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Activity Number: 421
Type: Contributed
Date/Time: Wednesday, August 9, 2006 : 10:30 AM to 12:20 PM
Sponsor: Biometrics Section
Abstract - #306559
Title: Strategies for Fine Mapping of QTL in Complex Pedigrees Using Combined Linkage and Linkage Disequilibrium Method
Author(s): Natascha Vukasinovic*+ and Fengxing Du
Companies: Monsanto Company and Monsanto Company
Address: 800 N. Lindbergh Blvd., St. Louis, MO, 63167,
Keywords: QTL ; genetic marker ; haplotype ; linkage analysis ; linkage disequilibrium
Abstract:

Advances in genome sequencing and genotyping have stimulated use of single nucleotide polymorphism (SNP) markers in fine mapping of quantitative trait loci (QTL). A novel LA/LD method that combines linkage analysis and linkage disequilibrium information is used for fine mapping of QTL in complex pedigrees. Polymorphic microsatellite and biallelic SNP markers are used in LA/LD analysis. However, when a large number of markers is used to construct haplotypes, inclusion of polymorphic along with biallelic markers results in overestimated QTL effects at positions near more informative markers. When only SNP markers are used, mapping precision is low, especially when a QTL is small. In this work, we explore strategies for efficient haplotype construction in complex pedigrees, regarding use of markers with various information content, marker spacing, and optimal number of loci in a haplotype.

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