["576"],"acknowledged_ssus":[{"_id":"ScienComp"}],"language":[{"iso":"eng"}]},{"quality_controlled":"1","ddc":["570"],"year":"2024","language":[{"iso":"eng"}],"volume":8,"article_processing_charge":"Yes","license":"https://creativecommons.org/licenses/by-nc/4.0/","isi":1,"month":"04","file_date_updated":"2025-01-27T13:33:14Z","issue":"4","page":"575-586","scopus_import":"1","doi":"10.1093/evlett/qrae014","citation":{"apa":"Le Moan, A., Stankowski, S., Rafajlović, M., Ortega-Martinez, O., Faria, R., Butlin, R. K., &#38; Johannesson, K. (2024). Coupling of twelve putative chromosomal inversions maintains a strong barrier to gene flow between snail ecotypes. <i>Evolution Letters</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/evlett/qrae014\">https://doi.org/10.1093/evlett/qrae014</a>","mla":"Le Moan, Alan, et al. “Coupling of Twelve Putative Chromosomal Inversions Maintains a Strong Barrier to Gene Flow between Snail Ecotypes.” <i>Evolution Letters</i>, vol. 8, no. 4, Oxford University Press, 2024, pp. 575–86, doi:<a href=\"https://doi.org/10.1093/evlett/qrae014\">10.1093/evlett/qrae014</a>.","ama":"Le Moan A, Stankowski S, Rafajlović M, et al. Coupling of twelve putative chromosomal inversions maintains a strong barrier to gene flow between snail ecotypes. <i>Evolution Letters</i>. 2024;8(4):575-586. doi:<a href=\"https://doi.org/10.1093/evlett/qrae014\">10.1093/evlett/qrae014</a>","short":"A. Le Moan, S. Stankowski, M. Rafajlović, O. Ortega-Martinez, R. Faria, R.K. Butlin, K. Johannesson, Evolution Letters 8 (2024) 575–586.","ieee":"A. Le Moan <i>et al.</i>, “Coupling of twelve putative chromosomal inversions maintains a strong barrier to gene flow between snail ecotypes,” <i>Evolution Letters</i>, vol. 8, no. 4. Oxford University Press, pp. 575–586, 2024.","chicago":"Le Moan, Alan, Sean Stankowski, Marina Rafajlović, Olga Ortega-Martinez, Rui Faria, Roger K Butlin, and Kerstin Johannesson. “Coupling of Twelve Putative Chromosomal Inversions Maintains a Strong Barrier to Gene Flow between Snail Ecotypes.” <i>Evolution Letters</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/evlett/qrae014\">https://doi.org/10.1093/evlett/qrae014</a>.","ista":"Le Moan A, Stankowski S, Rafajlović M, Ortega-Martinez O, Faria R, Butlin RK, Johannesson K. 2024. Coupling of twelve putative chromosomal inversions maintains a strong barrier to gene flow between snail ecotypes. Evolution Letters. 8(4), 575–586."},"abstract":[{"text":"Chromosomal rearrangements can lead to the coupling of reproductive barriers, but whether and how they contribute to the completion of speciation remains unclear. Marine snails of the genus Littorina repeatedly form hybrid zones between populations segregating for multiple inversion arrangements, providing opportunities to study their barrier effects. Here, we analyzed 2 adjacent transects across hybrid zones between 2 ecotypes of Littorina fabalis (“large” and “dwarf”) adapted to different wave exposure conditions on a Swedish island. Applying whole-genome sequencing, we found 12 putative inversions on 9 of 17 chromosomes. Nine of the putative inversions reached near differential fixation between the 2 ecotypes, and all were in strong linkage disequilibrium. These inversions cover 20% of the genome and carry 93% of divergent single nucleotide polymorphisms (SNPs). Bimodal hybrid zones in both transects indicated that the 2 ecotypes of Littorina fabalis maintain their genetic and phenotypic integrity following contact. The bimodality reflects the strong coupling between inversion clines and the extension of the barrier effect across the whole genome. Demographic inference suggests that coupling arose during a period of allopatry and has been maintained for &amp;gt; 1,000 generations after secondary contact. Overall, this study shows that the coupling of multiple chromosomal inversions contributes to strong reproductive isolation. Notably, 2 of the putative inversions overlap with inverted genomic regions associated with ecotype differences in a closely related species (Littorina saxatilis), suggesting the same regions, with similar structural variants, repeatedly contribute to ecotype evolution in distinct species.","lang":"eng"}],"publication_status":"published","publisher":"Oxford University Press","type":"journal_article","has_accepted_license":"1","intvolume":"         8","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","status":"public","date_updated":"2025-09-09T12:05:51Z","tmp":{"short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png"},"title":"Coupling of twelve putative chromosomal inversions maintains a strong barrier to gene flow between snail ecotypes","author":[{"last_name":"Le Moan","first_name":"Alan","full_name":"Le Moan, Alan"},{"id":"43161670-5719-11EA-8025-FABC3DDC885E","last_name":"Stankowski","first_name":"Sean","full_name":"Stankowski, Sean"},{"full_name":"Rafajlović, Marina","last_name":"Rafajlović","first_name":"Marina"},{"last_name":"Ortega-Martinez","first_name":"Olga","full_name":"Ortega-Martinez, Olga"},{"first_name":"Rui","last_name":"Faria","full_name":"Faria, Rui"},{"last_name":"Butlin","first_name":"Roger K","full_name":"Butlin, Roger K"},{"full_name":"Johannesson, Kerstin","last_name":"Johannesson","first_name":"Kerstin"}],"acknowledgement":"The computations and data handling were enabled by resources provided by the Swedish National Infrastructure for Computing at UPPMAX partially funded by the Swedish Research Council through grant agreement no. 2018-05973. We thank all the member of the Littorina team for the stimulating discussions about the manuscripts, James Reeves for his help the implementation of Hsplit, and Thomas Broquet for his useful comments in the latter stage of manuscript revisions.","article_type":"letter_note","OA_place":"publisher","day":"23","department":[{"_id":"NiBa"}],"date_published":"2024-04-23T00:00:00Z","publication_identifier":{"issn":["2056-3744"]},"OA_type":"gold","oa":1,"external_id":{"isi":["001206532900001"],"pmid":["39479507"]},"date_created":"2025-01-27T13:30:27Z","oa_version":"Published Version","_id":"18908","pmid":1,"publication":"Evolution Letters","file":[{"file_id":"18909","access_level":"open_access","content_type":"application/pdf","success":1,"date_updated":"2025-01-27T13:33:14Z","file_size":24356661,"date_created":"2025-01-27T13:33:14Z","checksum":"2f7780b7b6b3489755f1815f476639c6","relation":"main_file","file_name":"2024_EvolutionLetter_Moan.pdf","creator":"dernst"}]},{"date_created":"2025-01-29T09:09:10Z","oa_version":"Submitted Version","_id":"18944","publication":"Marine Ecology Progress Series","date_published":"2024-07-25T00:00:00Z","OA_type":"green","publication_identifier":{"eissn":["1616-1599"],"issn":["0171-8630"]},"oa":1,"main_file_link":[{"url":"https://inria.hal.science/hal-04624490/","open_access":"1"}],"author":[{"first_name":"Louise","last_name":"Fouqueau","orcid":"0000-0003-0371-9339","full_name":"Fouqueau, Louise","id":"1676e173-8143-11ed-8927-fe165216a93f"},{"full_name":"Reynes, L","last_name":"Reynes","first_name":"L"},{"full_name":"Tempera, F","first_name":"F","last_name":"Tempera"},{"full_name":"Bajjouk, T","last_name":"Bajjouk","first_name":"T"},{"full_name":"Blanfuné, A","last_name":"Blanfuné","first_name":"A"},{"full_name":"Chevalier, C","last_name":"Chevalier","first_name":"C"},{"first_name":"M","last_name":"Laurans","full_name":"Laurans, M"},{"full_name":"Mauger, S","first_name":"S","last_name":"Mauger"},{"full_name":"Sourisseau, M","first_name":"M","last_name":"Sourisseau"},{"full_name":"Assis, J","first_name":"J","last_name":"Assis"},{"last_name":"Lévêque","first_name":"L","full_name":"Lévêque, L"},{"full_name":"Valero, M","last_name":"Valero","first_name":"M"}],"title":"Seascape genetic study on Laminaria digitata underscores the critical role of sampling schemes","OA_place":"repository","article_type":"original","day":"25","department":[{"_id":"NiBa"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","date_updated":"2025-01-29T09:12:34Z","publication_status":"published","publisher":"Inter-Research Science Center","corr_author":"1","type":"journal_article","intvolume":"       740","scopus_import":"1","doi":"10.3354/meps14640","citation":{"mla":"Fouqueau, Louise, et al. “Seascape Genetic Study on Laminaria Digitata Underscores the Critical Role of Sampling Schemes.” <i>Marine Ecology Progress Series</i>, vol. 740, Inter-Research Science Center, 2024, pp. 23–42, doi:<a href=\"https://doi.org/10.3354/meps14640\">10.3354/meps14640</a>.","apa":"Fouqueau, L., Reynes, L., Tempera, F., Bajjouk, T., Blanfuné, A., Chevalier, C., … Valero, M. (2024). Seascape genetic study on Laminaria digitata underscores the critical role of sampling schemes. <i>Marine Ecology Progress Series</i>. Inter-Research Science Center. <a href=\"https://doi.org/10.3354/meps14640\">https://doi.org/10.3354/meps14640</a>","short":"L. Fouqueau, L. Reynes, F. Tempera, T. Bajjouk, A. Blanfuné, C. Chevalier, M. Laurans, S. Mauger, M. Sourisseau, J. Assis, L. Lévêque, M. Valero, Marine Ecology Progress Series 740 (2024) 23–42.","ama":"Fouqueau L, Reynes L, Tempera F, et al. Seascape genetic study on Laminaria digitata underscores the critical role of sampling schemes. <i>Marine Ecology Progress Series</i>. 2024;740:23-42. doi:<a href=\"https://doi.org/10.3354/meps14640\">10.3354/meps14640</a>","ieee":"L. Fouqueau <i>et al.</i>, “Seascape genetic study on Laminaria digitata underscores the critical role of sampling schemes,” <i>Marine Ecology Progress Series</i>, vol. 740. Inter-Research Science Center, pp. 23–42, 2024.","ista":"Fouqueau L, Reynes L, Tempera F, Bajjouk T, Blanfuné A, Chevalier C, Laurans M, Mauger S, Sourisseau M, Assis J, Lévêque L, Valero M. 2024. Seascape genetic study on Laminaria digitata underscores the critical role of sampling schemes. Marine Ecology Progress Series. 740, 23–42.","chicago":"Fouqueau, Louise, L Reynes, F Tempera, T Bajjouk, A Blanfuné, C Chevalier, M Laurans, et al. “Seascape Genetic Study on Laminaria Digitata Underscores the Critical Role of Sampling Schemes.” <i>Marine Ecology Progress Series</i>. Inter-Research Science Center, 2024. <a href=\"https://doi.org/10.3354/meps14640\">https://doi.org/10.3354/meps14640</a>."},"abstract":[{"lang":"eng","text":"Understanding connectivity patterns exhibited by endangered species living in fragmented habitats is fundamental to improving management and conservation actions. Such improvements can be particularly pressing at the trailing edges of these habitats, where populations are facing the greatest challenges from climate change, and appear even more crucial if the species is commercially harvested. Seascape genetics have been increasingly used to meet these needs. In this study, we examined connectivity patterns among 32 populations of the oarweed kelp <jats:italic>Lam</jats:italic><jats:italic>inaria digitata</jats:italic> located at the species’ southern range limit. The distance (or sampling gap) between neighboring populations ranged from a few km to a few 100s of km. By genotyping 11 microsatellite markers, we aimed to (1) refine analyses of population structure; (2) test whether on-shelf islands are genetically more differentiated than mainland populations; (3) evaluate the relative importance of various abiotic conditions in shaping the genetic structure; and (4) evaluate if the relative importance of each environmental factor varied according to sampling schemes. Our analyses revealed a positive relationship between connectivity links and genetic diversity: populations with high levels of connectivity were genetically enriched while isolated populations showed signs of genetic erosion. The genetically impoverished populations corresponded to the southernmost populations as well as populations along the northern coast of Brittany (Locquirec, Saint-Malo Bay) and the northernmost population in Pas-de-Calais. By performing distance-based redundancy analysis on various sampling schemes, geographic distance appeared as the dominant factor influencing connectivity between populations separated by great distances, while hydrodynamic processes were the main factor when analyzing at a final spatial resolution."