After QTL detection, the natural follow up is to identify the causal mutation explaining these phenotypic differences. Usually, candidate genes are selected according to the physiological mechanism of the trait, and they are located in the same region of the QTL. After sequencing those genes to find polymorphism, the relevant question is to determine if the detected mutation is the one that causes the phenotypic difference. However, this is not an easy task, because linkage disequilibrium between genes located in the same region. Zhao et al., (2003) and Varona et al. (2005) have proposed alternative methods that consider the marker information to validate candidate genes. Here, an algorithm to calculate the Bayes Factor between candidate gene model and QTL model is presented. The procedure is illustrated with an example consisting of three SNPs detected at the leptin receptor (LEPR) in an experimental intercross between Iberian and Landrace pigs.

Luis Varona

Proceedings of the World Congress on Genetics Applied to Livestock Production, Volume , , 26.10, 2006
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