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United States Department of Agriculture

Agricultural Research Service

Title: Development of An Est-Derived Snp-Based Linkage Map in Swine

Authors
item Nonneman, Danny
item Keele, John
item Freking, Bradley
item Rohrer, Gary

Submitted to: Plant and Animal Genome VX Conference Abstracts
Publication Type: Proceedings
Publication Acceptance Date: November 1, 2002
Publication Date: January 1, 2003
Citation: Nonneman, D.J., Keele, J.W., Freking, B.A., Rohrer, G.A. Proceeding of the Plant & Animal Genome XI, 1/11-15/2003, San Diego, CA. p. 231.

Technical Abstract: Identification of genes, their important allelic variants and expression profiles will aid the application of molecular genetics for increasing production efficiency and improving the quality of livestock products. Sufficient variation in production traits exists in commercial populations of livestock to exploit allelic variation to predict genetic merit. Identification of markers linked to important genetic variants will facilitate marker assisted selection of superior animals. Construction of dense comparative maps with human and mouse genomes is necessary to identify genomic regions that impact production traits in swine. We are currently developing an SNP-based genetic linkage map of the pig with an initial goal of 1,000 EST-derived markers to be placed on the map. Primers are designed from porcine and bovine EST sequences to amplify across introns based on the human genomic organization of homologous genes for SNP discovery. To date, 5,062 primer pairs have been tested on genomic DNA from 8 parents of the MARC swine mapping family and 2,311 of these amplicons have been sequenced. Over 5,000 SNPs have been tagged and entered into the MARC database. Over 840 unique EST amplicons have been genotyped using primer extension and mass spectrometry on over 1210 SNPs. Mapping of these ESTs will greatly enhance the porcine genetic map and provide a more detailed comparative map between porcine and human genomes.

Last Modified: 10/30/2014
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