[{"publication":"Journal of Evolutionary Biology","issue":"3","author":[{"full_name":"Perini, Samuel","last_name":"Perini","first_name":"Samuel"},{"full_name":"Johannesson, Kerstin","first_name":"Kerstin","last_name":"Johannesson"},{"first_name":"Roger K.","last_name":"Butlin","full_name":"Butlin, Roger K."},{"full_name":"Westram, Anja M","id":"3C147470-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1050-4969","last_name":"Westram","first_name":"Anja M"}],"status":"public","page":"367-378","file":[{"file_id":"19469","file_name":"2025_JourEvolBiology_Perini.pdf","success":1,"content_type":"application/pdf","file_size":12826085,"date_created":"2025-04-03T11:53:06Z","access_level":"open_access","date_updated":"2025-04-03T11:53:06Z","creator":"dernst","checksum":"01408e626a4131bfec5ffc70b0af9129","relation":"main_file"}],"ddc":["570"],"acknowledgement":"This work was supported by the Natural Environment Research Council (NE/K014021/1), European Research Council (ERC-2015-AdG-693030- BARRIERS) and Swedish Research Council VR (2018-03695) and we are also very grateful for the support of the Linnaeus Centre for Marine Evolutionary Biology at the University of Gothenburg.\r\nWe thank the Swedish Bioinformatics Advisory Program organized by SciLifeLab for feedback and assistance on the variant calling pipeline and Alan Le Moan for helpful discussions. R.K.B. and A.M.W. contributed equally to this work. We are also very grateful to Tomas Larsson and Marina Panova for their bioinformatic analyses on the genome and the annotation. The bioinformatic analyses were performed on resources at the University of Sheffield’s High Performance Computing cluster, ShARC. We thank two anonymous reviewers for helpful comments on a previous version.","volume":38,"month":"03","corr_author":"1","has_accepted_license":"1","citation":{"chicago":"Perini, Samuel, Kerstin Johannesson, Roger K. Butlin, and Anja M Westram. “Short INDELs and SNPs as Markers of Evolutionary Processes in Hybrid Zones.” <i>Journal of Evolutionary Biology</i>. Oxford University Press, 2025. <a href=\"https://doi.org/10.1093/jeb/voaf002\">https://doi.org/10.1093/jeb/voaf002</a>.","ama":"Perini S, Johannesson K, Butlin RK, Westram AM. Short INDELs and SNPs as markers of evolutionary processes in hybrid zones. <i>Journal of Evolutionary Biology</i>. 2025;38(3):367-378. doi:<a href=\"https://doi.org/10.1093/jeb/voaf002\">10.1093/jeb/voaf002</a>","apa":"Perini, S., Johannesson, K., Butlin, R. K., &#38; Westram, A. M. (2025). Short INDELs and SNPs as markers of evolutionary processes in hybrid zones. <i>Journal of Evolutionary Biology</i>. Oxford University Press. <a href=\"https://doi.org/10.1093/jeb/voaf002\">https://doi.org/10.1093/jeb/voaf002</a>","ieee":"S. Perini, K. Johannesson, R. K. Butlin, and A. M. Westram, “Short INDELs and SNPs as markers of evolutionary processes in hybrid zones,” <i>Journal of Evolutionary Biology</i>, vol. 38, no. 3. Oxford University Press, pp. 367–378, 2025.","short":"S. Perini, K. Johannesson, R.K. Butlin, A.M. Westram, Journal of Evolutionary Biology 38 (2025) 367–378.","mla":"Perini, Samuel, et al. “Short INDELs and SNPs as Markers of Evolutionary Processes in Hybrid Zones.” <i>Journal of Evolutionary Biology</i>, vol. 38, no. 3, Oxford University Press, 2025, pp. 367–78, doi:<a href=\"https://doi.org/10.1093/jeb/voaf002\">10.1093/jeb/voaf002</a>.","ista":"Perini S, Johannesson K, Butlin RK, Westram AM. 2025. Short INDELs and SNPs as markers of evolutionary processes in hybrid zones. Journal of Evolutionary Biology. 38(3), 367–378."},"abstract":[{"lang":"eng","text":"Polymorphic short insertions and deletions (INDELs \r\n 50 bp) are abundant, although less common than single nucleotide polymorphisms (SNPs). Evidence from model organisms shows INDELs to be more strongly influenced by purifying selection than SNPs. Partly for this reason, INDELs are rarely used as markers for demographic processes or to detect divergent selection. Here, we compared INDELs and SNPs in the intertidal snail Littorina saxatilis, focussing on hybrid zones between ecotypes, in order to test the utility of INDELs in the detection of divergent selection. We computed INDEL and SNP site frequency spectra using capture sequencing data. We assessed the impact of divergent selection by analyzing allele frequency clines across habitat boundaries. We also examined the influence of GC-biased gene conversion because it may be confounded with signatures of selection. We show evidence that short INDELs are affected more by purifying selection than SNPs, but part of the observed site frequency spectra difference can be attributed to GC-biased gene conversion. We did not find a difference in the impact of divergent selection between short INDELs and SNPs. Short INDELs and SNPs were similarly distributed across the genome and so are likely to respond to indirect selection in the same way. A few regions likely affected by divergent selection were revealed by INDELs and not by SNPs. Short INDELs can be useful (additional) genetic markers helping to identify genomic regions important for adaptation and population divergence."}],"tmp":{"short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"date_published":"2025-03-01T00:00:00Z","date_updated":"2025-09-30T11:19:56Z","intvolume":"        38","type":"journal_article","oa":1,"pmid":1,"day":"01","external_id":{"isi":["001415267900001"],"pmid":["39803902"]},"publisher":"Oxford University Press","year":"2025","OA_type":"hybrid","publication_status":"published","department":[{"_id":"NiBa"}],"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication_identifier":{"issn":["1010-061X"],"eissn":["1420-9101"]},"license":"https://creativecommons.org/licenses/by-nc/4.0/","title":"Short INDELs and SNPs as markers of evolutionary processes in hybrid zones","article_processing_charge":"Yes (in subscription journal)","doi":"10.1093/jeb/voaf002","scopus_import":"1","oa_version":"Published Version","_id":"19438","article_type":"original","language":[{"iso":"eng"}],"file_date_updated":"2025-04-03T11:53:06Z","OA_place":"publisher","date_created":"2025-03-23T23:01:25Z","isi":1,"quality_controlled":"1"},{"title":"Eco-evolutionary dynamics in changing environments: Integrating theory with data","article_processing_charge":"No","license":"https://creativecommons.org/licenses/by/4.0/","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication_identifier":{"eissn":["1420-9101"]},"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1093/jeb/voae067"}],"department":[{"_id":"NiBa"}],"publisher":"Oxford University Press","year":"2024","publication_status":"published","oa":1,"external_id":{"pmid":["38941551"],"isi":["001258359900001"]},"day":"28","pmid":1,"type":"journal_article","quality_controlled":"1","project":[{"_id":"c08d3278-5a5b-11eb-8a69-fdb09b55f4b8","name":"Causes and consequences of population fragmentation","grant_number":"P32896"},{"_id":"9B861AAC-BA93-11EA-9121-9846C619BF3A","name":"NOMIS Fellowship Program"}],"isi":1,"date_created":"2024-07-07T22:01:04Z","language":[{"iso":"eng"}],"article_type":"letter_note","oa_version":"Published Version","scopus_import":"1","_id":"17207","doi":"10.1093/jeb/voae067","month":"06","volume":37,"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.","page":"579-587","author":[{"id":"1676e173-8143-11ed-8927-fe165216a93f","full_name":"Fouqueau, Louise","orcid":"0000-0003-0371-9339","last_name":"Fouqueau","first_name":"Louise"},{"full_name":"Polechova, Jitka","id":"3BBFB084-F248-11E8-B48F-1D18A9856A87","first_name":"Jitka","last_name":"Polechova","orcid":"0000-0003-0951-3112"}],"status":"public","issue":"6","publication":"Journal of evolutionary biology","intvolume":"        37","date_updated":"2025-09-08T08:08:00Z","date_published":"2024-06-28T00:00:00Z","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"citation":{"ista":"Fouqueau L, Polechova J. 2024. Eco-evolutionary dynamics in changing environments: Integrating theory with data. Journal of evolutionary biology. 