Scans for signatures of selection in Russian cattle breed genomes reveal new candidate genes for environmental adaptation and acclimation

Scientific Reports
Andrey YurchenkoDenis M Larkin

Abstract

Domestication and selective breeding has resulted in over 1000 extant cattle breeds. Many of these breeds do not excel in important traits but are adapted to local environments. These adaptations are a valuable source of genetic material for efforts to improve commercial breeds. As a step toward this goal we identified candidate regions to be under selection in genomes of nine Russian native cattle breeds adapted to survive in harsh climates. After comparing our data to other breeds of European and Asian origins we found known and novel candidate genes that could potentially be related to domestication, economically important traits and environmental adaptations in cattle. The Russian cattle breed genomes contained regions under putative selection with genes that may be related to adaptations to harsh environments (e.g., AQP5, RAD50, and RETREG1). We found genomic signatures of selective sweeps near key genes related to economically important traits, such as the milk production (e.g., DGAT1, ABCG2), growth (e.g., XKR4), and reproduction (e.g., CSF2). Our data point to candidate genes which should be included in future studies attempting to identify genes to improve the extant breeds and facilitate generation of commercial breed...Continue Reading

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Citations

Jun 22, 2019·Genetics, Selection, Evolution : GSE·Roberto CarvalheiroBen J Hayes
Jul 28, 2020·Animal Genetics·K ZhangJ Liu
Jun 4, 2020·Scientific Reports·Melak WeldenegodguadJuha Kantanen
May 31, 2020·Scientific Reports·Diercles Francisco CardosoLucia Galvão Albuquerque
Jan 9, 2019·Frontiers in Genetics·Evans Kiptoo CheruiyotFidalis D N Mujibi
Sep 6, 2020·Genetics, Selection, Evolution : GSE·Seyed Mohammad GhoreishifarArash Javanmard
May 1, 2021·Animals : an Open Access Journal From MDPI·Michael N RomanovDarren K Griffin
May 18, 2021·Frontiers in Veterinary Science·Mullakkalparambil Velayudhan SilpaRaghavendra Bhatta
Sep 11, 2021·Genetics, Selection, Evolution : GSE·Elaheh Rostamzadeh MahdabiMasood Asadi Fozi
Jan 6, 2022·Journal of Animal Breeding and Genetics = Zeitschrift Für Tierzüchtung Und Züchtungsbiologie·Alberto CesaraniNicolò P P Macciotta

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Methods Mentioned

BETA
genotyping
Profiler
PCA

Software Mentioned

bwa mem
fastPhase
hapFLK
bcftools
trees
vcftools
GeneSeek
R
R MINOTAUR MINOTAUR
R MASS package

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