Rapid single nucleotide polymorphism mapping in C. elegans

Abstract

Background: InC. elegans, single nucleotide polymorphisms (SNPs) can function as silent genetic markers, with applications ranging from classical two- and three-factor mapping to measuring recombination across whole chromosomes.Results: Here, we describe a set of 48 primer pairs that flank SNPs evenly spaced across theC. elegansgenome and that work under identical PCR conditions. Each SNP in this set alters aDraI site, enabling rapid and parallel scoring. We describe a procedure using these reagents to quickly and reliably map mutations. We show that these techniques correctly map a known gene,dpy-5. We then use these techniques to map mutations in an uncharacterized strain, and show that its behavioral phenotype can be simultaneously mapped to three loci.Conclusion: Together, the reagents and methods described represent a significant advance in the accurate, rapid and inexpensive mapping of genes inC. elegans.