37(6), 579–587.","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>","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.","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>.","short":"L. Fouqueau, J. Polechova, Journal of Evolutionary Biology 37 (2024) 579–587.","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>.","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>"}},{"author":[{"last_name":"Reynes","first_name":"Lauric","full_name":"Reynes, Lauric"},{"id":"1676e173-8143-11ed-8927-fe165216a93f","full_name":"Fouqueau, Louise","first_name":"Louise","orcid":"0000-0003-0371-9339","last_name":"Fouqueau"},{"last_name":"Aurelle","first_name":"Didier","full_name":"Aurelle, Didier"},{"full_name":"Mauger, Stephane","last_name":"Mauger","first_name":"Stephane"},{"full_name":"Destombe, Christophe","last_name":"Destombe","first_name":"Christophe"},{"full_name":"Valero, Myriam","last_name":"Valero","first_name":"Myriam"}],"status":"public","publication":"Journal of Evolutionary Biology","issue":"6","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.","volume":37,"month":"06","page":"677-692","date_published":"2024-06-01T00:00:00Z","citation":{"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>.","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>","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>","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>.","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.","short":"L. Reynes, L. Fouqueau, D. Aurelle, S. Mauger, C. Destombe, M. Valero, Journal of Evolutionary Biology 37 (2024) 677–692."},"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."}],"intvolume":"        37","date_updated":"2025-06-04T07:23:23Z","publisher":"Oxford University Press","publication_status":"published","year":"2024","main_file_link":[{"url":"https://doi.org/10.48550/arXiv.2404.14003","open_access":"1"}],"department":[{"_id":"NiBa"}],"type":"journal_article","oa":1,"pmid":1,"day":"01","external_id":{"pmid":["38629140"],"arxiv":["2404.14003"]},"title":"Temporal genomics help in deciphering neutral and adaptive patterns in the contemporary evolution of kelp populations","article_processing_charge":"No","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"eissn":["1420-9101"],"issn":["1010-061X"]},"arxiv":1,"article_type":"original","language":[{"iso":"eng"}],"doi":"10.1093/jeb/voae048","oa_version":"Preprint","scopus_import":"1","_id":"17237","quality_controlled":"1","date_created":"2024-07-14T22:01:12Z"},{"publication_identifier":{"issn":["1010-061X"],"eissn":["1420-9101"]},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","article_processing_charge":"Yes (via OA deal)","title":"Limits to species' range: The tension between local and global adaptation","type":"journal_article","day":"01","external_id":{"pmid":["38683160"],"isi":["001225323900001"]},"pmid":1,"oa":1,"year":"2024","publication_status":"published","publisher":"Oxford University Press","department":[{"_id":"NiBa"}],"date_created":"2024-07-14T22:01:12Z","isi":1,"project":[{"grant_number":"101055327","name":"Understanding the evolution of continuous genomes","_id":"bd6958e0-d553-11ed-ba76-86eba6a76c00"}],"quality_controlled":"1","doi":"10.1093/jeb/voae052","_id":"17238","oa_version":"Published Version","scopus_import":"1","article_type":"review","file_date_updated":"2024-07-15T09:45:25Z","language":[{"iso":"eng"}],"page":"605-615","file":[{"file_name":"2024_JourEvolutionaryBiology_Barton.pdf","success":1,"file_id":"17241","file_size":1194263,"content_type":"application/pdf","date_updated":"2024-07-15T09:45:25Z","creator":"dernst","date_created":"2024-07-15T09:45:25Z","access_level":"open_access","relation":"main_file","checksum":"94e6b68bddf6cadcec29c7f41647359f"}],"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.","volume":37,"ddc":["570"],"month":"06","issue":"6","publication":"Journal of Evolutionary Biology","status":"public","author":[{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240"}],"date_updated":"2025-09-08T08:08:41Z","intvolume":"        37","has_accepted_license":"1","corr_author":"1","citation":{"short":"N.H. Barton, Journal of Evolutionary Biology 37 (2024) 605–615.","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>.","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.","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>","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>","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."},"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."}],"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_published":"2024-06-01T00:00:00Z"},{"intvolume":"        36","date_updated":"2025-09-09T13:22:35Z","tmp":{"short":"CC BY-NC (4.0)","name":"Creative Commons Attribution-NonCommercial 4.0 International (CC BY-NC 4.0)","image":"/images/cc_by_nc.png","legal_code_url":"https://creativecommons.org/licenses/by-nc/4.0/legalcode"},"date_published":"2023-12-01T00:00:00Z","has_accepted_license":"1","abstract":[{"text":"Inversions are structural mutations that reverse the sequence of a chromosome segment and reduce the effective rate of recombination in the heterozygous state. They play a major role in adaptation, as well as in other evolutionary processes such as speciation. Although inversions have been studied since the 1920s, they remain difficult to investigate because the reduced recombination conferred by them strengthens the effects of drift and hitchhiking, which in turn can obscure signatures of selection. Nonetheless, numerous inversions have been found to be under selection. Given recent advances in population genetic theory and empirical study, here we review how different mechanisms of selection affect the evolution of inversions. A key difference between inversions and other mutations, such as single nucleotide variants, is that the fitness of an inversion may be affected by a larger number of frequently interacting processes. This considerably complicates the analysis of the causes underlying the evolution of inversions. We discuss the extent to which these mechanisms can be disentangled, and by which approach.","lang":"eng"}],"citation":{"ista":"Berdan EL, Barton NH, Butlin R, Charlesworth B, Faria R, Fragata I, Gilbert KJ, Jay P, Kapun M, Lotterhos KE, Mérot C, Durmaz Mitchell E, Pascual M, Peichel CL, Rafajlović M, Westram AM, Schaeffer SW, Johannesson K, Flatt T. 2023. How chromosomal inversions reorient the evolutionary process. Journal of Evolutionary Biology. 36(12), 14242.","chicago":"Berdan, Emma L., Nicholas H Barton, Roger Butlin, Brian Charlesworth, Rui Faria, Inês Fragata, Kimberly J. Gilbert, et al. “How Chromosomal Inversions Reorient the Evolutionary Process.” <i>Journal of Evolutionary Biology</i>. Wiley, 2023. <a href=\"https://doi.org/10.1111/jeb.14242\">https://doi.org/10.1111/jeb.14242</a>.","ama":"Berdan EL, Barton NH, Butlin R, et al. How chromosomal inversions reorient the evolutionary process. <i>Journal of Evolutionary Biology</i>. 2023;36(12). doi:<a href=\"https://doi.org/10.1111/jeb.14242\">10.1111/jeb.14242</a>","apa":"Berdan, E. L., Barton, N. H., Butlin, R., Charlesworth, B., Faria, R., Fragata, I., … Flatt, T. (2023). How chromosomal inversions reorient the evolutionary process. <i>Journal of Evolutionary Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jeb.14242\">https://doi.org/10.1111/jeb.14242</a>","ieee":"E. L. Berdan <i>et al.</i>, “How chromosomal inversions reorient the evolutionary process,” <i>Journal of Evolutionary Biology</i>, vol. 36, no. 12. Wiley, 2023.","short":"E.L. Berdan, N.H. Barton, R. Butlin, B. Charlesworth, R. Faria, I. Fragata, K.J. Gilbert, P. Jay, M. Kapun, K.E. Lotterhos, C. Mérot, E. Durmaz Mitchell, M. Pascual, C.L. Peichel, M. Rafajlović, A.M. Westram, S.W. Schaeffer, K. Johannesson, T. Flatt, Journal of Evolutionary Biology 36 (2023).","mla":"Berdan, Emma L., et al. “How Chromosomal Inversions Reorient the Evolutionary Process.” <i>Journal of Evolutionary Biology</i>, vol. 36, no. 12, 14242, Wiley, 2023, doi:<a href=\"https://doi.org/10.1111/jeb.14242\">10.1111/jeb.14242</a>."