Back to Search
Start Over
Comparative Analysis of the Transcriptome and Distribution of Putative SNPs in Two Rainbow Trout ( Oncorhynchus mykiss ) Breeding Strains by Using Next-Generation Sequencing.
- Source :
-
Genes [Genes (Basel)] 2020 Jul 24; Vol. 11 (8). Date of Electronic Publication: 2020 Jul 24. - Publication Year :
- 2020
-
Abstract
- Selective breeding can significantly improve the establishment of sustainable and profitable aquaculture fish farming. For rainbow trout ( Oncorhynchus mykiss ), one of the main aquaculture coldwater species in Europe, a variety of selected hatchery strains are commercially available. In this study, we investigated the genetic variation between the local Born strain, selected for survival, and the commercially available Silver Steelhead strain, selected for growth. We sequenced the transcriptome of six tissues (gills, head kidney, heart, liver, spleen, and white muscle) from eight healthy individuals per strain, using RNA-seq technology to identify strain-specific gene-expression patterns and single nucleotide polymorphisms (SNPs). In total, 1760 annotated genes were differentially expressed across all tissues. Pathway analysis assigned them to different gene networks. We also identified a set of SNPs, which are heterozygous for one of the two breeding strains: 1229 of which represent polymorphisms over all tissues and individuals. Our data indicate a strong genetic differentiation between Born and Silver Steelhead trout, despite the relatively short time of evolutionary separation of the two breeding strains. The results most likely reflect their specifically adapted genotypes and might contribute to the understanding of differences regarding their robustness toward high stress and pathogenic challenge described in former studies.
- Subjects :
- Animals
Molecular Sequence Annotation
Oncorhynchus mykiss classification
Oncorhynchus mykiss growth & development
Species Specificity
Gene Regulatory Networks
Genetic Markers
High-Throughput Nucleotide Sequencing methods
Oncorhynchus mykiss genetics
Polymorphism, Single Nucleotide
Transcriptome
Subjects
Details
- Language :
- English
- ISSN :
- 2073-4425
- Volume :
- 11
- Issue :
- 8
- Database :
- MEDLINE
- Journal :
- Genes
- Publication Type :
- Academic Journal
- Accession number :
- 32722051
- Full Text :
- https://doi.org/10.3390/genes11080841