Genomic selection for recovery of original genetic background from hybrids of endangered and common breeds

Amador, Carmen, Hayes, Ben J. and Daetwyler, Hans D. (2014) Genomic selection for recovery of original genetic background from hybrids of endangered and common breeds. Evolutionary Applications, 7 2: 227-237. doi:10.1111/eva.12113


Author Amador, Carmen
Hayes, Ben J.
Daetwyler, Hans D.
Title Genomic selection for recovery of original genetic background from hybrids of endangered and common breeds
Journal name Evolutionary Applications   Check publisher's open access policy
ISSN 1752-4563
1752-4571
Publication date 2014-02
Year available 2013
Sub-type Article (original research)
DOI 10.1111/eva.12113
Open Access Status DOI
Volume 7
Issue 2
Start page 227
End page 237
Total pages 11
Place of publication Hoboken, NJ, United States
Publisher Wiley-Blackwell Publishing
Language eng
Abstract Critically endangered breeds and populations are often crossed with more common breeds or subspecies. This results in genetic admixture that can be undesirable when it challenges the genetic integrity of wild and domestic populations, causing a loss in special characteristics or unique genetic material and ultimately extinction. Here, we present two genomic selection strategies, using genome-wide DNA markers, to recover the genomic content of the original endangered population from admixtures. Each strategy relies on the estimation of the proportion of nonintrogressed genome in individuals based on a different method: either genomic prediction or identification of breed-specific haplotypes. Then, breeding programs that remove introgressed genomic information can be designed. To test these strategies, we used empirical 50K SNP array data from two pure sheep breeds, Merino (used as target breed), Poll Dorset and an existing admixed population of both breeds. Sheep populations with varying degrees of introgression and admixture were simulated starting from these real genotypes. Both strategies were capable of identifying segment origin, and both removed up to the 100% of the Poll Dorset segments. While the selection process led to substantial inbreeding, we controlled it by imposing a minimum number of individuals contributing to the next generation.
Keyword De-introgression
Original background recovery
Undesired introgression
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Non-UQ

Document type: Journal Article
Sub-type: Article (original research)
Collection: Queensland Alliance for Agriculture and Food Innovation
 
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