Improved conversion rates for SNP genotyping of nonmodel organisms
نویسندگان
چکیده
Single nucleotide polymorphisms (SNPs) are the most abundant form of genetic variation and are highly adaptable to large-scale automated genotyping and population genetics studies. For nonmodel organisms, many SNP discovery projects are based on sequencing and assembly of a transcriptome and the calling of sequence variation in contigs. This paper develops a new method for avoiding intron/exon boundaries in genotyping primer design, based on the mapping of raw genome reads to a transcriptome assembly. Applied to a project in European anchovy SNP discovery, the attained conversion rate of 91.6% is the highest yet reported for a nonmodel teleost SNP discovery project.
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