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Oncorhynchus mykiss

ABSTRACT: Gene expression profiling of long non-coding RNAs between rainbow trout strains on plant-based diets

PROVIDER: PRJNA336185 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR3994170.fastq.gz	Fastqsanger.gz
	SRR3994180.fastq.gz	Fastqsanger.gz
	SRR3994171.fastq.gz	Fastqsanger.gz
	SRR3994181.fastq.gz	Fastqsanger.gz
	SRR3994172.fastq.gz	Fastqsanger.gz

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Project description:Gene expression analysis between rainbow trout strains with different susceptibility to enteritis when reared on plant-based diets

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Maternal Dietary Choline Levels Cause Transcriptome Shift due to Genotype-by-Diet Interaction in Rainbow Trout (Oncorhynchus mykiss)

Project description:The objective of this study was to identify metabolic regulatory mechanisms affected by choline availability in rainbow trout (Oncorhynchus mykiss) broodstock diets associated with increased offspring growth performance. Three customized diets were formulated to have different levels of choline: (a) 0% choline supplementation (Low Choline: 2065 ppm choline), (b) 0.6% choline supplementation (Medium Choline: 5657 ppm choline), and (c) 1.2% choline supplementation (High Choline: 9248 ppm choline). Six all-female rainbow trout families were fed experimental diets beginning 18 months post-hatch until spawning; their offspring were fed a commercial diet. Experimental broodstock diet did not affect overall choline, fatty acid, or amino acid content in the oocytes (p > 0.05), apart from tyrosine (p ≤ 0.05). Offspring body weights from the High and Low Choline diets did not differ from those in the Medium Choline diet (p > 0.05); however, family-by-diet and sire-by-diet interactions on offspring growth were detected (p ≤ 0.05). The High Choline diet did not improve growth performance in the six broodstock families at final harvest (520-days post-hatch, or dph). Numerous genes associated with muscle development and lipid metabolism were identified, including myosin, troponin C, and fatty acid binding proteins, which were associated with key signaling pathways of lipid metabolism, muscle cell development, muscle cell proliferation, and muscle cell differentiation. These findings indicate that supplementing broodstock diets with choline does regulate expression of genes related to growth and nutrient partitioning but does not lead to growth benefits in rainbow trout families selected for disease resistance.

2024-02-09 | GSE243186 | GEO

Oncorhynchus mykiss liver cells: Small vs. Large fish

Project description:Transcriptional profiling of rainbow trout liver cells comparing liver cells from small fish with liver cells from large fish at two time periods.

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Oncorhynchus mykiss muscle cells: Small vs. Large fish

Project description:Transcriptional profiling of rainbow trout muscle cells comparing muscle cells from small fish with muscle cells from large fish at two time periods.

2012-11-29 | GSE42582 | GEO

Identification of genes involved in cold shock response in rainbow trout (Oncorhynchus mykiss)

Project description:A rapid decline in temperature poses a major challenge for poikilothermic fish. The gene expression of rainbow trout Oncorhynchus mykiss having undergone such a cold shock (0 °C) and a control (5 °C) were compared in a microarray-based study.

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Oncorhynchus mykiss liver and muscle cells: Small vs. Large neomale offspring

Project description:Transcriptional profiling of rainbow trout liver and muscle cells comparing small fish with large fish within a population of neomale offspring.

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Integrative mRNA-miRNA interaction analysis associated with the immune response of rainbow trout Oncorhynchus mykiss to infectious hematopoietic necrosis virus infection [miRNA-seq]

Project description:Infectious hematopoietic necrosis virus (IHNV) can cause widespread death of rainbow trout (Oncorhynchus mykiss), understanding the molecular mechanisms that occur in the rainbow trout in response to IHNV infection will be useful to decrease IHN-related morbidity and mortality in trout aquaculture. However, the molecular mechanisms of rainbow trout in response to IHNV are very limited. This study performed analysis of mRNAs and miRNAs based on RNA-seq technology on the intestine of rainbow trout infected with IHNV and control. There were 80 differentially expressed miRNAs that regulated 3355 target mRNAs, which overlapped with differentially expressed mRNAs obtained from RNA-seq. The expression patterns of DEGs and miRNAs differentially expressed were validated by qRT-PCR. GO enrichment and KEGG pathway analyses of the potential target genes of the DE miRNAs, revealed DEGs were mainly enriched in immune-related pathways such as Toll-like receptor signaling pathway, RIG-I-like receptor signaling pathway and IL-17 signaling pathway. These findings improve our understanding of the molecular mechanisms of IHNV infection. The study analyzed the immune regulatory target gene pairs and signal pathways of rainbow trout intestine against IHNV infection at the transcriptional level, and provided basic data for the study of rainbow trout against IHNV immune regulatory.

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Integrative mRNA-miRNA interaction analysis associated with the immune response of rainbow trout Oncorhynchus mykiss to infectious hematopoietic necrosis virus infection [RNA-seq]

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