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Title: A description of the origins, design and performance of the TRAITS-SGP Atlantic salmon Salmo salar L. cDNA microarray
Authors: Taggart, J. B.
Bron, J. E.
Martin, S. A.
Seear, Paul J.
Høyheim, B.
Talbot, R.
Carmichael, S. N.
Villeneuve, L. A.
Sweeney, G. E.
Houlihan, D. F.
Secombes, C. J.
Tocher, D. R.
Teale, A. J.
First Published: 28-Jun-2008
Publisher: Wiley, Fisheries Society of the British Isles
Citation: Journal of Fish Biology, 2008, 72 (9), pp. 2071-2094
Abstract: The origins, design, fabrication and performance of an Atlantic salmon microarray are described. The microarray comprises 16 950 Atlantic salmon-derived cDNA features, printed in duplicate and mostly sourced from pre-existing expressed sequence tag (EST) collections [SALGENE and salmon genome project (SGP)] but also supplemented with cDNAs from suppression subtractive hybridization libraries and candidate genes involved in immune response, protein catabolism, lipid metabolism and the parr-smolt transformation. A preliminary analysis of a dietary lipid experiment identified a number of genes known to be involved in lipid metabolism. Significant fold change differences (as low as 1.2x) were apparent from the microarray analysis and were confirmed by quantitative real-time polymerase chain reaction analysis. The study also highlighted the potential for obtaining artefactual expression patterns as a result of cross-hybridization of similar transcripts. Examination of the robustness and sensitivity of the experimental design employed demonstrated the greater importance of biological replication over technical (dye flip) replication for identification of a limited number of key genes in the studied system. The TRAITS (TRanscriptome Analysis of Important Traits of Salmon)-salmon genome project microarray has been proven, in a number of studies, to be a powerful tool for the study of key traits of Atlantic salmon biology. It is now available for use by researchers in the wider scientific community.
DOI Link: 10.1111/j.1095-8649.2008.01876.x
eISSN: 1095-8649
Version: Publisher Version
Status: Peer-reviewed
Type: Journal Article
Rights: Copyright © 2008 The Authors Journal compilation © 2008 The Fisheries Society of the British Isles. Re-use of this article is permitted in accordance with the Creative Commons Deed, Attribution 2.5, which does not permit commercial exploitation.
Appears in Collections:Published Articles, Dept. of Biology

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