Identification and Characterization of Heat Shock Response Related Single Nucleotide Polymorphisms in O. mykiss and O. tshawytscha – in Permanent Genetic Resources Added to Molecular Ecology Resources Database 1 May 2009–31 July 2009
Identification . . . Abstract:
Thirty-two individuals of both Oncorhynchus mykiss and Oncorhynchus tshawytscha were sequenced at seven heat shock response related genes to identify single nucleotide polymorphisms (SNPs). During the screen, 87 polymorphisms were observed in O. mykiss and 68 in the O. tshawytscha. Thirteen SNP sites were developed into 5’ exonuclease assays (Taqman assays), and two variable indels and one microsatellite repeat were developed into fragment length polymorphism markers. All assays were in expected Hardy-Weinberg proportions, and marker pairs from the same gene were significantly linked. These assays are expected to be useful resources for broader studies related to stress response.
Permanent . . . Abstract:
This article documents the addition of 512 microsatellite marker loci and nine pairs of Single Nucleotide Polymorphism (SNP) sequencing primers to the Molecular Ecology Resources Database. Loci were developed for the following species: Alcippe morrisonia morrisonia, Bashania fangiana, Bashania fargesii, Chaetodon vagabundus, Colletes floralis, Coluber constrictor flaviventris, Coptotermes gestroi, Crotophaga major, Cyprinella lutrensis, Danaus plexippus, Fagus grandifolia, Falco tinnunculus, Fletcherimyia fletcheri, Hydrilla verticillata, Laterallus jamaicensis coturniculus, Leavenworthia alabamica, Marmosops incanus, Miichthys miiuy, Nasua nasua, Noturus exilis, Odontesthes bonariensis, Quadrula fragosa, Pinctada maxima, Pseudaletia separata, Pseudoperonospora cubensis, Podocarpus elatus, Portunus trituberculatus, Rhagoletis cerasi, Rhinella schneideri, Sarracenia alata, Skeletonema marinoi, Sminthurus viridis, Syngnathus abaster, Uroteuthis (Photololigo) chinensis, Verticillium dahliae, Wasmannia auropunctata, and Zygochlamys patagonica. These loci were cross-tested on the following species: Chaetodon baronessa, Falco columbarius, Falco eleonorae, Falco nau-manni, Falco peregrinus, Falco subbuteo, Didelphis aurita, Gracilinanus microtarsus, Marmos-ops paulensis, Monodelphis Americana, Odontesthes hatcheri, Podocarpus grayi, Podocarpus lawrencei, Podocarpus smithii, Portunus pelagicus, Syngnathus acus, Syngnathus typhle, Uroteuthis (Photololigo) edulis, Uroteuthis (Photololigo) duvauceli and Verticillium albo-atrum. This article also documents the addition of nine sequencing primer pairs and sixteen allele specific primers or probes for Oncorhynchus mykiss and Oncorhynchus tshawytscha; these primers and assays were cross-tested in both species.
Campbell, N.R. and S.R. Narum. 2009. Identification and characterization of heat shock response-related single-nucleotide polymorphisms in O. mykiss and O. tshawytscha. Molecular Ecology Resources 9:1460–1559.