Genome-wide coancestry reveals details of ancient and recent male-driven reticulation in baboons-Reference-Cited by-同舟云学术

Genome-wide coancestry reveals details of ancient and recent male-driven reticulation in baboons

Published:2023-06-02 Issue:6648 Volume:380 Page:
ISSN:0036-8075
Container-title:Science
language:en
Short-container-title:Science

Author:

Sørensen Erik F.¹^ORCID,Harris R. Alan²^ORCID,Zhang Liye³^ORCID,Raveendran Muthuswamy²^ORCID,Kuderna Lukas F. K.⁴⁵^ORCID,Walker Jerilyn A.⁶,Storer Jessica M.⁷^ORCID,Kuhlwilm Martin⁴⁸⁹^ORCID,Fontsere Claudia⁴^ORCID,Seshadri Lakshmi³,Bergey Christina M.¹⁰^ORCID,Burrell Andrew S.¹¹,Bergman Juraj¹¹²^ORCID,Phillips-Conroy Jane E.¹³¹⁴^ORCID,Shiferaw Fekadu¹⁵,Chiou Kenneth L.¹⁶¹⁷^ORCID,Chuma Idrissa S.¹⁸^ORCID,Keyyu Julius D.¹⁹^ORCID,Fischer Julia²⁰²¹²²^ORCID,Gingras Marie-Claude²^ORCID,Salvi Sejal²,Doddapaneni Harshavardhan²,Schierup Mikkel H.¹^ORCID,Batzer Mark A.⁶^ORCID,Jolly Clifford J.¹¹,Knauf Sascha²³^ORCID,Zinner Dietmar²⁰²¹²²^ORCID,Farh Kyle K.-H.⁵^ORCID,Marques-Bonet Tomas⁴²⁴²⁵²⁶^ORCID,Munch Kasper¹^ORCID,Roos Christian³²⁷^ORCID,Rogers Jeffrey²^ORCID

Affiliation:

1. Bioinformatics Research Centre, Aarhus University, 8000 Aarhus, Denmark.

2. Human Genome Sequencing Center and Department of Molecular and Human Genetics, Baylor College of Medicine, Houston, TX 77030, USA.

3. Primate Genetics Laboratory, German Primate Center, Leibniz Institute for Primate Research, 37077 Göttingen, Germany.

4. Institute of Evolutionary Biology (UPF-CSIC), PRBB, Dr. Aiguader 88, 08003 Barcelona, Spain.

5. Artificial Intelligence Lab, Illumina Inc., San Diego, CA 92122, USA.

6. Department of Biological Sciences, Louisiana State University, Baton Rouge, LA 70803, USA.

7. Institute for Systems Biology, Seattle, WA 98109, USA.

8. Department of Evolutionary Anthropology, University of Vienna, 1030 Vienna, Austria.

9. Human Evolution and Archaeological Sciences (HEAS), University of Vienna, 1030 Vienna, Austria.

10. Department of Genetics, Human Genetics Institute of New Jersey, Rutgers University, Piscataway, NJ 08854, USA.

11. Department of Anthropology, New York University, New York, NY 10003, USA.

12. Section for Ecoinformatics and Biodiversity, Department of Biology, Aarhus University, 8000 Aarhus C, Denmark.

13. Department of Neuroscience, Washington University School of Medicine in St. Louis, St. Louis, MO 63110, USA.

14. Department of Anthropology, Washington University in St. Louis, St. Louis, MO 63130, USA.

15. The Carter Center Ethiopia, Addis Ababa, Ethiopia.

16. Center for Evolution and Medicine, Arizona State University, Tempe, AZ 85281, USA.

17. School of Life Sciences, Arizona State University, Tempe, AZ 85281, USA.

18. Tanzania National Parks, Arusha, Tanzania.

19. Tanzania Wildlife Research Institute, Arusha, Tanzania.

20. Cognitive Ethology Laboratory, German Primate Center, Leibniz Institute for Primate Research, 37077 Göttingen, Germany.

21. Department of Primate Cognition, Georg-August-Universität Göttingen, 37077 Göttingen, Germany.

22. Leibniz ScienceCampus Primate Cognition, 37077 Göttingen, Germany.

23. Institute of International Animal Health/One Health, Friedrich-Loeffler-Institut, Federal Research Institute for Animal Health, 17493 Greifswald–Insel Riems, Germany.

24. Catalan Institution of Research and Advanced Studies (ICREA), Passeig de Lluis Companys, 23, 08010 Barcelona, Spain.

25. CNAG-CRG, Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology, Baldiri i Reixac 4, 08028 Barcelona, Spain.

26. Institut Catala de Paleontologia Miquel Crusafont, Universitat Autonoma de Barcelona, Edifici ICTA-ICP, cl Columnes s/n, 08193 Cerdanyola del Valles, Barcelona, Spain.

27. Gene Bank of Primates, German Primate Center, Leibniz Institute for Primate Research, 37077 Göttingen, Germany.

Abstract

Baboons (genus Papio ) are a morphologically and behaviorally diverse clade of catarrhine monkeys that have experienced hybridization between phenotypically and genetically distinct phylogenetic species. We used high-coverage whole-genome sequences from 225 wild baboons representing 19 geographic localities to investigate population genomics and interspecies gene flow. Our analyses provide an expanded picture of evolutionary reticulation among species and reveal patterns of population structure within and among species, including differential admixture among conspecific populations. We describe the first example of a baboon population with a genetic composition that is derived from three distinct lineages. The results reveal processes, both ancient and recent, that produced the observed mismatch between phylogenetic relationships based on matrilineal, patrilineal, and biparental inheritance. We also identified several candidate genes that may contribute to species-specific phenotypes.

Publisher

American Association for the Advancement of Science (AAAS)

Subject

Multidisciplinary

Link

https://www.science.org/doi/pdf/10.1126/science.abn8153

Reference113 articles.

1. Genetic exchange and the origin of adaptations: prokaryotes to primates

2. Hybridization in human evolution: Insights from other organisms

3. Analysis of Hybrid Zones

4. The Role of Hybridization and Introgression in the Diversification of Animals

5. The evolutionary history of extinct and living lions

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