}],"article_processing_charge":"No","month":"07","page":"23-42","quality_controlled":"1","year":"2024","language":[{"iso":"eng"}],"volume":740},{"date_published":"2024-02-16T00:00:00Z","OA_type":"gold","publication_identifier":{"issn":["2752-938X"]},"oa":1,"article_number":"kzae001","oa_version":"Published Version","date_created":"2025-01-29T10:38:17Z","_id":"18949","publication":"Evolutionary Journal of the Linnean Society","file":[{"file_id":"18950","date_updated":"2025-01-29T10:52:40Z","success":1,"content_type":"application/pdf","access_level":"open_access","relation":"main_file","checksum":"db08120a92527acaef476bd93f2b87f9","date_created":"2025-01-29T10:52:40Z","file_size":3935454,"creator":"dernst","file_name":"2024_EvolJourLinneanSoc_Stankowski.pdf"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","tmp":{"short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode","image":"/images/cc_by_nc.png"},"date_updated":"2025-01-29T10:55:54Z","author":[{"full_name":"Stankowski, Sean","last_name":"Stankowski","first_name":"Sean","id":"43161670-5719-11EA-8025-FABC3DDC885E"},{"full_name":"Cutter, Asher D","last_name":"Cutter","first_name":"Asher D"},{"full_name":"Satokangas, Ina","last_name":"Satokangas","first_name":"Ina"},{"last_name":"Lerch","first_name":"Brian A","full_name":"Lerch, Brian A"},{"full_name":"Rolland, Jonathan","last_name":"Rolland","first_name":"Jonathan"},{"full_name":"Smadja, Carole M","last_name":"Smadja","first_name":"Carole M"},{"first_name":"J Carolina","last_name":"Segami Marzal","full_name":"Segami Marzal, J Carolina"},{"full_name":"Cooney, Christopher R","first_name":"Christopher R","last_name":"Cooney"},{"full_name":"Feulner, Philine G D","last_name":"Feulner","first_name":"Philine G D"},{"last_name":"Domingos","first_name":"Fabricius Maia Chaves Bicalho","full_name":"Domingos, Fabricius Maia Chaves Bicalho"},{"full_name":"North, Henry L","first_name":"Henry L","last_name":"North"},{"full_name":"Yamaguchi, Ryo","last_name":"Yamaguchi","first_name":"Ryo"},{"first_name":"Roger K","last_name":"Butlin","full_name":"Butlin, Roger K"},{"first_name":"Jochen B W","last_name":"Wolf","full_name":"Wolf, Jochen B W"},{"full_name":"Coughlan, Jenn","last_name":"Coughlan","first_name":"Jenn"},{"last_name":"Heidbreder","first_name":"Patrick","full_name":"Heidbreder, Patrick"},{"first_name":"Rebeca","last_name":"Hernández-Gutiérrez","full_name":"Hernández-Gutiérrez, Rebeca"},{"full_name":"Barnard-Kubow, Karen B","last_name":"Barnard-Kubow","first_name":"Karen B"},{"last_name":"Peede","first_name":"David","full_name":"Peede, David"},{"full_name":"Rancilhac, Loïs","first_name":"Loïs","last_name":"Rancilhac"},{"full_name":"Salvador, Rodrigo Brincalepe","last_name":"Salvador","first_name":"Rodrigo Brincalepe"},{"full_name":"Thompson, Ken A","last_name":"Thompson","first_name":"Ken A"},{"full_name":"Stacy, Elizabeth A","last_name":"Stacy","first_name":"Elizabeth A"},{"full_name":"Moyle, Leonie C","last_name":"Moyle","first_name":"Leonie C"},{"last_name":"Garlovsky","first_name":"Martin D","full_name":"Garlovsky, Martin D"},{"last_name":"Maulana","first_name":"Arif","full_name":"Maulana, Arif"},{"full_name":"Kantelinen, Annina","first_name":"Annina","last_name":"Kantelinen"},{"full_name":"Cacho, N Ivalú","last_name":"Cacho","first_name":"N Ivalú"},{"full_name":"Schneemann, Hilde","last_name":"Schneemann","first_name":"Hilde"},{"full_name":"Domínguez, Marisol","last_name":"Domínguez","first_name":"Marisol"},{"last_name":"Dopman","first_name":"Erik B","full_name":"Dopman, Erik B"},{"first_name":"Konrad","last_name":"Lohse","full_name":"Lohse, Konrad"},{"full_name":"Rometsch, Sina J","last_name":"Rometsch","first_name":"Sina J"},{"last_name":"Comeault","first_name":"Aaron A","full_name":"Comeault, Aaron A"},{"full_name":"Merrill, Richard M","last_name":"Merrill","first_name":"Richard M"},{"full_name":"Scordato, Elizabeth S C","last_name":"Scordato","first_name":"Elizabeth S C"},{"last_name":"Singhal","first_name":"Sonal","full_name":"Singhal, Sonal"},{"last_name":"Pärssinen","first_name":"Varpu","full_name":"Pärssinen, Varpu"},{"full_name":"Lackey, Alycia C R","first_name":"Alycia C R","last_name":"Lackey"},{"full_name":"Kumar, Sanghamitra","last_name":"Kumar","first_name":"Sanghamitra"},{"last_name":"Meier","first_name":"Joana I","full_name":"Meier, Joana I"},{"full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","first_name":"Nicholas H","last_name":"Barton","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Fraisse, Christelle","orcid":"0000-0001-8441-5075","first_name":"Christelle","last_name":"Fraisse","id":"32DF5794-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Ravinet, Mark","last_name":"Ravinet","first_name":"Mark"},{"full_name":"Kulmuni, Jonna","first_name":"Jonna","last_name":"Kulmuni"}],"title":"Toward the integration of speciation research","OA_place":"publisher","article_type":"original","acknowledgement":"We thank the staff of the Tvärminne Zoological Station (University of Helsinki) for their hospitality during the workshop. We are also grateful to everyone who applied to attend the workshop.\r\nFunding for the workshop was provided by the European Society for Evolutionary Biology through the Special Topic Network (STN) funding scheme.","department":[{"_id":"NiBa"}],"day":"16","scopus_import":"1","doi":"10.1093/evolinnean/kzae001","citation":{"mla":"Stankowski, Sean, et al. “Toward the Integration of Speciation Research.” <i>Evolutionary Journal of the Linnean Society</i>, vol. 3, no. 1, kzae001, Oxford University Press, 2024, doi:<a href=\"https://doi.org/10.1093/evolinnean/kzae001\">10.1093/evolinnean/kzae001</a>.","apa":"Stankowski, S., Cutter, A. D., Satokangas, I., Lerch, B. A., Rolland, J., Smadja, C. M., … Kulmuni, J. (2024). Toward the integration of speciation research. <i>Evolutionary Journal of the Linnean Society</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/evolinnean/kzae001\">https://doi.org/10.1093/evolinnean/kzae001</a>","short":"S. Stankowski, A.D. Cutter, I. Satokangas, B.A. Lerch, J. Rolland, C.M. Smadja, J.C. Segami Marzal, C.R. Cooney, P.G.D. Feulner, F.M.C.B. Domingos, H.L. North, R. Yamaguchi, R.K. Butlin, J.B.W. Wolf, J. Coughlan, P. Heidbreder, R. Hernández-Gutiérrez, K.B. Barnard-Kubow, D. Peede, L. Rancilhac, R.B. Salvador, K.A. Thompson, E.A. Stacy, L.C. Moyle, M.D. Garlovsky, A. Maulana, A. Kantelinen, N.I. Cacho, H. Schneemann, M. Domínguez, E.B. Dopman, K. Lohse, S.J. Rometsch, A.A. Comeault, R.M. Merrill, E.S.C. Scordato, S. Singhal, V. Pärssinen, A.C.R. Lackey, S. Kumar, J.I. Meier, N.H. Barton, C. Fraisse, M. Ravinet, J. Kulmuni, Evolutionary Journal of the Linnean Society 3 (2024).","ama":"Stankowski S, Cutter AD, Satokangas I, et al. Toward the integration of speciation research. <i>Evolutionary Journal of the Linnean Society</i>. 2024;3(1). doi:<a href=\"https://doi.org/10.1093/evolinnean/kzae001\">10.1093/evolinnean/kzae001</a>","ieee":"S. Stankowski <i>et al.</i>, “Toward the integration of speciation research,” <i>Evolutionary Journal of the Linnean Society</i>, vol. 3, no. 1. Oxford University Press, 2024.","chicago":"Stankowski, Sean, Asher D Cutter, Ina Satokangas, Brian A Lerch, Jonathan Rolland, Carole M Smadja, J Carolina Segami Marzal, et al. “Toward the Integration of Speciation Research.” <i>Evolutionary Journal of the Linnean Society</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/evolinnean/kzae001\">https://doi.org/10.1093/evolinnean/kzae001</a>.","ista":"Stankowski S, Cutter AD, Satokangas I, Lerch BA, Rolland J, Smadja CM, Segami Marzal JC, Cooney CR, Feulner PGD, Domingos FMCB, North HL, Yamaguchi R, Butlin RK, Wolf JBW, Coughlan J, Heidbreder P, Hernández-Gutiérrez R, Barnard-Kubow KB, Peede D, Rancilhac L, Salvador RB, Thompson KA, Stacy EA, Moyle LC, Garlovsky MD, Maulana A, Kantelinen A, Cacho NI, Schneemann H, Domínguez M, Dopman EB, Lohse K, Rometsch SJ, Comeault AA, Merrill RM, Scordato ESC, Singhal S, Pärssinen V, Lackey ACR, Kumar S, Meier JI, Barton NH, Fraisse C, Ravinet M, Kulmuni J. 2024. Toward the integration of speciation research. Evolutionary Journal of the Linnean Society. 3(1), kzae001."},"abstract":[{"text":"Speciation research—the scientific field focused on understanding the origin and diversity of species—has a long and complex history. While relevant to one another, the specific goals and activities of speciation researchers are highly diverse, and scattered across a collection of different perspectives. Thus, our understanding of speciation will benefit from efforts to bridge scientific findings and the diverse people who do the work. In this paper, we outline two ways of integrating speciation research: (i) scientific integration, through the bringing together of ideas, data, and approaches; and (ii) social integration, by creating ways for a diversity of researchers to participate in the scientific process. We then discuss five challenges to integration: (i) the multidisciplinary nature of speciation research, (ii) the complex language of speciation; (iii) a bias toward certain study systems; (iv) the challenges of working across scales; and (v) inconsistent measures and reporting standards. We provide practical steps that individuals and groups can take to help overcome these challenges, and argue that integration is a team effort in which we all have a role to play.","lang":"eng"}],"publication_status":"published","publisher":"Oxford University Press","corr_author":"1","type":"journal_article","has_accepted_license":"1","intvolume":"         3","quality_controlled":"1","year":"2024","ddc":["570"],"language":[{"iso":"eng"}],"volume":3,"article_processing_charge":"Yes","month":"02","issue":"1","file_date_updated":"2025-01-29T10:52:40Z"},{"acknowledgement":"We would like to thank the members of the Sweeney Lab (especially Stavros Papadopoulos and\r\nSophie Gobeil) for their contributions to this project and, in addition to the lab, Graziana Gatto\r\nand Mario de Bono, for discussion, and support. We are also grateful to Tom Jessell and Chris\r\nKintner for their scientific insight and mentorship during the conception of this project. This\r\nproject would also not have been possible with the technical support of the Matthias Nowak,\r\nVerena Mayer and the Aquatics as well as the Imaging and Optics Facility support teams\r\n(ISTA). In addition, we thank our funding sources for providing the resources to do these\r\nexperiments: FTI Strategy Lower Austria Dissertation Grant Number FT121-D-046 (D.V.);\r\nHorizon Europe ERC Starting Grant Number 101041551 (L.B.S., F.A.T. and D.V); Special\r\nResearch Program (SFB) of the Austrian Science Fund (FWF) Project number F7814-B (L.B.S);\r\nNINDS 5R35NS116858 (J.S.D); CZI grant DAF2020-225401 (DOI): 10.37921/120055ratwvi\r\n(R.H.); NIH grant number R01NS123116 (J.B.B); American Lebanese Syrian Associated\r\nCharities (ALSAC) (J.B.B.); German Academic Exchange Service (DAAD) IFI Grant Number\r\n57515251-91853472 (Z.H.); and Project A.L.S. (S.B-M.). ","month":"09","OA_place":"repository","department":[{"_id":"LoSw"},{"_id":"TiVo"},{"_id":"Bio"},{"_id":"NiBa"}],"day":"27","article_processing_charge":"No","title":"Spinal neuron diversity scales exponentially with swim-to-limb transformation during frog metamorphosis","main_file_link":[{"url":"https://doi.org/10.1101/2024.09.20.614050","open_access":"1"}],"author":[{"full_name":"Vijatovic, David","last_name":"Vijatovic","first_name":"David","id":"cf391e77-ec3c-11ea-a124-d69323410b58"},{"id":"2f73f876-f128-11eb-9611-b96b5a30cb0e","full_name":"Toma, Florina Alexandra ","first_name":"Florina Alexandra ","last_name":"Toma"},{"id":"a8144562-32c9-11ee-b5ce-d9800628bda2","orcid":"0009-0008-0158-4032","full_name":"Harrington, Zoe P","first_name":"Zoe P","last_name":"Harrington"},{"id":"4DF26D8C-F248-11E8-B48F-1D18A9856A87","full_name":"Sommer, Christoph M","orcid":"0000-0003-1216-9105","last_name":"Sommer","first_name":"Christoph M"},{"first_name":"Robert","last_name":"Hauschild","full_name":"Hauschild, Robert","orcid":"0000-0001-9843-3522","id":"4E01D6B4-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Alexandra J.","last_name":"Trevisan","full_name":"Trevisan, Alexandra J."},{"full_name":"Chapman, Phillip","last_name":"Chapman","first_name":"Phillip"},{"full_name":"Julseth, Mara","first_name":"Mara","last_name":"Julseth","id":"1cf464b2-dc7d-11ea-9b2f-f9b1aa9417d1"},{"full_name":"Brenner-Morton, Susan","first_name":"Susan","last_name":"Brenner-Morton"},{"full_name":"Gabitto, Mariano I.","first_name":"Mariano I.","last_name":"Gabitto"},{"full_name":"Dasen, Jeremy S.","first_name":"Jeremy S.","last_name":"Dasen"},{"first_name":"Jay B.","last_name":"Bikoff","full_name":"Bikoff, Jay B."},{"id":"56BE8254-C4F0-11E9-8E45-0B23E6697425","orcid":"0000-0001-9242-5601","full_name":"Sweeney, Lora Beatrice Jaeger","last_name":"Sweeney","first_name":"Lora Beatrice Jaeger"}],"status":"public","language":[{"iso":"eng"}],"date_updated":"2025-05-14T11:40:13Z","acknowledged_ssus":[{"_id":"Bio"}],"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","year":"2024","publication":"bioRxiv","date_created":"2025-04-07T08:48:28Z","publication_status":"submitted","oa_version":"Preprint","_id":"19520","type":"preprint","corr_author":"1","project":[{"grant_number":"FTI21-D-046","_id":"bd73af52-d553-11ed-ba76-912049f0ac7a","name":"Development of V1 interneuron diversity during swim-to-walk transition of Xenopus metamorphosis"},{"name":"Development and Evolution of Tetrapod Motor Circuits","_id":"ebb66355-77a9-11ec-83b8-b8ac210a4dae","grant_number":"101041551"},{"name":"Tools for automation and feedback microscopy","_id":"c08e9ad1-5a5b-11eb-8a69-9d1cf3b07473","grant_number":"CZI01"}],"oa":1,"citation":{"apa":"Vijatovic, D., Toma, F. A., Harrington, Z. P., Sommer, C. M., Hauschild, R., Trevisan, A. J., … Sweeney, L. B. (n.d.). Spinal neuron diversity scales exponentially with swim-to-limb transformation during frog metamorphosis. <i>bioRxiv</i>. <a href=\"https://doi.org/10.1101/2024.09.20.614050\">https://doi.org/10.1101/2024.09.20.614050</a>","mla":"Vijatovic, David, et al. “Spinal Neuron Diversity Scales Exponentially with Swim-to-Limb Transformation during Frog Metamorphosis.” <i>BioRxiv</i>, doi:<a href=\"https://doi.org/10.1101/2024.09.20.614050\">10.1101/2024.09.20.614050</a>.","chicago":"Vijatovic, David, Florina Alexandra  Toma, Zoe P Harrington, Christoph M Sommer, Robert Hauschild, Alexandra J. Trevisan, Phillip Chapman, et al. “Spinal Neuron Diversity Scales Exponentially with Swim-to-Limb Transformation during Frog Metamorphosis.” <i>BioRxiv</i>, n.d. <a href=\"https://doi.org/10.1101/2024.09.20.614050\">https://doi.org/10.1101/2024.09.20.614050</a>.","ista":"Vijatovic D, Toma FA, Harrington ZP, Sommer CM, Hauschild R, Trevisan AJ, Chapman P, Julseth M, Brenner-Morton S, Gabitto MI, Dasen JS, Bikoff JB, Sweeney LB. Spinal neuron diversity scales exponentially with swim-to-limb transformation during frog metamorphosis. bioRxiv, <a href=\"https://doi.org/10.1101/2024.09.20.614050\">10.1101/2024.09.20.614050</a>.","ieee":"D. Vijatovic <i>et al.