A first-generation metric linkage disequilibrium map of bovine chromosome 6

Khatkar, Mehar S., Collins, Andrew, Cavanagh, Julie A.L., Hawken, Rachel J., Hobbs, Matthew, Zenger, Kyall R., Barris, Wes, McClintock, Alexander E., Thomson, Peter C., Nicholas, Frank W., and Raadsma, Herman W. (2006) A first-generation metric linkage disequilibrium map of bovine chromosome 6. Genetics, 174. pp. 79-85.

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Abstract

We constructed a metric linkage disequilibrium (LD) map of bovine chromosome 6 (BTA6) on the basis of data from 220 SNPs genotyped on 433 Australian dairy bulls. This metric LD map has distances in LD units (LDUs) that are analogous to centimorgans in linkage maps. The LD map of BTA6 has a total length of 8.9 LDUs. Within the LD map, regions of high LD (represented as blocks) and regions of low LD (steps) are observed, when plotted against the integrated map in kilobases. At the most stringent block definition, namely a set of loci with zero LDU increase over the span of these markers, BTA6 comprises 40 blocks, accounting for 41% of the chromosome. At a slightly lower stringency of block definition (a set of loci covering a maximum of 0.2 LDUs on the LD map), up to 81% of BTA6 is spanned by 46 blocks and with 13 steps that are likely to reflect recombination hot spots. The mean swept radius (the distance over which LD is likely to be useful for mapping) is 13.3 Mb, confirming extensive LD in Holstein–Friesian dairy cattle, which makes such populations ideal for whole-genome association studies.

Item ID: 9788
Item Type: Article (Refereed Research - C1)
Keywords: animal genomics, bovine genetics, genetic maps, linkage disequilibrium
ISSN: 1943-2631
Date Deposited: 15 Apr 2010 02:10
FoR Codes: 06 BIOLOGICAL SCIENCES > 0604 Genetics > 060408 Genomics @ 50%
06 BIOLOGICAL SCIENCES > 0604 Genetics > 060412 Quantitative Genetics (incl Disease and Trait Mapping Genetics) @ 50%
SEO Codes: 83 ANIMAL PRODUCTION AND ANIMAL PRIMARY PRODUCTS > 8303 Livestock Raising > 830302 Dairy Cattle @ 50%
97 EXPANDING KNOWLEDGE > 970106 Expanding Knowledge in the Biological Sciences @ 50%
Citation Count from Web of Science Web of Science 33
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