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Title: Genome-wide association study of body weight in Australian Merino sheep reveals an orthologous region on OAR6 to human and bovine genomic regions affecting height and weight
Contributor(s): Al-Mamun, Hawlader A (author); Kwan, Paul H  (author); Clark, Sam A  (author)orcid ; Ferdosi, Mohammad  (author)orcid ; Tellam, Ross (author); Gondro, Cedric  (author)orcid 
Publication Date: 2015
Open Access: Yes
DOI: 10.1186/s12711-015-0142-4Open Access Link
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Abstract: Background: Body weight (BW) is an important trait for meat production in sheep. Although over the past few years, numerous quantitative trait loci (QTL) have been detected for production traits in cattle, few QTL studies have been reported for sheep, with even fewer on meat production traits. Our objective was to perform a genome-wide association study (GWAS) with the medium-density Illumina Ovine SNP50 BeadChip to identify genomic regions and corresponding haplotypes associated with BW in Australian Merino sheep. Methods: A total of 1781 Australian Merino sheep were genotyped using the medium-density Illumina Ovine SNP50 BeadChip. Among the 53 862 single nucleotide polymorphisms (SNPs) on this array, 48 640 were used to perform a GWAS using a linear mixed model approach. Genotypes were phased with 'hsphase'; to estimate SNP haplotype effects, linkage disequilibrium blocks were identified in the detected QTL region. Results: Thirty-nine SNPs were associated with BW at a Bonferroni-corrected genome-wide significance threshold of 1 %. One region on sheep ('Ovis aries') chromosome 6 (OAR6) between 36.15 and 38.56 Mb, included 13 significant SNPs that were associated with BW; the most significant SNP was OAR6_41936490.1 (P = 2.37x10−16) at 37.69 Mb with an allele substitution effect of 2.12 kg, which corresponds to 0.248 phenotypic standard deviations for BW. The region that surrounds this association signal on OAR6 contains three genes: 'leucine aminopeptidase 3' (LAP3), which is involved in the processing of the oxytocin precursor; 'NCAPG non-SMC condensin I complex, subunit G (NCAPG)', which is associated with foetal growth and carcass size in cattle; and 'ligand dependent nuclear receptor corepressor-like (LCORL)', which is associated with height in humans and cattle. Conclusions: The GWAS analysis detected 39 SNPs associated with BW in sheep and a major QTL region was identified on OAR6. In several other mammalian species, regions that are syntenic with this region have been found to be associated with body size traits, which may reflect that the underlying biological mechanisms share a common ancestry. These findings should facilitate the discovery of causative variants for BW and contribute to marker-assisted selection.
Publication Type: Journal Article
Grant Details: ARC/DP130100542
Source of Publication: Genetics Selection Evolution, v.47, p. 1-11
Publisher: BioMed Central Ltd
Place of Publication: London, United Kingdom
ISSN: 1297-9686
Field of Research (FOR): 060405 Gene Expression (incl Microarray and other genome-wide approaches)
060412 Quantitative Genetics (incl Disease and Trait Mapping Genetics)
080301 Bioinformatics Software
Socio-Economic Outcome Codes: 830311 Sheep - Wool
970106 Expanding Knowledge in the Biological Sciences
890201 Application Software Packages (excl. Computer Games)
Peer Reviewed: Yes
HERDC Category Description: C1 Refereed Article in a Scholarly Journal
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Appears in Collections:Animal Genetics and Breeding Unit (AGBU)
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