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Please use this identifier to cite or link to this item: http://hdl.handle.net/11019/548

Title: Analysis of DRB1 exon 2 genotyping by STR size analysis in Suffolk and Texel sheep breeds
Authors: Sayers, Gearoid
Mitchel, S
Ryan, Marion T
Stear, M.J.
Hanrahan, James P
Sweeney, Torres
Keywords: Autoradiography
DRB1 exon 2
Genescan
Linkage disequilibrium
Simple tandem repeat
Issue Date: 2004
Publisher: Teagasc (Agriculture and Food Development Authority), Ireland
Citation: G. Sayers, S. Mitchel, M. Ryan, M.J. Stear, J.P. Hanrahan, T. Sweeney. Analysis of DRB1 exon 2 genotyping by STR size analysis in Suffolk and Texel sheep breeds. Irish Journal of Agricultural and Food Research 43: 177–183, 2004.
Series/Report no.: Irish Journal of Agricultural and Food Research;vol 43
Abstract: Alleles of the DRB1 exon 2 locus of the major histocompatibility complex have recently been associated with genetic resistance to gastrointestinal nematodes in sheep. While sequence-based typing is the standard method for allele discrimination, a rapid, high throughput method for DRB1 exon 2 genotyping is required if such information is to be incorporated into national breeding programmes. Previous studies have highlighted a simple tandem repeat (STR) located within intron 2 of the DRB1 gene, which could potentially be used to accurately assess the allele present within the adjacent exon 2. The aims of this study were firstly to compare two methods of STR analysis, Genescan™ and autoradiography, and secondly to investigate if STR analysis of DRB1 intron 2 could be used to accurately assess the profile of DRB1 exon 2. Six DRB1 exon 2 alleles were identified by sequence-based typing in Suffolk (n = 31) and eight in Texel (n = 60) sheep. The results indicated that Genescan™ was a more accurate method of STR analysis than autoradiography. The expected 1:1 correspondence between STR size, analysed by Genescan™ and DRB1 exon 2 allele, determined by sequence-based typing, was not observed. However, the correspondence was found to be degenerate, whereby some alleles were associated with two STR sizes. Thus, irrespective of the STR size identified, STR analysis by Genescan™ identified the correct allele in all cases within both populations of animals studied. However, the Genescan™ method of allele identification cannot be used for Suffolk × Texel crossbred progeny or in other breeds where the relationship between STR size and DRB1 exon 2 allele is not known.
Description: peer-reviewed
This work was supported by a grant from the Irish Department of Agriculture, Food and Rural Development (RSF16) under the National Development Plan 2000–2006. The Welcome Trust is acknowledged for an equipment grant (Ref. 061354).
URI: http://hdl.handle.net/11019/548
http://www.teagasc.ie/research/journalarchives/vol43no22004fullpdfs.asp
ISSN: 0791-6833
Appears in Collections:Animal & Bioscience
IJAFR, volume 43, 2004

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