</i>, “Spinal neuron diversity scales exponentially with swim-to-limb transformation during frog metamorphosis,” <i>bioRxiv</i>. .","short":"D. Vijatovic, F.A. Toma, Z.P. Harrington, C.M. Sommer, R. Hauschild, A.J. Trevisan, P. Chapman, M. Julseth, S. Brenner-Morton, M.I. Gabitto, J.S. Dasen, J.B. Bikoff, L.B. Sweeney, BioRxiv (n.d.).","ama":"Vijatovic D, Toma FA, Harrington ZP, et al. Spinal neuron diversity scales exponentially with swim-to-limb transformation during frog metamorphosis. <i>bioRxiv</i>. doi:<a href=\"https://doi.org/10.1101/2024.09.20.614050\">10.1101/2024.09.20.614050</a>"},"abstract":[{"lang":"eng","text":"Vertebrates exhibit a wide range of motor behaviors, ranging from swimming to complex limb-based movements. Here we take advantage of frog metamorphosis, which captures a swim-to-limb-based movement transformation during the development of a single organism, to explore changes in the underlying spinal circuits. We find that the tadpole spinal cord contains small and largely homogeneous populations of motor neurons (MNs) and V1 interneurons (V1s) at early escape swimming stages. These neuronal populations only modestly increase in number and subtype heterogeneity with the emergence of free swimming. In contrast, during frog metamorphosis and the emergence of limb movement, there is a dramatic expansion of MN and V1 interneuron number and transcriptional heterogeneity, culminating in cohorts of neurons that exhibit striking molecular similarity to mammalian motor circuits. CRISPR/Cas9-mediated gene disruption of the limb MN and V1 determinants FoxP1 and Engrailed-1, respectively, results in severe but selective deficits in tail and limb function. Our work thus demonstrates that neural diversity scales exponentially with increasing behavioral complexity and illustrates striking evolutionary conservation in the molecular organization and function of motor circuits across species."}],"date_published":"2024-09-27T00:00:00Z","doi":"10.1101/2024.09.20.614050","OA_type":"green"},{"status":"public","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_updated":"2026-06-18T17:53:35Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_type":"letter_note","acknowledgement":"This research was funded by the Austrian Science Fund (FWF), project doi: 10.55776/P32896, Institutional Identifier: 501100002428, grant number: P32896 and L.F. acknowledges the support of the NOMIS-ISTA Fellowship Program.\r\nWe would like to thank Nick Barton, Roger Butlin, Stuart Baird, Patrik Nosil, and Jason Sexton for their insightful comments on the earlier drafts, and to John Carchrae for his valuable contribution in refining phrasing and enhancing clarity. For open access purposes, the author has applied a CC BY public copyright license to any author-accepted manuscript version arising from this submission.","day":"28","department":[{"_id":"NiBa"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1093/jeb/voae067"}],"title":"Eco-evolutionary dynamics in changing environments: Integrating theory with data","author":[{"full_name":"Fouqueau, Louise","orcid":"0000-0003-0371-9339","last_name":"Fouqueau","first_name":"Louise","id":"1676e173-8143-11ed-8927-fe165216a93f"},{"id":"3BBFB084-F248-11E8-B48F-1D18A9856A87","last_name":"Polechova","first_name":"Jitka","orcid":"0000-0003-0951-3112","full_name":"Polechova, Jitka"}],"external_id":{"pmid":["38941551"],"isi":["001258359900001"]},"oa":1,"date_published":"2024-06-28T00:00:00Z","publication_identifier":{"eissn":["1420-9101"]},"publication":"Journal of evolutionary biology","oa_version":"Published Version","date_created":"2024-07-07T22:01:04Z","project":[{"name":"Causes and consequences of population fragmentation","grant_number":"P32896","_id":"c08d3278-5a5b-11eb-8a69-fdb09b55f4b8"},{"name":"NOMIS Fellowship Program","_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A"}],"pmid":1,"_id":"17207","language":[{"iso":"eng"}],"volume":37,"quality_controlled":"1","year":"2024","ddc":["570"],"month":"06","issue":"6","page":"579-587","article_processing_charge":"No","isi":1,"license":"https://creativecommons.org/licenses/by/4.0/","citation":{"ieee":"L. Fouqueau and J. Polechova, “Eco-evolutionary dynamics in changing environments: Integrating theory with data,” <i>Journal of evolutionary biology</i>, vol. 37, no. 6. Oxford University Press, pp. 579–587, 2024.","chicago":"Fouqueau, Louise, and Jitka Polechova. “Eco-Evolutionary Dynamics in Changing Environments: Integrating Theory with Data.” <i>Journal of Evolutionary Biology</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/jeb/voae067\">https://doi.org/10.1093/jeb/voae067</a>.","ista":"Fouqueau L, Polechova J. 2024. Eco-evolutionary dynamics in changing environments: Integrating theory with data. Journal of evolutionary biology. 37(6), 579–587.","short":"L. Fouqueau, J. Polechova, Journal of Evolutionary Biology 37 (2024) 579–587.","ama":"Fouqueau L, Polechova J. Eco-evolutionary dynamics in changing environments: Integrating theory with data. <i>Journal of evolutionary biology</i>. 2024;37(6):579-587. doi:<a href=\"https://doi.org/10.1093/jeb/voae067\">10.1093/jeb/voae067</a>","mla":"Fouqueau, Louise, and Jitka Polechova. “Eco-Evolutionary Dynamics in Changing Environments: Integrating Theory with Data.” <i>Journal of Evolutionary Biology</i>, vol. 37, no. 6, Oxford University Press, 2024, pp. 579–87, doi:<a href=\"https://doi.org/10.1093/jeb/voae067\">10.1093/jeb/voae067</a>.","apa":"Fouqueau, L., &#38; Polechova, J. (2024). Eco-evolutionary dynamics in changing environments: Integrating theory with data. <i>Journal of Evolutionary Biology</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/jeb/voae067\">https://doi.org/10.1093/jeb/voae067</a>"},"scopus_import":"1","doi":"10.1093/jeb/voae067","intvolume":"        37","publication_status":"published","publisher":"Oxford University Press","type":"journal_article"},{"date_published":"2024-06-01T00:00:00Z","publication_identifier":{"issn":["1010-061X"],"eissn":["1420-9101"]},"arxiv":1,"external_id":{"arxiv":["2404.14003"],"pmid":["38629140"]},"oa":1,"oa_version":"Preprint","date_created":"2024-07-14T22:01:12Z","pmid":1,"_id":"17237","publication":"Journal of Evolutionary Biology","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","status":"public","date_updated":"2025-06-04T07:23:23Z","main_file_link":[{"open_access":"1","url":"https://doi.org/10.48550/arXiv.2404.14003"}],"author":[{"last_name":"Reynes","first_name":"Lauric","full_name":"Reynes, Lauric"},{"last_name":"Fouqueau","first_name":"Louise","orcid":"0000-0003-0371-9339","full_name":"Fouqueau, Louise","id":"1676e173-8143-11ed-8927-fe165216a93f"},{"full_name":"Aurelle, Didier","first_name":"Didier","last_name":"Aurelle"},{"first_name":"Stephane","last_name":"Mauger","full_name":"Mauger, Stephane"},{"full_name":"Destombe, Christophe","first_name":"Christophe","last_name":"Destombe"},{"full_name":"Valero, Myriam","first_name":"Myriam","last_name":"Valero"}],"title":"Temporal genomics help in deciphering neutral and adaptive patterns in the contemporary evolution of kelp populations","article_type":"original","acknowledgement":"This work was funded by the EU project MARFOR Biodiversa/004/2015. L.F. was additionally funded by the Region Bretagne (ARED 2017 REEALG) and the NOMIS Foundation. The project leading to this publication has received funding from the EC2CO (CNRS) fund and from the European FEDER Fund under project 1166-39417.\r\nThis work is especially dedicated to the memory of Gernot Glöckner who contributed to the sequencing of Laminaria digitata genome and passed away in very recent time. The authors thank the ABiMS platform of the Roscoff biological station (http://abims.sb-roscoff.fr) for providing the HPC resources that contributed to the search results reported in this document. We also acknowledge the staff of the “Cluster de calcul intensif HPC” Platform of the OSU Institut Pythéas (Aix-Marseille Université, INSU-CNRS) for providing the computing facilities.","day":"01","department":[{"_id":"NiBa"}],"scopus_import":"1","doi":"10.1093/jeb/voae048","citation":{"short":"L. Reynes, L. Fouqueau, D. Aurelle, S. Mauger, C. Destombe, M. Valero, Journal of Evolutionary Biology 37 (2024) 677–692.","ama":"Reynes L, Fouqueau L, Aurelle D, Mauger S, Destombe C, Valero M. Temporal genomics help in deciphering neutral and adaptive patterns in the contemporary evolution of kelp populations. <i>Journal of Evolutionary Biology</i>. 2024;37(6):677-692. doi:<a href=\"https://doi.org/10.1093/jeb/voae048\">10.1093/jeb/voae048</a>","ieee":"L. Reynes, L. Fouqueau, D. Aurelle, S. Mauger, C. Destombe, and M. Valero, “Temporal genomics help in deciphering neutral and adaptive patterns in the contemporary evolution of kelp populations,” <i>Journal of Evolutionary Biology</i>, vol. 37, no. 6. Oxford University Press, pp. 677–692, 2024.","ista":"Reynes L, Fouqueau L, Aurelle D, Mauger S, Destombe C, Valero M. 2024. Temporal genomics help in deciphering neutral and adaptive patterns in the contemporary evolution of kelp populations. Journal of Evolutionary Biology. 37(6), 677–692.","chicago":"Reynes, Lauric, Louise Fouqueau, Didier Aurelle, Stephane Mauger, Christophe Destombe, and Myriam Valero. “Temporal Genomics Help in Deciphering Neutral and Adaptive Patterns in the Contemporary Evolution of Kelp Populations.” <i>Journal of Evolutionary Biology</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/jeb/voae048\">https://doi.org/10.1093/jeb/voae048</a>.","mla":"Reynes, Lauric, et al. “Temporal Genomics Help in Deciphering Neutral and Adaptive Patterns in the Contemporary Evolution of Kelp Populations.” <i>Journal of Evolutionary Biology</i>, vol. 37, no. 6, Oxford University Press, 2024, pp. 677–92, doi:<a href=\"https://doi.org/10.1093/jeb/voae048\">10.1093/jeb/voae048</a>.","apa":"Reynes, L., Fouqueau, L., Aurelle, D., Mauger, S., Destombe, C., &#38; Valero, M. (2024). Temporal genomics help in deciphering neutral and adaptive patterns in the contemporary evolution of kelp populations. <i>Journal of Evolutionary Biology</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/jeb/voae048\">https://doi.org/10.1093/jeb/voae048</a>"},"abstract":[{"lang":"eng","text":"The impact of climate change on populations will be contingent upon their contemporary adaptive evolution. In this study, we investigated the contemporary evolution of 4 populations of the cold-water kelp Laminaria digitata by analyzing their spatial and temporal genomic variations using ddRAD-sequencing. These populations were sampled from the center to the southern margin of its north-eastern Atlantic distribution at 2 time points, spanning at least 2 generations. Through genome scans for local adaptation at a single time point, we identified candidate loci that showed clinal variation correlated with changes in sea surface temperature (SST) along latitudinal gradients. This finding suggests that SST may drive the adaptive response of these kelp populations, although factors such as species’ demographic history should also be considered. Additionally, we performed a simulation approach to distinguish the effect of selection from genetic drift in allele frequency changes over time. This enabled the detection of loci in the southernmost population that exhibited temporal differentiation beyond what would be expected from genetic drift alone: these are candidate loci which could have evolved under selection over time. In contrast, we did not detect any outlier locus based on temporal differentiation in the population from the North Sea, which also displayed low and decreasing levels of genetic diversity. The diverse evolutionary scenarios observed among populations can be attributed to variations in the prevalence of selection relative to genetic drift across different environments. Therefore, our study highlights the potential of temporal genomics to offer valuable insights into the contemporary evolution of marine foundation species facing climate change."}],"publication_status":"published","publisher":"Oxford University Press","type":"journal_article","intvolume":"        37","quality_controlled":"1","year":"2024","language":[{"iso":"eng"}],"volume":37,"article_processing_charge":"No","month":"06","issue":"6","page":"677-692"},{"date_published":"2024-06-01T00:00:00Z","publication_identifier":{"issn":["1010-061X"],"eissn":["1420-9101"]},"oa":1,"external_id":{"pmid":["38683160"],"isi":["001225323900001"]},"date_created":"2024-07-14T22:01:12Z","oa_version":"Published Version","_id":"17238","pmid":1,"project":[{"grant_number":"101055327","_id":"bd6958e0-d553-11ed-ba76-86eba6a76c00","name":"Understanding the evolution of continuous genomes"}],"publication":"Journal of Evolutionary Biology","file":[{"file_size":1194263,"date_created":"2024-07-15T09:45:25Z","checksum":"94e6b68bddf6cadcec29c7f41647359f","relation":"main_file","file_name":"2024_JourEvolutionaryBiology_Barton.pdf","creator":"dernst","file_id":"17241","access_level":"open_access","success":1,"content_type":"application/pdf","date_updated":"2024-07-15T09:45:25Z"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","status":"public","date_updated":"2025-09-08T08:08:41Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"title":"Limits to species' range: The tension between local and global adaptation","author":[{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas H","last_name":"Barton","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240"}],"acknowledgement":"This work was supported by a grant from the ERC, 101055327, “HaplotypeStructure”. I thank Himani Sachdeva, Michal Hledik, Jitka Polechova, and the reviewers for their helpful comments.","article_type":"review","department":[{"_id":"NiBa"}],"day":"01","scopus_import":"1","doi":"10.1093/jeb/voae052","citation":{"mla":"Barton, Nicholas H. “Limits to Species’ Range: The Tension between Local and Global Adaptation.” <i>Journal of Evolutionary Biology</i>, vol. 37, no. 6, Oxford University Press, 2024, pp. 605–15, doi:<a href=\"https://doi.org/10.1093/jeb/voae052\">10.1093/jeb/voae052</a>.","apa":"Barton, N. H. (2024). Limits to species’ range: The tension between local and global adaptation. <i>Journal of Evolutionary Biology</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/jeb/voae052\">https://doi.org/10.1093/jeb/voae052</a>","chicago":"Barton, Nicholas H. “Limits to Species’ Range: The Tension between Local and Global Adaptation.” <i>Journal of Evolutionary Biology</i>. Oxford University Press, 2024. <a href=\"https://doi.org/10.1093/jeb/voae052\">https://doi.org/10.1093/jeb/voae052</a>.","ista":"Barton NH. 2024. Limits to species’ range: The tension between local and global adaptation. Journal of Evolutionary Biology. 