Single Nucleotide Polymorphism Analysis of Genes Expressed in Porcine Adipose Tissue

Objective of this study was identification of SNPs that can be used as direct markers in QTL studies. A porcine subcutaneous adipose tissue cDNA library was developed and 15000 clones were sequenced. Sequence trace files were analyzed for SNPs by Polyphred, Phrap and Consed. Twenty three non synonymous SNPs were analyzed for segregation patterns. Genes with confirmed SNPs were mapped to the swine genome using Radiation Hybrid mapping tool. There were 362 coding SNPs above Phred quality score of 20. Transition polymorphisms were 2.6 times higher than the trnasversions and 88% of SNPs were synonymous. Eleven non synonymous coding SNPs were confirmed by resequencing and none of them segregated exclusively in an outlier group for back fat thickness. Four genes were successfully mapped to the porcine genome. After validation and calculation of frequencies in large populations these SNPs can be used as direct markers in high throughput genotyping programs.Department of Animal Scienc