A genome-wide association study of meat and carcass traits in Australian cattle

Bolormaa, S., Porto Neto, L. R., Zhang, Y. D., Bunch, R. J., Harrison, B. E., Goddard, M. E. and Barendse, W. (2011) A genome-wide association study of meat and carcass traits in Australian cattle. Journal of Animal Science, 89 8: 2297-2309. doi:10.2527/jas.2010-3138

Author Bolormaa, S.
Porto Neto, L. R.
Zhang, Y. D.
Bunch, R. J.
Harrison, B. E.
Goddard, M. E.
Barendse, W.
Title A genome-wide association study of meat and carcass traits in Australian cattle
Journal name Journal of Animal Science   Check publisher's open access policy
ISSN 0021-8812
Publication date 2011-08
Sub-type Article (original research)
DOI 10.2527/jas.2010-3138
Volume 89
Issue 8
Start page 2297
End page 2309
Total pages 13
Place of publication Savoy, IL, United States
Publisher American Society of Animal Science
Collection year 2012
Language eng
Formatted abstract
Chromosomal regions containing DNA variation affecting the traits intramuscular fat percentage (IMF), meat tenderness measured as peak force to shear the LM (LLPF), and rump fat measured at the sacro-iliac crest in the chiller (CHILLP8) were identified using a set of 53,798 SNP genotyped on 940 taurine and indicine cattle sampled from a large progeny test experiment. Of these SNP, 87, 64, and 63 were significantly (P < 0.001) associated with the traits IMF, LLPF, and CHILLP8, respectively. A second, nonoverlapping sample of 1,338 taurine and indicine cattle from the same large progeny test experiment genotyped for 335 SNP, including as a positive control the calpastatin (CAST) c.2832A > G SNP, was used to confirm these locations. In total, 37 SNP were significantly (P < 0.05) associated with the same trait and with the same favorable homozygote in both data sets, representing 27 chromosomal regions. For the trait IMF, the effect of SNP in the confirmation data set was predicted from the discovery set by multiplying the estimated allele effect of each SNP in the discovery set by the number of copies of the reference allele of each SNP in the confirmation set. These weighted effects were then summed over all SNP to generate a molecular breeding value (MBV) for each animal in the confirmation data set. Using a bivariate analysis of MBV and IMF phenotypes of animals in the confirmation set, a panel of 14 SNP explained 5.6 and 15.6% of the phenotypic and genetic variance of IMF, respectively, in the confirmation data set. The amount of variation did not increase as more SNP were added to the MBV and instead decreased to 1.2 and 3.8% of the phenotypic and genetic variance of IMF, respectively, when 329 SNP were included in the analysis.
Keyword Cattle
Genome-wide association study
Quantitative trait loci
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status Non-UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Non HERDC
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