Korean Journal of Agricultural Science (농업과학연구)

Institute of Agricultural Science, CNU (충남대학교 농업과학연구소)
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Genome wide association test to identity QTL for dressing percentage in Hanwoo

전장 유전체 관련성 분석을 통한 한우 도체수율 관련 양적형질좌위 탐색

  • 이승환 (국립축산과학원 한우시험장) ;
  • 임다정 (국립축산과학원 동물유전체과) ;
  • 당창권 (국립축산과학원 한우시험장) ;
  • 장선식 (국립축산과학원 한우시험장) ;
  • 김형철 (국립축산과학원 한우시험장) ;
  • 전기준 (국립축산과학원 한우시험장) ;
  • 연성흠 (국립축산과학원 한우시험장) ;
  • 장길원 (국립축산과학원 동물유전체과) ;
  • 박응우 (국립축산과학원 동물유전체과) ;
  • 오재돈 (국립축산과학원 동물유전체과) ;
  • 이학교 (국립축산과학원 동물유전체과) ;
  • 이준헌 (한경대학교 생명공학과) ;
  • 강희설 (국립축산과학원 한우시험장) ;
  • 윤두학 (충남대학교 동물자원생명과학과)
  • Received : 2013.05.13
  • Accepted : 2013.06.12
  • Published : 2013.06.30
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Abstract

Genome-wide association study was performed on data from 266 Hanwoo steers derived from 66 sire using bovine 10K mapping chip in Hanwoo (Korean Cattle). SNPs were excluded from the analysis if they failed in over 5% of the genotypes, had median GC scores below 0.6, had GC scores under 0.6 in less than 90% of the samples, deviated in heterozygosity more than 3 standard deviations from the other SNPs and were out of Hardy-Weinberg equilibrium for a cutoff p-value of $1^{-15}$. Unmapped and SNPs on sex chromosomes were also excluded. A total of 4,522 SNPs were included in the analysis. To test an association between SNP and QTL, GWAS for five genetic mode (additive, dominant, overdominant, recessive and codominant) was implemented in this study. Three SNPs (rs29018694, ss46526851 and rs29018222) at a threshold p< $1.11{\times}10^{-5}$ were detected on BTA12 and BTA21 for dressing percentages in codominant and recessive genetic mode. The G allele for rs29018694 has 4.9% higher dressing percentage than A allele, while the T allele for ss46526851 has 2.57 % higher dressing percentage than C allele. Therefore, rs29018694 SNP showed a bigger effect than the other two SNPs (ss46526851 and rs29018222) in this study. In conclusion, this study identifies three loci with moderate effects and many loci with infinitesimally small effect across genome in Hanwoo.

Keywords

References

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