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Targeted chromosomal sequencing of wild bonobos identifies a genetically distinct subpopulation east of the Lomami river.

Λεπτομέρειες βιβλιογραφικής εγγραφής
Τίτλος: Targeted chromosomal sequencing of wild bonobos identifies a genetically distinct subpopulation east of the Lomami river.
Συγγραφείς: Crego-Walters M; Departament de Medicina I Ciències de La Vida, Institut de Biologia Evolutiva (CSIC-UPF), Universitat Pompeu Fabra, Barcelona, Spain., Cuadros-Espinoza S; Departament de Medicina I Ciències de La Vida, Institut de Biologia Evolutiva (CSIC-UPF), Universitat Pompeu Fabra, Barcelona, Spain., Ruiz-Gartzia I; Departament de Medicina I Ciències de La Vida, Institut de Biologia Evolutiva (CSIC-UPF), Universitat Pompeu Fabra, Barcelona, Spain., Han S; Department of Evolutionary Anthropology (DEA)/Human Evolution and Archaeological Sciences (HEAS), University Vienna, Djerassiplatz 1, Vienna, 1030, Austria., Hermosilla-Albala N; Departament de Medicina I Ciències de La Vida, Institut de Biologia Evolutiva (CSIC-UPF), Universitat Pompeu Fabra, Barcelona, Spain., Helsen P; Antwerp Zoo Centre for Research and Conservation (CRC), Koningin Astridplein 20-26, Antwerp, 2018, Belgium., Frandsen P; Copenhagen Zoo, Roskildevej 38, Frederiksberg, 2000, Denmark., Brumwell-Prats AM; Departament de Medicina I Ciències de La Vida, Institut de Biologia Evolutiva (CSIC-UPF), Universitat Pompeu Fabra, Barcelona, Spain., Alentorn-Moron P; Departament de Medicina I Ciències de La Vida, Institut de Biologia Evolutiva (CSIC-UPF), Universitat Pompeu Fabra, Barcelona, Spain., Fontsere C; Departament de Medicina I Ciències de La Vida, Institut de Biologia Evolutiva (CSIC-UPF), Universitat Pompeu Fabra, Barcelona, Spain., Alvarez-Estape M; Departament de Medicina I Ciències de La Vida, Institut de Biologia Evolutiva (CSIC-UPF), Universitat Pompeu Fabra, Barcelona, Spain., Ngofuna M; Mbou-Mon-Tour NGO, MMT Farm, Nkala, Territoire de Bolobo, Democratic Republic of the Congo., Monghiemo C; Mbou-Mon-Tour NGO, MMT Farm, Nkala, Territoire de Bolobo, Democratic Republic of the Congo., Leendertz F; Department of Ecology and Emergence of Zoonotic Diseases, Helmholtz Institute for One Health (HIOH), Helmholtz Centre for Infection Research (HZI), Greifswald, Germany., Thompson J; Lukuru Wildlife Research Foundation, Tshuapa-Lomami-Lualab Project, Kinshasa, BP, 2012, Democratic Republic of the Congo., Fasbender D; Department of Primatology and Wildlife Science, Graduate School of Science, Kyoto University Inuyama Campus, Kanrin 41, Aichi, Inuyama, 484-8506, Japan., Dieguez P; Senckenberg Museum of Natural History, Goerlitz, 02826, Germany., Lokasola AL; Institut Supérieur d'Etudes Agronomiques, ISEA BENGAMISA, G692+R6W, Kisangani, Democratic Republic of the Congo., Brand C; Department of Epidemiology and Biostatistics, UCSF, San Francisco, CA, 94143, USA., Ndjango JB; Department of Ecology and Management of Plant and Animal Resources, Faculty of Sciences, University of Kisangani, Kisangani, BP, 2012, Democratic Republic of the Congo., Georgiev AV; School of Biological Sciences, Bangor University, Bangor, Gwynedd, LL57 2UW, UK., Giles JA; Department of Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA., Liu W; Department of Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA., Li Y; Department of Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA., Sharp PM; Institute of Ecology and Evolution and Centre for Immunity, Infection, and Evolution, University of Edinburgh, Edinburgh, EH9 3FL, UK., Pereboom Z; Antwerp Zoo Centre for Research and Conservation (CRC), Koningin Astridplein 20-26, Antwerp, 2018, Belgium., Andrés AM; Department of Genetics, Evolution and Environment, UCL Genetics Institute, University College London, Darwin