Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Genotype-specific responses in intestinal lipid metabolism to complete dietary fish oil replacement by vegetable oil in Atlantic salmon

ABSTRACT: As part of a study investigating the effects of genotype on responses to sustainable feeds in Atlantic salmon, a microarray analysis of the intestine transcriptome of two family groups, identified as 'Lean' or 'Fat' (based on flesh lipid content), which were fed a diet containing either 100% fish oil (FO) or 100% vegetable oil (VO) was undertaken.

ORGANISM(S): Salmo salar

SUBMITTER: John Taggart

PROVIDER: E-TABM-1173 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Effects of genotype and dietary fish oil replacement with vegetable oil on the intestinal transcriptome and proteome of Atlantic salmon (Salmo salar).

Morais Sofia S Silva Tomé T Cordeiro Odete O Rodrigues Pedro P Guy Derrick R DR Bron James E JE Taggart John B JB Bell J Gordon JG Tocher Douglas R DR

BMC genomics 20120904

<h4>Background</h4>Expansion of aquaculture requires alternative feeds and breeding strategies to reduce dependency on fish oil (FO) and better utilization of dietary vegetable oil (VO). Despite the central role of intestine in maintaining body homeostasis and health, its molecular response to replacement of dietary FO by VO has been little investigated. This study employed transcriptomic and proteomic analyses to study effects of dietary VO in two family groups of Atlantic salmon selected for f ...[more]

PMID: 22943471

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Project description:Large-scale toxicogenomic screening approaches offer great promise for generating a bias-free, system-wide view of toxicological effects and modes-of-action of chemicals and ecotoxicants. Early applications of microarray technology have identified relatively small groups of responding genes with which to define new targets for analysis by conventional means. We have trialled a more intensive approach to the design and interpretation of array experiments incorporating a balanced interwoven ANOVA design with higher levels of biological replication, a more thorough analysis of errors and false discovery rates, and an analysis of response patterns using gene networks. Zebrafish embryos were exposed to ecotoxicants representing different classes - 2,4-dichlorophenol (DCP), 3,4-dichloroaniline (DCA), pentachlorophenol (PCP), and cadmium chloride - at low concentrations producing a developmental disturbance to 10% of embryos, and half of this dose. Extracted RNA was then analysed on microarrays. Analysis revealed responses of 3000–5000 genes, which is 10–1000 times greater than previously reported, with significance at lower levels of fold-change. Some gene responses were common to multiple toxicants and others that were restricted to just one or two toxicants. The gene expression profiles for the different toxicants were distinctive, and analysis using network-based packages provides a high level of detail of affected processes, some of which were novel. This approach provides a more highly refined view of toxic effects, from which meaningful patterns of response can be discerned and related to functional deficits, and from which more reliable indicators of toxicological effect can be predicted. Interwoven loop design consisting of 12 separate conditions - two exposure concentrations plus control for each of the four toxicants - using six replicates for each conditions, each array was hybridised with independent replicates from each of two conditions resulting in 72 samples on 36 arrays

Dataset Information

Genotype-specific responses in intestinal lipid metabolism to complete dietary fish oil replacement by vegetable oil in Atlantic salmon

Publications

Effects of genotype and dietary fish oil replacement with vegetable oil on the intestinal transcriptome and proteome of Atlantic salmon (Salmo salar).

Similar Datasets

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