Genomics facilitates evaluation and monitoring of McCloud River Redband Trout (Oncorhynchus mykiss stonei)

Abstract The McCloud River Redband Trout (MRRT; Oncorhynchus mykiss stonei ) is a unique subspecies of rainbow trout that inhabits the isolated Upper Northern California. A major threat to MRRT introgressive hybridization with non-native from historical stocking and contemporary unauthorized introductions. To help address this concern, we collected RAD-sequencing data on 308 total individuals other California O. populations examined population structure using Principal Component admixture analyses. Our results are consistent previous studies; found in Sheepheaven, Swamp, Edson, Moosehead creeks nonintrogressed. Additionally, saw no evidence introgression Dry Creek, suggest further investigation determine if it can be considered core conservation population. Sheepheaven Creek was previously thought sole lineage MRRT, but our analysis identified three: creeks, all which should preserved. Finally, discovered diagnostic polymorphic SNP markers for monitoring genetic diversity MRRT. Collectively, provide valuable resource management