ArticleScience (New York, N.Y.)2016
Chimpanzee genomic diversity reveals ancient admixture with bonobos.
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Article in Science (New York, N.Y.), 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 131 papers.
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131citing papers in PubMed
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131 citing papers in PubMed.
- The gene-regulatory evolution of the human skeleton.Nature · 2026Article
- Clades, Grades, and the Genus Problem: A Case for Revising Hominin Taxonomy.American journal of biological anthropology · 2026Review
- Targeted chromosomal sequencing of wild bonobos identifies a genetically distinct subpopulation east of the Lomami river.Genome biology · 2026Article
- Evidence for multiple past introgressions among chimpanzee subspecies during warming periods.Communications biology · 2026Article
- A Rarefaction Approach to Identify Local Introgression in a Three Population Tree.bioRxiv : the preprint server for biology · 2026Article
- Targeted Chromosomal Sequencing of Wild Bonobos Identifies a Genetically Distinct Subpopulation East of the Lomami River.bioRxiv : the preprint server for biology · 2026Article
- Likelihoods for a general class of ARGs under the SMC.Genetics · 2026Article
- Divergent evolution of hepatocellular carcinoma genomes in chimpanzees and humans.Evolution, medicine, and public health · 2026Article
- A curated dataset of great ape genome diversity.Scientific data · 2025Article
- Estimating the Effective Population Size Across Space and Time in the Critically Endangered Western Chimpanzee in Guinea-Bissau: Challenges and Implications for Conservation Management.Evolutionary applications · 2025Article
- Complete sequencing of ape genomes.Nature · 2025Article
- A structured coalescent model reveals deep ancestral structure shared by all modern humans.Nature genetics · 2025Article
- Likelihoods for a general class of ARGs under the SMC.bioRxiv : the preprint server for biology · 2025Article
- How to Validate a Bayesian Evolutionary Model.Systematic biology · 2025Article
- Phylogenetic Signal in Primate Tooth Enamel Proteins and its Relevance for Paleoproteomics.Genome biology and evolution · 2025Article
- Local genetic adaptation to habitat in wild chimpanzees.Science (New York, N.Y.) · 2025Article
- Genome-scale evolution in local populations of wild chimpanzees.Scientific reports · 2025Article
- New insights shed light on the enigma of genetic diversity and species complexity.Science China. Life sciences · 2024Article
- Screening great ape museum specimens for DNA viruses.Scientific reports · 2024Article
- Sequence-Based Machine Learning Reveals 3D Genome Differences between Bonobos and Chimpanzees.Genome biology and evolution · 2024Article
71 more citing papers are in PubMed but not listed here.
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Authors and funding
37 authors.
Marc de ManuelInstitut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Doctor Aiguader 88, Barcelona, Catalonia 08003, Spain.
Martin KuhlwilmInstitut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Doctor Aiguader 88, Barcelona, Catalonia 08003, Spain.
Peter FrandsenSection for Computational and RNA Biology, Department of Biology, University of Copenhagen, 2200 Copenhagen, Denmark. Center for Zoo and Wild Animal Health, Copenhagen Zoo, 2000 Frederiksberg, Denmark.
Vitor C SousaComputational and Molecular Population Genetics, Institute of Ecology and Evolution, University of Berne, 3012 Berne, Switzerland. Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland.
Tariq DesaiDepartment of Genetics, University of Cambridge, Cambridge CB2 3EH, UK.
Javier Prado-MartinezInstitut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Doctor Aiguader 88, Barcelona, Catalonia 08003, Spain. Wellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, UK.
Jessica Hernandez-RodriguezInstitut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Doctor Aiguader 88, Barcelona, Catalonia 08003, Spain.
Isabelle DupanloupComputational and Molecular Population Genetics, Institute of Ecology and Evolution, University of Berne, 3012 Berne, Switzerland. Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland.
Oscar LaoNational Centre for Genomic Analysis-Centre for Genomic Regulation, Barcelona Institute of Science and Technology, 08028 Barcelona, Spain. Universitat Pompeu Fabra, 08003 Barcelona, Spain.
Pille HallastWellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, UK. Institute of Molecular and Cell Biology, University of Tartu, Tartu 51010, Estonia.
Joshua M SchmidtDepartment of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, 04103, Leipzig, Germany.
José María Heredia-GenestarInstitut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Doctor Aiguader 88, Barcelona, Catalonia 08003, Spain.
Andrea BenazzoDepartment of Life Sciences and Biotechnology, University of Ferrara, 44121 Ferrara, Italy.
Guido BarbujaniDepartment of Life Sciences and Biotechnology, University of Ferrara, 44121 Ferrara, Italy.
Benjamin M PeterDepartment of Human Genetics, University of Chicago, Chicago, IL 60637, USA.
Lukas F K KudernaInstitut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Doctor Aiguader 88, Barcelona, Catalonia 08003, Spain.
