Assembling a dual purpose TaqMan-based panel of single-nucleotide polymorphism markers in rainbow trout and steelhead (Oncorhynchus mykiss) for association mapping and population genetics analysis

We establish a TaqMan-based assay panel for genotyping single-nucleotide polymorphisms in rainbow trout and steelhead (Oncorhynchus mykiss). We develop 22 novel single-nucleotide polymorphism markers based on new steelhead sequence data and on assays from sister taxa. Additionally, we adapt 154 prev...

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Bibliographic Details
Published in:Molecular ecology resources 2011-03, Vol.11 (s1), p.67-70
Main Authors: HANSEN, METTE H.H, YOUNG, SEWALL, JØRGENSEN, HANNE B.H, PASCAL, CARITA, HENRYON, MARK, SEEB, JAMES
Format: Article
Language:English
Subjects:
Animals
association mapping
Chromosome Mapping
Denmark
disease resistance
Female
Fish
Genetic Association Studies
Genetic Markers
Genotype
Male
Oncorhynchus mykiss
Oncorhynchus mykiss - genetics
Polymorphism, Single Nucleotide
population genetics
Quantitative genetics
rainbow trout
Sequence Analysis, DNA
SNP
steelhead
Trout
Washington
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Summary:We establish a TaqMan-based assay panel for genotyping single-nucleotide polymorphisms in rainbow trout and steelhead (Oncorhynchus mykiss). We develop 22 novel single-nucleotide polymorphism markers based on new steelhead sequence data and on assays from sister taxa. Additionally, we adapt 154 previously developed markers to the TaqMan platform. At the beginning of this study, 59 SNPs with TaqMan assays were available to the scientific community. By adding 176 additional TaqMan assays to this number, we greatly expand the biological applications of TaqMan genotyping within both population genetics and quantitative genetics.
ISSN:1755-0998
1755-098X
1755-0998
DOI:10.1111/j.1755-0998.2010.02978.x