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Appears in Collections:Aquaculture Journal Articles
Peer Review Status: Refereed
Title: Differential responses of the gut transcriptome to plant protein diets in farmed Atlantic salmon
Author(s): Krol, Elzbieta
Douglas, Alex
Tocher, Douglas R
Crampton, Viv O
Speakman, John R
Secombes, Christopher J
Martin, Samuel A M
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Keywords: Soy protein concentrate
Bean protein concentrate
Soybean meal
Antinutritional factors
Gut inflammation
Whole-animal performance
Gene expression
Cholesterol biosynthesis pathway
Issue Date: 29-Feb-2016
Date Deposited: 5-Aug-2016
Citation: Krol E, Douglas A, Tocher DR, Crampton VO, Speakman JR, Secombes CJ & Martin SAM (2016) Differential responses of the gut transcriptome to plant protein diets in farmed Atlantic salmon. BMC Genomics, 17, Art. No.: 156.
Abstract: Background The potential for alternative plant protein sources to replace limited marine ingredients in fish feeds is important for the future of the fish farming industry. However, plant ingredients in fish feeds contain antinutritional factors (ANFs) that can promote gut inflammation (enteritis) and compromise fish health. It is unknown whether enteritis induced by plant materials with notable differences in secondary metabolism is characterised by common or distinct gene expression patterns, and how using feeds with single vs mixed plant proteins may affect the gut transcriptome and fish performance. We used Atlantic salmon parr to investigate the transcriptome responses of distal gut to varying dietary levels (0-45%) of soy protein concentrate (SPC) and faba bean (Vicia faba) protein concentrate (BPC) following an 8-week feeding trial. Soybean meal (SBM) and fish meal (FM) were used as positive and negative controls for enteritis, respectively. Gene expression profiling was performed using a microarray platform developed and validated for Atlantic salmon.  Results Different plant protein materials (SPC, BPC and SBM) generated substantially different gut gene expression profiles, with relatively few transcriptomic alterations (genes, pathways and GO terms) common for all plant proteins used. When SPC and BPC were simultaneously included in the diet, they induced less extensive alterations of gut transcriptome than diets with either SPC or BPC singly, probably due to reduced levels of individual ANFs. The mixed plant protein diets were also associated with improved body composition of fish relative to the single plant protein diets, which may provide evidence for a link between the magnitude of changes in gut transcriptome and whole-animal performance.  Conclusions Our results indicate that gut transcriptomic profiling provides a useful tool for testing the applicability of alternative protein sources for aquaculture feeds and designing diets with reduced impact of ANFs on fish health. Ultimately, understanding diet-gut interactions and intestinal homeostasis in farmed fish is important to maximise performance and to ensure that aquaculture continues to be a sustainable source of food for a growing world population.
DOI Link: 10.1186/s12864-016-2473-0
Rights: © Król et al. 2016 This article is distributed under the terms of the Creative Commons Attribution 4.0 International License (, which permits unrestricted use, distribution, and reproduction in any medium, provided you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The Creative Commons Public Domain Dedication waiver ( applies to the data made available in this article, unless otherwise stated.
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