Ferran CasalsInstitut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Doctor Aiguader 88, Barcelona, Catalonia 08003, Spain.
Samuel AngedakinDepartment of Primatology, Max Planck Institute for Evolutionary Anthropology, 04103 Leipzig, Germany.
Mimi ArandjelovicDepartment of Primatology, Max Planck Institute for Evolutionary Anthropology, 04103 Leipzig, Germany.
Christophe BoeschDepartment of Primatology, Max Planck Institute for Evolutionary Anthropology, 04103 Leipzig, Germany.
Hjalmar KühlDepartment of Primatology, Max Planck Institute for Evolutionary Anthropology, 04103 Leipzig, Germany.
Linda VigilantDepartment of Primatology, Max Planck Institute for Evolutionary Anthropology, 04103 Leipzig, Germany.
Kevin LangergraberSchool of Human Evolution and Social Change and Institute of Human Origins, Arizona State University, Tempe, AZ 85287, USA.
John NovembreDepartment of Human Genetics, University of Chicago, Chicago, IL 60637, USA.
Marta GutNational Centre for Genomic Analysis-Centre for Genomic Regulation, Barcelona Institute of Science and Technology, 08028 Barcelona, Spain.
Ivo GutNational Centre for Genomic Analysis-Centre for Genomic Regulation, Barcelona Institute of Science and Technology, 08028 Barcelona, Spain.
Arcadi NavarroInstitut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Doctor Aiguader 88, Barcelona, Catalonia 08003, Spain. National Centre for Genomic Analysis-Centre for Genomic Regulation, Barcelona Institute of Science and Technology, 08028 Barcelona, Spain. Institucio Catalana de Recerca i Estudis Avançats (ICREA), Barcelona, Catalonia 08010, Spain.
Frands CarlsenCenter for Zoo and Wild Animal Health, Copenhagen Zoo, 2000 Frederiksberg, Denmark.
Aida M AndrésDepartment of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, 04103, Leipzig, Germany.
Hans R SiegismundSection for Computational and RNA Biology, Department of Biology, University of Copenhagen, 2200 Copenhagen, Denmark.
Aylwyn ScallyDepartment of Genetics, University of Cambridge, Cambridge CB2 3EH, UK.
Laurent ExcoffierComputational and Molecular Population Genetics, Institute of Ecology and Evolution, University of Berne, 3012 Berne, Switzerland. Swiss Institute of Bioinformatics, 1015 Lausanne, Switzerland.
Chris Tyler-SmithWellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, UK.
Sergi CastellanoDepartment of Evolutionary Genetics, Max Planck Institute for Evolutionary Anthropology, 04103, Leipzig, Germany.
Yali XueWellcome Trust Sanger Institute, Wellcome Genome Campus, Hinxton CB10 1SA, UK.
Christina HvilsomCenter for Zoo and Wild Animal Health, Copenhagen Zoo, 2000 Frederiksberg, Denmark. ch@zoo.dk tomas.marques@upf.edu.
Tomas Marques-BonetInstitut de Biologia Evolutiva (Consejo Superior de Investigaciones Científicas-Universitat Pompeu Fabra), Barcelona Biomedical Research Park, Doctor Aiguader 88, Barcelona, Catalonia 08003, Spain. National Centre for Genomic Analysis-Centre for Genomic Regulation, Barcelona Institute of Science and Technology, 08028 Barcelona, Spain. Institucio Catalana de Recerca i Estudis Avançats (ICREA), Barcelona, Catalonia 08010, Spain. ch@zoo.dk tomas.marques@upf.edu.
Funding
2/2 Somatic mosaicism and autism spectrum disorderU01MH106874 · NIMH · YALE UNIVERSITY · PI SESTAN, NENAD · 2015 to 2019
$4.0MTools for Visualization of Geographic Structure in Population Genomic DataU01CA198933 · NCI · UNIVERSITY OF CHICAGO · PI NOVEMBRE, JOHN · 2015 to 2017
$1.2MNCI NIH HHS U01 CA198933NIMH NIH HHS U01 MH106874Wellcome Trust
Abstract
Our closest living relatives, chimpanzees and bonobos, have a complex demographic history. We analyzed the high-coverage whole genomes of 75 wild-born chimpanzees and bonobos from 10 countries in Africa. We found that chimpanzee population substructure makes genetic information a good predictor of geographic origin at country and regional scales. Multiple lines of evidence suggest that gene flow occurred from bonobos into the ancestors of central and eastern chimpanzees between 200,000 and 550,000 years ago, probably with subsequent spread into Nigeria-Cameroon chimpanzees. Together with another, possibly more recent contact (after 200,000 years ago), bonobos contributed less than 1% to the central chimpanzee genomes. Admixture thus appears to have been widespread during hominid evolution.
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Evolution, MolecularGenetic VariationAnimalsCameroonGene FlowGenomeGenomicsHaplotypesNigeriaPan paniscusPan troglodytesPopulation
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