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Keywords:

  • 5′-nuclease assay;
  • chum salmon;
  • Oncorhynchus keta;
  • PCR;
  • SNP;
  • TaqMan

Abstract

We characterize 38 single nucleotide polymorphism genotyping assays for chum salmon (Oncorhynchus keta), an important species for both commercial and subsistence fisheries in western Alaska. These assays are based on the 5′-nuclease reaction and thus facilitate high-throughput genotyping with minimal optimization time. Minor allele frequency differences (Δq) among collections were between 0.01 and 0.50 resulting in per locus FST estimates of 0.00–0.08 with an average of 0.03.