37(6), 605–615.","ieee":"N. H. Barton, “Limits to species’ range: The tension between local and global adaptation,” <i>Journal of Evolutionary Biology</i>, vol. 37, no. 6. Oxford University Press, pp. 605–615, 2024.","ama":"Barton NH. Limits to species’ range: The tension between local and global adaptation. <i>Journal of Evolutionary Biology</i>. 2024;37(6):605-615. doi:<a href=\"https://doi.org/10.1093/jeb/voae052\">10.1093/jeb/voae052</a>","short":"N.H. Barton, Journal of Evolutionary Biology 37 (2024) 605–615."},"abstract":[{"lang":"eng","text":"We know that heritable variation is abundant, and that selection causes all but the smallest populations to rapidly shift beyond their original trait distribution. So then, what limits the range of a species? There are physical constraints and also population genetic limits to the effectiveness of selection, ultimately set by population size. Global adaptation, where the same genotype is favoured over the whole range, is most efficient when based on a multitude of weakly selected alleles and is effective even when local demes are small, provided that there is some gene flow. In contrast, local adaptation is sensitive to gene flow and may require alleles with substantial effect. How can populations combine the advantages of large effective size with the ability to specialise into local niches? To what extent does reproductive isolation help resolve this tension? I address these questions using eco-evolutionary models of polygenic adaptation, contrasting discrete demes with continuousspace."}],"publication_status":"published","publisher":"Oxford University Press","type":"journal_article","corr_author":"1","has_accepted_license":"1","intvolume":"        37","quality_controlled":"1","ddc":["570"],"year":"2024","language":[{"iso":"eng"}],"volume":37,"article_processing_charge":"Yes (via OA deal)","isi":1,"month":"06","file_date_updated":"2024-07-15T09:45:25Z","page":"605-615","issue":"6"},{"_id":"17344","publisher":"Institute of Science and Technology Austria","type":"research_data","oa_version":"Published Version","date_created":"2024-07-29T14:01:43Z","file":[{"access_level":"open_access","date_updated":"2024-07-29T13:51:11Z","success":1,"content_type":"application/octet-stream","file_id":"17345","file_name":"Submission.nb","creator":"psurendr","checksum":"75bdbc7ad7cc6afe4459bc4a8824a302","date_created":"2024-07-29T13:51:11Z","file_size":726132,"relation":"main_file"}],"has_accepted_license":"1","doi":"10.15479/AT:ISTA:17344","date_published":"2024-07-01T00:00:00Z","abstract":[{"text":"This file contains the Mathematica notebook associated with the paper Effect of assortative mating and sexual selection on polygenic barriers to gene flow. It contains the numerical approximations, analyses, and simulations used in the study. ","lang":"eng"}],"citation":{"apa":"Surendranadh, P., &#38; Sachdeva, H. (2024). Mathematica notebook for “Effect of assortative mating and sexual selection on polygenic barriers to gene flow.” Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:17344\">https://doi.org/10.15479/AT:ISTA:17344</a>","mla":"Surendranadh, Parvathy, and Himani Sachdeva. <i>Mathematica Notebook for “Effect of Assortative Mating and Sexual Selection on Polygenic Barriers to Gene Flow.”</i> Institute of Science and Technology Austria, 2024, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:17344\">10.15479/AT:ISTA:17344</a>.","ieee":"P. Surendranadh and H. Sachdeva, “Mathematica notebook for ‘Effect of assortative mating and sexual selection on polygenic barriers to gene flow.’” Institute of Science and Technology Austria, 2024.","ista":"Surendranadh P, Sachdeva H. 2024. Mathematica notebook for ‘Effect of assortative mating and sexual selection on polygenic barriers to gene flow’, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:17344\">10.15479/AT:ISTA:17344</a>.","chicago":"Surendranadh, Parvathy, and Himani Sachdeva. “Mathematica Notebook for ‘Effect of Assortative Mating and Sexual Selection on Polygenic Barriers to Gene Flow.’” Institute of Science and Technology Austria, 2024. <a href=\"https://doi.org/10.15479/AT:ISTA:17344\">https://doi.org/10.15479/AT:ISTA:17344</a>.","ama":"Surendranadh P, Sachdeva H. Mathematica notebook for “Effect of assortative mating and sexual selection on polygenic barriers to gene flow.” 2024. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:17344\">10.15479/AT:ISTA:17344</a>","short":"P. Surendranadh, H. Sachdeva, (2024)."},"oa":1,"author":[{"id":"455235B8-F248-11E8-B48F-1D18A9856A87","first_name":"Parvathy","last_name":"Surendranadh","orcid":"0000-0001-6395-386X","full_name":"Surendranadh, Parvathy"},{"full_name":"Sachdeva, Himani","last_name":"Sachdeva","first_name":"Himani"}],"title":"Mathematica notebook for 'Effect of assortative mating and sexual selection on polygenic barriers to gene flow'","article_processing_charge":"No","department":[{"_id":"GradSch"},{"_id":"NiBa"}],"file_date_updated":"2024-07-29T13:51:11Z","month":"07","ddc":["576"],"year":"2024","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","acknowledged_ssus":[{"_id":"ScienComp"}],"tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_updated":"2025-01-14T13:02:59Z","status":"public"},{"acknowledgement":"For the beetle barcoding, we are very thankful to Brent Emerson’s laboratory at the Consejo Superior de Investigaciones Científicas (CSIC) at the Instituto de Productos Naturales y Agrobiología (IPNA) in La Laguna, Tenerife. Many thanks to numerous field assistants, especially Sandra Cuevas Gallego, Beatriz Pablo Carmona, Luís Santos Cid and Alex Fuster, for their assistance in data collection. Finally, we thank Jesús Muñoz, Virgilio Gómez-Rubio, and two anonymous reviewers for comments that greatly improved the quality of the manuscript.\r\nOpen access funding provided by Institute of Science and Technology (IST Austria). CB received funding from the European Union’s Horizon 2020 research and innovation programme under the Marie Skłodowska-Curie Grant Agreement No. 754411. NB was funded by the FWF grant “Löwenmaul speciation” P 32166-B32.","article_type":"original","ec_funded":1,"day":"01","department":[{"_id":"NiBa"}],"author":[{"id":"54359172-700c-11ef-a103-c1d91ceac6d6","full_name":"Pocull Belles, Guillem","last_name":"Pocull Belles","first_name":"Guillem"},{"id":"3B4A7CE2-F248-11E8-B48F-1D18A9856A87","first_name":"Carina","last_name":"Baskett","full_name":"Baskett, Carina","orcid":"0000-0002-7354-8574"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","first_name":"Nicholas H","last_name":"Barton","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240"}],"title":"Multiscale spatial analysis of two plant–insect interactions: Effects of landscape, resource distribution, and other insects","status":"public","date_updated":"2025-09-08T09:20:11Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication":"Landscape Ecology","file":[{"checksum":"2e1cbc320ec1b4447a5a8562a90bcbc3","date_created":"2024-09-11T07:14:03Z","file_size":1494987,"relation":"main_file","file_name":"2024_LandscapeEcology_Pocull.pdf","creator":"dernst","file_id":"18054","access_level":"open_access","date_updated":"2024-09-11T07:14:03Z","content_type":"application/pdf","success":1}],"date_created":"2024-09-08T22:01:11Z","oa_version":"Published Version","article_number":"172","_id":"17888","project":[{"name":"ISTplus - Postdoctoral Fellowships","call_identifier":"H2020","_id":"260C2330-B435-11E9-9278-68D0E5697425","grant_number":"754411"},{"_id":"05959E1C-7A3F-11EA-A408-12923DDC885E","grant_number":"P32166","name":"Snapdragon Speciation"}],"oa":1,"external_id":{"isi":["001304011900001"]},"date_published":"2024-09-01T00:00:00Z","publication_identifier":{"issn":["0921-2973"],"eissn":["1572-9761"]},"month":"09","file_date_updated":"2024-09-11T07:14:03Z","issue":"9","article_processing_charge":"Yes (via OA deal)","isi":1,"language":[{"iso":"eng"}],"volume":39,"quality_controlled":"1","year":"2024","ddc":["570"],"has_accepted_license":"1","intvolume":"        39","publication_status":"published","type":"journal_article","publisher":"Springer Nature","corr_author":"1","citation":{"ama":"Pocull Belles G, Baskett C, Barton NH. Multiscale spatial analysis of two plant–insect interactions: Effects of landscape, resource distribution, and other insects. <i>Landscape Ecology</i>. 2024;39(9). doi:<a href=\"https://doi.org/10.1007/s10980-024-01899-9\">10.1007/s10980-024-01899-9</a>","short":"G. Pocull Belles, C. Baskett, N.H. Barton, Landscape Ecology 39 (2024).","chicago":"Pocull Belles, Guillem, Carina Baskett, and Nicholas H Barton. “Multiscale Spatial Analysis of Two Plant–Insect Interactions: Effects of Landscape, Resource Distribution, and Other Insects.” <i>Landscape Ecology</i>. Springer Nature, 2024. <a href=\"https://doi.org/10.1007/s10980-024-01899-9\">https://doi.org/10.1007/s10980-024-01899-9</a>.","ista":"Pocull Belles G, Baskett C, Barton NH. 2024. Multiscale spatial analysis of two plant–insect interactions: Effects of landscape, resource distribution, and other insects. Landscape Ecology. 39(9), 172.","ieee":"G. Pocull Belles, C. Baskett, and N. H. Barton, “Multiscale spatial analysis of two plant–insect interactions: Effects of landscape, resource distribution, and other insects,” <i>Landscape Ecology</i>, vol. 39, no. 9. Springer Nature, 2024.","mla":"Pocull Belles, Guillem, et al. “Multiscale Spatial Analysis of Two Plant–Insect Interactions: Effects of Landscape, Resource Distribution, and Other Insects.” <i>Landscape Ecology</i>, vol. 39, no. 9, 172, Springer Nature, 2024, doi:<a href=\"https://doi.org/10.1007/s10980-024-01899-9\">10.1007/s10980-024-01899-9</a>.","apa":"Pocull Belles, G., Baskett, C., &#38; Barton, N. H. (2024). Multiscale spatial analysis of two plant–insect interactions: Effects of landscape, resource distribution, and other insects. <i>Landscape Ecology</i>. Springer Nature. <a href=\"https://doi.org/10.1007/s10980-024-01899-9\">https://doi.org/10.1007/s10980-024-01899-9</a>"},"abstract":[{"text":"Context: Biotic resource exploitation is a critical determinant of species’ distributions. However, quantifying resource exploitation patterns through space and time can be difficult, complicating their incorporation in spatial ecology studies. Therefore, understanding the local drivers of spatial patterns of resource exploitation may contribute to better large-scale species distribution models.\r\nObjectives: We investigated (1) how the resource exploitation patterns of two trophic interactions (plant–insect) are explained by insect behaviour, resource aggregation, and potential insect-insect interactions. We also analyzed how (2) resource patch size and (3) resource accessibility in a heterogeneous landscape affected host exploitation patterns.\r\nMethods: We quantified nectar robbing by insects in the genus Bombus (bumblebees) and seed predation by Brachypterolus vestitus larvae (Antirrhinum beetle) on Antirrhinum majus L. (wild snapdragons) in the Pyrenees Mountains, Catalonia, Spain. We tested hypotheses about resource exploitation by integrating spatial analyses at multiple scales.\r\nResults: Both trophic interactions were aggregated, explained by the aggregation of their resource. At some scales, nectar robbing is more aggregated than the resource. Trophic interaction abundance is proportional to resource patch size, following the ideal free distribution model. Landscape features do not explain the locations exploited. Nectar robbing and seed predation occur together more often than expected.\r\nConclusions: Our findings suggest that multiple biotic and ecological spatial factors may simultaneously affect resource exploitation at a local scale. These findings should be considered when developing agricultural projects, management plans and conservation policies.","lang":"eng"}],"scopus_import":"1","doi":"10.1007/s10980-024-01899-9"},{"ddc":["570"],"year":"2024","quality_controlled":"1","volume":121,"language":[{"iso":"eng"}],"license":"https://creativecommons.org/licenses/by-nc-nd/4.0/","isi":1,"article_processing_charge":"Yes","file_date_updated":"2024-11-11T09:31:00Z","issue":"44","month":"10","doi":"10.1073/pnas.2402340121","related_material":{"record":[{"id":"20357","relation":"dissertation_contains","status":"public"}]},"scopus_import":"1","abstract":[{"lang":"eng","text":"As their statistical power grows, genome-wide association studies (GWAS) have identified an increasing number of loci underlying quantitative traits of interest. These loci are scattered throughout the genome and are individually responsible only for small fractions of the total heritable trait variance. The recently proposed omnigenic model provides a conceptual framework to explain these observations by postulating that numerous distant loci contribute to each complex trait via effect propagation through intracellular regulatory networks. We formalize this conceptual framework by proposing the “quantitative omnigenic model” (QOM), a statistical model that combines prior knowledge of the regulatory network topology with genomic data. By applying our model to gene expression traits in yeast, we demonstrate that QOM achieves similar gene expression prediction performance to traditional GWAS with hundreds of times less parameters, while simultaneously extracting candidate causal and quantitative chains of effect propagation through the regulatory network for every individual gene. We estimate the fraction of heritable trait variance in cis- and in trans-, break the latter down by effect propagation order, assess the trans- variance not attributable to transcriptional regulation, and show that QOM correctly accounts for the low-dimensional structure of gene expression covariance. We furthermore demonstrate the relevance of QOM for systems biology, by employing it as a statistical test for the quality of regulatory network reconstructions, and linking it to the propagation of nontranscriptional (including environmental) effects."