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Mol Biol Evol. 2016 Oct;33(10):2670-81. doi: 10.1093/molbev/msw150. Epub 2016 Aug 23.

Population Genomics Reveals Low Genetic Diversity and Adaptation to Hypoxia in Snub-Nosed Monkeys.

Author information

1
Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, China Division of Genetics, Department of Medicine, Brigham and Women's Hospital, Harvard Medical School lim@ioz.ac.cn lirq@novogene.cn xmzhou0103@163.com.
2
Novogene Bioinformatics Institute, Beijing, China.
3
Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, China.
4
State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing, China.
5
College of Animal Science and Technology, Sichuan Agricultural University, Ya'an, China.
6
Biodiversity and Sustainable Places Research Institute, Cardiff School of Biosciences, Cardiff University, Cardiff, United Kingdom.
7
Novogene Bioinformatics Institute, Beijing, China College of Animal Science and Technology, Sichuan Agricultural University, Ya'an, China.
8
Beijing Vegetable Research Center (BVRC), Beijing Academy of Agricultural and Forestry Sciences, Beijing, China.
9
Department of Anthropology, University of Illinois at Urbana-Champaign Program in Ecology and Evolutionary Biology, University of Illinois at Urbana-Champaign.
10
College of Nature Conservation, Beijing Forestry University, Beijing, China.
11
School of Life Sciences, Shaanxi Normal University, XiXi'an, China.
12
College of Life Science and Technology, Central South University of Forestry and Technology, Changsha, China.
13
Department of Organismic and Evolutionary Biology, Harvard University.
14
Division of Genetics, Department of Medicine, Brigham and Women's Hospital, Harvard Medical School.
15
College of Life Sciences, China West Normal University, Nanchong, Sichuan, China.
16
College of Life Sciences, Northwest University, Xi'an, China.
17
Novogene Bioinformatics Institute, Beijing, China lim@ioz.ac.cn lirq@novogene.cn xmzhou0103@163.com.
18
Key Laboratory of Animal Ecology and Conservation Biology, Institute of Zoology, Chinese Academy of Sciences, Beijing, China lim@ioz.ac.cn lirq@novogene.cn xmzhou0103@163.com.

Abstract

Snub-nosed monkeys (genus Rhinopithecus) are a group of endangered colobines endemic to South Asia. Here, we re-sequenced the whole genomes of 38 snub-nosed monkeys representing four species within this genus. By conducting population genomic analyses, we observed a similar load of deleterious variation in snub-nosed monkeys living in both smaller and larger populations and found that genomic diversity was lower than that reported in other primates. Reconstruction of Rhinopithecus evolutionary history suggested that episodes of climatic variation over the past 2 million years, associated with glacial advances and retreats and population isolation, have shaped snub-nosed monkey demography and evolution. We further identified several hypoxia-related genes under selection in R. bieti (black snub-nosed monkey), a species that exploits habitats higher than any other nonhuman primate. These results provide the first detailed and comprehensive genomic insights into genetic diversity, demography, genetic burden, and adaptation in this radiation of endangered primates.

KEYWORDS:

demographics; genetic adaptation; genetic diversity; population genomics; snub-nosed monkeys

PMID:
27555581
DOI:
10.1093/molbev/msw150
[Indexed for MEDLINE]

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