title: A whole genome association study to detect additive and dominant single nucleotide polymorphisms for growth and carcass traits in Korean native cattle, Hanwoo.
abstract: OBJECTIVE
  A whole genome association study was conducted to identify single nucleotide polymorphisms (SNPs) with additive and dominant effects for growth and carcass traits in Korean native cattle, Hanwoo.
  
  
  METHODS
  The data set comprised 61 sires and their 486 Hanwoo steers that were born between spring of 2005 and fall of 2007. The steers were genotyped with the 35,968 SNPs that were embedded in the Illumina bovine SNP 50K beadchip and six growth and carcass quality traits were measured for the steers. A series of lack-of-fit tests between the models was applied to classify gene expression pattern as additive or dominant.
  
  
  RESULTS
  A total of 18 (0), 15 (3), 12 (8), 15 (18), 11 (7), and 21 (1) SNPs were detected at the 5% chromosome (genome) - wise level for weaning weight (WWT), yearling weight (YWT), carcass weight (CWT), backfat thickness (BFT),longissimus dorsimuscle area (LMA) and marbling score, respectively. Among the significant 129 SNPs, 56 SNPs had additive effects, 20 SNPs dominance effects, and 53 SNPs both additive and dominance effects, suggesting that dominance inheritance mode be considered in genetic improvement for growth and carcass quality in Hanwoo. The significant SNPs were located at 33 quantitative trait locus (QTL) regions on 18Bos Tauruschromosomes (i.e. BTA 3, 4, 5, 6, 7, 9, 11, 12, 13, 14, 16, 17, 18, 20, 23, 26, 28, and 29) were detected. There is strong evidence that BTA14 is the key chromosome affecting CWT. Also, BTA20 is the key chromosome for almost all traits measured (WWT, YWT, LMA).
  
  
  CONCLUSIONS
  The application of various additive and dominance SNP models enabled better characterization of SNP inheritance mode for growth and carcass quality traits in Hanwoo, and many of the detected SNPs or QTL had dominance effects, suggesting that dominance be considered for the whole-genome SNPs data and implementation of successive molecular breeding schemes in Hanwoo.
authors.affiliation: School of Statistics, Shanxi University of Finance & Economics, Taiyuan 030006, China.
authors.forename: Yi
authors.initials: Y
authors.lastname: Li
authors.affiliation: School of Statistics, Shanxi University of Finance & Economics, Taiyuan 030006, China.
authors.forename: Yuxuan
authors.initials: Y
authors.lastname: Gao
authors.affiliation: School of Biotechnology, Yeungnam University, Gyeongsan 712-749, Korea.
authors.forename: You-Sam
authors.initials: YS
authors.lastname: Kim
authors.affiliation: School of Biotechnology, Yeungnam University, Gyeongsan 712-749, Korea.
authors.forename: Asif
authors.initials: A
authors.lastname: Iqbal
authors.affiliation: School of Biotechnology, Yeungnam University, Gyeongsan 712-749, Korea.
authors.forename: Jong-Joo
authors.initials: JJ
authors.lastname: Kim
keywords: Carcass Traits; Growth Traits; Hanwoo; Single Nucleotide Polymorphism; Whole Genome Association