}],"citation":{"ama":"Ruzickova N, Hledik M, Tkačik G. Quantitative omnigenic model discovers interpretable genome-wide associations. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. 2024;121(44). doi:<a href=\"https://doi.org/10.1073/pnas.2402340121\">10.1073/pnas.2402340121</a>","short":"N. Ruzickova, M. Hledik, G. Tkačik, Proceedings of the National Academy of Sciences of the United States of America 121 (2024).","ista":"Ruzickova N, Hledik M, Tkačik G. 2024. Quantitative omnigenic model discovers interpretable genome-wide associations. Proceedings of the National Academy of Sciences of the United States of America. 121(44), e2402340121.","chicago":"Ruzickova, Natalia, Michal Hledik, and Gašper Tkačik. “Quantitative Omnigenic Model Discovers Interpretable Genome-Wide Associations.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences, 2024. <a href=\"https://doi.org/10.1073/pnas.2402340121\">https://doi.org/10.1073/pnas.2402340121</a>.","ieee":"N. Ruzickova, M. Hledik, and G. Tkačik, “Quantitative omnigenic model discovers interpretable genome-wide associations,” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 121, no. 44. National Academy of Sciences, 2024.","mla":"Ruzickova, Natalia, et al. “Quantitative Omnigenic Model Discovers Interpretable Genome-Wide Associations.” <i>Proceedings of the National Academy of Sciences of the United States of America</i>, vol. 121, no. 44, e2402340121, National Academy of Sciences, 2024, doi:<a href=\"https://doi.org/10.1073/pnas.2402340121\">10.1073/pnas.2402340121</a>.","apa":"Ruzickova, N., Hledik, M., &#38; Tkačik, G. (2024). Quantitative omnigenic model discovers interpretable genome-wide associations. <i>Proceedings of the National Academy of Sciences of the United States of America</i>. National Academy of Sciences. <a href=\"https://doi.org/10.1073/pnas.2402340121\">https://doi.org/10.1073/pnas.2402340121</a>"},"type":"journal_article","corr_author":"1","publisher":"National Academy of Sciences","publication_status":"published","intvolume":"       121","has_accepted_license":"1","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","date_updated":"2026-08-10T07:47:55Z","tmp":{"short":"CC BY-NC-ND (4.0)","image":"/images/cc_by_nc_nd.png","legal_code_url":"https://creativecommons.org/licenses/by-nc-nd/4.0/legalcode","name":"Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International (CC BY-NC-ND 4.0)"},"status":"public","title":"Quantitative omnigenic model discovers interpretable genome-wide associations","author":[{"id":"D2761128-D73D-11E9-A1BF-BA0DE6697425","full_name":"Ruzickova, Natalia","first_name":"Natalia","last_name":"Ruzickova"},{"full_name":"Hledik, Michal","first_name":"Michal","last_name":"Hledik","id":"4171253A-F248-11E8-B48F-1D18A9856A87"},{"id":"3D494DCA-F248-11E8-B48F-1D18A9856A87","full_name":"Tkačik, Gašper","orcid":"0000-0002-6699-1455","first_name":"Gašper","last_name":"Tkačik"}],"department":[{"_id":"GaTk"},{"_id":"NiBa"}],"day":"29","acknowledgement":"N.R.acknowledges the support of the Austrian Academy of Sciences through the Doctoral Fellowship Programme (DOC) of the Austrian Academy of Sciences 26917. M.H. and G.T. were supported in part by the Human Frontiers Science Program Grant RGP0034/2018. We thank Nicholas H. Barton, Fyodor Kondrashov, and Matthew R. Robinson for fruitful discussions.","APC_amount":"3062,93 EUR","OA_place":"publisher","article_type":"original","OA_type":"hybrid","publication_identifier":{"issn":["0027-8424"],"eissn":["1091-6490"]},"date_published":"2024-10-29T00:00:00Z","oa":1,"external_id":{"pmid":["39441639"],"isi":["001349462600001"]},"_id":"18525","pmid":1,"project":[{"_id":"7bec9174-9f16-11ee-852c-ded9fe5f810e","name":"Collective behaviour of cells in pancreatic Islets of Langerhans"},{"name":"Can evolution minimize spurious signaling crosstalk to reach optimal performance?","grant_number":"RGP0034/2018","_id":"2665AAFE-B435-11E9-9278-68D0E5697425"}],"date_created":"2024-11-10T23:01:59Z","oa_version":"Published Version","article_number":"e2402340121","file":[{"access_level":"open_access","date_updated":"2024-11-11T09:31:00Z","content_type":"application/pdf","success":1,"file_id":"18536","file_name":"2024_PNAS_Ruzickova.pdf","creator":"dernst","date_created":"2024-11-11T09:31:00Z","checksum":"d930e2ccf9ec900c7d7509a78cfb3564","file_size":25529709,"relation":"main_file"}],"publication":"Proceedings of the National Academy of Sciences of the United States of America"},{"department":[{"_id":"NiBa"},{"_id":"GradSch"}],"day":"05","OA_place":"repository","article_type":"original","acknowledgement":"We thank J. Galindo, M. Montaño-Rendón, N. Mikhailova, A. Blakeslee, E. Arnason, and P. Kemppainen for providing samples; R. Turney, G. Sotelo, J. Larsson, T. Broquet, and S. Loisel for help collecting samples; Science Animated for providing the snail cartoons shown in Fig. 1; M. Dunning for help in developing bioinformatic pipelines; R. Faria, H. Morales, and V. Sousa for advice; and M. Hahn, J. Slate, M. Ravinet, J. Raeymaekers, A. Comeault, and N. Barton for feedback on a draft manuscript.\r\nThis work was supported by the Natural Environment Research Council (grant NE/P001610/1 to R.K.B.), the European Research Council (grant ERC-2015-AdG693030-BARRIERS to R.K.B.), the Norwegian Research Council (RCN Project 315287 to A.M.W.), and the Swedish Research Council (grant 2020-05385 to E.L.).","main_file_link":[{"open_access":"1","url":"https://figshare.com/articles/journal_contribution/The_genetic_basis_of_a_recent_transition_to_live-bearing_in_marine_snails/26356054?file=47868241"}],"author":[{"id":"43161670-5719-11EA-8025-FABC3DDC885E","full_name":"Stankowski, Sean","last_name":"Stankowski","first_name":"Sean"},{"first_name":"Zuzanna B.","last_name":"Zagrodzka","full_name":"Zagrodzka, Zuzanna B."},{"last_name":"Garlovsky","first_name":"Martin D.","full_name":"Garlovsky, Martin D."},{"full_name":"Pal, Arka","orcid":"0000-0002-4530-8469","first_name":"Arka","last_name":"Pal","id":"6AAB2240-CA9A-11E9-9C1A-D9D1E5697425"},{"last_name":"Shipilina","first_name":"Daria","orcid":"0000-0002-1145-9226","full_name":"Shipilina, Daria","id":"428A94B0-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Garcia Castillo, Diego Fernando","first_name":"Diego Fernando","last_name":"Garcia Castillo","id":"ae681a14-dc74-11ea-a0a7-c6ef18161701"},{"id":"d6ab5470-2fb3-11ed-8633-986a9b84edac","full_name":"Lifchitz, Hila","last_name":"Lifchitz","first_name":"Hila"},{"full_name":"Le Moan, Alan","last_name":"Le Moan","first_name":"Alan"},{"first_name":"Erica","last_name":"Leder","full_name":"Leder, Erica"},{"full_name":"Reeve, James","first_name":"James","last_name":"Reeve"},{"full_name":"Johannesson, Kerstin","last_name":"Johannesson","first_name":"Kerstin"},{"id":"3C147470-F248-11E8-B48F-1D18A9856A87","last_name":"Westram","first_name":"Anja M","full_name":"Westram, Anja M","orcid":"0000-0003-1050-4969"},{"full_name":"Butlin, Roger K.","last_name":"Butlin","first_name":"Roger K."}],"title":"The genetic basis of a recent transition to live-bearing in marine snails","date_updated":"2026-08-12T22:30:40Z","status":"public","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication":"Science","pmid":1,"_id":"14796","oa_version":"Submitted Version","date_created":"2024-01-14T23:00:56Z","external_id":{"isi":["001138156400003"],"pmid":["38175895"]},"oa":1,"publication_identifier":{"eissn":["1095-9203"]},"OA_type":"green","date_published":"2024-01-05T00:00:00Z","page":"114-119","issue":"6678","month":"01","isi":1,"article_processing_charge":"No","volume":383,"language":[{"iso":"eng"}],"year":"2024","quality_controlled":"1","intvolume":"       383","publisher":"American Association for the Advancement of Science","corr_author":"1","type":"journal_article","publication_status":"published","abstract":[{"text":"Key innovations are fundamental to biological diversification, but their genetic basis is poorly understood. A recent transition from egg-laying to live-bearing in marine snails (Littorina spp.) provides the opportunity to study the genetic architecture of an innovation that has evolved repeatedly across animals. Individuals do not cluster by reproductive mode in a genome-wide phylogeny, but local genealogical analysis revealed numerous small genomic regions where all live-bearers carry the same core haplotype. Candidate regions show evidence for live-bearer–specific positive selection and are enriched for genes that are differentially expressed between egg-laying and live-bearing reproductive systems. Ages of selective sweeps suggest that live-bearer–specific alleles accumulated over more than 200,000 generations. Our results suggest that new functions evolve through the recruitment of many alleles rather than in a single evolutionary step.","lang":"eng"}],"citation":{"ista":"Stankowski S, Zagrodzka ZB, Garlovsky MD, Pal A, Shipilina D, Garcia Castillo DF, Lifchitz H, Le Moan A, Leder E, Reeve J, Johannesson K, Westram AM, Butlin RK. 2024. The genetic basis of a recent transition to live-bearing in marine snails. Science. 383(6678), 114–119.","chicago":"Stankowski, Sean, Zuzanna B. Zagrodzka, Martin D. Garlovsky, Arka Pal, Daria Shipilina, Diego Fernando Garcia Castillo, Hila Lifchitz, et al. “The Genetic Basis of a Recent Transition to Live-Bearing in Marine Snails.” <i>Science</i>. American Association for the Advancement of Science, 2024. <a href=\"https://doi.org/10.1126/science.adi2982\">https://doi.org/10.1126/science.adi2982</a>.","ieee":"S. Stankowski <i>et al.</i>, “The genetic basis of a recent transition to live-bearing in marine snails,” <i>Science</i>, vol. 383, no. 6678. American Association for the Advancement of Science, pp. 114–119, 2024.","ama":"Stankowski S, Zagrodzka ZB, Garlovsky MD, et al. The genetic basis of a recent transition to live-bearing in marine snails. <i>Science</i>. 2024;383(6678):114-119. doi:<a href=\"https://doi.org/10.1126/science.adi2982\">10.1126/science.adi2982</a>","short":"S. Stankowski, Z.B. Zagrodzka, M.D. Garlovsky, A. Pal, D. Shipilina, D.F. Garcia Castillo, H. Lifchitz, A. Le Moan, E. Leder, J. Reeve, K. Johannesson, A.M. Westram, R.K. Butlin, Science 383 (2024) 114–119.","apa":"Stankowski, S., Zagrodzka, Z. B., Garlovsky, M. D., Pal, A., Shipilina, D., Garcia Castillo, D. F., … Butlin, R. K. (2024). The genetic basis of a recent transition to live-bearing in marine snails. <i>Science</i>. American Association for the Advancement of Science. <a href=\"https://doi.org/10.1126/science.adi2982\">https://doi.org/10.1126/science.adi2982</a>","mla":"Stankowski, Sean, et al. “The Genetic Basis of a Recent Transition to Live-Bearing in Marine Snails.” <i>Science</i>, vol. 383, no. 6678, American Association for the Advancement of Science, 2024, pp. 114–19, doi:<a href=\"https://doi.org/10.1126/science.adi2982\">10.1126/science.adi2982</a>."},"related_material":{"link":[{"relation":"press_release","url":"https://ista.ac.at/en/news/the-snail-or-the-egg/","description":"News on ISTA Website"}],"record":[{"relation":"research_data","id":"14812","status":"public"},{"status":"public","relation":"dissertation_contains","id":"20694"}]},"doi":"10.1126/science.adi2982","scopus_import":"1"},{"volume":16,"language":[{"iso":"eng"}],"year":"2023","ddc":["576"],"quality_controlled":"1","page":"542-559","issue":"2","file_date_updated":"2023-02-27T07:10:17Z","month":"02","isi":1,"article_processing_charge":"No","abstract":[{"text":"Understanding population divergence that eventually leads to speciation is essential for evolutionary biology. High species diversity in the sea was regarded as a paradox when strict allopatry was considered necessary for most speciation events because geographical barriers seemed largely absent in the sea, and many marine species have high dispersal capacities. Combining genome-wide data with demographic modelling to infer the demographic history of divergence has introduced new ways to address this classical issue. These models assume an ancestral population that splits into two subpopulations diverging according to different scenarios that allow tests for periods of gene flow. Models can also test for heterogeneities in population sizes and migration rates along the genome to account, respectively, for background selection and selection against introgressed ancestry. To investigate how barriers to gene flow arise in the sea, we compiled studies modelling the demographic history of divergence in marine organisms and extracted preferred demographic scenarios together with estimates of demographic parameters. These studies show that geographical barriers to gene flow do exist in the sea but that divergence can also occur without strict isolation. Heterogeneity of gene flow was detected in most population pairs suggesting the predominance of semipermeable barriers during divergence. We found a weak positive relationship between the fraction of the genome experiencing reduced gene flow and levels of genome-wide differentiation. Furthermore, we found that the upper bound of the ‘grey zone of speciation’ for our dataset extended beyond that found before, implying that gene flow between diverging taxa is possible at higher levels of divergence than previously thought. Finally, we list recommendations for further strengthening the use of demographic modelling in speciation research. These include a more balanced representation of taxa, more consistent and comprehensive modelling, clear reporting of results and simulation studies to rule out nonbiological explanations for general results.","lang":"eng"}],"citation":{"chicago":"De Jode, Aurélien, Alan Le Moan, Kerstin Johannesson, Rui Faria, Sean Stankowski, Anja M Westram, Roger K. Butlin, Marina Rafajlović, and Christelle Fraisse. “Ten Years of Demographic Modelling of Divergence and Speciation in the Sea.” <i>Evolutionary Applications</i>. Wiley, 2023. <a href=\"https://doi.org/10.1111/eva.13428\">https://doi.org/10.1111/eva.13428</a>.","ieee":"A. De Jode <i>et al.