Evidence map›Paper›PMID 38982354›Full record

ArticleBMC genomic data2024

Identification of consensus homozygous regions and their associations with growth and feed efficiency traits in American mink.

Pourya Davoudi, Duy Ngoc Do, Bruce Rathgeber, Stefanie Colombo, Mehdi Sargolzaei, Graham Plastow, Zhiquan Wang, Younes Miar

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Article in BMC genomic data, 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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4 · The record

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5 · Who and what money

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8 authors.

Pourya DavoudiDepartment of Animal Science and Aquaculture, Dalhousie University, Truro, NS, Canada.
Duy Ngoc DoDepartment of Animal Science and Aquaculture, Dalhousie University, Truro, NS, Canada.
Bruce RathgeberDepartment of Animal Science and Aquaculture, Dalhousie University, Truro, NS, Canada.
Stefanie ColomboDepartment of Animal Science and Aquaculture, Dalhousie University, Truro, NS, Canada.
Mehdi SargolzaeiDepartment of Pathobiology, University of Guelph, Guelph, ON, Canada.
Graham PlastowDepartment of Agricultural, Food and Nutritional Science, Livestock Gentec, University of Alberta, Edmonton, AB, Canada.
Zhiquan WangDepartment of Agricultural, Food and Nutritional Science, Livestock Gentec, University of Alberta, Edmonton, AB, Canada.
Younes MiarDepartment of Animal Science and Aquaculture, Dalhousie University, Truro, NS, Canada. miar@dal.ca.

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

The recent chromosome-based genome assembly and the newly developed 70K single nucleotide polymorphism (SNP) array for American mink (Neogale vison) facilitate the identification of genetic variants underlying complex traits in this species. The objective of this study was to evaluate the association between consensus runs of homozygosity (ROH) with growth and feed efficiency traits in American mink. A subsample of two mink populations (n = 2,986) were genotyped using the Affymetrix Mink 70K SNP array. The identified ROH segments were included simultaneously, concatenated into consensus regions, and the ROH-based association studies were carried out with linear mixed models considering a genomic relationship matrix for 11 growth and feed efficiency traits implemented in ASReml-R version 4. In total, 298,313 ROH were identified across all individuals, with an average length and coverage of 4.16 Mb and 414.8 Mb, respectively. After merging ROH segments, 196 consensus ROH regions were detected and used for genome-wide ROH-based association analysis. Thirteen consensus ROH regions were significantly (P < 0.01) associated with growth and feed efficiency traits. Several candidate genes within the significant regions are known for their involvement in growth and body size development, including MEF2A, ADAMTS17, POU3F2, and TYRO3. In addition, we found ten consensus ROH regions, defined as ROH islands, with frequencies over 80% of the population. These islands harbored 12 annotated genes, some of which were related to immune system processes such as DTX3L, PARP9, PARP14, CD86, and HCLS1. This is the first study to explore the associations between homozygous regions with growth and feed efficiency traits in American mink. Our findings shed the light on the effects of homozygosity in the mink genome on growth and feed efficiency traits, that can be utilized in developing a sustainable breeding program for mink.

Indexed as

HomozygoteMinkPolymorphism, Single NucleotideAnimal FeedAnimalsGenome-Wide Association StudyPhenotypeAmerican minkAssociation analysisFeed efficiencyGrowth traitsRuns of homozygosity

Identifiers

PMID38982354
PMCPMC11234557

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