},"volume":36,"acknowledgement":"We are grateful to two referees and Luke Holman for valuable comments on a previous version of our manuscript. This paper was conceived at the ESEB Progress Meeting ‘Disentangling neutral versus adaptive evolution in chromosomal inversions’, organized by ELB, KJ and TF and held at Tjärnö Marine Laboratory (Sweden) between 28 February and 3 March 2022. We are indebted to ESEB for sponsoring our workshop and to the following funding bodies for supporting our research: ERC AdG 101055327 to NHB; Swedish Research Council (VR) 2018-03695 and Leverhulme Trust RPG-2021-141 to RKB; Fundação para a Ciência e a Tecnologia (FCT) contract 2020.00275.CEECIND and research project PTDC/BIA-1232 EVL/1614/2021 to RF; Fundação para a Ciência e a Tecnologia (FCT) junior researcher contract CEECIND/02616/2018 to IF; Swiss National Science Foundation (SNSF) Ambizione #PZ00P3_185952 to KJG; National Science Foundation NSF-OCE 2043905 and NSF-DEB 1655701 to KEL; Swiss National Science Foundation (SNSF) 310030_204681 to CLP; Swedish Research Council (VR) 2021-05243 to MR; Norwegian Research Council grant 315287 to AMW; Swiss National Science Foundation (SNSF) 31003A-182262 and FZEB-0-214654 to TF. We also thank Luca Ferretti for the discussion and Eliane Zinn (Flatt lab) for help with reference formatting.","ddc":["570"],"article_number":"14242","month":"12","file":[{"relation":"main_file","checksum":"93ae4fa700aab8646bc62f0adeed8f8f","creator":"dernst","date_updated":"2024-07-16T08:16:31Z","access_level":"open_access","date_created":"2024-07-16T08:16:31Z","file_size":1401726,"content_type":"application/pdf","success":1,"file_name":"2023_JourEvolutionaryBio_Berdan.pdf","file_id":"17253"}],"status":"public","author":[{"full_name":"Berdan, Emma L.","first_name":"Emma L.","last_name":"Berdan"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240"},{"last_name":"Butlin","first_name":"Roger","full_name":"Butlin, Roger"},{"full_name":"Charlesworth, Brian","first_name":"Brian","last_name":"Charlesworth"},{"first_name":"Rui","last_name":"Faria","full_name":"Faria, Rui"},{"full_name":"Fragata, Inês","last_name":"Fragata","first_name":"Inês"},{"first_name":"Kimberly J.","last_name":"Gilbert","full_name":"Gilbert, Kimberly J."},{"first_name":"Paul","last_name":"Jay","full_name":"Jay, Paul"},{"full_name":"Kapun, Martin","last_name":"Kapun","first_name":"Martin"},{"full_name":"Lotterhos, Katie E.","first_name":"Katie E.","last_name":"Lotterhos"},{"last_name":"Mérot","first_name":"Claire","full_name":"Mérot, Claire"},{"last_name":"Durmaz Mitchell","first_name":"Esra","full_name":"Durmaz Mitchell, Esra"},{"first_name":"Marta","last_name":"Pascual","full_name":"Pascual, Marta"},{"first_name":"Catherine L.","last_name":"Peichel","full_name":"Peichel, Catherine L."},{"full_name":"Rafajlović, Marina","last_name":"Rafajlović","first_name":"Marina"},{"first_name":"Anja M","last_name":"Westram","orcid":"0000-0003-1050-4969","full_name":"Westram, Anja M","id":"3C147470-F248-11E8-B48F-1D18A9856A87"},{"full_name":"Schaeffer, Stephen W.","first_name":"Stephen W.","last_name":"Schaeffer"},{"full_name":"Johannesson, Kerstin","first_name":"Kerstin","last_name":"Johannesson"},{"full_name":"Flatt, Thomas","last_name":"Flatt","first_name":"Thomas"}],"issue":"12","publication":"Journal of Evolutionary Biology","quality_controlled":"1","date_created":"2023-11-19T23:00:55Z","isi":1,"article_type":"review","file_date_updated":"2024-07-16T08:16:31Z","language":[{"iso":"eng"}],"doi":"10.1111/jeb.14242","_id":"14556","scopus_import":"1","oa_version":"Published Version","article_processing_charge":"Yes (in subscription journal)","title":"How chromosomal inversions reorient the evolutionary process","publication_identifier":{"eissn":["1420-9101"],"issn":["1010-061X"]},"user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","year":"2023","publication_status":"published","publisher":"Wiley","department":[{"_id":"NiBa"}],"type":"journal_article","pmid":1,"day":"01","external_id":{"pmid":["37942504"],"isi":["001098690500001"]},"oa":1},{"publication_identifier":{"eissn":["1420-9101"],"issn":["1010-061X"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","article_processing_charge":"Yes (via OA deal)","title":"What is reproductive isolation?","external_id":{"pmid":["36063156"],"isi":["000849851100002"]},"pmid":1,"day":"01","oa":1,"type":"journal_article","department":[{"_id":"NiBa"}],"publication_status":"published","year":"2022","publisher":"Wiley","isi":1,"date_created":"2023-01-16T09:59:24Z","quality_controlled":"1","project":[{"grant_number":"P32166","name":"Snapdragon Speciation","_id":"05959E1C-7A3F-11EA-A408-12923DDC885E"}],"_id":"12264","oa_version":"Published Version","scopus_import":"1","doi":"10.1111/jeb.14005","file_date_updated":"2023-01-30T10:05:31Z","language":[{"iso":"eng"}],"article_type":"review","file":[{"checksum":"f08de57112330a7ee88d2e1b20576a1e","relation":"main_file","access_level":"open_access","date_created":"2023-01-30T10:05:31Z","date_updated":"2023-01-30T10:05:31Z","creator":"dernst","content_type":"application/pdf","file_size":3146793,"file_id":"12448","file_name":"2022_JourEvoBiology_Westram.pdf","success":1}],"page":"1143-1164","month":"09","acknowledgement":"We are grateful to the participants of the ESEB satellite symposium ‘Understanding reproductive isolation: bridging conceptual barriers in  speciation  research’  in  2021  for  the  interesting  discussions  that  helped  us  clarify  the  thoughts  presented  in  this  article.  We  thank  Roger Butlin, Michael Turelli and two anonymous reviewers for their thoughtful comments on this manuscript. We are also very grateful to Roger Butlin and the Barton Group for the continued conversa-tions about RI. In addition, we thank all participants of the speciation survey. Part of this work was funded by the Austrian Science Fund FWF (grant P 32166)","volume":35,"ddc":["570"],"publication":"Journal of Evolutionary Biology","issue":"9","status":"public","author":[{"full_name":"Westram, Anja M","id":"3C147470-F248-11E8-B48F-1D18A9856A87","first_name":"Anja M","last_name":"Westram","orcid":"0000-0003-1050-4969"},{"id":"43161670-5719-11EA-8025-FABC3DDC885E","full_name":"Stankowski, Sean","last_name":"Stankowski","first_name":"Sean"},{"id":"455235B8-F248-11E8-B48F-1D18A9856A87","full_name":"Surendranadh, Parvathy","first_name":"Parvathy","orcid":"0000-0001-6395-386X","last_name":"Surendranadh"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","first_name":"Nicholas H","last_name":"Barton","orcid":"0000-0002-8548-5240"}],"date_updated":"2025-04-15T08:20:40Z","intvolume":"        35","keyword":["Ecology","Evolution","Behavior and Systematics"],"abstract":[{"lang":"eng","text":"Reproductive isolation (RI) is a core concept in evolutionary biology. It has been the central focus of speciation research since the modern synthesis and is the basis by which biological species are defined. Despite this, the term is used in seemingly different ways, and attempts to quantify RI have used very different approaches. After showing that the field lacks a clear definition of the term, we attempt to clarify key issues, including what RI is, how it can be quantified in principle, and how it can be measured in practice. Following other definitions with a genetic focus, we propose that RI is a quantitative measure of the effect that genetic differences between populations have on gene flow. Specifically, RI compares the flow of neutral alleles in the presence of these genetic differences to the flow without any such differences. RI is thus greater than zero when genetic differences between populations reduce the flow of neutral alleles between populations. We show how RI can be quantified in a range of scenarios. A key conclusion is that RI depends strongly on circumstances—including the spatial, temporal and genomic context—making it difficult to compare across systems. After reviewing methods for estimating RI from data, we conclude that it is difficult to measure in practice. We discuss our findings in light of the goals of speciation research and encourage the use of methods for estimating RI that integrate organismal and genetic approaches."}],"citation":{"ista":"Westram AM, Stankowski S, Surendranadh P, Barton NH. 2022. What is reproductive isolation? Journal of Evolutionary Biology. 