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August 1, 2007 The Pardo-Manuel laboratory in collaboration with Gary Churchill’s group at The Jackson Laboratory recently published their work in Nature Genetics on analyzing the genetic variation found in 15 inbred mouse strains, which are widely used in the research community. These 15 strains include 11 classical strains and 4 wild-derived strains that were resequenced by Perlegen Sciences under contract from the National Institute of Environmental Health Sciences (NIEHS) in 2004. This resequencing project identified more than 109 million genotypes for 8.3 million single-nucleotide polymorphisms within these strains relative to the reference strain C57BL/6J. A full description of this project along with a genome-wide haplotype map was published in Nature by the Perlegen/NIEHS group. Using these data, Pardo-Manuel and Churchill developed a high-resolution map of the subspecific origin of the laboratory mouse by generating 25,400 phylogenetic trees at 100-kb intervals throughout the genome. Analysis of these data shows that the genomes of classical inbred strains are largely derived from the M. m. domesticus subspecies, but that the distribution of genetic variation is markedly nonrandom. These results have significant implications for the design and interpretation of studies on complex traits and other areas of biomedical research for which the mouse has been used extensively as a model system for human disease. Pardo-Manuel/Churchill article in Nature Genetics Perlegen/NIEHS Mouse SNP Discovery Project Perlegen/NIEHS letter in Nature
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