Building, Gower Street London, London, WC1E 6BT, UK., Kuhlwilm M; Department of Evolutionary Anthropology (DEA)/Human Evolution and Archaeological Sciences (HEAS), University Vienna, Djerassiplatz 1, Vienna, 1030, Austria., Gronau I; Efi Arazi School of Computer Science, Reichman University, Herzliya, Israel., Kuehl H; Senckenberg Museum of Natural History, Goerlitz, 02826, Germany., Wessling EG; Cooperative Evolution Lab, Deutsches Primatenzentrum GmbH - Leibniz-Institut Für Primatenforschung, Göttingen, Niedersachsen, 37077, Germany., Narat V; UMR7206 Eco-Anthropologie, CNRS/MNHN/Univ, Paris Cité, Musée de L'Homme, Paris, France., Surbeck M; Department of Human Evolutionary Biology, Harvard University, Cambridge, MA, 02138, USA., Hart JA; Lukuru Wildlife Research Foundation, Tshuapa-Lomami-Lualaba Project, BP 2012, Kinshasa, Democratic Republic of the Congo., Hart TB; Lukuru Wildlife Research Foundation, Tshuapa-Lomami-Lualaba Project, BP 2012, Kinshasa, Democratic Republic of the Congo., Hvilsom C; Copenhagen Zoo, Roskildevej 38, Frederiksberg, 2000, Denmark., Krützen M; Department of Evolutionary Anthropology, University of Zurich, Zurich, CH-8057, Switzerland., Stevens J; Antwerp Zoo Centre for Research and Conservation, Antwerp, Belgium.; Odisee University of Applied Sciences, Brussels, Belgium., Hahn BH; Department of Medicine, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA.; Department of Microbiology, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, 19104, USA., Lizano E; Departament de Medicina I Ciències de La Vida, Institut de Biologia Evolutiva (CSIC-UPF), Universitat Pompeu Fabra, Barcelona, Spain.; Institut Català de Paleontologia Miquel Crusafont (ICP-CERCA), Universitat Autònoma de Barcelona, Edifici ICTA-ICP, Cerdanyola del Vallès, Barcelona, Spain.; Unidad de Paleobiología, ICP-CERCA, Unidad Asociada Al CSIC Por El IBE UPF-CSIC, Cerdanyola del Vallès, Barcelona, Spain., Prado-Martinez J; Departament de Medicina I Ciències de La Vida, Institut de Biologia Evolutiva (CSIC-UPF), Universitat Pompeu Fabra, Barcelona, Spain. javier.prado@upf.edu., Marques-Bonet T; Institut Català de Paleontologia Miquel Crusafont (ICP-CERCA), Universitat Autònoma de Barcelona, Edifici ICTA-ICP, Cerdanyola del Vallès, Barcelona, Spain. tomas.marques@upf.edu.; Catalan Institution of Research and Advanced Studies (ICREA), Barcelona, 08010, Spain. tomas.marques@upf.edu.; CNAG, Centro Nacional de Analisis Genomico, Barcelona, 08010, Spain. tomas.marques@upf.edu.; Institute of Evolutionary Biology (UPF-CSIC) and Center of Genomic Regulation (CRG), PRBB, 08003, Dr. Aiguader 88, Barcelona, Spain. tomas.marques@upf.edu.
Πηγή: Genome biology [Genome Biol] 2026 Jul 21; Vol. 27 (1). Date of Electronic Publication: 2026 Jul 21.
Τύπος έκδοσης: Journal Article
Γλώσσα: English
Στοιχεία περιοδικού: Publisher: BioMed Central Ltd Country of Publication: England NLM ID: 100960660 Publication Model: Electronic Cited Medium: Internet ISSN: 1474-760X (Electronic) Linking ISSN: 14747596 NLM ISO Abbreviation: Genome Biol Subsets: MEDLINE
Imprint Name(s): Publication: London, UK : BioMed Central Ltd
Original Publication: London : Genome Biology Ltd., c2000-
Ιατρικοί όροι (MeSH): Pan paniscus*/genetics , Pan paniscus*/classification, Animals ; Rivers ; Genetics, Population ; Gene Flow ; Genetic Variation ; Endangered Species
Περίληψη: Background: Bonobos (Pan paniscus), an endangered species, have for decades been genetically understudied, partly due to difficulties in obtaining high-quality samples. The study of their genome is important not only for understanding their evolution, but also for improving conservation efforts, including population management, diversity and inbreeding assessment, and tracking rescued individuals to combat illegal wildlife trafficking.