</i>, “Ten years of demographic modelling of divergence and speciation in the sea,” <i>Evolutionary Applications</i>, vol. 16, no. 2. Wiley, pp. 542–559, 2023.","ista":"De Jode A, Le Moan A, Johannesson K, Faria R, Stankowski S, Westram AM, Butlin RK, Rafajlović M, Fraisse C. 2023. Ten years of demographic modelling of divergence and speciation in the sea. Evolutionary Applications. 16(2), 542–559.","short":"A. De Jode, A. Le Moan, K. Johannesson, R. Faria, S. Stankowski, A.M. Westram, R.K. Butlin, M. Rafajlović, C. Fraisse, Evolutionary Applications 16 (2023) 542–559.","ama":"De Jode A, Le Moan A, Johannesson K, et al. Ten years of demographic modelling of divergence and speciation in the sea. <i>Evolutionary Applications</i>. 2023;16(2):542-559. doi:<a href=\"https://doi.org/10.1111/eva.13428\">10.1111/eva.13428</a>","apa":"De Jode, A., Le Moan, A., Johannesson, K., Faria, R., Stankowski, S., Westram, A. M., … Fraisse, C. (2023). Ten years of demographic modelling of divergence and speciation in the sea. <i>Evolutionary Applications</i>. Wiley. <a href=\"https://doi.org/10.1111/eva.13428\">https://doi.org/10.1111/eva.13428</a>","mla":"De Jode, Aurélien, et al. “Ten Years of Demographic Modelling of Divergence and Speciation in the Sea.” <i>Evolutionary Applications</i>, vol. 16, no. 2, Wiley, 2023, pp. 542–59, doi:<a href=\"https://doi.org/10.1111/eva.13428\">10.1111/eva.13428</a>."},"doi":"10.1111/eva.13428","scopus_import":"1","intvolume":"        16","has_accepted_license":"1","type":"journal_article","publisher":"Wiley","publication_status":"published","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_updated":"2025-04-23T08:49:14Z","status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","department":[{"_id":"NiBa"},{"_id":"BeVi"}],"day":"01","article_type":"original","acknowledgement":"We greatly thank all the corresponding authors of the studies that were included in our synthesis for the sharing of additional data: Thomas Broquet, Dmitry Filatov, Quentin Rougemont, Paolo Momigliano, Pierre-Alexandre Gagnaire, Carlos Prada, Ahmed Souissi, Michael Møller Hansen, Sylvie Lapègue, Joseph Di Battista, Michael Hellberg and Carlos Prada. RKB and ADJ were supported by the European Research Council. MR was supported by the Swedish Research Council Vetenskapsrådet (grant number 2021-05243; to MR) and Formas (grant number 2019-00882; to KJ and MR), and by additional grants from the European Research Council (to RKB) and Vetenskapsrådet (to KJ) through the Centre for Marine Evolutionary Biology (https://www.gu.se/en/cemeb-marine-evolutionary-biology).","title":"Ten years of demographic modelling of divergence and speciation in the sea","author":[{"first_name":"Aurélien","last_name":"De Jode","full_name":"De Jode, Aurélien"},{"full_name":"Le Moan, Alan","first_name":"Alan","last_name":"Le Moan"},{"last_name":"Johannesson","first_name":"Kerstin","full_name":"Johannesson, Kerstin"},{"full_name":"Faria, Rui","last_name":"Faria","first_name":"Rui"},{"last_name":"Stankowski","first_name":"Sean","full_name":"Stankowski, Sean","id":"43161670-5719-11EA-8025-FABC3DDC885E"},{"id":"3C147470-F248-11E8-B48F-1D18A9856A87","first_name":"Anja M","last_name":"Westram","orcid":"0000-0003-1050-4969","full_name":"Westram, Anja M"},{"last_name":"Butlin","first_name":"Roger K.","full_name":"Butlin, Roger K."},{"full_name":"Rafajlović, Marina","first_name":"Marina","last_name":"Rafajlović"},{"first_name":"Christelle","last_name":"Fraisse","full_name":"Fraisse, Christelle","orcid":"0000-0001-8441-5075","id":"32DF5794-F248-11E8-B48F-1D18A9856A87"}],"external_id":{"isi":["000815663700001"],"pmid":["36793688"]},"oa":1,"publication_identifier":{"eissn":["1752-4571"]},"date_published":"2023-02-01T00:00:00Z","file":[{"creator":"dernst","file_name":"2023_EvolutionaryApplications_DeJode.pdf","relation":"main_file","file_size":2269822,"checksum":"d4d6fa9ddf36643af994a6a757919afb","date_created":"2023-02-27T07:10:17Z","success":1,"content_type":"application/pdf","date_updated":"2023-02-27T07:10:17Z","access_level":"open_access","file_id":"12685"}],"publication":"Evolutionary Applications","pmid":1,"_id":"11479","oa_version":"Published Version","date_created":"2022-07-03T22:01:33Z"},{"intvolume":"        32","publisher":"Wiley","type":"journal_article","corr_author":"1","publication_status":"published","abstract":[{"text":"Kerstin Johannesson is a marine ecologist and evolutionary biologist based at the Tjärnö Marine Laboratory of the University of Gothenburg, which is situated in the beautiful Kosterhavet National Park on the Swedish west coast. Her work, using marine periwinkles (especially Littorina saxatilis and L. fabalis) as main model systems, has made a remarkable contribution to marine evolutionary biology and our understanding of local adaptation and its genetic underpinnings.","lang":"eng"}],"citation":{"mla":"Westram, Anja M., and Roger Butlin. “Professor Kerstin Johannesson–Winner of the 2022 Molecular Ecology Prize.” <i>Molecular Ecology</i>, vol. 32, no. 1, Wiley, 2023, pp. 26–29, doi:<a href=\"https://doi.org/10.1111/mec.16779\">10.1111/mec.16779</a>.","apa":"Westram, A. M., &#38; Butlin, R. (2023). Professor Kerstin Johannesson–winner of the 2022 Molecular Ecology Prize. <i>Molecular Ecology</i>. Wiley. <a href=\"https://doi.org/10.1111/mec.16779\">https://doi.org/10.1111/mec.16779</a>","ista":"Westram AM, Butlin R. 2023. Professor Kerstin Johannesson–winner of the 2022 Molecular Ecology Prize. Molecular Ecology. 32(1), 26–29.","chicago":"Westram, Anja M, and Roger Butlin. “Professor Kerstin Johannesson–Winner of the 2022 Molecular Ecology Prize.” <i>Molecular Ecology</i>. Wiley, 2023. <a href=\"https://doi.org/10.1111/mec.16779\">https://doi.org/10.1111/mec.16779</a>.","ieee":"A. M. Westram and R. Butlin, “Professor Kerstin Johannesson–winner of the 2022 Molecular Ecology Prize,” <i>Molecular Ecology</i>, vol. 32, no. 1. Wiley, pp. 26–29, 2023.","short":"A.M. Westram, R. Butlin, Molecular Ecology 32 (2023) 26–29.","ama":"Westram AM, Butlin R. Professor Kerstin Johannesson–winner of the 2022 Molecular Ecology Prize. <i>Molecular Ecology</i>. 2023;32(1):26-29. doi:<a href=\"https://doi.org/10.1111/mec.16779\">10.1111/mec.16779</a>"},"doi":"10.1111/mec.16779","scopus_import":"1","page":"26-29","issue":"1","month":"01","isi":1,"article_processing_charge":"No","volume":32,"language":[{"iso":"eng"}],"year":"2023","ddc":["570"],"quality_controlled":"1","publication":"Molecular Ecology","pmid":1,"_id":"12166","oa_version":"Published Version","date_created":"2023-01-12T12:10:28Z","external_id":{"pmid":["36443277"],"isi":["000892168800001"]},"oa":1,"publication_identifier":{"eissn":["1365-294X"],"issn":["0962-1083"]},"OA_type":"free access","date_published":"2023-01-01T00:00:00Z","day":"01","department":[{"_id":"NiBa"}],"article_type":"editorial","title":"Professor Kerstin Johannesson–winner of the 2022 Molecular Ecology Prize","author":[{"id":"3C147470-F248-11E8-B48F-1D18A9856A87","last_name":"Westram","first_name":"Anja M","orcid":"0000-0003-1050-4969","full_name":"Westram, Anja M"},{"first_name":"Roger","last_name":"Butlin","full_name":"Butlin, Roger"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1111/mec.16779"}],"date_updated":"2026-06-18T17:24:18Z","keyword":["Genetics","Ecology","Evolution","Behavior and Systematics"],"status":"public","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87"},{"publication":"Evolution: International journal of organic evolution","date_created":"2023-02-05T23:00:59Z","oa_version":"Published Version","_id":"12514","pmid":1,"oa":1,"external_id":{"isi":["001021686300024"],"pmid":["36622661"]},"date_published":"2023-01-01T00:00:00Z","publication_identifier":{"eissn":["1558-5646"]},"acknowledgement":"The authors of this article were supported by LMU Munich (J.B.W.W.), a James S. McDonnell Foundation postdoctoral fellowship (A.K.H.). P.N. received funding from the European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (Grant agreement No. 770826 EE-Dynamics).\r\nWe thank participants in the 2019 Gordon Conference on Speciation for the extensive conversation on this topic. Thanks to Dan Funk for providing permission to use data from Funk et al. 2006, and for comments on the manuscript.","article_type":"original","day":"01","department":[{"_id":"NiBa"}],"title":"A multivariate view of the speciation continuum","main_file_link":[{"url":"https://doi.org/10.1093/evolut/qpac004","open_access":"1"}],"author":[{"full_name":"Bolnick, Daniel I.","first_name":"Daniel I.","last_name":"Bolnick"},{"full_name":"Hund, Amanda K.","last_name":"Hund","first_name":"Amanda K."},{"last_name":"Nosil","first_name":"Patrik","full_name":"Nosil, Patrik"},{"full_name":"Peng, Foen","last_name":"Peng","first_name":"Foen"},{"full_name":"Ravinet, Mark","first_name":"Mark","last_name":"Ravinet"},{"id":"43161670-5719-11EA-8025-FABC3DDC885E","full_name":"Stankowski, Sean","last_name":"Stankowski","first_name":"Sean"},{"full_name":"Subramanian, Swapna","first_name":"Swapna","last_name":"Subramanian"},{"full_name":"Wolf, Jochen B.W.","last_name":"Wolf","first_name":"Jochen B.W."},{"last_name":"Yukilevich","first_name":"Roman","full_name":"Yukilevich, Roman"}],"status":"public","date_updated":"2026-06-18T17:26:56Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","intvolume":"        77","publication_status":"published","publisher":"Oxford University Press","type":"journal_article","citation":{"apa":"Bolnick, D. I., Hund, A. K., Nosil, P., Peng, F., Ravinet, M., Stankowski, S., … Yukilevich, R. (2023). A multivariate view of the speciation continuum. <i>Evolution: International Journal of Organic Evolution</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/evolut/qpac004\">https://doi.org/10.1093/evolut/qpac004</a>","mla":"Bolnick, Daniel I., et al. “A Multivariate View of the Speciation Continuum.” <i>Evolution: International Journal of Organic Evolution</i>, vol. 77, no. 1, Oxford University Press, 2023, pp. 318–28, doi:<a href=\"https://doi.org/10.1093/evolut/qpac004\">10.1093/evolut/qpac004</a>.","ista":"Bolnick DI, Hund AK, Nosil P, Peng F, Ravinet M, Stankowski S, Subramanian S, Wolf JBW, Yukilevich R. 2023. A multivariate view of the speciation continuum. Evolution: International journal of organic evolution. 77(1), 318–328.","chicago":"Bolnick, Daniel I., Amanda K. Hund, Patrik Nosil, Foen Peng, Mark Ravinet, Sean Stankowski, Swapna Subramanian, Jochen B.W. Wolf, and Roman Yukilevich. “A Multivariate View of the Speciation Continuum.” <i>Evolution: International Journal of Organic Evolution</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/evolut/qpac004\">https://doi.org/10.1093/evolut/qpac004</a>.","ieee":"D. I. Bolnick <i>et al.</i>, “A multivariate view of the speciation continuum,” <i>Evolution: International journal of organic evolution</i>, vol. 77, no. 1. Oxford University Press, pp. 318–328, 2023.","ama":"Bolnick DI, Hund AK, Nosil P, et al. A multivariate view of the speciation continuum. <i>Evolution: International journal of organic evolution</i>. 2023;77(1):318-328. doi:<a href=\"https://doi.org/10.1093/evolut/qpac004\">10.1093/evolut/qpac004</a>","short":"D.I. Bolnick, A.K. Hund, P. Nosil, F. Peng, M. Ravinet, S. Stankowski, S. Subramanian, J.B.W. Wolf, R. Yukilevich, Evolution: International Journal of Organic Evolution 77 (2023) 318–328."},"abstract":[{"lang":"eng","text":"The concept of a “speciation continuum” has gained popularity in recent decades. It emphasizes speciation as a continuous process that may be studied by comparing contemporary population pairs that show differing levels of divergence. In their recent perspective article in Evolution, Stankowski and Ravinet provided a valuable service by formally defining the speciation continuum as a continuum of reproductive isolation, based on opinions gathered from a survey of speciation researchers. While we agree that the speciation continuum has been a useful concept to advance the understanding of the speciation process, some intrinsic limitations exist. Here, we advocate for a multivariate extension, the speciation hypercube, first proposed by Dieckmann et al. in 2004, but rarely used since. We extend the idea of the speciation cube and suggest it has strong conceptual and practical advantages over a one-dimensional model. We illustrate how the speciation hypercube can be used to visualize and compare different speciation trajectories, providing new insights into the processes and mechanisms of speciation. A key strength of the speciation hypercube is that it provides a unifying framework for speciation research, as it allows questions from apparently disparate subfields to be addressed in a single conceptual model."