Premium
Whole‐genome resequencing to identify candidate genes for the QTL for oleic acid percentage in Japanese Black cattle
Author(s) -
Kawaguchi Fuki,
Kigoshi Hiroto,
Fukushima Moriyuki,
Iwamoto Eiji,
Kobayashi Eiji,
Oyama Kenji,
Mannen Hideyuki,
Sasazaki Shinji
Publication year - 2019
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.13179
Subject(s) - oleic acid , quantitative trait locus , candidate gene , gene , genetics , genome , biology , whole genome sequencing , botany
In our previous study, we detected a QTL for the oleic acid percentage (C18:1) on BTA 9 in Japanese Black cattle through a genome‐wide association study ( GWAS ). In this study, we performed whole‐genome resequencing on eight animals with higher and lower C18:1 to identify candidate polymorphisms for the QTL . A total of 39,658 polymorphisms were detected in the candidate region, which were narrowed to 1993 polymorphisms within 23 genes based on allele differences between the high and low C18:1 groups. We subsequently selected three candidate genes, that is, CYB 5R4 , MED 23 , and VNN 1 , among the 23 genes based on their function in fatty acid metabolism. In each candidate gene, three SNP s, that is, CYB 5R4 c.*349G > T, MED 23 c.3700G > A, and VNN 1 c.197C > T, were selected as candidate SNP s to verify their effect on C18:1 in a Japanese Black cattle population ( n = 889). The statistical analysis showed that these SNP s were significantly associated with C18:1 ( p < 0.05), suggesting that they were candidates for the QTL . In conclusion, we successfully narrowed the candidates for the QTL by detecting possible polymorphisms located within the candidate region. It is expected that the responsible polymorphism can be identified by demonstrating their effect on the gene's function.