Integrative functional analyses using rainbow trout selected for tolerance to plant diets reveal nutrigenomic signatures for soy utilization without the concurrence of enteritis

• DOI: 10.1371/journal.pone.0180972
• Publication Date: 2017-07-19T17:39:51Z
• Authors: Jason Abernathy; Andreas Brezas; Kevin R. Snekvik; Ronald W. Hardy; Ken Overturf
• Keywords: Candidate gene

Finding suitable alternative protein sources for diets of carnivorous fish species remains a major concern sustainable aquaculture. Through genetic selection, we created strain rainbow trout that outperforms parental lines in utilizing an all-plant diet and does not develop enteritis the distal intestine, as is typical with salmonids on long-term plant protein-based feeds. By incorporating this into functional analyses, set out to determine which genes are critical utilization absence gut inflammation. After 12-week feeding trial our selected control fed either fishmeal-based or diet, high-throughput RNA sequencing was completed both liver muscle tissues. Differential gene expression weighted correlation network analyses further characterization were performed. A strain-by-diet design revealed differential ranging from few dozen over one thousand among various comparisons Major ontology groups identified between included those encompassing central, intermediary foreign molecule metabolism, associated biosynthetic pathways well immunity. systems approach indicated involved purine metabolism highly perturbed. Systems analysis tissues tested suggests interplay selection growth, dietary tolerance may also have implications nonspecific combining data co-expression networks using trout, along pathway 63 candidate found. Risk loci human inflammatory bowel diseases found datasets, indicating plant-diet added utility potential biomedical model.