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United States Department of Agriculture

Agricultural Research Service

Research Project: UTILIZATION OF GENOMICS FOR IMPROVING PRODUCTION TRAITS IN COOL AND COLD WATER AQUACULTURE

Location: Cool and Cold Water Aquaculture Research

Title: RNA-seq analysis of stress response in rainbow trout

Authors
item LIU, SIXIN
item GAO, GUANGTU
item PALTI, YNIV
item WEBER, GREGORY
item REXROAD, CAIRD

Submitted to: Annual International Plant & Animal Genome Conference
Publication Type: Abstract Only
Publication Acceptance Date: January 12, 2013
Publication Date: January 12, 2013
Citation: Liu, S., Gao, G., Palti, Y., Weber, G.M., Rexroad III, C.E. 2013. RNA-seq analysis of stress response in rainbow trout. Annual International Plant & Animal Genome Conference. P0511.

Technical Abstract: Fish under intensive rearing conditions experience various stress conditions, which have negative impacts on survival, growth and fillet quality. Understanding the molecular mechanisms underlying stress responses will facilitate improvement of animal welfare and production efficiency. Our objective was to characterize the transcriptome of rainbow trout in response to multiple stressors using RNA-seq. Equal amounts of total RNA extracted from the livers of the individual fish was pooled by tank (eight fish per tank). Five RNA-seq libraries were sequenced from the three tanks of fish that underwent confinement stress and two tanks of untreated control fish using Illumina HiSeq 2000. Over 300 differentially expressed transcripts were identified. Twenty one differentially expressed transcripts were selected for quantitative RT-PCR to validate the RNA-seq analysis results. The gene expression fold changes identified by RNA-seq analysis and RT-PCR were highly correlated (r = 0.94). Pathways associated with stress response were implicated by mapping the differentially expressed transcripts to the pathways in KEGG database. Currently, we are using RNA-seq to identify differentially expressed transcripts in gills of rainbow trout exposed to high temperature, low temperature, high salinity, re-use water and handling/confinement stress.

Last Modified: 8/19/2014
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