Phylogenomic analyses provide insights into primate evolution-Reference-Cited by-全球学者库

Phylogenomic analyses provide insights into primate evolution

Published:2023-06-02 Issue:6648 Volume:380 Page:913-924
ISSN:0036-8075
Container-title:Science
language:en
Short-container-title:Science

Author:

Shao Yong¹^ORCID,Zhou Long²^ORCID,Li Fang³⁴^ORCID,Zhao Lan⁵^ORCID,Zhang Bao-Lin¹^ORCID,Shao Feng⁶^ORCID,Chen Jia-Wei⁷,Chen Chun-Yan⁸^ORCID,Bi Xupeng²^ORCID,Zhuang Xiao-Lin¹⁹^ORCID,Zhu Hong-Liang⁷,Hu Jiang¹⁰^ORCID,Sun Zongyi¹⁰^ORCID,Li Xin¹⁰,Wang Depeng¹⁰^ORCID,Rivas-González Iker¹¹^ORCID,Wang Sheng¹^ORCID,Wang Yun-Mei¹^ORCID,Chen Wu¹²^ORCID,Li Gang¹³^ORCID,Lu Hui-Meng¹⁴^ORCID,Liu Yang¹³^ORCID,Kuderna Lukas F. K.¹⁵¹⁶^ORCID,Farh Kyle Kai-How¹⁶^ORCID,Fan Peng-Fei¹⁷^ORCID,Yu Li¹⁸,Li Ming¹⁹^ORCID,Liu Zhi-Jin²⁰^ORCID,Tiley George P.²¹^ORCID,Yoder Anne D.²¹^ORCID,Roos Christian²²^ORCID,Hayakawa Takashi²³²⁴^ORCID,Marques-Bonet Tomas¹⁵²⁵²⁶²⁷^ORCID,Rogers Jeffrey²⁸^ORCID,Stenson Peter D.²⁹,Cooper David N.²⁹^ORCID,Schierup Mikkel Heide¹¹^ORCID,Yao Yong-Gang⁹³⁰³¹³²^ORCID,Zhang Ya-Ping¹³¹³²^ORCID,Wang Wen¹⁸³¹^ORCID,Qi Xiao-Guang⁵^ORCID,Zhang Guojie¹²³³³^ORCID,Wu Dong-Dong¹³¹³²³⁴^ORCID

Affiliation:

1. State Key Laboratory of Genetic Resources and Evolution, Kunming Natural History Museum of Zoology, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650201, China.

2. Center of Evolutionary & Organismal Biology, and Women’s Hospital at Zhejiang University School of Medicine, Hangzhou 310058, China.

3. Section for Ecology and Evolution, Department of Biology, University of Copenhagen, DK-2100 Copenhagen, Denmark.

4. Institute of Animal Sex and Development, ZhejiangWanli University, Ningbo 315100, China.

5. Shaanxi Key Laboratory for Animal Conservation, College of Life Sciences, Northwest University, Xi’an 710069, China.

6. Key Laboratory of Freshwater Fish Reproduction and Development (Ministry of Education), Southwest University School of Life Sciences, Chongqing 400715, China.

7. BGI-Shenzhen, Shenzhen 518083, China.

8. School of Ecology and Environment, Northwestern Polytechnical University, Xi’an 710072, China.

9. Kunming College of Life Science, University of the Chinese Academy of Sciences, Kunming 650204, China.

10. Grandomics Biosciences, Beijing 102206, China.

11. Bioinformatics Research Centre, Aarhus University, DK-8000 Aarhus, Denmark.

12. Guangzhou Zoo & Guangzhou Wildlife Research Center, Guangzhou 510070, China.

13. College of Life Sciences, Shaanxi Normal University, Xi’an 710119, China.

14. School of Life Sciences, Northwestern Polytechnical University, Xi’an 710072, China.

15. Institute of Evolutionary Biology (UPF-CSIC), PRBB, 08003 Barcelona, Spain.

16. Illumina Artificial Intelligence Laboratory, Illumina Inc, San Diego, CA 92122, USA.

17. School of Life Sciences, Sun Yat-sen University, Guangzhou, Guangdong 510275, China.

18. State Key Laboratory for Conservation and Utilization of Bio-Resource in Yunnan, School of Life Sciences, Yunnan University, Kunming 650091, China.

19. CAS Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing 100101, China.

20. College of Life Sciences, Capital Normal University, Beijing 100048, China.

21. Department of Biology, Duke University, Durham, NC 27708, USA.

22. Gene Bank of Primates and Primate Genetics Laboratory, German Primate Center, Leibniz Institute for Primate Research, 37077 Göttingen, Germany.

23. Faculty of Environmental Earth Science, Hokkaido University, Sapporo, Hokkaido 060-0810, Japan.

24. Japan Monkey Centre, Inuyama, Aichi 484-0081, Japan.

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

26. CNAG-CRG, Centre for Genomic Regulation (CRG), Barcelona Institute of Science and Technology (BIST), 08028 Barcelona, Spain.

27. Institut Català de Paleontologia Miquel Crusafont, Universitat Autònoma de Barcelona, Edifici ICTA-ICP, c/ Columnes s/n, 08193 Cerdanyola del Vallès, Barcelona, Spain.

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

29. Institute of Medical Genetics, School of Medicine, Cardiff University, Cardiff CF14 4XN, UK.

30. Key Laboratory of Animal Models and Human Disease Mechanisms of Chinese Academy of Sciences & Yunnan Province, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650201, China.

31. Center for Excellence in Animal Evolution and Genetics, Chinese Academy of Sciences, Kunming 650201, China.

32. National Resource Center for Non-Human Primates, Kunming Primate Research Center, and National Research Facility for Phenotypic & Genetic Analysis of Model Animals (Primate Facility), Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650107, China.

33. Liangzhu Laboratory, Zhejiang University Medical Center, Hangzhou 311121, China.

34. KIZ-CUHK Joint Laboratory of Bioresources and Molecular Research in Common Diseases, Kunming Institute of Zoology, Chinese Academy of Sciences, Kunming 650204, China.

Abstract

Comparative analysis of primate genomes within a phylogenetic context is essential for understanding the evolution of human genetic architecture and primate diversity. We present such a study of 50 primate species spanning 38 genera and 14 families, including 27 genomes first reported here, with many from previously less well represented groups, the New World monkeys and the Strepsirrhini. Our analyses reveal heterogeneous rates of genomic rearrangement and gene evolution across primate lineages. Thousands of genes under positive selection in different lineages play roles in the nervous, skeletal, and digestive systems and may have contributed to primate innovations and adaptations. Our study reveals that many key genomic innovations occurred in the Simiiformes ancestral node and may have had an impact on the adaptive radiation of the Simiiformes and human evolution.

Publisher

American Association for the Advancement of Science (AAAS)

Subject

Multidisciplinary

Link

https://www.science.org/doi/pdf/10.1126/science.abn6919

Reference236 articles.

1. Impending extinction crisis of the world’s primates: Why primates matter

2. Mitogenomic phylogeny of the Asian colobine genus Trachypithecus with special focus on Trachypithecus phayrei (Blyth, 1847) and description of a new species

3. Morphometric, Behavioral, and Genomic Evidence for a New Orangutan Species

4. Description of a new species of Hoolock gibbon (Primates: Hylobatidae) based on integrative taxonomy

5. White-cheeked macaque (Macaca leucogenys): A new macaque species from Medog, southeastern Tibet

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