Results: Here, we use chromosome 21 target capture data from 156 non-invasively collected faecal samples from wild bonobos to perform a comprehensive analysis of their population structure. We confirm the existence of three previously suggested subpopulations identified here as Western, Central and Eastern bonobos which are defined by natural barriers of gene flow such as the Lomami River. By estimating levels of inbreeding, diversity and differentiation, we find support for isolation of mainly Western and Eastern populations and add information on the dispersal routes of their ancestors. We infer divergence history of these populations and apply a genetic framework to geolocalise samples of unknown origin, showing that locations of their potential origin can be estimated with a precision of down to a median of ~ 50 km.
Conclusions: Our study provides valuable insight into the evolution and population structure of bonobos and reveals how rivers act as strong barriers between populations. It also offers resources for conservation efforts and highlights the need to monitor bonobo populations more closely, in particular isolated ones.
Impact: Bonobos have been difficult to study genetically due to their remote forest habitat and endangered status. Here we used non-invasive sampling and chromosome 21 target capture sequencing to perform the most detailed analysis to date of their population structure. We find three main subpopulations and genetic differentiation influenced by river barriers, especially with populations found on the Eastern side of the Lomami river. This data will be useful for identifying the geographic origin of confiscated samples and thus aid bonobo conservation efforts.
(© 2026. The Author(s).)
Competing Interests: Declarations. Ethics approval and consent to participate: Not applicable. Consent for publication: Not applicable. Competing interests: The authors declare no competing interests.
Σχόλια: Update of: bioRxiv. 2026 Jan 09:2026.01.08.698381. doi: 10.64898/2026.01.08.698381.. (PMID: 41542450)
References: Genome Biol Evol. 2019 Apr 1;11(4):1178-1191. (PMID: 30847478)
Nat Commun. 2017 Nov 21;8(1):1635. (PMID: 29158512)
Genome Res. 2013 Sep;23(9):1514-21. (PMID: 23861382)
Sci Rep. 2021 Mar 18;11(1):6331. (PMID: 33737691)
N Engl J Med. 2019 Jul 25;381(4):373-383. (PMID: 31141654)
Nat Commun. 2014;5:3346. (PMID: 24557500)
Nat Ecol Evol. 2019 Jun;3(6):957-965. (PMID: 31036897)
Nat Ecol Evol. 2019 Feb;3(2):286-292. (PMID: 30664699)
Primates. 2009 Jul;50(3):197-209. (PMID: 19353234)
Proc Natl Acad Sci U S A. 2022 Apr 26;119(17):e2200858119. (PMID: 35452306)
PLoS One. 2017 May 3;12(5):e0174851. (PMID: 28467422)
PLoS One. 2011;6(6):e21605. (PMID: 21747915)
Ecol Evol. 2021 Nov 02;11(22):15833-15845. (PMID: 34824793)
Nature. 2010 Sep 23;467(7314):420-5. (PMID: 20864995)
Sci Rep. 2022 Aug 29;12(1):14683. (PMID: 36038559)
Mol Ecol Resour. 2021 Apr;21(3):745-761. (PMID: 33217149)
Trends Genet. 2023 Jul;39(7):545-559. (PMID: 36801111)
Nat Genet. 2011 Sep 18;43(10):1031-4. (PMID: 21926973)
Genetics. 1997 Apr;145(4):1219-28. (PMID: 9093870)
Mol Ecol Resour. 2018 Mar;18(2):319-333. (PMID: 29058768)
Mol Biol Evol. 2021 Jun 25;38(7):2986-3003. (PMID: 33591322)
