Abstract
We present a set of nuclear DNA SNPs useful for discriminating native Lake Biwa and introduced “Eurasian” strains of common carp, and further, for detecting their hybridization. Such SNPs were searched around short tandem repeat (STR) regions to be used later as HapSTR markers. A total of 62 microsatellite locus were screened with PCR and direct sequencing. The resultant nucleotide sequences from typical Lake Biwa (n = 30) and “Eurasian” (n = 24) specimens indicated that a total of 21 SNPs distributed across 7 loci would be useful for the above-mentioned purpose. All of the SNPs can be genotyped by direct sequencing, simultaneously with STR polymorphisms.
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