ArticleGenome research2005
A high-resolution multistrain haplotype analysis of laboratory mouse genome reveals three distinctive genetic variation patterns.
Article in Genome research, 2005. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 18 papers.
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Who cites it
18 citing papers in PubMed, 36 citations in OpenAlex.
- Substrains matter in phenotyping of C57BL/6 mice.Experimental animals · 2021Review
- Inbred lab mice are not isogenic: genetic variation within inbred strains used to infer the mutation rate per nucleotide site.Heredity · 2021Article
- Influenza Virus Susceptibility of Wild-Derived CAST/EiJ Mice Results from Two Amino Acid Changes in the MX1 Restriction Factor.Journal of virology · 2016Article
- SNP Formation Bias in the Murine Genome Provides Evidence for Parallel Evolution.Genome biology and evolution · 2015Article
- Development of SNP markers for C57BL/6N-derived mouse inbred strains.Experimental animals · 2015Article
- An experimental assessment of in silico haplotype association mapping in laboratory mice.BMC genetics · 2009Article
- Practical applications of the bioinformatics toolbox for narrowing quantitative trait loci.Genetics · 2008Article
- Long-term balancing selection at the west nile virus resistance gene, Oas1b, maintains transspecific polymorphisms in the house mouse.Molecular biology and evolution · 2008Article
- Article
- Ancestral bias in the Hras1 gene and distal Chromosome 7 among inbred mice.Mammalian genome : official journal of the International Mammalian Genome Society · 2007Article
- Meiotic crossover hotspots contained in haplotype block boundaries of the mouse genome.Proceedings of the National Academy of Sciences of the United States of America · 2007Article
- Article
- Species-wide distribution of highly polymorphic minisatellite markers suggests past and present genetic exchanges among house mouse subspecies.Genome biology · 2007Article
- A locus on mouse Chromosome 9 (Adip5) affects the relative weight of the gonadal but not retroperitoneal adipose depot.Mammalian genome : official journal of the International Mammalian Genome Society · 2006Article
- Article
- Signatures of reproductive isolation in patterns of single nucleotide diversity across inbred strains of mice.Genetics · 2005Article
- SNPdetector: a software tool for sensitive and accurate SNP detection.PLoS computational biology · 2005Article
- Sipa1 is a candidate for underlying the metastasis efficiency modifier locus Mtes1.Nature genetics · 2005Article
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Authors and funding
8 authors at 1 institution in 1 country.
Funding
Abstract
Understanding of the structure and the origin of genetic variation patterns in the laboratory inbred mouse provides insight into the utility of the mouse model for studying human complex diseases and strategies for disease gene mapping. In order to address this issue, we have constructed a multistrain, high-resolution haplotype map for the 99-Mb mouse Chromosome 16 using approximately 70,000 single nucleotide polymorphism (SNP) markers derived from whole-genome shotgun sequencing of five laboratory inbred strains. We discovered that large polymorphic blocks (i.e., regions where only two haplotypes, thus one SNP conformation, are found in the five strains), large monomorphic blocks (i.e., regions where the five strains share the same haplotype), and fragmented blocks (i.e., regions of greater complexity not resembling at all the first two categories) span 50%, 18%, and 32% of the chromosome, respectively. The haplotype map has 98% accuracy in predicting mouse genotypes in two other studies. Its predictions are also confirmed by experimental results obtained from resequencing of 40-kb genomic sequences at 21 distinct genomic loci in 13 laboratory inbred strains and 12 wild-derived strains. We demonstrate that historic recombination, intra-subspecies variations and inter-subspecies variations have all contributed to the formation of the three distinctive genetic signatures. The results suggest that the controlled complexity of the laboratory inbred strains may provide a means for uncovering the biological factors that have shaped genetic variation patterns.
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