Development of SNP markers for C57BL/6N-derived mouse inbred
strains |
| |
Authors: | Kazuyuki Mekada Mayu Hirose Ayumi Murakami Atsushi Yoshiki |
| |
Institution: | 1) Experimental Animal Division, RIKEN BioResource Center, 3-1-1 Koyadai, Tsukuba, Ibaraki 305-0074, Japan |
| |
Abstract: | C57BL/6N inbred mice are used as the genetic background for producing knockout mice in
large-scale projects worldwide; however, the genetic divergence among C57BL/6N-derived
substrains has not been verified. Here, we identified novel single nucleotide
polymorphisms (SNPs) specific to the C57BL/6NJ strain and selected useful SNPs for the
genetic monitoring of C57BL/6N-derived substrains. Informative SNPs were selected from the
public SNP database at the Wellcome Trust Sanger Institute by comparing sequence data from
C57BL/6NJ and C57BL/6J mice. A total of 1,361 candidate SNPs from the SNP database could
distinguish the C57BL/6NJ strain from 12 other inbred strains. We confirmed 277
C57BL/6NJ-specific SNPs including 10 nonsynonymous SNPs by direct sequencing, and selected
100 useful SNPs that cover all of the chromosomes except Y. Genotyping of 11
C57BL/6N-derived substrains at these 100 SNP loci demonstrated genetic differences among
the substrains. This information will be useful for accurate genetic monitoring of mouse
strains with a C57BL/6N-derived background. |
| |
Keywords: | C57BL/6N SNP genetic background inbred substrain |
|
|