An extensive resource of single nucleotide polymorphism markers associated with Atlantic salmon (Salmo salar) expressed sequences

Hayes, B., Laerdahl, J. K., Lien, S., Moen, T., Berg, P., Hindar, K., Davidson, W. S., Koop, B. F., Adzhubei, A. and Hoyheim, B. (2007) An extensive resource of single nucleotide polymorphism markers associated with Atlantic salmon (Salmo salar) expressed sequences. Aquaculture, 265 1-4: 82-90. doi:10.1016/j.aquaculture.2007.01.037


Author Hayes, B.
Laerdahl, J. K.
Lien, S.
Moen, T.
Berg, P.
Hindar, K.
Davidson, W. S.
Koop, B. F.
Adzhubei, A.
Hoyheim, B.
Title An extensive resource of single nucleotide polymorphism markers associated with Atlantic salmon (Salmo salar) expressed sequences
Formatted title
An extensive resource of single nucleotide polymorphism markers associated with Atlantic salmon (Salmo salar) expressed sequences
Journal name Aquaculture   Check publisher's open access policy
ISSN 0044-8486
1873-5622
Publication date 2007-05-01
Sub-type Article (original research)
DOI 10.1016/j.aquaculture.2007.01.037
Open Access Status Not yet assessed
Volume 265
Issue 1-4
Start page 82
End page 90
Total pages 9
Place of publication Amsterdam, Netherlands
Publisher Elsevier BV
Language eng
Formatted abstract
As well as being one of the most important aquaculture species, Atlantic salmon (Salmo salar) have been proposed as a model organism for studying the consequences of genome duplication, given the recent tetraploidization event in the salmonoid common ancestor. Availability of large numbers of single nucleotide polymorphisms (SNPs) for Atlantic salmon would be extremely useful for both mapping of genes affecting quantitative traits, as well as a tool to establish the extent and location of duplication in the salmon genome. Here we describe the discovery of 2507 putative SNPs from the alignment of Atlantic salmon expressed sequence tags (ESTs). Eighty-six of the SNPs were chosen for validation in a panel of 65 salmon from locations across their range. Seventy four percent of these SNPs were polymorphic in this panel. Twelve of the validated SNPs showed extreme heterozygous excess, and partial genome duplication is proposed as a possible explanation for this result. Flanking SNP sequences are available from the authors, and the annotations of the SNP containing sequences are publicly available at http://www.salmongenome.no/data/annotation/SNPproj.
Keyword Atlantic salmon
Complex sequence variants
Salmo salar
SNPs
Q-Index Code C1
Q-Index Status Provisional Code
Institutional Status Unknown

Document type: Journal Article
Sub-type: Article (original research)
Collection: Queensland Alliance for Agriculture and Food Innovation
 
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