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Signatures of selection reveal candidate genes involved in economic traits and cold acclimation in five Swedish cattle breeds.


ABSTRACT:

Background

Thousands of years of natural and artificial selection have resulted in indigenous cattle breeds that are well-adapted to the environmental challenges of their local habitat and thereby are considered as valuable genetic resources. Understanding the genetic background of such adaptation processes can help us design effective breeding objectives to preserve local breeds and improve commercial cattle. To identify regions under putative selection, GGP HD 150 K single nucleotide polymorphism (SNP) arrays were used to genotype 106 individuals representing five Swedish breeds i.e. native to different regions and covering areas with a subarctic cold climate in the north and mountainous west, to those with a continental climate in the more densely populated south regions.

Results

Five statistics were incorporated within a framework, known as de-correlated composite of multiple signals (DCMS) to detect signatures of selection. The obtained p-values were adjusted for multiple testing (FDR?ConclusionsWe identified genomic regions that may provide background knowledge to understand the mechanisms that are involved in economic traits and adaptation to cold climate in cattle. Incorporating p-values of different statistics in a single DCMS framework may help select and prioritize candidate genes for further analyses.

SUBMITTER: Ghoreishifar SM 

PROVIDER: S-EPMC7487911 | biostudies-literature | 2020 Sep

REPOSITORIES: biostudies-literature

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Publications

Signatures of selection reveal candidate genes involved in economic traits and cold acclimation in five Swedish cattle breeds.

Ghoreishifar Seyed Mohammad SM   Eriksson Susanne S   Johansson Anna M AM   Khansefid Majid M   Moghaddaszadeh-Ahrabi Sima S   Parna Nahid N   Davoudi Pourya P   Javanmard Arash A  

Genetics, selection, evolution : GSE 20200904 1


<h4>Background</h4>Thousands of years of natural and artificial selection have resulted in indigenous cattle breeds that are well-adapted to the environmental challenges of their local habitat and thereby are considered as valuable genetic resources. Understanding the genetic background of such adaptation processes can help us design effective breeding objectives to preserve local breeds and improve commercial cattle. To identify regions under putative selection, GGP HD 150 K single nucleotide p  ...[more]

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