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Title: SELECTION AND USE OF SINGLE NUCLEOTIDE POLYMORPHISM (SNP) MARKERS FOR ANIMAL IDENTIFICATION AND PATERNITY ANALYSIS IN U.S. BEEF CATTLE

Author
item Heaton, Michael - Mike
item Harhay, Gregory
item Bennett, Gary
item Stone, Roger
item GROSSE, WILLIAM - FORMER ARS EMPLOYEE
item Casas, Eduardo
item Keele, John
item Smith, Timothy - Tim
item Chitko-Mckown, Carol
item Laegreid, William

Submitted to: Plant and Animal Genome VX Conference Abstracts
Publication Type: Abstract Only
Publication Acceptance Date: 12/6/2001
Publication Date: N/A
Citation: N/A

Interpretive Summary:

Technical Abstract: DNA marker technology represents a promising means for determining the genetic identity and kinship of an animal. Compared to other types of DNA markers, single nucleotide polymorphisms (SNPs) are attractive because they are abundant, genetically stable, and amenable to high-throughput automated analysis. In cattle, the challenge has been to identify a minimal set of SNPs with sufficient power for use in animal identification and paternity testing in a variety of popular breeds and crossbred populations. This report describes a set of 32 highly informative, unlinked SNP markers distributed among 18 autosomes and both sex chromosomes. Informativity of these SNPs in U.S. beef cattle populations was estimated from the distribution of allele and genotype frequencies in a panel of 96 purebred sires representing 17 popular breeds and a panel of 154 purebred American Angus from six herds in four Midwestern states. The utility of the combined set of 32 SNPs was evaluated to estimate the power for animal identification and kinship analysis. The DNA immediately surrounding the 32 target SNPs was re-sequenced for the 96 sires of the multi-breed panel and found to contain an additional 179 polymorphic sites. Knowledge of these additional sites, together with the 32 target SNPs, is critical for the design of robust accurate genotype assays for use in commercial populations and provides a starting point for developing animal identification and paternity tests on a variety of high-throughput SNP genotyping platforms.