VarGoats project : a dataset of 1159 whole-genome sequences to dissect Capra hircus global diversity
Denoyelle, Laure (Université de Toulouse)
Talouarn, Estelle (Université de Toulouse)
Bardou, Philippe (Université de Toulouse)
Colli, Licia (Università Cattolica del Sacro Cuore. Dipartimento Di Scienze Animali, Della Nutrizione E Degli Alimenti)
Alberti, Adriana (Université Paris-Saclay)
Danchin Burge, Coralie (Institut de L'Elevage (Paris))
Del Corvo, Marcello (Università Cattolica del Sacro Cuore. Dipartimento Di Scienze Animali, Della Nutrizione E Degli Alimenti)
Engelen, Stefan (Université Paris-Saclay)
Orvain, Céline (Université Paris-Saclay)
Palhière, Isabelle (Université de Toulouse)
Rupp, Rachel (Université de Toulouse)
Sarry, Julien (Université de Toulouse)
Salavati, Mazdak (University of Edinburgh)
Amills i Eras, Marcel (Centre de Recerca en Agrigenòmica)
Clark, Emily (University of Edinburgh)
Crepaldi, Paola (University of Milan. Department of Agricultural and Environmental Sciences-Production, Landscape, Agroenergy)
Faraut, Thomas (Université de Toulouse)
Masiga, Clet Wandui (Tropical Institute of Development Innovations (TRIDI) (Uganda))
Pompanon, François (Université Grenoble Alpes)
Rosen, Benjamin D. (USDA-ARS. Animal Genomics and Improvement Laboratory)
Stella, Alessandra (Istituto Di Biologia E Biotecnologia Agraria (Milan))
Van Tassell, Curtis (USDA-ARS. Animal Genomics and Improvement Laboratory)
Tosser-Klopp, Gwenola (Université de Toulouse)

Data:	2021
Resum:	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. 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. 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.
Drets:	Aquest document està subjecte a una llicència d'ús Creative Commons. Es permet la reproducció total o parcial, la distribució, la comunicació pública de l'obra i la creació d'obres derivades, fins i tot amb finalitats comercials, sempre i quan es reconegui l'autoria de l'obra original.
Llengua:	Anglès
Document:	Article ; recerca ; Versió publicada
Publicat a:	Genetics, selection, evolution, Vol. 53 (November 2021) , art. 86, ISSN 1297-9686

DOI: 10.1186/s12711-021-00659-6
PMID: 34749642

14 p, 2.9 MB

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