A global catalog of whole-genome diversity from 233 primate species.

Kuderna, Lukas F K; Gao, Hong; Janiak, Mareike C; Kuhlwilm, Martin; Orkin, Joseph D; Bataillon, Thomas; Manu, Shivakumara; Valenzuela, Alejandro; Bergman, Juraj; Rousselle, Marjolaine; Silva, Felipe Ennes; Agueda, Lidia; Blanc, Julie; Gut, Marta; de Vries, Dorien; Goodhead, Ian; Harris, R Alan; Raveendran, Muthuswamy; Jensen, Axel; Chuma, Idrissa S; Horvath, Julie E; Hvilsom, Christina; Juan, David; Frandsen, Peter; Schraiber, Joshua G.; de Melo, Fabiano R; Bertuol, Fabrício; Byrne, Hazel; Sampaio, Iracilda; Farias, Izeni; Valsecchi, João; Messias, Malu; da Silva, Maria N F; Trivedi, Mihir; Rossi, Rogerio; Hrbek, Tomas; Andriaholinirina, Nicole; Rabarivola, Clément J.; Zaramody, Alphonse; Jolly, Clifford J.; Phillips-Conroy, Jane; Wilkerson, Gregory; Abee, Christian; Simmons, Joe H; Fernandez-Duque, Eduardo; Kanthaswamy, Sree; Shiferaw, Fekadu; Wu, Dongdong; Zhou, Long; Shao, Yong; Zhang, Guojie; Keyyu, Julius D; Knauf, Sascha; Le, Minh D; Lizano, Esther; Merker, Stefan; Navarro, Arcad...

Abstract

The rich diversity of morphology and behavior displayed across primate species provides an informative context in which to study the impact of genomic diversity on fundamental biological processes. Analysis of that diversity provides insight into long-standing questions in evolutionary and conservation biology and is urgent given severe threats these species are facing. Here, we present high-coverage whole-genome data from 233 primate species representing 86% of genera and all 16 families. This dataset was used, together with fossil calibration, to create a nuclear DNA phylogeny and to reassess evolutionary divergence times among primate clades. We found within-species genetic diversity across families and geographic regions to be associated with climate and sociality, but not with extinction risk. Furthermore, mutation rates differ across species, potentially influenced by effective population sizes. Lastly, we identified extensive recurrence of missense mutations previously thought to be human specific. This study will open a wide range of research avenues for future primate genomic research.

• Journal Article Type: Article
• Acceptance Date: Feb 6, 2023
• Online Publication Date: Jun 1, 2023
• Publication Date: Jun 2, 2023
• Deposit Date: Jun 7, 2023
• Publicly Available Date: Jun 8, 2023
• Journal: Science (New York, N.Y.)
• Print ISSN: 0036-8075
• Electronic ISSN: 1095-9203
• Publisher: American Association for the Advancement of Science
• Peer Reviewed: Peer Reviewed
• Volume: 380
• Issue: 6648
• Pages: 906-913
• DOI: https://doi.org/10.1126/science.abn7829
• Keywords: Biological Evolution, Genome, Mutation Rate, Animals, Phylogeny, Primates - genetics, Humans
• Additional Information: This is the author’s version of the work. It is posted here by permission of the AAAS for personal use, not for redistribution. The definitive version was published in Science on June 2nd 2023 - Volume 380, DOI: https://doi.org/10.1126/science.abn7829