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Pool‐based genome‐wide association study identified novel candidate regions on BTA 9 and 14 for oleic acid percentage in Japanese Black cattle
Author(s) -
Kawaguchi Fuki,
Kigoshi Hiroto,
Nakajima Ayaka,
Matsumoto Yuta,
Uemoto Yoshinobu,
Fukushima Moriyuki,
Yoshida Emi,
Iwamoto Eiji,
Akiyama Takayuki,
Kohama Namiko,
Kobayashi Eiji,
Honda Takeshi,
Oyama Kenji,
Mannen Hideyuki,
Sasazaki Shinji
Publication year - 2018
Publication title -
animal science journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.606
H-Index - 38
eISSN - 1740-0929
pISSN - 1344-3941
DOI - 10.1111/asj.13035
Subject(s) - candidate gene , single nucleotide polymorphism , genome wide association study , biology , genetics , quantitative trait locus , snp , genetic association , population , nonsynonymous substitution , gene , genome , genotype , medicine , environmental health
Fatty acid composition is an important indicator of beef quality. The objective of this study was to search the potential candidate region for fatty acid composition. We performed pool‐based genome‐wide association studies ( GWAS ) for oleic acid percentage (C18:1) in a Japanese Black cattle population from the Hyogo prefecture. GWAS analysis revealed two novel candidate regions on BTA 9 and BTA 14. The most significant single nucleotide polymorphisms ( SNP s) in each region were genotyped in a population ( n = 899) to verify their effect on C18:1. Statistical analysis revealed that both SNP s were significantly associated with C18:1 ( p = .0080 and .0003), validating the quantitative trait loci ( QTL s) detected in GWAS . We subsequently selected VNN 1 and LYPLA 1 genes as candidate genes from each region on BTA 9 and BTA 14, respectively. We sequenced full‐length coding sequence ( CDS ) of these genes in eight individuals and identified a nonsynonymous SNP T66M on VNN 1 gene as a putative candidate polymorphism. The polymorphism was also significantly associated with C18:1, but the p value ( p = .0162) was higher than the most significant SNP on BTA 9, suggesting that it would not be responsible for the QTL . Although further investigation will be needed to determine the responsible gene and polymorphism, our findings would contribute to development of selective markers for fatty acid composition in the Japanese Black cattle of Hyogo.