35(9), 1143–1164.","short":"A.M. Westram, S. Stankowski, P. Surendranadh, N.H. Barton, Journal of Evolutionary Biology 35 (2022) 1143–1164.","mla":"Westram, Anja M., et al. “What Is Reproductive Isolation?” <i>Journal of Evolutionary Biology</i>, vol. 35, no. 9, Wiley, 2022, pp. 1143–64, doi:<a href=\"https://doi.org/10.1111/jeb.14005\">10.1111/jeb.14005</a>.","ieee":"A. M. Westram, S. Stankowski, P. Surendranadh, and N. H. Barton, “What is reproductive isolation?,” <i>Journal of Evolutionary Biology</i>, vol. 35, no. 9. Wiley, pp. 1143–1164, 2022.","apa":"Westram, A. M., Stankowski, S., Surendranadh, P., &#38; Barton, N. H. (2022). What is reproductive isolation? <i>Journal of Evolutionary Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jeb.14005\">https://doi.org/10.1111/jeb.14005</a>","ama":"Westram AM, Stankowski S, Surendranadh P, Barton NH. What is reproductive isolation? <i>Journal of Evolutionary Biology</i>. 2022;35(9):1143-1164. doi:<a href=\"https://doi.org/10.1111/jeb.14005\">10.1111/jeb.14005</a>","chicago":"Westram, Anja M, Sean Stankowski, Parvathy Surendranadh, and Nicholas H Barton. “What Is Reproductive Isolation?” <i>Journal of Evolutionary Biology</i>. Wiley, 2022. <a href=\"https://doi.org/10.1111/jeb.14005\">https://doi.org/10.1111/jeb.14005</a>."},"corr_author":"1","has_accepted_license":"1","date_published":"2022-09-01T00:00:00Z","related_material":{"record":[{"id":"12265","relation":"other","status":"public"}]},"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"}},{"department":[{"_id":"NiBa"}],"publication_status":"published","year":"2022","publisher":"Wiley","day":"01","external_id":{"isi":["000849851100009"]},"oa":1,"type":"journal_article","article_processing_charge":"Yes (via OA deal)","title":"Reproductive isolation, speciation, and the value of disagreement: A reply to the commentaries on ‘What is reproductive isolation?’","publication_identifier":{"eissn":["1420-9101"],"issn":["1010-061X"]},"user_id":"4359f0d1-fa6c-11eb-b949-802e58b17ae8","language":[{"iso":"eng"}],"file_date_updated":"2023-01-30T10:14:09Z","article_type":"letter_note","_id":"12265","scopus_import":"1","oa_version":"Published Version","doi":"10.1111/jeb.14082","quality_controlled":"1","project":[{"name":"Snapdragon Speciation","_id":"05959E1C-7A3F-11EA-A408-12923DDC885E","grant_number":"P32166"}],"isi":1,"date_created":"2023-01-16T09:59:37Z","status":"public","author":[{"full_name":"Westram, Anja M","id":"3C147470-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0003-1050-4969","last_name":"Westram","first_name":"Anja M"},{"full_name":"Stankowski, Sean","id":"43161670-5719-11EA-8025-FABC3DDC885E","last_name":"Stankowski","first_name":"Sean"},{"last_name":"Surendranadh","orcid":"0000-0001-6395-386X","first_name":"Parvathy","full_name":"Surendranadh, Parvathy","id":"455235B8-F248-11E8-B48F-1D18A9856A87"},{"id":"4880FE40-F248-11E8-B48F-1D18A9856A87","full_name":"Barton, Nicholas H","first_name":"Nicholas H","orcid":"0000-0002-8548-5240","last_name":"Barton"}],"issue":"9","publication":"Journal of Evolutionary Biology","month":"09","volume":35,"acknowledgement":"We  are  very  grateful  to  the  authors  of  the  commentaries  for  the  interesting discussion and to Luke Holman for handling this set of manuscripts. Part of this work was funded by the Austrian Science Fund FWF (grant P 32166).","ddc":["570"],"file":[{"file_name":"2022_JourEvoBiology_Westram_Response.pdf","success":1,"file_id":"12449","file_size":349603,"content_type":"application/pdf","date_updated":"2023-01-30T10:14:09Z","creator":"dernst","access_level":"open_access","date_created":"2023-01-30T10:14:09Z","relation":"main_file","checksum":"27268009e5eec030bc10667a4ac5ed4c"}],"page":"1200-1205","date_published":"2022-09-01T00:00:00Z","tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"related_material":{"record":[{"id":"12264","status":"public","relation":"other"}]},"citation":{"ista":"Westram AM, Stankowski S, Surendranadh P, Barton NH. 2022. Reproductive isolation, speciation, and the value of disagreement: A reply to the commentaries on ‘What is reproductive isolation?’ Journal of Evolutionary Biology. 35(9), 1200–1205.","apa":"Westram, A. M., Stankowski, S., Surendranadh, P., &#38; Barton, N. H. (2022). Reproductive isolation, speciation, and the value of disagreement: A reply to the commentaries on ‘What is reproductive isolation?’ <i>Journal of Evolutionary Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jeb.14082\">https://doi.org/10.1111/jeb.14082</a>","mla":"Westram, Anja M., et al. “Reproductive Isolation, Speciation, and the Value of Disagreement: A Reply to the Commentaries on ‘What Is Reproductive Isolation?’” <i>Journal of Evolutionary Biology</i>, vol. 35, no. 9, Wiley, 2022, pp. 1200–05, doi:<a href=\"https://doi.org/10.1111/jeb.14082\">10.1111/jeb.14082</a>.","ieee":"A. M. Westram, S. Stankowski, P. Surendranadh, and N. H. Barton, “Reproductive isolation, speciation, and the value of disagreement: A reply to the commentaries on ‘What is reproductive isolation?,’” <i>Journal of Evolutionary Biology</i>, vol. 35, no. 9. Wiley, pp. 1200–1205, 2022.","short":"A.M. Westram, S. Stankowski, P. Surendranadh, N.H. Barton, Journal of Evolutionary Biology 35 (2022) 1200–1205.","chicago":"Westram, Anja M, Sean Stankowski, Parvathy Surendranadh, and Nicholas H Barton. “Reproductive Isolation, Speciation, and the Value of Disagreement: A Reply to the Commentaries on ‘What Is Reproductive Isolation?’” <i>Journal of Evolutionary Biology</i>. Wiley, 2022. <a href=\"https://doi.org/10.1111/jeb.14082\">https://doi.org/10.1111/jeb.14082</a>.","ama":"Westram AM, Stankowski S, Surendranadh P, Barton NH. Reproductive isolation, speciation, and the value of disagreement: A reply to the commentaries on ‘What is reproductive isolation?’ <i>Journal of Evolutionary Biology</i>. 2022;35(9):1200-1205. doi:<a href=\"https://doi.org/10.1111/jeb.14082\">10.1111/jeb.14082</a>"},"has_accepted_license":"1","corr_author":"1","intvolume":"        35","keyword":["Ecology","Evolution","Behavior and Systematics"],"date_updated":"2025-04-15T08:20:40Z"},{"month":"01","volume":34,"acknowledgement":"Data used in this work were partly produced through the genotyping and sequencing facilities of ISEM and LabEx CeMEB, an ANR ‘Investissements d'avenir’ program (ANR‐10‐LABX‐04‐01) This project benefited from the Montpellier Bioinformatics Biodiversity platform supported by the LabEx CeMEB. We thank Norah Saarman, Grant Pogson, Célia Gosset and Pierre‐Alexandre Gagnaire for providing samples. This work was funded by a Languedoc‐Roussillon ‘Chercheur(se)s d'Avenir’ grant (Connect7 project). P. Strelkov was supported by the Russian Science Foundation project 19‐74‐20024. This is article 2020‐240 of Institut des Sciences de l'Evolution de Montpellier.","page":"208-223","status":"public","author":[{"last_name":"Simon","first_name":"Alexis","full_name":"Simon, Alexis"},{"full_name":"Fraisse, Christelle","id":"32DF5794-F248-11E8-B48F-1D18A9856A87","last_name":"Fraisse","orcid":"0000-0001-8441-5075","first_name":"Christelle"},{"first_name":"Tahani","last_name":"El Ayari","full_name":"El Ayari, Tahani"},{"last_name":"Liautard‐Haag","first_name":"Cathy","full_name":"Liautard‐Haag, Cathy"},{"full_name":"Strelkov, Petr","last_name":"Strelkov","first_name":"Petr"},{"full_name":"Welch, John J","first_name":"John J","last_name":"Welch"},{"full_name":"Bierne, Nicolas","first_name":"Nicolas","last_name":"Bierne"}],"publication":"Journal of Evolutionary Biology","issue":"1","intvolume":"        34","date_updated":"2025-07-10T12:01:23Z","date_published":"2021-01-01T00:00:00Z","related_material":{"record":[{"relation":"research_data","status":"public","id":"13073"}]},"abstract":[{"text":"The Mytilus complex of marine mussel species forms a mosaic of hybrid zones, found across temperate regions of the globe. This allows us to study ‘replicated’ instances of secondary contact between closely related species. Previous work on this complex has shown that local introgression is both widespread and highly heterogeneous, and has identified SNPs that are outliers of