SNP-skimming: A fast approach to map loci generating quantitative variation in natural populations.

ABSTRACT: Genome-wide association mapping (GWAS) is a method to estimate the contribution of segregating genetic loci to trait variation. A major challenge for applying GWAS to nonmodel species has been generating dense genome-wide markers that satisfy the key requirement that marker data are error-free. Here, we present an approach to map loci within natural populations using inexpensive shallow genome sequencing. This "SNP-skimming" approach involves two steps: an initial genome-wide scan to identify putative targets followed by deep sequencing for confirmation of targeted loci. We apply our method to a test data set of floral dimension variation in the plant Penstemon virgatus, a member of a genus that has experienced dynamic floral adaptation that reflects repeated transitions in primary pollina

SUBMITTER: Wessinger CA 

PROVIDER: S-EPMC6207453 | biostudies-literature | 2018 Nov

REPOSITORIES: biostudies-literature