Mapping of Porcine Genetic Markers Generated by Representational Difference Analysis

Abstract

Representational difference analysis (RDA) was performed using pig genomic DNA from a Landrace non-selected control population and a Landrace population selected for increased loin muscle area (LMA) for five generations. Pigs used for the analysis differed phenotypically for various carcass traits and were divergent in genotype at the skeletal muscle ryanodine receptor 1 locus. Two RDA experiments were performed using BamHI and BglII. Fourteen BamHI and 37 BglII difference products were cloned and sequenced. Oligonucleotide primers were designed to amplify RDA difference products and sequence-tagged sites (STS) were developed for 16 RDA fragments (two BamHI and 14 BglII). These 16 STS were mapped using the INRA-Minnesota porcine Radiation Hybrid panel. Polymorphisms identified in nine of the STS were used to place these markers on the PiGMaP genetic linkage map. Sequence-tagged sites were localized to 11 different chromosomes including three markers on chromosome 11 and four markers on chromosome 14. Development of RDA markers increases the resolution of the pig genome maps and markers located within putative quantitative trait locus (QTL) regions can be used to refine QTL positions.

Localization of 31 porcine transcripts to the pig genome by SSRH radiation hybrid mapping

“…mapped markers (Farber et al, 2003;Jiang et al, 2003;Cao et al, 2004;Caetano et al, 2005;Cepica et al, 2005;Leeb et al, 2005;Wang et al, 2005;Shimogiri et al, 2006;Yasue et al, 2008;Liu et al, 2008;Ma et al, 2009), designed primers for RH mapping, and performed PCR against the SSRH radiation hybrid cell panel. Among them, 38 pairs of primers showed pig-specific amplification and were used for RH mapping.…”