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Original Research ARTICLE Provisionally accepted The full-text will be published soon. Notify me

Front. Genet. | doi: 10.3389/fgene.2019.01235

Genome-Wide Association Study of Meat Quality Traits in Hanwoo Beef Cattle Using Imputed Whole-Genome Sequence Data

 Mohammed Bedhane1*, Julius van der Werf1,  Cedric Gondro2, Naomi Duijvesteijn1,  Dajeong Lim3, Byoungho Park3, Mi Na Park3, Roh Seung Hee4 and  Samuel Clark1
  • 1University of New England, Australia
  • 2Michigan State University, United States
  • 3RDA, National Institute of Animal Science, South Korea
  • 4NAGI, National Institute of Animal Science, South Korea

The discovery of single nucleotide polymorphisms (SNP) and the subsequent genotyping of large numbers of animals have enabled large-scale analyses to begin to understand the biological processes that underpin variation in animal populations. In beef cattle, genome-wide association studies using genotype arrays have revealed many quantitative trait loci (QTL) for various production traits such as growth, efficiency and meat quality. Most studies regarding meat quality have focused on marbling, which is a key trait associated with meat eating quality. However, other important traits like meat colour, texture and fat colour have not commonly been studied. Developments in genome sequencing technologies provide new opportunities to identify regions associated with these traits more precisely. The objective of this study was to estimate variance components and identify significant variants underpinning variation in meat quality traits using imputed whole genome sequence data. Phenotypic and genomic data from 2110 Hanwoo cattle were used. The estimated heritabilities for the studied traits were 0.01, 0.16, 0.31 and 0.49 for fat colour, meat colour, meat texture and marbling score, respectively. Marbling score and meat texture were highly correlated. The genome-wide association study revealed 107 significant SNPs located on 14 selected chromosomes (one QTL region per selected chromosome). Four QTL regions were identified on BTA2, 12, 16 and 24 for marbling score and two QTL regions were found for meat texture trait on BTA12 and 29. Similarly, three QTL regions were identified for meat colour on BTA2, 14 and 24 and five QTL regions for fat colour on BTA7, 10, 12, 16 and 21. Candidate genes were identified for all traits, and their potential influence on the given trait was discussed. The significant SNP will be an important inclusion into commercial genotyping arrays to select new breeding animals more accurately.

Keywords: Hanwoo cattle, Meat quality traits, Imputed whole genome sequence data, genome-wide association study (GWAS), Marbling

Received: 24 Jun 2019; Accepted: 06 Nov 2019.

Copyright: © 2019 Bedhane, van der Werf, Gondro, Duijvesteijn, Lim, Park, Park, Hee and Clark. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

* Correspondence: Mr. Mohammed Bedhane, University of New England, Armidale, Australia, mbedhane@myune.edu.au