Validation of Single Nucleotide Polymorphisms Associated with Carcass Traits in a Commercial Hanwoo Population.

Pita Sudrajad,Jong Joo Kim,Kwan Suk Kim,Jun Heon Lee,Sidong Kim,Chang Gwon Dang,Aditi Sharma,Seung Hwan Lee

doi:10.5713/ajas.15.0836

Abstract

Four carcass traits, namely carcass weight (CW), eye muscle area (EMA), back fat thickness (BF), and marbling score (MS), are the main price decision parameters used for purchasing Hanwoo beef. The development of DNA markers for these carcass traits for use in a beef management system could result in substantial profit for beef producers in Korea. The objective of this study was to validate the association of highly significant single nucleotide polymorphisms (SNPs) identified in a previous genome-wide association study (GWAS) with the four carcass traits in a commercial Hanwoo population. We genotyped 83 SNPs distributed across all 29 autosomes in 867 steers from a Korean Hanwoo feedlot. Six SNPs, namely ARS-BFGL-NGS-22774 (Chr4, Pos:4889229), ARS-BFGL-NGS-100046 (Chr6, Pos:61917424), ARS-BFGL-NGS-39006 (Chr27, Pos:38059196), ARS-BFGL-NGS-18790 (Chr10, Pos:26489109), ARS-BFGL-NGS-43879 (Chr9, Pos:39964297), and BTB-00775794 (Chr20, Pos:20476265), were found to be associated with CW, EMA, BF, and MS. The ARS-BFGL-NGS-22774, BTB-00775794, and ARS-BFGL-NGS-39006 markers accounted for 1.80%, 1.72%, and 1.35% (p<0.01), respectively, of the phenotypic variance in the commercial Hanwoo population. Many genes located in close proximity to the significant SNPs identified in this study were previously reported to have roles in carcass traits. The results of this study could be useful for marker-assisted selection programs.

Highlights

(MS), are the main price decision parameters used for purchasing Hanwoo beef
Given the importance of validating markers, we genotyped 83 single nucleotide polymorphisms (SNPs) markers, which were significantly identified in a previous genome-wide association studies (GWAS) performed by Lee et al (2013b), and validated the effects of those markers in a commercial Hanwoo population in this study
Statistical analysis In a previous GWAS (Lee et al, 2013b), highly significant SNPs were identified for carcass weight (CW) (22 SNPs), eye muscle area (EMA) (29 SNPs), back fat thickness (BF) (9 SNPs), and marbling score (MS) (23 SNPs)

Summary

Introduction

(MS), are the main price decision parameters used for purchasing Hanwoo beef. The development of DNA markers for these carcass traits for use in a beef management system could result in substantial profit for beef producers in Korea. The objective of this study was to validate the association of highly significant single nucleotide polymorphisms (SNPs) identified in a previous genome-wide association study (GWAS) with the four carcass traits in a commercial Hanwoo population. Meat quality and yield traits such as carcass weight (CW), The ability to perform an early genetic assessment of these eye muscle area (EMA), back fat thickness (BF), and traits would provide significant benefits to the Korean beef marbling score (MS) are key traits used to determine the industry. Given the importance of validating markers, we genotyped 83 SNP markers, which were significantly identified in a previous GWAS performed by Lee et al (2013b), and validated the effects of those markers in a commercial Hanwoo population in this study

Objectives

Methods

Results