Author ORCID Identifier
N/A
https://orcid.org/0000-0001-9518-6116
https://orcid.org/0000-0002-6500-8164
https://orcid.org/0000-0001-7436-5836
Document Type
Article
Publication Date
2011
College/Unit
Davis College of Agriculture, Natural Resources and Design
Department/Program/Center
Animal and Nutritional Sciences
Abstract
Background
Fish under intensive culture conditions are exposed to a variety of acute and chronic stressors, including high rearing densities, sub-optimal water quality, and severe thermal fluctuations. Such stressors are inherent in aquaculture production and can induce physiological responses with adverse effects on traits important to producers and consumers, including those associated with growth, nutrition, reproduction, immune response, and fillet quality. Understanding and monitoring the biological mechanisms underlying stress responses will facilitate alleviating their negative effects through selective breeding and changes in management practices, resulting in improved animal welfare and production efficiency.
Results
Physiological responses to five treatments associated with stress were characterized by measuring plasma lysozyme activity, glucose, lactate, chloride, and cortisol concentrations, in addition to stress-associated transcripts by quantitative PCR. Results indicate that the fish had significant stressor-specific changes in their physiological conditions. Sequencing of a pooled normalized transcriptome library created from gill, brain, liver, spleen, kidney and muscle RNA of control and stressed fish produced 3,160,306 expressed sequence tags which were assembled and annotated. SNP discovery resulted in identification of ~58,000 putative single nucleotide polymorphisms including 24,479 which were predicted to fall within exons. Of these, 4907 were predicted to occupy the first position of a codon and 4110 the second, increasing the probability to impact amino acid sequence variation and potentially gene function.
Conclusion
We have generated and characterized a reference transcriptome for rainbow trout that represents multiple tissues responding to multiple stressors common to aquaculture production environments. This resource compliments existing public transcriptome data and will facilitate approaches aiming to evaluate gene expression associated with stress in this species.
Digital Commons Citation
Sanchez, Cecilia C.; Weber, Gregory M.; Gao, Guangtu; Cleveland, Beth M.; Yao, Jianbo; and Rexroad, Caird E., "Generation of a reference transcriptome for evaluating rainbow trout responses to various stressors" (2011). Faculty & Staff Scholarship. 2704.
https://researchrepository.wvu.edu/faculty_publications/2704
Source Citation
Sánchez, C.C., Weber, G.M., Gao, G. et al. Generation of a reference transcriptome for evaluating rainbow trout responses to various stressors. BMC Genomics 12, 626 (2011). https://doi.org/10.1186/1471-2164-12-626
Comments
© 2011 Sanchez et al.; licensee BioMed Central Ltd. This is an open access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.