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Discovery and validation of gene‐linked diagnostic SNP markers for assessing hybridization between L argemouth bass ( M icropterus salmoides ) and F lorida bass ( M . floridanus )
Author(s) -
Li Chao,
Gowan Spencer,
Anil Ammu,
Beck Benjamin H.,
Thongda Wilawan,
Kucuktas Huseyin,
Kaltenboeck Ludmilla,
Peatman Eric
Publication year - 2015
Publication title -
molecular ecology resources
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 2.96
H-Index - 136
eISSN - 1755-0998
pISSN - 1755-098X
DOI - 10.1111/1755-0998.12308
Subject(s) - biology , introgression , hatchery , bass (fish) , snp , population genomics , genomics , genetics , fishery , gene , genome , single nucleotide polymorphism , genotype , fish <actinopterygii>
Efforts to improve recreational fisheries have included widespread stocking of M icropterus floridanus outside its native range of peninsular F lorida. Hybridization of F lorida bass ( M . floridanus ) with largemouth bass ( M icropterus salmoides ) has now dramatically expanded beyond a naturally occurring intergrade zone in the southeast U . S . In recent years, there has been growing interest in protecting the genetic integrity of native basses and assessing the impact and nature of M . salmoides / M . floridanus introgression from the standpoint of hatchery and sport‐fishery managers, fish biologists, ecologists and evolutionary biologists. Here, we conducted RNA ‐seq‐based sequencing of the transcriptomes of M . salmoides , M . floridanus and their F 1 hybrid and identified a set of 3674 SNP markers with fixed‐allelic differences from 2112 unique genes. We then developed a subset of 25 of these markers into a single diagnostic multiplex assay and validated its capacity for assessing integrity and hybridization in hatchery and wild populations of largemouth and F lorida bass. The availability of this resource, high‐quality transcriptomes and a large set of gene‐linked SNP s, should greatly facilitate functional and population genomics studies in these key species and allow the identification of traits and processes under selection during introgressive hybridization.