Genome‐wide association studies identified variants for taurine concentration in Japanese Black beef

Abstract

We performed genome-wide association studies (GWAS) using the BovineSNP50 array to detect significant single nucleotide polymorphisms (SNPs) that may affect the concentration of 22 free amino acids and three peptides in Japanese Black beef cattle. A total of 574 Japanese Black cattle and 40,657 SNPs from the array were used for this study. Genome-wide significant SNPs were detected for β-alanine (three SNPs on chromosomes 22 and 29) and taurine (26 SNPs on chromosome 22). Importantly, the top two SNPs for taurine were highly significant (p = 6.2 × 10 ), and the frequency of the increase-concentration allele (Q) for taurine was found to be 0.73. The Q allele frequency of this population was similar to that of the other unrelated Japanese Black cattle, but different from that of the other breeds. In addition, the significant SNPs were not associated with carcass traits or fatty acid compositions. Interestingly, the top three of the four most significant SNPs for taurine were located near solute carrier family 6, member 6 (SLC6A6), which is a membrane transporter for taurine. We also found two associated variants in the 5'-upstream region of SLC6A6; however, they were less significantly associated than the SNPs from the BovineSNP50 array.

Genome-wide association study of trypanosome prevalence and morphometric traits in purebred and crossbred Baoulé cattle of Burkina Faso

“…Also the RUVBL1 gene nearby appears to contribute to thermos-tolerance mechanisms in African cattle [ 47 ]. The EEFSEC gene in the same region was identified having a pleiotropic effect in milk traits in Nordic Holstein (Cai et al, 2020) and amino acid concentration in Japanese Black beef cattle [ 48 ].…”

Evaluation of inbreeding and genetic diversity in Japanese Shorthorn cattle by pedigree analysis

“…However, the mtDNA haplogroup P has been identified at a high frequency in Japanese Shorthorn cattle, indicating that the propagation root of Nambu-ushi differs from that of other Japanese native cattle (Mannen et al, 2020;Noda et al, 2018). Uemoto et al (2017) and Sasago et al (2018) also identified the allele frequencies of beef palatability genes in four breeds (Japanese Black, Japanese Brown, Japanese Shorthorn, and Holstein), and those of the Japanese Shorthorn were completely different from those of the other three breeds. Thus, the genetic background of the Japanese Shorthorn is unique among Japanese Wagyu breeds, and the native livestock breed must be conserved.…”

Genetic association of PLAG1,SCD,CYP7B1 and FASNSNPs and their effects on carcass weight, intramuscular fat and fatty acid composition in Hanwoo steers (Korean cattle)

“…The PLAG1 zinc finger ( PLAG1 ), fatty acid synthase ( FASN ), cytochrome P450 family 7 subfamily B member 1 ( CYP7B1 ) and stearoyl‐CoA desaturase ( SCD ) genes are already known to harbor mutations that affect meat quality traits and fatty acid composition in cattle . In this study we genotyped these five SNPs in longissimus dorsi muscle of 1000 Hanwoo steers (Table S1) using TaqMan SNP genotyping assays (LSK) (Table S2).…”