QTLs associated with dry matter intake, metabolic mid-test weight, growth and feed efficiency have little overlap across 4 beef cattle studies

BMC Genomics

Jeremy F Taylor³  Dorian J Garrick⁶  Robert L Weaber^1,10  Matthew L Spangler¹  Warren M Snelling⁷  Daniel W Shike⁸  Christopher M Seabury⁹  Robert D Schnabel³  E John Pollak⁷  Holly L Neibergs⁵  Elisa Marques²  Daniel D Loy⁴  JaeWoo Kim³  Monty S Kerley³  Stephen D Kachman^1,11  Kristen A Johnson⁵  Helen Yampara-Iquise³  Stephanie L Hansen⁴  Harvey C Freetly⁷  Dan B Faulkner^1,12  Jared E Decker³  Jonathan E Beever⁸  Mahdi Saatchi⁴ 

[1]Department of Animal Science, University of Nebraska, Lincoln 68583, USA

[2]GeneSeek a Neogen Company, Lincoln 68521, USA

[3]Division of Animal Sciences, University of Missouri, Columbia 65211, USA

[4]Department of Animal Science, Iowa State University, Ames 50011, USA

[5]Department of Animal Sciences, Washington State University, Pullman 99164, USA

[6]Institute of Veterinary, Animal and Biomedical Sciences, Massey University, Palmerston North, New Zealand

[7]USDA, ARS, US Meat Animal Research Center, Clay Center 68933, USA

[8]Department of Animal Sciences, University of Illinois, Urbana 61801, USA

[9]Department of Veterinary Pathobiology, Texas A&M University, College Station 77843, USA

[10]Department of Animal Sciences and Industry, Kansas State University, Manhattan 66506, USA

[11]Department of Statistics, University of Nebraska, Lincoln 68583, USA

[12]Department of Animal Sciences, The University of Arizona, Tucson 85719, USA

关键词: Beef cattle;    Feed efficiency;    Genomic selection;    QTL;    GWAS;   

Others  :  1091889
DOI  :  10.1186/1471-2164-15-1004

 received in 2014-03-11, accepted in 2014-10-31,  发布年份 2014

【 摘 要 】

Background

The identification of genetic markers associated with complex traits that are expensive to record such as feed intake or feed efficiency would allow these traits to be included in selection programs. To identify large-effect QTL, we performed a series of genome-wide association studies and functional analyses using 50 K and 770 K SNP genotypes scored in 5,133 animals from 4 independent beef cattle populations (Cycle VII, Angus, Hereford and Simmental × Angus) with phenotypes for average daily gain, dry matter intake, metabolic mid-test body weight and residual feed intake.

Results

A total of 5, 6, 11 and 10 significant QTL (defined as 1-Mb genome windows with Bonferroni-corrected P-value <0.05) were identified for average daily gain, dry matter intake, metabolic mid-test body weight and residual feed intake, respectively. The identified QTL were population-specific and had little overlap across the 4 populations. The pleiotropic or closely linked QTL on BTA 7 at 23 Mb identified in the Angus population harbours a promising candidate gene ACSL6 (acyl-CoA synthetase long-chain family member 6), and was the largest effect QTL associated with dry matter intake and mid-test body weight explaining 10.39% and 14.25% of the additive genetic variance, respectively. Pleiotropic or closely linked QTL associated with average daily gain and mid-test body weight were detected on BTA 6 at 38 Mb and BTA 7 at 93 Mb confirming previous reports. No QTL for residual feed intake explained more than 2.5% of the additive genetic variance in any population. Marker-based estimates of heritability ranged from 0.21 to 0.49 for residual feed intake across the 4 populations.

Conclusions

This GWAS study, which is the largest performed for feed efficiency and its component traits in beef cattle to date, identified several large-effect QTL that cumulatively explained a significant percentage of additive genetic variance within each population. Differences in the QTL identified among the different populations may be due to differences in power to detect QTL, environmental variation, or differences in the genetic architecture of trait variation among breeds. These results enhance our understanding of the biology of growth, feed intake and utilisation in beef cattle.

【 授权许可】

   
2014 Saatchi et al.; licensee BioMed Central Ltd.

【 图 表 】

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