Single nucleotide polymorphism (SNP) discovery in duplicated genomes: intron-primed exon-crossing (IPEC) as a strategy for avoiding amplification of duplicated loci in Atlantic salmon (Salmo salar) and other salmonid fishes

: Ryynanen HJ, Primmer CR

: 2006

BMC Genomics

: BMC GENOMICS

: ARTN 192

: 7

: 11

: 1471-2164

DOI: https://doi.org/10.1186/1471-2164-7-192

Conclusion: Sequencing success was significantly higher with the new IPEC primers; thus the total number of loci to screen in order to identify one potential polymorphic site was six times less with this new strategy. Given that duplication may hamper SNP discovery in some species, the IPEC method reported here is an alternative way of identifying novel polymorphisms in such cases.