Genome-wide detection of signatures of selection in Korean Hanwoo cattle

Porto-Neto, L. R., Lee, S. H., Sonstegard, T. S., Van Tassell, C. P., Lee, H. K., Gibson, J. P. and Gondro C. (2014) Genome-wide detection of signatures of selection in Korean Hanwoo cattle. Animal Genetics, 45 2: 180-190. doi:10.1111/age.12119


Author Porto-Neto, L. R.
Lee, S. H.
Sonstegard, T. S.
Van Tassell, C. P.
Lee, H. K.
Gibson, J. P.
Gondro C.
Title Genome-wide detection of signatures of selection in Korean Hanwoo cattle
Journal name Animal Genetics   Check publisher's open access policy
ISSN 0268-9146
1365-2052
Publication date 2014-04-01
Year available 2014
Sub-type Article (original research)
DOI 10.1111/age.12119
Volume 45
Issue 2
Start page 180
End page 190
Total pages 11
Place of publication Chichester, West Sussex, United Kingdom
Publisher Wiley-Blackwell Publishing
Language eng
Formatted abstract
The Korean Hanwoo cattle have been intensively selected for production traits, especially high intramuscular fat content. It is believed that ancient crossings between different breeds contributed to forming the Hanwoo, but little is known about the genomic differences and similarities between other cattle breeds and the Hanwoo. In this work, cattle breeds were grouped by origin into four types and used for comparisons: the Europeans (represented by six breeds), zebu (Nelore), African taurine (N'Dama) and Hanwoo. All animals had genotypes for around 680 000 SNPs after quality control of genotypes. Average heterozygosity was lower in Nelore and N'Dama (0.22 and 0.21 respectively) than in Europeans (0.26–0.31, with Shorthorn as outlier at 0.24) and Hanwoo (0.29). Pairwise FST analyses demonstrated that Hanwoo are more related to European cattle than to Nelore, with N'Dama in an intermediate position. This finding was corroborated by principal components and unsupervised hierarchical clustering. Using genome-wide smoothed FST, 55 genomic regions potentially under positive selection in Hanwoo were identified. Among these, 29 were regions also detected in previous studies. Twenty-four regions were exclusive to Hanwoo, and a number of other regions were shared with one or two of the other groups. These regions overlap a number of genes that are related to immune, reproduction and fatty acid metabolism pathways. Further analyses are needed to better characterize the ancestry of the Hanwoo cattle and to define the genes responsible to the identified selection peaks.
Keyword Bos indicus
Bos taurus
Selection
SNP
Speciation
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

Document type: Journal Article
Sub-type: Article (original research)
Collections: Official 2015 Collection
School of Veterinary Science Publications
 
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