Whole-genome resequencing points to candidate dna loci affecting body temperature under cold stress in siberian cattle populations

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Whole-genome resequencing points to candidate dna loci affecting body temperature under cold stress in siberian cattle populations. / Igoshin, Alexander; Yudin, Nikolay; Aitnazarov, Ruslan et al.

In: Life, Vol. 11, No. 9, 959, 09.2021.

Research output: Contribution to journal › Article › peer-review

BibTeX

@article{7cf4ec8b7861443eb397a8792de26f96,

title = "Whole-genome resequencing points to candidate dna loci affecting body temperature under cold stress in siberian cattle populations",

abstract = "Despite the economic importance of creating cold resilient cattle breeds, our knowledge of the genetic basis of adaptation to cold environments in cattle is still scarce compared to information on other economically important traits. Herein, using whole-genome resequencing of animals showing contrasting phenotypes on temperature maintenance under acute cold stress combined with the existing SNP (single nucleotide polymorphism) functional annotations, we report chromosomal regions and candidate SNPs controlling body temperature in the Siberian cattle populations. The SNP ranking procedure based on regional FST calculations, functional annotations, and the allele frequency difference between cold-tolerant and cold-sensitive groups of animals pointed to multiple candidate genes. Among these, GRIA4, COX17, MAATS1, UPK1B, IFNGR1, DDX23, PPT1, THBS1, CCL5, ATF1, PLA1A, PRKAG1, and NR1I2 were previously related to thermal adaptations in cattle. Other genes, for example KMT2D and SNRPA1, are known to be related to thermogenesis in mice and cold adaptation in common carp, respectively. This work could be useful for cattle breeding strategies in countries with harsh climates, including the Russian Federation.",

keywords = "body temperature maintenance, Cattle, Cold adaptation, Whole-genome resequencing",

author = "Alexander Igoshin and Nikolay Yudin and Ruslan Aitnazarov and Yurchenko, {Andrey A.} and Larkin, {Denis M.}",

note = "Funding Information: Funding: This research was funded by the Russian Science Foundation grant (RSF, 19-76-20026). Publisher Copyright: {\textcopyright} 2021 by the authors. Licensee MDPI, Basel, Switzerland.",

year = "2021",

month = sep,

doi = "10.3390/life11090959",

language = "English",

volume = "11",

journal = "Life",

issn = "2075-1729",

publisher = "Multidisciplinary Digital Publishing Institute (MDPI)",

number = "9",

}

RIS

TY - JOUR

T1 - Whole-genome resequencing points to candidate dna loci affecting body temperature under cold stress in siberian cattle populations

AU - Igoshin, Alexander

AU - Yudin, Nikolay

AU - Aitnazarov, Ruslan

AU - Yurchenko, Andrey A.

AU - Larkin, Denis M.

PY - 2021/9

Y1 - 2021/9

N2 - Despite the economic importance of creating cold resilient cattle breeds, our knowledge of the genetic basis of adaptation to cold environments in cattle is still scarce compared to information on other economically important traits. Herein, using whole-genome resequencing of animals showing contrasting phenotypes on temperature maintenance under acute cold stress combined with the existing SNP (single nucleotide polymorphism) functional annotations, we report chromosomal regions and candidate SNPs controlling body temperature in the Siberian cattle populations. The SNP ranking procedure based on regional FST calculations, functional annotations, and the allele frequency difference between cold-tolerant and cold-sensitive groups of animals pointed to multiple candidate genes. Among these, GRIA4, COX17, MAATS1, UPK1B, IFNGR1, DDX23, PPT1, THBS1, CCL5, ATF1, PLA1A, PRKAG1, and NR1I2 were previously related to thermal adaptations in cattle. Other genes, for example KMT2D and SNRPA1, are known to be related to thermogenesis in mice and cold adaptation in common carp, respectively. This work could be useful for cattle breeding strategies in countries with harsh climates, including the Russian Federation.

AB - Despite the economic importance of creating cold resilient cattle breeds, our knowledge of the genetic basis of adaptation to cold environments in cattle is still scarce compared to information on other economically important traits. Herein, using whole-genome resequencing of animals showing contrasting phenotypes on temperature maintenance under acute cold stress combined with the existing SNP (single nucleotide polymorphism) functional annotations, we report chromosomal regions and candidate SNPs controlling body temperature in the Siberian cattle populations. The SNP ranking procedure based on regional FST calculations, functional annotations, and the allele frequency difference between cold-tolerant and cold-sensitive groups of animals pointed to multiple candidate genes. Among these, GRIA4, COX17, MAATS1, UPK1B, IFNGR1, DDX23, PPT1, THBS1, CCL5, ATF1, PLA1A, PRKAG1, and NR1I2 were previously related to thermal adaptations in cattle. Other genes, for example KMT2D and SNRPA1, are known to be related to thermogenesis in mice and cold adaptation in common carp, respectively. This work could be useful for cattle breeding strategies in countries with harsh climates, including the Russian Federation.

KW - body temperature maintenance

KW - Cattle

KW - Cold adaptation

KW - Whole-genome resequencing

UR - http://www.scopus.com/inward/record.url?scp=85115154936&partnerID=8YFLogxK

U2 - 10.3390/life11090959

DO - 10.3390/life11090959

M3 - Article

C2 - 34575108

AN - SCOPUS:85115154936

VL - 11

JO - Life

JF - Life

SN - 2075-1729

IS - 9

M1 - 959

ER -

ID: 34241941