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Updated: Jun 2, 2026
Infinium Assay for Large-scale SNP Genotyping Applications
Published on: November 19, 2013
Subspecies-informative SNP assays for evaluating introgression between native golden trout and introduced rainbow
Molly R Stephens1, Neil W Clipperton, Bernie May
1Genomic Variation Laboratory, University of California, Davis, Department of Animal Science, One Shields Avenue, Davis, California 95616, USA California Department of Fish and Game, Water Branch, 830 S Street, Sacramento, CA 95811, USA.
Abstract:
We characterize 20 single nucleotide polymorphism assays for evaluating hybridization between native golden trout subspecies (Oncorhynchus mykiss aguabonita and O. m. whitei) and introduced rainbow trout strains. These assays utilize the 5'-nuclease reaction, facilitating high-throughput genotyping of many individuals and making them useful in quantifying and monitoring introgression and potentially applicable to studies of other O. mykiss groups. Minor allele frequency differentials (δq) among native and introduced rainbow groups ranged from 0 to 1, with an average differential of 0.75 for both subspecies aguabonita and whitei relative to the hatchery rainbow trout strain.
