VarGoats project: a dataset of 1159 whole‑genome sequences to dissect Capra hircus global diversity
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Date
2021
Journal Title
Journal ISSN
Volume Title
Publisher
Genetics Selection Evolution
Abstract
Since their domestication 10,500 years ago, goat populations with distinctive genetic backgrounds
have adapted to a broad variety of environments and breeding conditions. The VarGoats project is an international
1000-genome resequencing program designed to understand the consequences of domestication and breeding
on the genetic diversity of domestic goats and to elucidate how speciation and hybridization have modeled the
genomes of a set of species representative of the genus Capra.
Findings: A dataset comprising 652 sequenced goats and 507 public goat sequences, including 35 animals representing
eight wild species, has been collected worldwide. We identified 74,274,427 single nucleotide polymorphisms
(SNPs) and 13,607,850 insertion-deletions (InDels) by aligning these sequences to the latest version of the goat reference
genome (ARS1). A Neighbor-joining tree based on Reynolds genetic distances showed that goats from Africa,
Asia and Europe tend to group into independent clusters. Because goat breeds from Oceania and Caribbean (Creole)
all derive from imported animals, they are distributed along the tree according to their ancestral geographic origin.
Conclusions: We report on an unprecedented international effort to characterize the genome-wide diversity of
domestic goats. This large range of sequenced individuals represents a unique opportunity to ascertain how the
demographic and selection processes associated with post-domestication history have shaped the diversity of this
species. Data generated for the project will also be extremely useful to identify deleterious mutations and polymorphisms
with causal effects on complex traits, and thus will contribute to new knowledge that could be used in
genomic prediction and genome-wide association studies.
Description
Keywords
VarGoats project, Whole‑genome sequences, Capra hircus global diversity
Citation
Denoyelle, L., Talouarn, E., Bardou, P., Colli, L., Alberti, A., Danchin, C., ... & Tosser-Klopp, G. (2021). VarGoats project: a dataset of 1159 whole-genome sequences to dissect Capra hircus global diversity. Genetics Selection Evolution, 53(1), 1-14. https://doi.org/10.1186/s12711-021-00659-6