Curation of wheat maps to improve map accuracy and QTL detection

Lehmensiek, A. and Eckermann, P. J. and Verbyla, A. P. and Appels, R. and Sutherland, M. W. and Daggard, G. E. (2005) Curation of wheat maps to improve map accuracy and QTL detection. Crop and Pasture Science, 56 (12). pp. 1347-1354. ISSN 0004-9409

Abstract

Three Australian doubled haploid populations were used to illustrate the importance of map curation in order to improve the quality of linkage maps and quantative trait locus (QTL) detection. The maps were refined and improved by re-examining the order of markers, inspection of the genetic maps in relation to a consensus map, editing the marker data for double crossovers, and determining estimated recombination fractions for all pairs of markers. The re-ordering of markers and replacing genotypes at double crossovers with missing values resulted in an overall decrease in the length of the maps. Fewer apparent genotyping errors, associated with the presence of double recombinants, were identified with restriction fragment length polymorphisms (RFLPs) than with other types of markers used in this study. The complications that translocations may cause in the ordering of markers and subsequent QTL analysis were investigated. QTL analysis using both the original and revised maps indicated that QTL peaks were more sharply located or had improved log-likelihood (LOD) scores in the revised maps. An accurate indication of the QTL peak and a significant LOD score are both essential for the identification of markers suitable for marker-assisted selection. Recommendations are provided for the improvement of the quality of linkage maps.


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Item Type: Article (Commonwealth Reporting Category C)
Refereed: Yes
Item Status: Live Archive
Additional Information: Author version not held. Published version cannot be displayed. See Publisher's link to published version.
Depositing User: Dr Anke Lehmensiek
Faculty / Department / School: Historic - Faculty of Sciences - Department of Biological and Physical Sciences
Date Deposited: 25 Oct 2007 00:34
Last Modified: 26 Sep 2013 00:00
Uncontrolled Keywords: Australian; wheat; map curation; quantative trait locus; linkage map revision; locus order; double recombinants; recombination fractions; translocation; double haploid lines
Fields of Research (FOR2008): 06 Biological Sciences > 0604 Genetics > 060412 Quantitative Genetics (incl. Disease and Trait Mapping Genetics)
07 Agricultural and Veterinary Sciences > 0703 Crop and Pasture Production > 070305 Crop and Pasture Improvement (Selection and Breeding)
06 Biological Sciences > 0604 Genetics > 060411 Population, Ecological and Evolutionary Genetics
Socio-Economic Objective (SEO2008): B Economic Development > 82 Plant Production and Plant Primary Products > 8205 Winter Grains and Oilseeds > 820507 Wheat
Identification Number or DOI: doi: 10.1071/AR05126
URI: http://eprints.usq.edu.au/id/eprint/3415

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