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Population dynamics and genetic connectivity in recent chimpanzee history

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dc.contributor.author Fontseré Alemany, Clàudia, 1992-
dc.contributor.author Kuhlwilm, Martin
dc.contributor.author Morcillo Suárez, Carlos, 1969-
dc.contributor.author Alvarez-Estape, Marina
dc.contributor.author Hecht, Jochen
dc.contributor.author Marquès i Bonet, Tomàs, 1975-
dc.date.accessioned 2023-01-20T14:18:18Z
dc.date.available 2023-01-20T14:18:18Z
dc.date.issued 2022
dc.identifier.citation Fontsere C, Kuhlwilm M, Morcillo-Suarez C, Alvarez-Estape M, Lester JD, Gratton P et al. Population dynamics and genetic connectivity in recent chimpanzee history. Cell Genom. 2022 Jun 8;2(6):100133. DOI: 10.1016/j.xgen.2022.100133
dc.identifier.issn 2666-979X
dc.identifier.uri http://hdl.handle.net/10230/55360
dc.description.abstract Knowledge on the population history of endangered species is critical for conservation, but whole-genome data on chimpanzees (Pan troglodytes) is geographically sparse. Here, we produced the first non-invasive geolocalized catalog of genomic diversity by capturing chromosome 21 from 828 non-invasive samples collected at 48 sampling sites across Africa. The four recognized subspecies show clear genetic differentiation correlating with known barriers, while previously undescribed genetic exchange suggests that these have been permeable on a local scale. We obtained a detailed reconstruction of population stratification and fine-scale patterns of isolation, migration, and connectivity, including a comprehensive picture of admixture with bonobos (Pan paniscus). Unlike humans, chimpanzees did not experience extended episodes of long-distance migrations, which might have limited cultural transmission. Finally, based on local rare variation, we implement a fine-grained geolocalization approach demonstrating improved precision in determining the origin of confiscated chimpanzees.
dc.description.sponsorship Funding: “la Caixa” Foundation doctoral fellowship program LCF/BQ/DE15/10360006 (to C.F.). FPI (Formación de Personal Investigador) PRE2018-083966 from Ministerio de Ciencia, Universidades e Investigación (to M.A.-E.) and CGL2017-82654-P (MINECO/FEDER, UE) (to E.L.). “la Caixa” Foundation (ID 100010434), fellowship code LCF/BQ/PR19/11700002 (to M.K.). Vienna Science and Technology Fund (WWTF) and the City of Vienna project VRG20-001 (to M.K.). The European Research Council (ERC) under the European Union’s Horizon 2020 research and innovation program (grant agreement no. 864203) (to T.M.-B.). BFU2017-86471-P (MINECO/FEDER, UE) (to T.M.-B.). “Unidad de Excelencia María de Maeztu”, funded by the AEI (CEX2018-000792-M) (to T.M.-B.). Howard Hughes International Early Career (to T.M.-B.). NIH 1R01HG010898-01A1 (to T.M.-B.). Secretaria d’Universitats i Recerca and CERCA Program del Departament d’Economia i Coneixement de la Generalitat de Catalunya (GRC 2017 SGR 880) (to T.M.-B.). UCL’s Wellcome Trust ISSF3 award 204841/Z/16/Z (to A.M.A. and J.M.S.). Generalitat de Catalunya (2017 SGR-1040) (to M. Llorente). Wellcome Trust Investigator Award 202802/Z/16/Z (to D.A.H.). The Pan African Program: The Cultured Chimpanzee (PanAf) is generously funded by the Max Planck Society, the Max Planck Society Innovation Fund, and the Heinz L. Krekeler Foundation.
dc.format.mimetype application/pdf
dc.language.iso eng
dc.publisher Elsevier
dc.relation.ispartof Cell Genom. 2022 Jun 8;2(6):100133
dc.rights © 2022 The Authors. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).
dc.rights.uri http://creativecommons.org/licenses/by-nc-nd/4.0/
dc.title Population dynamics and genetic connectivity in recent chimpanzee history
dc.type info:eu-repo/semantics/article
dc.identifier.doi http://dx.doi.org/10.1016/j.xgen.2022.100133
dc.subject.keyword Chimpanzee
dc.subject.keyword Chimpanzee demography
dc.subject.keyword Conservation genomics
dc.subject.keyword Fecal samples
dc.subject.keyword Geolocalization
dc.subject.keyword Hybridization capture
dc.subject.keyword Non-invasive samples
dc.subject.keyword Population dynamics
dc.subject.keyword Population genetics
dc.relation.projectID info:eu-repo/grantAgreement/EC/H2020/864203
dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/CGL2017-82654-P
dc.relation.projectID info:eu-repo/grantAgreement/ES/2PE/BFU2017-86471-P
dc.rights.accessRights info:eu-repo/semantics/openAccess
dc.type.version info:eu-repo/semantics/publishedVersion

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