Analysis of 100 high-coverage genomes from a pedigreed captive baboon colony

Jacqueline A. Robinson, Saurabh Belsare, Shifra Birnbaum, Deborah E. Newman, Jeannie Chan, Jeremy P. Glenn, Betsy Ferguson, Laura A. Cox, Jeffrey D. Wall

    Research output: Contribution to journalArticle

    Abstract

    Baboons (genus Papio) are broadly studied in the wild and in captivity. They are widely used as a nonhuman primate model for biomedical studies, and the Southwest National Primate Research Center (SNPRC) at Texas Biomedical Research Institute has maintained a large captive baboon colony for more than 50 yr. Unlike other model organisms, however, the genomic resources for baboons are severely lacking. This has hindered the progress of studies using baboons as a model for basic biology or human disease. Here, we describe a data set of 100 high-coverage whole-genome sequences obtained from the mixed colony of olive (P. anubis) and yellow (P. cynocephalus) baboons housed at the SNPRC. These data provide a comprehensive catalog of common genetic variation in baboons, as well as a fine-scale genetic map. We show how the data can be used to learn about ancestry and admixture and to correct errors in the colony records. Finally, we investigated the consequences of inbreeding within the SNPRC colony and found clear evidence for increased rates of infant mortality and increased homozygosity of putatively deleterious alleles in inbred individuals.

    Original languageEnglish (US)
    Pages (from-to)848-856
    Number of pages9
    JournalGenome Research
    Volume29
    Issue number5
    DOIs
    StatePublished - May 1 2019

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    Papio
    Genome
    Primates
    Research
    Inbreeding
    Infant Mortality
    Olea
    Biomedical Research
    Alleles

    ASJC Scopus subject areas

    • Genetics
    • Genetics(clinical)

    Cite this

    Robinson, J. A., Belsare, S., Birnbaum, S., Newman, D. E., Chan, J., Glenn, J. P., ... Wall, J. D. (2019). Analysis of 100 high-coverage genomes from a pedigreed captive baboon colony. Genome Research, 29(5), 848-856. https://doi.org/10.1101/gr.247122.118

    Analysis of 100 high-coverage genomes from a pedigreed captive baboon colony. / Robinson, Jacqueline A.; Belsare, Saurabh; Birnbaum, Shifra; Newman, Deborah E.; Chan, Jeannie; Glenn, Jeremy P.; Ferguson, Betsy; Cox, Laura A.; Wall, Jeffrey D.

    In: Genome Research, Vol. 29, No. 5, 01.05.2019, p. 848-856.

    Research output: Contribution to journalArticle

    Robinson, JA, Belsare, S, Birnbaum, S, Newman, DE, Chan, J, Glenn, JP, Ferguson, B, Cox, LA & Wall, JD 2019, 'Analysis of 100 high-coverage genomes from a pedigreed captive baboon colony', Genome Research, vol. 29, no. 5, pp. 848-856. https://doi.org/10.1101/gr.247122.118
    Robinson JA, Belsare S, Birnbaum S, Newman DE, Chan J, Glenn JP et al. Analysis of 100 high-coverage genomes from a pedigreed captive baboon colony. Genome Research. 2019 May 1;29(5):848-856. https://doi.org/10.1101/gr.247122.118
    Robinson, Jacqueline A. ; Belsare, Saurabh ; Birnbaum, Shifra ; Newman, Deborah E. ; Chan, Jeannie ; Glenn, Jeremy P. ; Ferguson, Betsy ; Cox, Laura A. ; Wall, Jeffrey D. / Analysis of 100 high-coverage genomes from a pedigreed captive baboon colony. In: Genome Research. 2019 ; Vol. 29, No. 5. pp. 848-856.
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