differentiation between lineages. Here, we developed an ancestry‐informative panel of such SNPs. We then compared their frequencies in newly sampled populations, including samples from within the hybrid zones, and parental populations at different distances from the contact. Results show that close to the hybrid zones, some outlier loci are near to fixation for the heterospecific allele, suggesting enhanced local introgression, or the local sweep of a shared ancestral allele. Conversely, genomic cline analyses, treating local parental populations as the reference, reveal a globally high concordance among loci, albeit with a few signals of asymmetric introgression. Enhanced local introgression at specific loci is consistent with the early transfer of adaptive variants after contact, possibly including asymmetric bi‐stable variants (Dobzhansky‐Muller incompatibilities), or haplotypes loaded with fewer deleterious mutations. Having escaped one barrier, however, these variants can be trapped or delayed at the next barrier, confining the introgression locally. These results shed light on the decay of species barriers during phases of contact.","lang":"eng"}],"citation":{"ista":"Simon A, Fraisse C, El Ayari T, Liautard‐Haag C, Strelkov P, Welch JJ, Bierne N. 2021. How do species barriers decay? Concordance and local introgression in mosaic hybrid zones of mussels. Journal of Evolutionary Biology. 34(1), 208–223.","mla":"Simon, Alexis, et al. “How Do Species Barriers Decay? Concordance and Local Introgression in Mosaic Hybrid Zones of Mussels.” <i>Journal of Evolutionary Biology</i>, vol. 34, no. 1, Wiley, 2021, pp. 208–23, doi:<a href=\"https://doi.org/10.1111/jeb.13709\">10.1111/jeb.13709</a>.","ieee":"A. Simon <i>et al.</i>, “How do species barriers decay? Concordance and local introgression in mosaic hybrid zones of mussels,” <i>Journal of Evolutionary Biology</i>, vol. 34, no. 1. Wiley, pp. 208–223, 2021.","short":"A. Simon, C. Fraisse, T. El Ayari, C. Liautard‐Haag, P. Strelkov, J.J. Welch, N. Bierne, Journal of Evolutionary Biology 34 (2021) 208–223.","apa":"Simon, A., Fraisse, C., El Ayari, T., Liautard‐Haag, C., Strelkov, P., Welch, J. J., &#38; Bierne, N. (2021). How do species barriers decay? Concordance and local introgression in mosaic hybrid zones of mussels. <i>Journal of Evolutionary Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jeb.13709\">https://doi.org/10.1111/jeb.13709</a>","ama":"Simon A, Fraisse C, El Ayari T, et al. How do species barriers decay? Concordance and local introgression in mosaic hybrid zones of mussels. <i>Journal of Evolutionary Biology</i>. 2021;34(1):208-223. doi:<a href=\"https://doi.org/10.1111/jeb.13709\">10.1111/jeb.13709</a>","chicago":"Simon, Alexis, Christelle Fraisse, Tahani El Ayari, Cathy Liautard‐Haag, Petr Strelkov, John J Welch, and Nicolas Bierne. “How Do Species Barriers Decay? Concordance and Local Introgression in Mosaic Hybrid Zones of Mussels.” <i>Journal of Evolutionary Biology</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/jeb.13709\">https://doi.org/10.1111/jeb.13709</a>."},"article_processing_charge":"No","title":"How do species barriers decay? Concordance and local introgression in mosaic hybrid zones of mussels","publication_identifier":{"issn":["1010-061X"],"eissn":["1420-9101"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","main_file_link":[{"url":"https://doi.org/10.1101/818559","open_access":"1"}],"department":[{"_id":"BeVi"},{"_id":"NiBa"}],"publication_status":"published","year":"2021","publisher":"Wiley","external_id":{"pmid":["33045123"],"isi":["000579599700001"]},"pmid":1,"day":"01","oa":1,"type":"journal_article","quality_controlled":"1","isi":1,"date_created":"2020-10-25T23:01:20Z","language":[{"iso":"eng"}],"article_type":"original","_id":"8708","scopus_import":"1","oa_version":"Preprint","doi":"10.1111/jeb.13709"},{"oa":1,"pmid":1,"day":"01","external_id":{"isi":["000587769700001"],"pmid":["33107098"]},"type":"journal_article","main_file_link":[{"url":"https://doi.org/10.1111/jeb.13723","open_access":"1"}],"department":[{"_id":"NiBa"}],"publisher":"Wiley","year":"2021","publication_status":"published","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["1010-061X"],"eissn":["1420-9101"]},"title":"Genomic inference of complex domestication histories in three Solanaceae species","article_processing_charge":"No","scopus_import":"1","oa_version":"Published Version","_id":"8928","doi":"10.1111/jeb.13723","language":[{"iso":"eng"}],"article_type":"original","isi":1,"date_created":"2020-12-06T23:01:16Z","quality_controlled":"1","project":[{"grant_number":"M02463","_id":"2662AADE-B435-11E9-9278-68D0E5697425","name":"Sex chromosomes and species barriers","call_identifier":"FWF"}],"issue":"2","publication":"Journal of Evolutionary Biology","author":[{"last_name":"Arnoux","first_name":"Stéphanie","full_name":"Arnoux, Stéphanie"},{"last_name":"Fraisse","orcid":"0000-0001-8441-5075","first_name":"Christelle","id":"32DF5794-F248-11E8-B48F-1D18A9856A87","full_name":"Fraisse, Christelle"},{"first_name":"Christopher","last_name":"Sauvage","full_name":"Sauvage, Christopher"}],"status":"public","page":"270-283","month":"02","volume":34,"acknowledgement":"This work was supported by the EU Marie Curie Career Integration grant (FP7‐PEOPLE‐2011‐CIG grant agreement PCIG10‐GA‐2011‐304164) attributed to CS. SA was supported by a PhD fellowship from the French Région PACA and the Plant Breeding division of INRA, in partnership with Gautier Semences. CF was supported by an Austrian Science Foundation FWF grant (Project M 2463‐B29). Authors thank Mathilde Causse and Beatriz Vicoso for their team leading. Thanks to the Italian Eggplant Genome Consortium, which includes the DISAFA, Plant Genetics and Breeding (University of Torino), the Biotechnology Department (University of Verona), the CREA‐ORL in Montanaso Lombardo (LO) and the ENEA in Rome for providing access to the eggplant genome reference. Thanks to CRB‐lég ( https://www6.paca.inra.fr/gafl_eng/Vegetables-GRC ) for managing and providing the genetic resources, to Marie‐Christine Daunay and Alain Palloix (INRA UR1052) for assistance in choosing the biological material used, to Muriel Latreille and Sylvain Santoni from the UMR AGAP (INRA Montpellier, France) for their help with RNAseq library preparation, to Jean‐Paul Bouchet and Jacques Lagnel (INRA UR1052) for their Bioinformatics assistance.","abstract":[{"text":"Domestication is a human‐induced selection process that imprints the genomes of domesticated populations over a short evolutionary time scale and that occurs in a given demographic context. Reconstructing historical gene flow, effective population size changes and their timing is therefore of fundamental interest to understand how plant demography and human selection jointly shape genomic divergence during domestication. Yet, the comparison under a single statistical framework of independent domestication histories across different crop species has been little evaluated so far. Thus, it is unclear whether domestication leads to convergent demographic changes that similarly affect crop genomes. To address this question, we used existing and new transcriptome data on three crop species of Solanaceae (eggplant, pepper and tomato), together with their close wild relatives. We fitted twelve demographic models of increasing complexity on the unfolded joint allele frequency spectrum for each wild/crop pair, and we found evidence for both shared and species‐specific demographic processes between species. A convergent history of domestication with gene flow was inferred for all three species, along with evidence of strong reduction in the effective population size during the cultivation stage of tomato and pepper. The absence of any reduction in size of the crop in eggplant stands out from the classical view of the domestication process; as does the existence of a “protracted period” of management before cultivation. Our results also suggest divergent management strategies of modern cultivars among species as their current demography substantially differs. Finally, the timing of domestication is species‐specific and supported by the few historical records available.","lang":"eng"}],"citation":{"ama":"Arnoux S, Fraisse C, Sauvage C. Genomic inference of complex domestication histories in three Solanaceae species. <i>Journal of Evolutionary Biology</i>. 