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United States Department of Agriculture

Agricultural Research Service

Title: Mapping Bovine and Ovine Genes with Intronic Single Nucleotide Polymorphisms

Authors
item Smith, Timothy
item Fahrenkrug, Scott
item Heaton, Michael
item Kappes, Steven
item Casas, Eduardo
item Stone, Roger
item Rohrer, Gary
item Keele, John
item Thallman, Richard
item Laegreid, William

Submitted to: Journal of Animal Science Supplement
Publication Type: Abstract Only
Publication Acceptance Date: July 1, 1998
Publication Date: N/A

Technical Abstract: The stability of single nucleotide polymorphisms (SNPs) makes them superior to microsatellites for the establishment of chromosomal segment identity by descent. In order to assess the utility of this class of marker in placing genes from the human and/or mouse maps on the maps of livestock species, we have mapped several genes in the bovine and ovine genomes via SNPs. Polymorphisms were identified by comparing the sequence of introns amplified from founder animals of the MARC reference population using primers developed from exon sequences. All families of the population in which each polymorphism was informative were then genotyped by direct sequencing of the introns, and the data deposited in the MARC database for linkage analysis. In this way, the genes AKT, CAPN1, CKB, CHGA, MIP2, and IL8 were placed on the bovine maps of chromosomes 21, 29, 21, 21, 6, and 6, respectively. In addition, a systematic evaluation of the rate of polymorphism at the SNP level in bovine DNA is being conducted. The sequencing of a collection of random clones from three chromosome specific libraries and a directionally cloned muscle cDNA library has been undertaken to determine the frequency and distribution of SNPs in bovine genes and intergenic DNA. Early results indicate that SNPs provide reliable markers showing Mendelian inheritance, and are common enough to serve as useful positional makers. The theoretical ability to simultaneously assess hundreds of genetic loci using SNP markers in combination with high-density DNA array hybridization technology warrants the collection of SNPs informative across all U.S. cattle breeds to support QTL-driven genotyping efforts.

Last Modified: 4/19/2014
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