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Article contents

A catalogue of validated single nucleotide polymorphisms in bovine orthologs of mammalian imprinted genes and associations with beef production traits

Published online by Cambridge University Press:  16 June 2010

D. A. Magee
Affiliation:
UCD School of Agriculture, Food Science and Veterinary Medicine, University College Dublin, Belfield, Dublin 4, Ireland
E. W. Berkowicz
Affiliation:
UCD School of Agriculture, Food Science and Veterinary Medicine, University College Dublin, Belfield, Dublin 4, Ireland
K. M. Sikora
Affiliation:
Genetics and Biotechnology Laboratory, Department of Biochemistry, Biosciences Institute, University College Cork, Cork, Ireland
D. P. Berry
Affiliation:
Moorepark Research Centre, Teagasc, Fermoy, Co. Cork, Ireland
S. D. E. Park
Affiliation:
UCD School of Agriculture, Food Science and Veterinary Medicine, University College Dublin, Belfield, Dublin 4, Ireland
A. K. Kelly
Affiliation:
UCD School of Agriculture, Food Science and Veterinary Medicine, University College Dublin, Belfield, Dublin 4, Ireland
T. Sweeney
Affiliation:
UCD School of Agriculture, Food Science and Veterinary Medicine, University College Dublin, Belfield, Dublin 4, Ireland
D. A. Kenny
Affiliation:
UCD School of Agriculture, Food Science and Veterinary Medicine, University College Dublin, Belfield, Dublin 4, Ireland
R. D. Evans
Affiliation:
Irish Cattle Breeding Federation, Highfield House, Bandon, Co. Cork, Ireland
B. W. Wickham
Affiliation:
Irish Cattle Breeding Federation, Highfield House, Bandon, Co. Cork, Ireland
C. Spillane
Affiliation:
Genetics and Biotechnology Laboratory, Department of Biochemistry, Biosciences Institute, University College Cork, Cork, Ireland
D. E. MacHugh
Affiliation:
UCD School of Agriculture, Food Science and Veterinary Medicine, University College Dublin, Belfield, Dublin 4, Ireland UCD Conway Institute of Biomolecular and Biomedical Research, University College Dublin, Dublin 4, Ireland
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Abstract

Genetic (or ‘genomic’) imprinting, a feature of approximately 100 mammalian genes, results in monoallelic expression from one of the two parentally inherited chromosomes. To date, most studies have been directed on imprinted genes in murine or human models; however, there is burgeoning interest in the effects of imprinted genes in domestic livestock species. In particular, attention has focused on imprinted genes that influence foetal growth and development and that are associated with several economically important production traits in cattle, sheep and pigs. We have re-sequenced regions in 20 candidate bovine imprinted genes in order to validate single nucleotide polymorphisms (SNPs) that may influence important production traits in cattle. Putative SNPs detected via re-sequencing were subsequently re-formatted for high-throughput SNP genotyping in 185 cattle samples comprising 138 performance-tested European Bos taurus (all Limousin bulls), 29 African B. taurus and 18 Indian B. indicus samples. Analysis of the resulting genotypic data identified 117 validated SNPs. Preliminary genotype–phenotype association analyses using 83 SNPs that were polymorphic in the Limousin samples with minor allele frequencies ⩾0.05 revealed significant associations between two candidate bovine imprinted genes and a range of important beef production traits: average daily gain, average feed intake, live weight, feed conversion ratio, residual feed intake and residual gain. These genes were the Ras protein-specific guanine nucleotide releasing factor gene (RASGRF1) and the zinc finger, imprinted 2 gene (ZIM2). Despite the relatively small sample size used in these analyses, the observed associations with production traits are supported by the purported biological function of the RASGRF1 and ZIM2 gene products. These results support the hypothesis that imprinted genes contribute significantly to important complex production traits in cattle. Furthermore, these SNPs may be usefully incorporated into future marker-assisted and genomic selection breeding schemes.

Type
Full Paper
Information
animal , Volume 4 , Issue 12 , December 2010 , pp. 1958 - 1970
Copyright
Copyright © The Animal Consortium 2010

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A catalogue of validated single nucleotide polymorphisms in bovine orthologs of mammalian imprinted genes and associations with beef production traits
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