Gigascience. 2015 Feb 25;4:7. (PMID: 25722852)
Mol Biol Evol. 2015 May;32(5):1186-96. (PMID: 25605789)
Elife. 2020 Jun 08;9:. (PMID: 32511092)
Philos Trans R Soc Lond B Biol Sci. 2023 Aug 14;378(1883):20220301. (PMID: 37381849)
Bioinformatics. 2015 Dec 15;31(24):4009-11. (PMID: 26323718)
Am J Primatol. 2021 Jan;83(1):e23217. (PMID: 33226162)
Heredity (Edinb). 2024 Jan;132(1):1-4. (PMID: 38151537)
Bioinformatics. 2018 Sep 1;34(17):i884-i890. (PMID: 30423086)
Proc Natl Acad Sci U S A. 2012 Sep 25;109(39):15716-21. (PMID: 22891323)
Horm Behav. 2022 Jun;142:105159. (PMID: 35462131)
PLoS Genet. 2009 Oct;5(10):e1000695. (PMID: 19851460)
Commun Biol. 2025 Apr 24;8(1):550. (PMID: 40275064)
Curr Biol. 2019 Oct 7;29(19):R982-R986. (PMID: 31593681)
Evol Anthropol. 2015 Sep-Oct;24(5):170-84. (PMID: 26478139)
Science. 2016 Oct 28;354(6311):477-481. (PMID: 27789843)
Genetics. 2018 Oct;210(2):719-731. (PMID: 30131346)
Genome Biol Evol. 2024 Feb 1;16(2):. (PMID: 38207127)
Cell Genom. 2022 Jun 08;2(6):None. (PMID: 35711737)
Science. 2023 Nov 17;382(6672):805-809. (PMID: 37972165)
PLoS One. 2013;8(3):e59660. (PMID: 23544084)
Sci China Life Sci. 2024 Oct;67(10):2051-2061. (PMID: 38970727)
Genetics. 1992 Oct;132(2):583-9. (PMID: 1427045)
Mol Ecol Resour. 2015 Sep;15(5):1179-91. (PMID: 25684545)
Ecohealth. 2015 Dec;12(4):621-33. (PMID: 26369331)
Curr Biol. 2022 Feb 7;32(3):701-707.e5. (PMID: 34995490)
Mol Ecol. 2004 Nov;13(11):3425-35. (PMID: 15488001)
Sci Data. 2025 Nov 19;12(1):1835. (PMID: 41261097)
Genetics. 2013 Nov;195(3):693-702. (PMID: 24026093)
Nature. 2021 Jun;594(7861):77-81. (PMID: 33953399)
Bioinformatics. 2016 Sep 15;32(18):2817-23. (PMID: 27283948)
Annu Rev Genet. 2002;36:721-50. (PMID: 12359738)
Nature. 2012 Jun 28;486(7404):527-31. (PMID: 22722832)
BMC Bioinformatics. 2017 Jul 24;18(1):351. (PMID: 28738841)
G3 (Bethesda). 2025 Apr 17;15(4):. (PMID: 39883523)
PLoS Biol. 2020 Apr 16;18(4):e3000667. (PMID: 32298256)
Bioinformatics. 2021 Dec 11;37(24):4882-4885. (PMID: 34164653)
BMC Bioinformatics. 2014 Nov 25;15:356. (PMID: 25420514)
Genome Biol Evol. 2021 Jun 8;13(6):. (PMID: 34038549)
Nat Hum Behav. 2022 Mar;6(3):371-382. (PMID: 35165434)
Nature. 2013 Jul 25;499(7459):471-5. (PMID: 23823723)
PLoS One. 2014 Apr 02;9(4):e93742. (PMID: 24695637)
Cell Genom. 2021 Sep 08;1(1):100002. (PMID: 36777713)
Curr Biol. 2024 Nov 18;34(22):5341-5348.e3. (PMID: 39413789)
Curr Biol. 2020 Feb 3;30(3):517-522.e5. (PMID: 31902732)
Commun Biol. 2021 Mar 5;4(1):283. (PMID: 33674780)
Nat Commun. 2023 Feb 23;14(1):1033. (PMID: 36823144)
Evol Anthropol. 2016 Sep;25(5):239-252. (PMID: 27753219)
PLoS One. 2012;7(7):e37558. (PMID: 22911679)
Grant Information: R01 AI050529 United States AI NIAID NIH HHS; R37 AI150590 United States AI NIAID NIH HHS
Contributed Indexing: Keywords: Pan paniscus; Conservation genomics; DRC; Dispersal theory; Geo-localisation; Non-invasive samples; Population genomics
Entry Date(s): Date Created: 20260721 Date Completed: 20261016 Latest Revision: 20261019
Update Code: 20261019
PubMed Central ID: PMC13673617
DOI: 10.1186/s13059-026-04195-8
PMID: 42482122
Βάση Δεδομένων: MEDLINE
Περιγραφή
ISSN:1474-760X
DOI:10.1186/s13059-026-04195-8