Validation Study of SNPs in CAPN1-CAST Genes on the Tenderness of Muscles (Longissimus thoracis and Semimembranosus) in Hanwoo (Korean Cattle)

Abstract

Simple SummaryFor meat tenderness, single nucleotide polymorphisms (SNPs) in the μ-calpain (CAPN1) and calpastatin (CAST) genes have been reported to be associated with Warner-Bratzler shear force (WBSF) in different cattle populations, including Korean Hanwoo cattle. In this study, we validated the association of seven SNPs in CAPN1 and CAST genes with meat tenderness in two different muscle cuts tenderness in the Longissimus thoracis (LT) and Semimembranosus (SM) muscles. Two SNPs in CAPN1 and one SNPs in CAST genes showed association with WBSF of both muscle types. Furthermore, of twelve reconstructed haplotypes, six demonstrated significant associations with WBSF values. These findings may be one of the strong evidences that CAPN1 and CAST gene mutations are strongly associated with WBSF. The information of significantly-associated SNPs and the resulted haplotypes could be utilized in the Hanwoo breeding program for further genetic improvement of tenderness traits.AbstractPrevious studies demonstrated that polymorphisms in the μ-calpain (CAPN1) and calpastatin (CAST) genes had significant effects on meat tenderness in different cattle populations. The aim of this study was to validate the potential association of seven single nucleotide polymorphisms (SNPs) harbored in these two candidate genes with meat tenderness in the Longissimus thoracis (LT) and Semimembranosus (SM) muscles. A total of 1000 animals were genotyped using TaqMan SNP genotyping arrays, and the meat tenderness of two muscle (LT and SM at 7 days post-slaughter) was assessed based on Warner-Bratzler WBSF (WBSF) testing. We observed significant associations of the CAPN1:c.580T>C, CAPN1:c.658T>C and CAST:c.1985G>C polymorphisms (p < 0.05) with the WBSF values in the LT and SM muscles. Additive effects of the C allele in CAPN1:c.580T>C and CAST:c.1985G>C were associated with an increase of 0.16 and 0.15 kg, and 0.08 and 0.26 kg WBSF in the LT and SM, respectively; CAPN1:c.658T>C had negative effects on the WBSFs. Furthermore, six reconstructed haplotypes demonstrated significant associations with WBSF values (p < 0.05). In conclusion, the significant associations identified between the SNPs in CAPN1, CAST and WBSF values could be utilized in marker-assisted selection programs in order to improve the beef tenderness of Hanwoo cattle.

A New SNPs at 3’UTR Region of calpain 1 gene and its association with growth and meat quality traits in beef cattle

“…About 13 SNPs significant for tenderness were located in a 3 cM region around CAPN1. Moreover, some studied related to the CAPN1 gene had been reported in some cattle (Xin et al, 2011;Sun et al, 2018;Lee et al, 2019), and previous studies had been reported in the same markers in different animal populations in sheep (Machado et al, 2020;Aviles et al, 2013), Pig (Ropka-Molik et al, 2017), and chicken (Shu et al, 2015;Anaas et al, 2016). However, it was limited studied about the non-coding in the 3'UTR region of CAPN1 gene, especially in Bali cattle.…”

Exploring and Identifying Candidate Genes and Genomic Regions Related to Economically Important Traits in Hanwoo Cattle

“…These traits are influenced by several factors, including breed, genetic, age, management, feeding regime, and growth stages [ 24 ]. Moreover, in efforts to improve meat quality, earlier studies have focused on the detection of key genes along with a precise understanding of the underlying biology of quantitative traits to better meet consumer expectations [ 1 , 25 , 26 , 27 , 28 ]. Hence, the screening of potential candidate genes to comprehend the connection between gene variations and back fat thickness and intramuscular fat is necessary.…”

“…It was shown that the serine/threonine substitution (S20T) in the CAST gene is connected to carcass traits in Simmental cattle [ 96 ]. Moreover, the associations of seven SNPs in CAPN1 and CAST genes with meat tenderness have previously been reported in two different muscle cuts in Hanwoo cattle [ 25 ]. LEP and LEPR genes were identified as promising candidate genes responsible for increasing weight, growth traits [ 106 , 107 ], energy storage [ 106 , 108 ], and lipid metabolism [ 109 ].…”

Research Article Identification of SNPs and changes in protein coding of genes associated with beef quality in Nellore cattle

“…However, these authors did not observe a significant association with some of the evaluated traits, such as marbling score and shear force. Lee et al (2019) evaluated the association of three SNPs in the CAST gene (exon 7) with meat tenderness in two muscle cuts (longissimus thoracis and semimembranosus) from Hanwoo steers and observed the following SNPs: G>A, G>A and G>C; these SNPs were significantly related to increased shear force in both muscles. Also is reported association of shear force of longissimus muscle in Australian cattle with c.28i2A>G polymorphism of gene CAST (CAST2832) by Bolormaa et al (2011).…”