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Analysis of 100 high-coverage genomes from a pedigreed captive baboon colony.
Genome Research ( IF 7 ) Pub Date : 2019-03-29 , DOI: 10.1101/gr.247122.118
Jacqueline A Robinson 1 , Saurabh Belsare 1 , Shifra Birnbaum 2 , Deborah E Newman 2 , Jeannie Chan 2 , Jeremy P Glenn 2 , Betsy Ferguson 3, 4 , Laura A Cox 5, 6 , Jeffrey D Wall 1
Affiliation  

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.

中文翻译:

分析来自纯种圈养狒狒群落的100个高覆盖率基因组。

狒狒(Papio属)在野外和人工饲养中得到了广泛的研究。它们被广泛用作生物医学研究的非人类灵长类动物模型,德克萨斯州生物医学研究所的西南国家灵长类动物研究中心(SNPRC)拥有大型圈养狒狒殖民地已有50多年了。但是,与其他模式生物不同,狒狒的基因组资源严重缺乏。这阻碍了使用狒狒作为基本生物学或人类疾病模型的研究的进展。在这里,我们描述了从SNPRC的橄榄狒狒(P. anubis)和黄色狒狒(P. cynocephalus)的混合菌落中获得的100个高覆盖全基因组序列的数据集。这些数据提供了狒狒常见遗传变异的全面目录以及精细的遗传图谱。我们展示了如何使用数据来了解血统和混合以及纠正殖民地记录中的错误。最后,我们调查了SNPRC菌落内近交的后果,并找到了自交个体中婴儿死亡率增加和推定有害等位基因纯合性增加的明确证据。
更新日期:2019-11-01
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