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ARS Home » Plains Area » Clay Center, Nebraska » U.S. Meat Animal Research Center » Genetics and Animal Breeding » Research » Publications at this Location » Publication #143657


item Casas, Eduardo

Submitted to: Genética Y Genómica Animal En Línea/Animal Genetics and Genomics Online
Publication Type: Peer Reviewed Journal
Publication Acceptance Date: 8/28/2003
Publication Date: 4/4/2003
Citation: Casas, E. Detection and use of single nucleotide polymorphisms (snp) for use in high throughput genotyping in beef cattle.. Genética Y Genómica Animal En Línea/Animal Genetics and Genomics Online. Never published

Interpretive Summary: The objective of this review was to describe the process used by the genomics team at the U.S. Meat Animal Research Center to detect mutations (single nucleotide polymorphisms or SNP) in genes, and their use as genetic markers. More than 133,000 pieces of DNA were read. Fragments of DNA containing mutations were selected to be put on the map of molecular markers developed at the U.S. Meat Animal Research Center. To date, almost 400 mutations have been mapped. These genetic markers are based on differences in or around genes, so their identification may lead to the cause of differences in the expression of economically important traits.

Technical Abstract: The objective of this review was to describe the process of detection of single nucleotide polymorphisms from expressed sequence tags. Four libraries were produced from diverse tissues. Normalization of the libraries allowed the sequence of low expressed genes. One hundred thirty three thousand seven hundred forty three unique sequences were generated and deposited in Genbank. Sequences were assembled in 26,931 clusters. Sequences were used to produce primer pairs. These primers were tested in four bulls. The bulls are part of the reference family used to develop the bovine linkage map. From the current 2342 primer pairs developed to date, 839 fragments have been found to contain single nucleotide polymorphisms. Mass spectrometry has been used to map 399 single nucleotide polymorphisms into the linkage map. The single nucleotide polymorphisms will be a valuable tool to validate quantitative trait loci in outbred populations. Linkage disequilibrium analysis is feasible by using this type of markers, besides being able to be used in high throughput genotyping systems.