}],"scopus_import":"1","doi":"10.1093/evolut/qpac004","month":"01","page":"318-328","issue":"1","article_processing_charge":"No","isi":1,"language":[{"iso":"eng"}],"volume":77,"quality_controlled":"1","year":"2023","ddc":["570"]},{"article_processing_charge":"No","author":[{"id":"33AB266C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8330-1754","full_name":"Puixeu Sala, Gemma","first_name":"Gemma","last_name":"Puixeu Sala"}],"title":"Data from: Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster","month":"05","day":"15","department":[{"_id":"GradSch"},{"_id":"NiBa"},{"_id":"BeVi"}],"contributor":[{"first_name":"Ariana","last_name":"Macon","id":"2A0848E2-F248-11E8-B48F-1D18A9856A87"},{"orcid":"0000-0002-4579-8306","first_name":"Beatriz","last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"}],"file_date_updated":"2023-05-11T12:50:18Z","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["570"],"year":"2023","status":"public","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_updated":"2026-04-07T13:25:33Z","oa_version":"Published Version","date_created":"2023-05-10T10:00:49Z","_id":"12933","type":"research_data","corr_author":"1","publisher":"Institute of Science and Technology Austria","has_accepted_license":"1","file":[{"date_created":"2023-05-10T09:41:43Z","checksum":"0ba0bcd0bb8b18d84792136a4370df90","file_size":8029982,"relation":"main_file","file_name":"Dataset_S1.csv","creator":"gpuixeus","file_id":"12934","access_level":"open_access","date_updated":"2023-05-10T09:41:43Z","success":1,"content_type":"text/csv"},{"relation":"main_file","file_size":13667640,"date_created":"2023-05-10T09:41:43Z","checksum":"a62aa9a6d4904e0fdb699cf752640863","creator":"gpuixeus","file_name":"Dataset_S2.csv","file_id":"12935","content_type":"text/csv","success":1,"date_updated":"2023-05-10T09:41:43Z","access_level":"open_access"},{"file_name":"Dataset_S3.csv","creator":"gpuixeus","checksum":"e20ea7f4f8a9bdf1b3849a44664ae58b","date_created":"2023-05-10T09:41:48Z","file_size":8369141,"relation":"main_file","access_level":"open_access","date_updated":"2023-05-10T09:41:48Z","success":1,"content_type":"text/csv","file_id":"12936"},{"creator":"gpuixeus","file_name":"Dataset_S4.csv","relation":"main_file","date_created":"2023-05-10T09:41:50Z","checksum":"f6156e5fc44446c907ddd0d7289d4cf8","file_size":19543247,"date_updated":"2023-05-10T09:41:50Z","content_type":"text/csv","success":1,"access_level":"open_access","file_id":"12937"},{"checksum":"ae9f54c77a1c42b666ae6c1dfd33ac86","date_created":"2023-05-11T12:50:18Z","file_size":4566,"relation":"main_file","file_name":"readme.txt","creator":"gpuixeus","file_id":"12944","access_level":"open_access","date_updated":"2023-05-11T12:50:18Z","success":1,"content_type":"text/plain"}],"date_published":"2023-05-15T00:00:00Z","related_material":{"record":[{"status":"public","relation":"used_in_publication","id":"14077"},{"status":"public","id":"14058","relation":"used_in_publication"}]},"doi":"10.15479/AT:ISTA:12933","citation":{"mla":"Puixeu Sala, Gemma. <i>Data from: Sex-Specific Estimation of Cis and Trans Regulation of Gene Expression in Heads and Gonads of Drosophila Melanogaster</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:12933\">10.15479/AT:ISTA:12933</a>.","apa":"Puixeu Sala, G. (2023). Data from: Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:12933\">https://doi.org/10.15479/AT:ISTA:12933</a>","chicago":"Puixeu Sala, Gemma. “Data from: Sex-Specific Estimation of Cis and Trans Regulation of Gene Expression in Heads and Gonads of Drosophila Melanogaster.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:12933\">https://doi.org/10.15479/AT:ISTA:12933</a>.","ista":"Puixeu Sala G. 2023. Data from: Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:12933\">10.15479/AT:ISTA:12933</a>.","ieee":"G. Puixeu Sala, “Data from: Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster.” Institute of Science and Technology Austria, 2023.","ama":"Puixeu Sala G. Data from: Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:12933\">10.15479/AT:ISTA:12933</a>","short":"G. Puixeu Sala, (2023)."},"oa":1,"abstract":[{"text":"Datasets of the publication \"Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster\".","lang":"eng"}]},{"oa":1,"citation":{"mla":"Barton, Nicholas H. <i>The Infinitesimal Model with Dominance</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/AT:ISTA:12949\">10.15479/AT:ISTA:12949</a>.","apa":"Barton, N. H. (2023). The infinitesimal model with dominance. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/AT:ISTA:12949\">https://doi.org/10.15479/AT:ISTA:12949</a>","ista":"Barton NH. 2023. The infinitesimal model with dominance, Institute of Science and Technology Austria, <a href=\"https://doi.org/10.15479/AT:ISTA:12949\">10.15479/AT:ISTA:12949</a>.","ieee":"N. H. Barton, “The infinitesimal model with dominance.” Institute of Science and Technology Austria, 2023.","chicago":"Barton, Nicholas H. “The Infinitesimal Model with Dominance.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/AT:ISTA:12949\">https://doi.org/10.15479/AT:ISTA:12949</a>.","ama":"Barton NH. The infinitesimal model with dominance. 2023. doi:<a href=\"https://doi.org/10.15479/AT:ISTA:12949\">10.15479/AT:ISTA:12949</a>","short":"N.H. Barton, (2023)."},"abstract":[{"lang":"eng","text":"The classical infinitesimal model is a simple and robust model for the inheritance of quantitative traits. In this model, a quantitative trait is expressed as the sum of a genetic and a non-genetic (environmental) component and the genetic component of offspring traits within a family follows a normal distribution around the average of the parents’ trait values, and has a variance that is independent of the trait values of the parents. Although the trait distribution across the whole population can be far from normal, the trait distributions within families are normally distributed with a variance-covariance matrix that is determined entirely by that in  the ancestral population and the probabilities of identity determined by the pedigree. Moreover, conditioning on some of the trait values within the pedigree has predictable effects on the mean and variance within and between families. In previous work, Barton et al. (2017), we showed that when trait values are determined by the sum of a large number of Mendelian factors, each  of small effect, one can justify the infinitesimal model as limit of Mendelian inheritance. It was also shown that under some forms of epistasis, trait values within a family are still normally distributed."}],"date_published":"2023-05-13T00:00:00Z","doi":"10.15479/AT:ISTA:12949","related_material":{"record":[{"status":"public","id":"14452","relation":"used_in_publication"}]},"has_accepted_license":"1","file":[{"date_created":"2023-05-13T09:36:33Z","checksum":"b0ce7d4b1ee7e7265430ceed36fc3336","file_size":13662,"relation":"main_file","file_name":"Neutral identities 16th Jan","creator":"nbarton","file_id":"12950","access_level":"open_access","date_updated":"2023-05-13T09:36:33Z","content_type":"application/octet-stream","success":1},{"file_name":"p, zA, zD, N=30 neutral 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Austria","_id":"12949","corr_author":"1","type":"research_data","project":[{"grant_number":"101055327","_id":"bd6958e0-d553-11ed-ba76-86eba6a76c00","name":"Understanding the evolution of continuous genomes"}],"status":"public","keyword":["Quantitative genetics","infinitesimal model"],"date_updated":"2025-09-09T13:07:07Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","ddc":["576"],"year":"2023","month":"05","file_date_updated":"2023-05-16T04:09:08Z","contributor":[{"last_name":"Veber","first_name":"Amandine","contributor_type":"researcher"},{"contributor_type":"researcher","first_name":"Alison","last_name":"Etheridge"}],"day":"13","department":[{"_id":"NiBa"}],"article_processing_charge":"No","author":[{"first_name":"Nicholas H","last_name":"Barton","full_name":"Barton, Nicholas H","orcid":"0000-0002-8548-5240","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"}],"title":"The infinitesimal model with dominance"},{"publication_identifier":{"issn":["2663-337X"],"isbn":["978-3-99078-035-0"]},"date_published":"2023-08-15T00:00:00Z","oa":1,"_id":"14058","project":[{"call_identifier":"H2020","name":"International IST Doctoral Program","_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385"},{"grant_number":"25817","_id":"9B9DFC9E-BA93-11EA-9121-9846C619BF3A","name":"Sexual conflict: resolution, constraints and biomedical implications"}],"date_created":"2023-08-15T10:20:40Z","oa_version":"Published Version","file":[{"file_name":"Thesis_latex_forpdfa.zip","creator":"gpuixeus","file_size":10891454,"checksum":"4e44e169f2724ee8c9324cd60bcc2b71","date_created":"2023-08-16T18:15:17Z","relation":"source_file","access_level":"closed","content_type":"application/zip","date_updated":"2023-08-17T06:55:24Z","file_id":"14075"},{"file_id":"14079","access_level":"open_access","success":1,"content_type":"application/pdf","date_updated":"2023-08-18T10:47:55Z","file_size":19856686,"checksum":"e10b04cd8f3fecc0d9ef6e6868b6e1e8","date_created":"2023-08-18T10:47:55Z","relation":"main_file","file_name":"PhDThesis_PuixeuG.pdf","creator":"gpuixeus"}],"user_id":"ba8df636-2132-11f1-aed0-ed93e2281fdd","date_updated":"2026-04-07T13:25:34Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"status":"public","title":"The molecular basis of sexual dimorphism: Experimental and theoretical characterization of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation","author":[{"id":"33AB266C-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0001-8330-1754","full_name":"Puixeu Sala, Gemma","first_name":"Gemma","last_name":"Puixeu Sala"}],"alternative_title":["ISTA Thesis"],"ec_funded":1,"day":"15","department":[{"_id":"GradSch"},{"_id":"NiBa"},{"_id":"BeVi"}],"degree_awarded":"PhD","OA_place":"publisher","doi":"10.15479/at:ista:14058","related_material":{"record":[{"id":"9803","relation":"research_data","status":"public"},{"relation":"research_data","id":"12933","status":"public"},{"relation":"part_of_dissertation","id":"6831","status":"public"},{"status":"public","relation":"part_of_dissertation","id":"14077"}]},"abstract":[{"text":"Females and males across species are subject to divergent selective pressures arising\r\nfrom di↵erent reproductive interests and ecological niches. This often translates into a\r\nintricate array of sex-specific natural and sexual selection on traits that have a shared\r\ngenetic basis between both sexes, causing a genetic sexual conflict. The resolution of\r\nthis conflict mostly relies on the evolution of sex-specific expression of the shared genes,\r\nleading to phenotypic sexual dimorphism. Such sex-specific gene expression is thought\r\nto evolve via modifications of the genetic networks ultimately linked to sex-determining\r\ntranscription factors. Although much empirical and theoretical evidence supports this\r\nstandard picture of the molecular basis of sexual conflict resolution, there still are a\r\nfew open questions regarding the complex array of selective forces driving phenotypic\r\ndi↵erentiation between the sexes, as well as the molecular mechanisms underlying sexspecific adaptation. I address some of these open questions in my PhD thesis.\r\nFirst, how do patterns of phenotypic sexual dimorphism vary within populations,\r\nas a response to the temporal and spatial changes in sex-specific selective forces? To\r\ntackle this question, I analyze the patterns of sex-specific phenotypic variation along\r\nthree life stages and across populations spanning the whole geographical range of Rumex\r\nhastatulus, a wind-pollinated angiosperm, in the first Chapter of the thesis.\r\nSecond, how do gene expression patterns lead to phenotypic dimorphism, and what\r\nare the molecular mechanisms underlying the observed transcriptomic variation? I\r\naddress this question by examining the sex- and tissue-specific expression variation in\r\nnewly-generated datasets of sex-specific expression in heads and gonads of Drosophila\r\nmelanogaster. I additionally used two complementary approaches for the study of the\r\ngenetic basis of sex di↵erences in gene expression in the second and third Chapters of\r\nthe thesis.\r\nThird, how does intersex correlation, thought to be one of the main aspects constraining the ability for the two sexes to decouple, interact with the evolution of sexual\r\ndimorphism? I develop models of sex-specific stabilizing selection, mutation and drift\r\nto formalize common intuition regarding the patterns of covariation between intersex\r\ncorrelation and sexual dimorphism in the fourth Chapter of the thesis.