Efficient single nucleotide polymorphism discovery in laboratory rat strains using wild rat-derived SNP candidates.

ABSTRACT:

Background

The laboratory rat (Rattus norvegicus) is an important model for studying many aspects of human health and disease. Detailed knowledge on genetic variation between strains is important from a biomedical, particularly pharmacogenetic point of view and useful for marker selection for genetic cloning and association studies.

Results

We show that Single Nucleotide Polymorphisms (SNPs) in commonly used rat strains are surprisingly well represented in wild rat isolates. Shotgun sequencing of 814 Kbp in one wild rat resulted in the identification of 485 SNPs as compared with the Brown Norway genome sequence. Genotyping 36 commonly used inbred rat strains showed that 84% of these alleles are also polymorphic in a representative set of laboratory rat strains.

Conclusion

SUBMITTER: Smits BM 

PROVIDER: S-EPMC1318490 | biostudies-literature | 2005 Nov

REPOSITORIES: biostudies-literature