International Mammalian Genome Society

logo18th International Mouse Genome Conference

17-22 October 2004, Seattle, USA


ORAL PRESENTATION

TUESDAY OCTOBER 19

4.45pm – 5.00pm

NEW INSIGHTS INTO MOUSE HAPLOTYPE STRUCTURE AND SNP HAPLOTYPE MAPPING

Wade CM1, Frazer KA3, Kulbokas EJ2, Cox DR3, Linblad-Toh K2, Daly MJ1

1 Whitehead Institute, Cambridge, MA, United States, 2 Broad Institute of MIT and Harvard, Cambridge, MA, United States, 3 Perlegen Sciences, Mountain View, CA, United States

SNP haplotype mapping is promising to be an important method for mapping genes contributing to complex phenotypes.  To facilitate this we are embarking upon a large scale SNP haplotype map of the common inbred laboratory mouse strains. This exciting undertaking promises to enhance the results of prior QTL mapping experiments, and can be particularly powerful for narrowing causative regions when mapping data are available from three or more inbred laboratory mouse strains.

A recent collaboration using Perlegen Sciences arrays has revealed, for the first time, the fine-structure of SNP haplotypes in the mouse genome over several megabases at 5 different genomic locations. The data strongly support previous assertions that the ancestral segment size in inbred laboratory mice is in the order of one to two megabases.  While inbred mouse phylogeny may at first glance appear to be complicated, at a local level the individual strains can be readily ascribed to one of only a small number of ancestral groupings (most commonly 1 to 3).

In this presentation we aim to share the latest data from the haplotype map, describe public resources available to the mouse community from this work, and outline the pattern of local haplotype structure in a number of common mouse strains.

[an error occurred while processing this directive]