A description of the origins, design and performance of the TRAITS-SGP Atlantic salmon Salmo salar L. cDNA microarray..pdf (387.97 kB)
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A description of the origins, design and performance of the TRAITS-SGP Atlantic salmon Salmo salar L. cDNA microarray

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posted on 10.09.2015, 09:00 by J. B. Taggart, J. E. Bron, S. A. Martin, Paul J. Seear, B. Høyheim, R. Talbot, S. N. Carmichael, L. A. Villeneuve, G. E. Sweeney, D. F. Houlihan, C. J. Secombes, D. R. Tocher, A. J. Teale
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.

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Citation

Journal of Fish Biology, 2008, 72 (9), pp. 2071-2094

Author affiliation

/Organisation/COLLEGE OF MEDICINE, BIOLOGICAL SCIENCES AND PSYCHOLOGY/School of Biological Sciences/Department of Biology

Version

VoR (Version of Record)

Published in

Journal of Fish Biology

Publisher

Wiley, Fisheries Society of the British Isles

eissn

1095-8649

Copyright date

2008

Available date

10/09/2015

Publisher version

http://onlinelibrary.wiley.com/doi/10.1111/j.1095-8649.2008.01876.x/abstract

Language

en

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