2021;34(2):270-283. doi:<a href=\"https://doi.org/10.1111/jeb.13723\">10.1111/jeb.13723</a>","chicago":"Arnoux, Stéphanie, Christelle Fraisse, and Christopher Sauvage. “Genomic Inference of Complex Domestication Histories in Three Solanaceae Species.” <i>Journal of Evolutionary Biology</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/jeb.13723\">https://doi.org/10.1111/jeb.13723</a>.","short":"S. Arnoux, C. Fraisse, C. Sauvage, Journal of Evolutionary Biology 34 (2021) 270–283.","mla":"Arnoux, Stéphanie, et al. “Genomic Inference of Complex Domestication Histories in Three Solanaceae Species.” <i>Journal of Evolutionary Biology</i>, vol. 34, no. 2, Wiley, 2021, pp. 270–83, doi:<a href=\"https://doi.org/10.1111/jeb.13723\">10.1111/jeb.13723</a>.","ieee":"S. Arnoux, C. Fraisse, and C. Sauvage, “Genomic inference of complex domestication histories in three Solanaceae species,” <i>Journal of Evolutionary Biology</i>, vol. 34, no. 2. Wiley, pp. 270–283, 2021.","apa":"Arnoux, S., Fraisse, C., &#38; Sauvage, C. (2021). Genomic inference of complex domestication histories in three Solanaceae species. <i>Journal of Evolutionary Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jeb.13723\">https://doi.org/10.1111/jeb.13723</a>","ista":"Arnoux S, Fraisse C, Sauvage C. 2021. Genomic inference of complex domestication histories in three Solanaceae species. Journal of Evolutionary Biology. 34(2), 270–283."},"date_published":"2021-02-01T00:00:00Z","related_material":{"record":[{"id":"13065","status":"public","relation":"research_data"}]},"date_updated":"2025-07-10T12:01:26Z","intvolume":"        34"},{"date_updated":"2025-07-10T12:01:37Z","intvolume":"        34","has_accepted_license":"1","abstract":[{"text":"Marine environments are inhabited by a broad representation of the tree of life, yet our understanding of speciation in marine ecosystems is extremely limited compared with terrestrial and freshwater environments. Developing a more comprehensive picture of speciation in marine environments requires that we 'dive under the surface' by studying a wider range of taxa and ecosystems is necessary for a more comprehensive picture of speciation. Although studying marine evolutionary processes is often challenging, recent technological advances in different fields, from maritime engineering to genomics, are making it increasingly possible to study speciation of marine life forms across diverse ecosystems and taxa. Motivated by recent research in the field, including the 14 contributions in this issue, we highlight and discuss six axes of research that we think will deepen our understanding of speciation in the marine realm: (a) study a broader range of marine environments and organisms; (b) identify the reproductive barriers driving speciation between marine taxa; (c) understand the role of different genomic architectures underlying reproductive isolation; (d) infer the evolutionary history of divergence using model‐based approaches; (e) study patterns of hybridization and introgression between marine taxa; and (f) implement highly interdisciplinary, collaborative research programmes. In outlining these goals, we hope to inspire researchers to continue filling this critical knowledge gap surrounding the origins of marine biodiversity.","lang":"eng"}],"citation":{"ista":"Faria R, Johannesson K, Stankowski S. 2021. Speciation in marine environments: Diving under the surface. Journal of Evolutionary Biology. 34(1), 4–15.","mla":"Faria, Rui, et al. “Speciation in Marine Environments: Diving under the Surface.” <i>Journal of Evolutionary Biology</i>, vol. 34, no. 1, Wiley, 2021, pp. 4–15, doi:<a href=\"https://doi.org/10.1111/jeb.13756\">10.1111/jeb.13756</a>.","short":"R. Faria, K. Johannesson, S. Stankowski, Journal of Evolutionary Biology 34 (2021) 4–15.","ieee":"R. Faria, K. Johannesson, and S. Stankowski, “Speciation in marine environments: Diving under the surface,” <i>Journal of Evolutionary Biology</i>, vol. 34, no. 1. Wiley, pp. 4–15, 2021.","apa":"Faria, R., Johannesson, K., &#38; Stankowski, S. (2021). Speciation in marine environments: Diving under the surface. <i>Journal of Evolutionary Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jeb.13756\">https://doi.org/10.1111/jeb.13756</a>","ama":"Faria R, Johannesson K, Stankowski S. Speciation in marine environments: Diving under the surface. <i>Journal of Evolutionary Biology</i>. 2021;34(1):4-15. doi:<a href=\"https://doi.org/10.1111/jeb.13756\">10.1111/jeb.13756</a>","chicago":"Faria, Rui, Kerstin Johannesson, and Sean Stankowski. “Speciation in Marine Environments: Diving under the Surface.” <i>Journal of Evolutionary Biology</i>. Wiley, 2021. <a href=\"https://doi.org/10.1111/jeb.13756\">https://doi.org/10.1111/jeb.13756</a>."},"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"date_published":"2021-01-18T00:00:00Z","page":"4-15","file":[{"file_id":"9108","success":1,"file_name":"2021_JourEvolBiology_Faria.pdf","content_type":"application/pdf","file_size":561340,"access_level":"open_access","date_created":"2021-02-09T09:04:02Z","creator":"dernst","date_updated":"2021-02-09T09:04:02Z","checksum":"5755856a5368d4b4cdd6fad5ab27f4d1","relation":"main_file"}],"volume":34,"acknowledgement":"We would like to thank all the participants in the speciation symposium of the Marine Evolution Conference in Sweden for the interesting discussions and to all the contributors to this special\r\nissue. We thank Nicolas Bierne and Wolf Blanckenhorn (reviewer and editor, respectively) for valuable suggestions during the revision of the manuscript, and Roger K. Butlin and Anja M. Westram for very helpful comments on a previous draft. We would also like to thank Wolf Blanckenhorn and Nicola Cook, the Editor in Chief and the Managing Editor of the Journal of Evolutionary Biology, respectively, for the encouragement and support in putting together this special issue, and to all reviewers involved. RF was financed by the European Union's Horizon 2020 Research and Innovation Programme under the Marie Sklodowska-Curie Grant Agreement Number 706376 and is currently financed by the FEDER Funds through the Operational Competitiveness Factors Program COMPETE and by National Funds through the Foundation for Science and Technology (FCT) within the scope of the project ‘Hybrabbid' (PTDC/BIA-EVL/30628/2017-POCI-01-0145-FEDER-030628). KJ was funded by the Swedish\r\nResearch Council, VR. SS was supported by NERC and ERC funding awarded to Roger K. Butlin.","ddc":["570"],"month":"01","publication":"Journal of Evolutionary Biology","issue":"1","status":"public","author":[{"full_name":"Faria, Rui","last_name":"Faria","first_name":"Rui"},{"first_name":"Kerstin","last_name":"Johannesson","full_name":"Johannesson, Kerstin"},{"id":"43161670-5719-11EA-8025-FABC3DDC885E","full_name":"Stankowski, Sean","first_name":"Sean","last_name":"Stankowski"}],"date_created":"2021-02-07T23:01:13Z","isi":1,"quality_controlled":"1","doi":"10.1111/jeb.13756","_id":"9100","scopus_import":"1","oa_version":"Published Version","article_type":"original","file_date_updated":"2021-02-09T09:04:02Z","language":[{"iso":"eng"}],"publication_identifier":{"eissn":["1420-9101"],"issn":["1010-061X"]},"user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","article_processing_charge":"No","title":"Speciation in marine environments: Diving under the surface","type":"journal_article","external_id":{"isi":["000608367500001"]},"day":"18","oa":1,"year":"2021","publication_status":"published","publisher":"Wiley","department":[{"_id":"NiBa"}]},{"date_updated":"2025-07-10T11:54:22Z","intvolume":"        33","abstract":[{"lang":"eng","text":"Genetic incompatibilities contribute to reproductive isolation between many diverging populations, but it is still unclear to what extent they play a role if divergence happens with gene flow. In contact zones between the \"Crab\" and \"Wave\" ecotypes of the snail Littorina saxatilis, divergent selection forms strong barriers to gene flow, while the role of post‐zygotic barriers due to selection against hybrids remains unclear. High embryo abortion rates in this species could indicate the presence of such barriers. Post‐zygotic barriers might include genetic incompatibilities (e.g. Dobzhansky–Muller incompatibilities) but also maladaptation, both expected to be most pronounced in contact zones. In addition, embryo abortion might reflect physiological stress on females and embryos independent of any genetic stress. We examined all embryos of >500 females sampled outside and inside contact zones of three populations in Sweden. Females' clutch size ranged from 0 to 1,011 embryos (mean 130 ± 123), and abortion rates varied between 0% and 100% (mean 12%). We described female genotypes by using a hybrid index based on hundreds of SNPs differentiated between ecotypes with which we characterized female genotypes. We also calculated female SNP heterozygosity and inversion karyotype. Clutch size did not vary with female hybrid index, and abortion rates were only weakly related to hybrid index in two sites but not at all in a third site. No additional variation in abortion rate was explained by female SNP heterozygosity, but increased female inversion heterozygosity added slightly to increased abortion. Our results show only weak and probably biologically insignificant post‐zygotic barriers contributing to ecotype divergence, and the high and variable abortion rates were marginally, if at all, explained by hybrid index of females."}],"citation":{"ama":"Johannesson K, Zagrodzka Z, Faria R, Westram AM, Butlin RK. Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes? <i>Journal of Evolutionary Biology</i>. 2020;33(3):342-351. doi:<a href=\"https://doi.org/10.1111/jeb.13570\">10.1111/jeb.13570</a>","chicago":"Johannesson, Kerstin, Zuzanna Zagrodzka, Rui Faria, Anja M Westram, and Roger K. Butlin. “Is Embryo Abortion a Post-Zygotic Barrier to Gene Flow between Littorina Ecotypes?” <i>Journal of Evolutionary Biology</i>. Wiley, 2020. <a href=\"https://doi.org/10.1111/jeb.13570\">https://doi.org/10.1111/jeb.13570</a>.","ieee":"K. Johannesson, Z. Zagrodzka, R. Faria, A. M. Westram, and R. K. Butlin, “Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes?,” <i>Journal of Evolutionary Biology</i>, vol. 33, no. 3. Wiley, pp. 342–351, 2020.","mla":"Johannesson, Kerstin, et al. “Is Embryo Abortion a Post-Zygotic Barrier to Gene Flow between Littorina Ecotypes?” <i>Journal of Evolutionary Biology</i>, vol. 33, no. 3, Wiley, 2020, pp. 342–51, doi:<a href=\"https://doi.org/10.1111/jeb.13570\">10.1111/jeb.13570</a>.","short":"K. Johannesson, Z. Zagrodzka, R. Faria, A.M. Westram, R.K. Butlin, Journal of Evolutionary Biology 33 (2020) 342–351.","apa":"Johannesson, K., Zagrodzka, Z., Faria, R., Westram, A. M., &#38; Butlin, R. K. (2020). Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes? <i>Journal of Evolutionary Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jeb.13570\">https://doi.org/10.1111/jeb.13570</a>","ista":"Johannesson K, Zagrodzka Z, Faria R, Westram AM, Butlin RK. 2020. Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes? Journal of Evolutionary Biology. 33(3), 342–351."},"has_accepted_license":"1","date_published":"2020-03-01T00:00:00Z","related_material":{"record":[{"id":"13067","relation":"research_data","status":"public"}]},"tmp":{"short":"CC BY (4.0)","name":"Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)","image":"/images/cc_by.png","legal_code_url":"https://creativecommons.org/licenses/by/4.0/legalcode"},"file":[{"file_id":"8553","file_name":"2020_EvolBiology_Johannesson.pdf","success":1,"content_type":"application/pdf","file_size":885611,"access_level":"open_access","date_created":"2020-09-22T09:42:18Z","date_updated":"2020-09-22T09:42:18Z","creator":"dernst","checksum":"7534ff0839709c0c5265c12d29432f03","relation":"main_file"}],"page":"342-351","month":"03","ddc":["570"],"volume":33,"issue":"3","publication":"Journal of Evolutionary Biology","author":[{"full_name":"Johannesson, Kerstin","last_name":"Johannesson","first_name":"Kerstin"},{"first_name":"Zuzanna","last_name":"Zagrodzka","full_name":"Zagrodzka, Zuzanna"},{"last_name":"Faria","first_name":"Rui","full_name":"Faria, Rui"},{"last_name":"Westram","orcid":"0000-0003-1050-4969","first_name":"Anja M","id":"3C147470-F248-11E8-B48F-1D18A9856A87","full_name":"Westram, Anja M"},{"full_name":"Butlin, Roger K.","first_name":"Roger K.","last_name":"Butlin"}],"status":"public","isi":1,"date_created":"2019-12-22T23:00:43Z","quality_controlled":"1","scopus_import":"1","oa_version":"Published Version","_id":"7205","doi":"10.1111/jeb.13570","language":[{"iso":"eng"}],"file_date_updated":"2020-09-22T09:42:18Z","article_type":"original","user_id":"2DF688A6-F248-11E8-B48F-1D18A9856A87","publication_identifier":{"issn":["1010-061X"],"eissn":["1420-9101"]},"title":"Is embryo abortion a post-zygotic barrier to gene flow between Littorina ecotypes?","article_processing_charge":"No","oa":1,"pmid":1,"day":"01","external_id":{"isi":["000500954800001"],"pmid":["31724256"]},"type":"journal_article","department":[{"_id":"NiBa"}],"publisher":"Wiley","year":"2020","publication_status":"published"},{"oa_version":"Published Version","scopus_import":"1","_id":"617","doi":"10.1111/jeb.13211","language":[{"iso":"eng"}],"article_type":"original","isi":1,"date_created":"2018-12-11T11:47:31Z","quality_controlled":"1","oa":1,"pmid":1,"external_id":{"pmid":["29150962"],"isi":["000419307000014"]},"day":"01","type":"journal_article","department":[{"_id":"SyCr"}],"main_file_link":[{"open_access":"1","url":"https://doi.org/10.1111/jeb.13211"}],"publisher":"Wiley","year":"2018","publication_status":"published","user_id":"c635000d-4b10-11ee-a964-aac5a93f6ac1","publication_identifier":{"issn":["1010-061X"],"eissn":["1420-9101"]},"title":"Genotype and diet affect resistance, survival, and fecundity but not fecundity tolerance","article_processing_charge":"No","abstract":[{"text":"Insects are exposed to a variety of potential pathogens in their environment, many of which can severely impact fitness and health. Consequently, hosts have evolved resistance and tolerance strategies to suppress or cope with infections. Hosts utilizing resistance improve fitness by clearing or reducing pathogen loads, and hosts utilizing tolerance reduce harmful fitness effects per pathogen load. To understand variation in, and selective pressures on, resistance and tolerance, we asked to what degree they are shaped by host genetic background, whether plasticity in these responses depends upon dietary environment, and whether there are interactions between these two factors. Females from ten wild-type Drosophila melanogaster genotypes were kept on high- or low-protein (yeast) diets and infected with one of two opportunistic bacterial pathogens, Lactococcus lactis or Pseudomonas entomophila. We measured host resistance as the inverse of bacterial load in the early infection phase. The relationship (slope) between fly fecundity and individual-level bacteria load provided our fecundity tolerance measure. Genotype and dietary yeast determined host fecundity and strongly affected survival after infection with pathogenic P. entomophila. There was considerable genetic variation in host resistance, a commonly found phenomenon resulting from for example varying resistance costs or frequency-dependent selection. Despite this variation and the reproductive cost of higher P. entomophila loads, fecundity tolerance did not vary across genotypes. The absence of genetic variation in tolerance may suggest that at this early infection stage, fecundity tolerance is fixed or that any evolved tolerance mechanisms are not expressed under these infection conditions.","lang":"eng"}],"citation":{"ista":"Kutzer M, Kurtz J, Armitage S. 2018. Genotype and diet affect resistance, survival, and fecundity but not fecundity tolerance. Journal of Evolutionary Biology. 31(1), 159–171.","ama":"Kutzer M, Kurtz J, Armitage S. Genotype and diet affect resistance, survival, and fecundity but not fecundity tolerance. <i>Journal of Evolutionary Biology</i>. 