\r\nAlltogether, the work described in this PhD thesis provides useful insights into the\r\nlinks between genetic, transcriptomic and phenotypic layers of sex-specific variation,\r\nand contributes to our general understanding of the dynamics of sexual dimorphism\r\nevolution.","lang":"eng"}],"citation":{"chicago":"Puixeu Sala, Gemma. “The Molecular Basis of Sexual Dimorphism: Experimental and Theoretical Characterization of Phenotypic, Transcriptomic and Genetic Patterns of Sex-Specific Adaptation.” Institute of Science and Technology Austria, 2023. <a href=\"https://doi.org/10.15479/at:ista:14058\">https://doi.org/10.15479/at:ista:14058</a>.","ista":"Puixeu Sala G. 2023. The molecular basis of sexual dimorphism: Experimental and theoretical characterization of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation. Institute of Science and Technology Austria.","ieee":"G. Puixeu Sala, “The molecular basis of sexual dimorphism: Experimental and theoretical characterization of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation,” Institute of Science and Technology Austria, 2023.","short":"G. Puixeu Sala, The Molecular Basis of Sexual Dimorphism: Experimental and Theoretical Characterization of Phenotypic, Transcriptomic and Genetic Patterns of Sex-Specific Adaptation, Institute of Science and Technology Austria, 2023.","ama":"Puixeu Sala G. The molecular basis of sexual dimorphism: Experimental and theoretical characterization of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation. 2023. doi:<a href=\"https://doi.org/10.15479/at:ista:14058\">10.15479/at:ista:14058</a>","apa":"Puixeu Sala, G. (2023). <i>The molecular basis of sexual dimorphism: Experimental and theoretical characterization of phenotypic, transcriptomic and genetic patterns of sex-specific adaptation</i>. Institute of Science and Technology Austria. <a href=\"https://doi.org/10.15479/at:ista:14058\">https://doi.org/10.15479/at:ista:14058</a>","mla":"Puixeu Sala, Gemma. <i>The Molecular Basis of Sexual Dimorphism: Experimental and Theoretical Characterization of Phenotypic, Transcriptomic and Genetic Patterns of Sex-Specific Adaptation</i>. Institute of Science and Technology Austria, 2023, doi:<a href=\"https://doi.org/10.15479/at:ista:14058\">10.15479/at:ista:14058</a>."},"publisher":"Institute of Science and Technology Austria","type":"dissertation","corr_author":"1","supervisor":[{"last_name":"Vicoso","first_name":"Beatriz","orcid":"0000-0002-4579-8306","full_name":"Vicoso, Beatriz","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","last_name":"Barton","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H"}],"publication_status":"published","has_accepted_license":"1","ddc":["576"],"year":"2023","language":[{"iso":"eng"}],"article_processing_charge":"No","file_date_updated":"2023-08-18T10:47:55Z","page":"230","month":"08"},{"year":"2023","ddc":["570"],"acknowledged_ssus":[{"_id":"ScienComp"}],"quality_controlled":"1","volume":13,"language":[{"iso":"eng"}],"isi":1,"article_processing_charge":"Yes","file_date_updated":"2023-11-07T09:00:19Z","issue":"8","month":"08","doi":"10.1093/g3journal/jkad121","related_material":{"record":[{"status":"public","relation":"research_data","id":"12933"},{"status":"public","id":"14058","relation":"dissertation_contains"}]},"scopus_import":"1","abstract":[{"lang":"eng","text":"The regulatory architecture of gene expression is known to differ substantially between sexes in Drosophila, but most studies performed\r\nso far used whole-body data and only single crosses, which may have limited their scope to detect patterns that are robust across tissues\r\nand biological replicates. Here, we use allele-specific gene expression of parental and reciprocal hybrid crosses between 6 Drosophila\r\nmelanogaster inbred lines to quantify cis- and trans-regulatory variation in heads and gonads of both sexes separately across 3 replicate\r\ncrosses. Our results suggest that female and male heads, as well as ovaries, have a similar regulatory architecture. On the other hand,\r\ntestes display more and substantially different cis-regulatory effects, suggesting that sex differences in the regulatory architecture that\r\nhave been previously observed may largely derive from testis-specific effects. We also examine the difference in cis-regulatory variation\r\nof genes across different levels of sex bias in gonads and heads. Consistent with the idea that intersex correlations constrain expression\r\nand can lead to sexual antagonism, we find more cis variation in unbiased and moderately biased genes in heads. In ovaries, reduced cis\r\nvariation is observed for male-biased genes, suggesting that cis variants acting on these genes in males do not lead to changes in ovary\r\nexpression. Finally, we examine the dominance patterns of gene expression and find that sex- and tissue-specific patterns of inheritance\r\nas well as trans-regulatory variation are highly variable across biological crosses, although these were performed in highly controlled\r\nexperimental conditions. This highlights the importance of using various genetic backgrounds to infer generalizable patterns."}],"citation":{"ieee":"G. Puixeu Sala, A. Macon, and B. Vicoso, “Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster,” <i>G3: Genes, Genomes, Genetics</i>, vol. 13, no. 8. Oxford University Press, 2023.","chicago":"Puixeu Sala, Gemma, Ariana Macon, and Beatriz Vicoso. “Sex-Specific Estimation of Cis and Trans Regulation of Gene Expression in Heads and Gonads of Drosophila Melanogaster.” <i>G3: Genes, Genomes, Genetics</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/g3journal/jkad121\">https://doi.org/10.1093/g3journal/jkad121</a>.","ista":"Puixeu Sala G, Macon A, Vicoso B. 2023. Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. G3: Genes, Genomes, Genetics. 13(8).","ama":"Puixeu Sala G, Macon A, Vicoso B. Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. <i>G3: Genes, Genomes, Genetics</i>. 2023;13(8). doi:<a href=\"https://doi.org/10.1093/g3journal/jkad121\">10.1093/g3journal/jkad121</a>","short":"G. Puixeu Sala, A. Macon, B. Vicoso, G3: Genes, Genomes, Genetics 13 (2023).","apa":"Puixeu Sala, G., Macon, A., &#38; Vicoso, B. (2023). Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster. <i>G3: Genes, Genomes, Genetics</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/g3journal/jkad121\">https://doi.org/10.1093/g3journal/jkad121</a>","mla":"Puixeu Sala, Gemma, et al. “Sex-Specific Estimation of Cis and Trans Regulation of Gene Expression in Heads and Gonads of Drosophila Melanogaster.” <i>G3: Genes, Genomes, Genetics</i>, vol. 13, no. 8, Oxford University Press, 2023, doi:<a href=\"https://doi.org/10.1093/g3journal/jkad121\">10.1093/g3journal/jkad121</a>."},"publisher":"Oxford University Press","corr_author":"1","type":"journal_article","publication_status":"published","intvolume":"        13","has_accepted_license":"1","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","keyword":["Genetics (clinical)","Genetics","Molecular Biology"],"date_updated":"2026-04-07T13:25:34Z","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"status":"public","title":"Sex-specific estimation of cis and trans regulation of gene expression in heads and gonads of Drosophila melanogaster","author":[{"full_name":"Puixeu Sala, Gemma","orcid":"0000-0001-8330-1754","last_name":"Puixeu Sala","first_name":"Gemma","id":"33AB266C-F248-11E8-B48F-1D18A9856A87"},{"id":"2A0848E2-F248-11E8-B48F-1D18A9856A87","full_name":"Macon, Ariana","first_name":"Ariana","last_name":"Macon"},{"orcid":"0000-0002-4579-8306","full_name":"Vicoso, Beatriz","first_name":"Beatriz","last_name":"Vicoso","id":"49E1C5C6-F248-11E8-B48F-1D18A9856A87"}],"ec_funded":1,"department":[{"_id":"BeVi"},{"_id":"NiBa"},{"_id":"GradSch"}],"day":"01","acknowledgement":"We thank members of the Vicoso Group for comments on the manuscript, the Scientific Computing Unit at ISTA for technical support, and 2 anonymous reviewers for useful feedback. 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).","article_type":"original","publication_identifier":{"issn":["2160-1836"]},"date_published":"2023-08-01T00:00:00Z","oa":1,"external_id":{"pmid":["37259621"],"isi":["001002997200001"]},"_id":"14077","pmid":1,"project":[{"_id":"2564DBCA-B435-11E9-9278-68D0E5697425","grant_number":"665385","call_identifier":"H2020","name":"International IST Doctoral Program"},{"grant_number":"25817","_id":"9B9DFC9E-BA93-11EA-9121-9846C619BF3A","name":"Sexual conflict: resolution, constraints and biomedical implications"}],"date_created":"2023-08-18T06:52:14Z","oa_version":"Published Version","file":[{"success":1,"content_type":"application/pdf","date_updated":"2023-11-07T09:00:19Z","access_level":"open_access","file_id":"14498","creator":"dernst","file_name":"2023_G3_Puixeu.pdf","relation":"main_file","file_size":845642,"date_created":"2023-11-07T09:00:19Z","checksum":"c62e29fc7c5efbf8356f4c60cab4a2d1"}],"publication":"G3: Genes, Genomes, Genetics"},{"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","tmp":{"short":"CC BY (4.0)","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode","image":"/images/cc_by.png","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)"},"date_updated":"2025-09-09T13:07:07Z","status":"public","title":"The infinitesimal model with dominance","author":[{"first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240","full_name":"Barton, Nicholas H","id":"4880FE40-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Alison M.","last_name":"Etheridge","full_name":"Etheridge, Alison M."},{"last_name":"Véber","first_name":"Amandine","full_name":"Véber, Amandine"}],"department":[{"_id":"NiBa"}],"day":"01","ec_funded":1,"article_type":"original","acknowledgement":"NHB was supported in part by ERC Grants 250152 and 101055327. AV was partly supported by the chaire Modélisation Mathématique et Biodiversité of Veolia Environment—Ecole Polytechnique—Museum National d’Histoire Naturelle—Fondation X.","publication_identifier":{"issn":["0016-6731"],"eissn":["1943-2631"]},"arxiv":1,"date_published":"2023-10-01T00:00:00Z","external_id":{"arxiv":["2211.03515"],"isi":["001148042000008"]},"oa":1,"project":[{"name":"Limits to selection in biology and in evolutionary computation","call_identifier":"FP7","grant_number":"250152","_id":"25B07788-B435-11E9-9278-68D0E5697425"},{"name":"Understanding the evolution of continuous genomes","grant_number":"101055327","_id":"bd6958e0-d553-11ed-ba76-86eba6a76c00"}],"_id":"14452","oa_version":"Published Version","article_number":"iyad133","date_created":"2023-10-29T23:01:15Z","file":[{"file_id":"14469","content_type":"application/pdf","success":1,"date_updated":"2023-10-30T12:57:53Z","access_level":"open_access","relation":"main_file","file_size":1439032,"checksum":"3f65b1fbe813e2f4dbb5d2b5e891844a","date_created":"2023-10-30T12:57:53Z","creator":"dernst","file_name":"2023_Genetics_Barton.pdf"}],"publication":"Genetics","year":"2023","ddc":["570"],"quality_controlled":"1","volume":225,"language":[{"iso":"eng"}],"isi":1,"article_processing_charge":"Yes (in subscription journal)","issue":"2","file_date_updated":"2023-10-30T12:57:53Z","month":"10","related_material":{"record":[{"relation":"research_data","id":"12949","status":"public"}]},"doi":"10.1093/genetics/iyad133","scopus_import":"1","abstract":[{"lang":"eng","text":"The classical infinitesimal model is a simple and robust model for the inheritance of quantitative traits. In this model, a quantitative trait is expressed as the sum of a genetic and an environmental component, and the genetic component of offspring traits within a family follows a normal distribution around the average of the parents’ trait values, and has a variance that is independent of the parental traits. In previous work, we showed that when trait values are determined by the sum of a large number of additive Mendelian factors, each of small effect, one can justify the infinitesimal model as a limit of Mendelian inheritance. In this paper, we show that this result extends to include dominance. We define the model in terms of classical quantities of quantitative genetics, before justifying it as a limit of Mendelian inheritance as the number, M, of underlying loci tends to infinity. As in the additive case, the multivariate normal distribution of trait values across the pedigree can be expressed in terms of variance components in an ancestral population and probabilities of identity by descent determined by the pedigree. Now, with just first-order dominance effects, we require two-, three-, and four-way identities. We also show that, even if we condition on parental trait values, the “shared” and “residual” components of trait values within each family will be asymptotically normally distributed as the number of loci tends to infinity, with an error of order 1/M−−√⁠. We illustrate our results with some numerical examples."}],"citation":{"mla":"Barton, Nicholas H., et al. “The Infinitesimal Model with Dominance.” <i>Genetics</i>, vol. 225, no. 2, iyad133, Oxford University Press, 2023, doi:<a href=\"https://doi.org/10.1093/genetics/iyad133\">10.1093/genetics/iyad133</a>.","apa":"Barton, N. H., Etheridge, A. M., &#38; Véber, A. (2023). The infinitesimal model with dominance. <i>Genetics</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/genetics/iyad133\">https://doi.org/10.1093/genetics/iyad133</a>","chicago":"Barton, Nicholas H, Alison M. Etheridge, and Amandine Véber. “The Infinitesimal Model with Dominance.” <i>Genetics</i>. Oxford University Press, 2023. <a href=\"https://doi.org/10.1093/genetics/iyad133\">https://doi.org/10.1093/genetics/iyad133</a>.","ista":"Barton NH, Etheridge AM, Véber A. 2023. The infinitesimal model with dominance. Genetics. 225(2), iyad133.","ieee":"N. H. Barton, A. M. Etheridge, and A. Véber, “The infinitesimal model with dominance,” <i>Genetics</i>, vol. 225, no. 2. Oxford University Press, 2023.","ama":"Barton NH, Etheridge AM, Véber A. The infinitesimal model with dominance. <i>Genetics</i>. 2023;225(2). doi:<a href=\"https://doi.org/10.1093/genetics/iyad133\">10.1093/genetics/iyad133</a>","short":"N.H. Barton, A.M. Etheridge, A. Véber, Genetics 225 (2023)."},"publisher":"Oxford University Press","type":"journal_article","publication_status":"published","intvolume":"       225","has_accepted_license":"1"}]