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2007•ResearchOnline - JCU (James Cook University)Open access

Extent of linkage disequilibrium and haplotype blocks in bovine genome using high density SNP markers

Mehar S. Khatkar, Kyall R. Zenger, Julie Cavanagh, R J Hawken, Matthew Hobbs, Wes Barris, Peter C. Thomson, F. W. Nicholas, Bruce Tier, H W Raadsma

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Abstract

A haplotype block map of the bovine genome was constructed based on the analysis of 15,036 SNPs on 1,000 un-related bulls. This map identified a total of 727 haplotype blocks consisting of three or more SNPs. These blocks have a mean length of 69.7 kb and cover 2.2 % of the length of all autosomes. This analysis suggested that approximately 250,000 SNPs would be required to prepare a complete haplotype block map of the bovine genome with 75,000 tag SNPs

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A haplotype block map of the bovine genome was constructed based on the analysis of 15,036 SNPs on 1,000 un-related bulls. This map identified a total of 727 haplotype blocks consisting of three or more SNPs. These blocks have a mean length of 69.7 kb and cover 2.2 % of the length of all autosomes. This analysis suggested that approximately 250,000 SNPs would be required to prepare a complete haplotype block map of the bovine genome with 75,000 tag SNPs

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Available abstract

A haplotype block map of the bovine genome was constructed based on the analysis of 15,036 SNPs on 1,000 un-related bulls. This map identified a total of 727 haplotype blocks consisting of three or more SNPs. These blocks have a mean length of 69.7 kb and cover 2.2 % of the length of all autosomes. This analysis suggested that approximately 250,000 SNPs would be required to prepare a complete haplotype block map of the bovine genome with 75,000 tag SNPs

Key concepts: Haplotype, Tag SNP, Linkage disequilibrium, Bovine genome, Single-nucleotide polymorphism, Genetics, Biology, Genome

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