2018;31(1):159-171. doi:<a href=\"https://doi.org/10.1111/jeb.13211\">10.1111/jeb.13211</a>","chicago":"Kutzer, Megan, Joachim Kurtz, and Sophie Armitage. “Genotype and Diet Affect Resistance, Survival, and Fecundity but Not Fecundity Tolerance.” <i>Journal of Evolutionary Biology</i>. Wiley, 2018. <a href=\"https://doi.org/10.1111/jeb.13211\">https://doi.org/10.1111/jeb.13211</a>.","short":"M. Kutzer, J. Kurtz, S. Armitage, Journal of Evolutionary Biology 31 (2018) 159–171.","mla":"Kutzer, Megan, et al. “Genotype and Diet Affect Resistance, Survival, and Fecundity but Not Fecundity Tolerance.” <i>Journal of Evolutionary Biology</i>, vol. 31, no. 1, Wiley, 2018, pp. 159–71, doi:<a href=\"https://doi.org/10.1111/jeb.13211\">10.1111/jeb.13211</a>.","ieee":"M. Kutzer, J. Kurtz, and S. Armitage, “Genotype and diet affect resistance, survival, and fecundity but not fecundity tolerance,” <i>Journal of Evolutionary Biology</i>, vol. 31, no. 1. Wiley, pp. 159–171, 2018.","apa":"Kutzer, M., Kurtz, J., &#38; Armitage, S. (2018). Genotype and diet affect resistance, survival, and fecundity but not fecundity tolerance. <i>Journal of Evolutionary Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jeb.13211\">https://doi.org/10.1111/jeb.13211</a>"},"date_published":"2018-01-01T00:00:00Z","date_updated":"2023-09-11T14:06:04Z","publist_id":"7187","intvolume":"        31","publication":"Journal of Evolutionary Biology","issue":"1","author":[{"full_name":"Kutzer, Megan","id":"29D0B332-F248-11E8-B48F-1D18A9856A87","orcid":"0000-0002-8696-6978","last_name":"Kutzer","first_name":"Megan"},{"full_name":"Kurtz, Joachim","last_name":"Kurtz","first_name":"Joachim"},{"full_name":"Armitage, Sophie","first_name":"Sophie","last_name":"Armitage"}],"status":"public","page":"159  - 171","month":"01","acknowledgement":"We would like to thank Susann Wicke for performing the genome-wide SNP/indel analyses, as well as Veronica Alves, Kevin Ferro, Momir Futo, Barbara Hasert, Dafne Maximo, Nora Schulz, Marlene Sroka, and Barth Wieczorek for technical help. We thank Brian Lazzaro for the L. lactis strain and Bruno Lemaitre for the Pseudomonas entomophila strain. We would like to thank two anonymous reviewers for their helpful comments. We are grateful to the Deutsche Forschungsgemeinschaft (DFG) priority programme 1399 ‘Host parasite coevolution’ for funding this project (AR 872/1-1). ","volume":31},{"date_updated":"2025-09-29T12:28:21Z","publist_id":"5190","intvolume":"        27","citation":{"apa":"Tobler, M., Plath, M., Riesch, R., Schlupp, I., Grasse, A. V., Munimanda, G., … Moodley, Y. (2014). Selection from parasites favours immunogenetic diversity but not divergence among locally adapted host populations. <i>Journal of Evolutionary Biology</i>. Wiley. <a href=\"https://doi.org/10.1111/jeb.12370\">https://doi.org/10.1111/jeb.12370</a>","mla":"Tobler, Michael, et al. “Selection from Parasites Favours Immunogenetic Diversity but Not Divergence among Locally Adapted Host Populations.” <i>Journal of Evolutionary Biology</i>, vol. 27, no. 5, Wiley, 2014, pp. 960–74, doi:<a href=\"https://doi.org/10.1111/jeb.12370\">10.1111/jeb.12370</a>.","ieee":"M. Tobler <i>et al.</i>, “Selection from parasites favours immunogenetic diversity but not divergence among locally adapted host populations,” <i>Journal of Evolutionary Biology</i>, vol. 27, no. 5. Wiley, pp. 960–974, 2014.","short":"M. Tobler, M. Plath, R. Riesch, I. Schlupp, A.V. Grasse, G. Munimanda, C. Setzer, D. Penn, Y. Moodley, Journal of Evolutionary Biology 27 (2014) 960–974.","chicago":"Tobler, Michael, Martin Plath, Rüdiger Riesch, Ingo Schlupp, Anna V Grasse, Gopi Munimanda, C Setzer, Dustin Penn, and Yoshan Moodley. “Selection from Parasites Favours Immunogenetic Diversity but Not Divergence among Locally Adapted Host Populations.” <i>Journal of Evolutionary Biology</i>. Wiley, 2014. <a href=\"https://doi.org/10.1111/jeb.12370\">https://doi.org/10.1111/jeb.12370</a>.","ama":"Tobler M, Plath M, Riesch R, et al. Selection from parasites favours immunogenetic diversity but not divergence among locally adapted host populations. <i>Journal of Evolutionary Biology</i>. 2014;27(5):960-974. doi:<a href=\"https://doi.org/10.1111/jeb.12370\">10.1111/jeb.12370</a>","ista":"Tobler M, Plath M, Riesch R, Schlupp I, Grasse AV, Munimanda G, Setzer C, Penn D, Moodley Y. 2014. Selection from parasites favours immunogenetic diversity but not divergence among locally adapted host populations. Journal of Evolutionary Biology. 27(5), 960–974."},"abstract":[{"text":"The unprecedented polymorphism in the major histocompatibility complex (MHC) genes is thought to be maintained by balancing selection from parasites. However, do parasites also drive divergence at MHC loci between host populations, or do the effects of balancing selection maintain similarities among populations? We examined MHC variation in populations of the livebearing fish Poecilia mexicana and characterized their parasite communities. Poecilia mexicana populations in the Cueva del Azufre system are locally adapted to darkness and the presence of toxic hydrogen sulphide, representing highly divergent ecotypes or incipient species. Parasite communities differed significantly across populations, and populations with higher parasite loads had higher levels of diversity at class II MHC genes. However, despite different parasite communities, marked divergence in adaptive traits and in neutral genetic markers, we found MHC alleles to be remarkably similar among host populations. Our findings indicate that balancing selection from parasites maintains immunogenetic diversity of hosts, but this process does not promote MHC divergence in this system. On the contrary, we suggest that balancing selection on immunogenetic loci may outweigh divergent selection causing divergence, thereby hindering host divergence and speciation. Our findings support the hypothesis that balancing selection maintains MHC similarities among lineages during and after speciation (trans-species evolution).","lang":"eng"}],"date_published":"2014-04-12T00:00:00Z","page":"960 - 974","month":"04","acknowledgement":"This study was funded by grants from the National Science Foundation (NSF) to MT (IOS-1121832) and IS (DEB-0743406) and from the German Science Foundation (DFG; PL 470/1-2) and ‘LOEWE − Landesoffensive zur Entwicklung wissenschaftlich-ökonomischer Exzellenz’ of Hesse's Ministry of Higher Education, Research, and the Arts, to MP.","volume":27,"publication":"Journal of Evolutionary Biology","issue":"5","author":[{"first_name":"Michael","last_name":"Tobler","full_name":"Tobler, Michael"},{"last_name":"Plath","first_name":"Martin","full_name":"Plath, Martin"},{"last_name":"Riesch","first_name":"Rüdiger","full_name":"Riesch, Rüdiger"},{"first_name":"Ingo","last_name":"Schlupp","full_name":"Schlupp, Ingo"},{"first_name":"Anna V","last_name":"Grasse","full_name":"Grasse, Anna V","id":"406F989C-F248-11E8-B48F-1D18A9856A87"},{"first_name":"Gopi","last_name":"Munimanda","full_name":"Munimanda, Gopi"},{"first_name":"C","last_name":"Setzer","full_name":"Setzer, C"},{"full_name":"Penn, Dustin","first_name":"Dustin","last_name":"Penn"},{"first_name":"Yoshan","last_name":"Moodley","full_name":"Moodley, Yoshan"}],"status":"public","isi":1,"date_created":"2018-12-11T11:54:38Z","quality_controlled":"1","oa_version":"None","scopus_import":"1","_id":"1905","doi":"10.1111/jeb.12370","language":[{"iso":"eng"}],"article_type":"original","user_id":"317138e5-6ab7-11ef-aa6d-ffef3953e345","publication_identifier":{"issn":["1010-061X"],"eissn":["1420-9101"]},"title":"Selection from parasites favours immunogenetic diversity but not divergence among locally adapted host populations","article_processing_charge":"No","oa":1,"external_id":{"isi":["000334966800015"],"pmid":["24725091"]},"day":"12","pmid":1,"type":"journal_article","main_file_link":[{"url":"https://doi.org/10.1111/jeb.12370","open_access":"1"}],"department":[{"_id":"SyCr"}],"publisher":"Wiley","publication_status":"published","OA_type":"free access","year":"2014"}]