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United States Department of Agriculture

Agricultural Research Service

Title: Linkage Mapping of Ests in Pigs Using Single Nucleotide Polymorphisms (Snps): Ii. High-Throughput Genotyping and Mapping

item Freking, Bradley
item Fahrenkrug, Scott
item Rohrer, Gary
item Smith, Timothy
item Keele, John

Submitted to: International Conference on Animal Genetics
Publication Type: Abstract Only
Publication Acceptance Date: March 14, 2000
Publication Date: N/A

Technical Abstract: Existing swine genetic linkage maps, developed primarily with microsatellite loci, have been used to scan the porcine genome for chromosomal regions that affect economically important traits. However, direct investigation of the nature of the underlying genetic variation requires knowledge of the position of genes within the existing map. To improve the efficiency of the labor intensive comparative mapping process and take full advantage of the vast information generated by the human genome sequencing effort, a program has been implemented to directly integrate variability detected in swine expressed sequence tags (ESTs) into the existing genetic map. Our program objectives are to map porcine ESTs orthologous to genes with known human map positions using SNPs. The SNP discovery phase has identified polymorphic positions within amplicons for automated design of genotyping assays. Observed SNPs in the MARC swine reference population were genotyped via microsequencing and MALDI-TOF mass spectrometry. Map positions of ESTs were determined by linkage analysis. Genotypic data from SNP assays within amplicons developed from EST sequences are being used to develop an integrated, high density, type-I marker map of the porcine genome.

Last Modified: 4/22/2015