Signatures of positive selection underlying beef production traits in Korean cattle breeds

被引:29
作者
Edea, Zewdu [1 ]
Jung, Kyoung Sub [2 ]
Shin, Sung-Sub [3 ]
Yoo, Song-Won [3 ]
Choi, Jae Won [2 ]
Kim, Kwan-Suk [1 ]
机构
[1] Chungbuk Natl Univ, Dept Anim Sci, Cheongju 28644, South Korea
[2] Inst Livestock & Vet Res, Cheongju 28153, South Korea
[3] Korea Inst Anim Prod Qual Evaluat, Sejong 30100, South Korea
关键词
Candidate genes; Korean cattle; Selection signatures; GGP-F250; GENOME-WIDE ASSOCIATION; SINGLE-NUCLEOTIDE POLYMORPHISMS; CANDIDATE GENES; GROWTH-HORMONE; CARCASS TRAITS; POPULATION; IDENTIFICATION; DIVERSITY; LOCI; MEAT;
D O I
10.5187/jast.2020.62.3.293
中图分类号
S8 [畜牧、 动物医学、狩猎、蚕、蜂];
学科分类号
0905 ;
摘要
The difference in the breeding programs and population history may have diversely shaped the genomes of Korean native cattle breeds. In the absence of phenotypic data, comparisons of breeds that have been subjected to different selective pressures can aid to identify genomic regions and genes controlling qualitative and complex traits. In this study to decipher genetic variation and identify evidence of divergent selection, 3 Korean cattle breeds were genotyped using the recently developed high-density GeneSeek Genomic Profiler F250 (GGP-F250) array. The three Korean cattle breeds clustered according to their coat color phenotypes and breeding programs. The Heugu breed reliably showed smaller effective population size at all generations considered. Across the autosomal chromosomes, 113 and 83 annotated genes were identified from Hanwoo-Chikso and Hanwoo-Heugu comparisons, respectively of which 16 genes were shared between the two pairwise comparisons. The most important signals of selection were detected on bovine chromosomes 14 (24.39-25.13 Mb) and 18 (13.34-15.07 Mb), containing genes related to body size, and coat color (XKR4, LYN, PLAG1, SDR16C5, TMEM68, CDH15, MC1R, and GALNS). Some of the candidate genes are also associated with meat quality traits (ACSF3, EIF2B1, BANP, APCDD1, and GALM) and harbor quantitative trait locus (QTL) for beef production traits. Further functional analysis revealed that the candidate genes (DBI, ACSF3, HINT2, GBA2, AGPAT5, SCAP, ELP6, APOB, and RBL1) were involved in gene ontology (GO) terms relevant to meat quality including fatty acid oxidation, biosynthesis, and lipid storage. Candidate genes previously known to affect beef production and quality traits could be used in the beef cattle selection strategies.
引用
收藏
页码:293 / 305
页数:13
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