Taggart, J. B., Bron, J. E., Martin, S. A. M., Seear, P. J., Høyheim, B., Talbot, R., Carmichael, S. N., Villeneuve, L. A. N., Sweeney, Glen E., Houlihan, D. F., Secombes, C. J., Tocher, D. R. and Teale, A. J. 2008. A description of the origins, design and performance of the TRAITS–SGP Atlantic salmon Salmo salar L. cDNA microarray. Journal of Fish Biology 72 (9) , pp. 2071-2094. 10.1111/j.1095-8649.2008.01876.x |
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 1·2×) 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.
Item Type: | Article |
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Date Type: | Publication |
Status: | Published |
Schools: | Biosciences |
Publisher: | Wiley |
ISSN: | 0022-1112 |
Last Modified: | 02 May 2019 10:58 |
URI: | https://orca.cardiff.ac.uk/id/eprint/65573 |
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