Salmo salar
Ontology highlight
ABSTRACT:
PROVIDER: PRJNA394761 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR5833600.fastq.gz | Fastqsanger.gz | |||
| SRR5833610.fastq.gz | Fastqsanger.gz | |||
| SRR5833601.fastq.gz | Fastqsanger.gz | |||
| SRR5833611.fastq.gz | Fastqsanger.gz | |||
| SRR5833602.fastq.gz | Fastqsanger.gz |
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Project description:Deciphering the dietary immunomodulatory effects of a feed additive rich in verbascoside and triterpenic compounds like ursolic (MPLE, NATAC Biotech SL, Spain) on the systemic immune response and disease resistance of Atlantic salmon (Salmo salar L.) smolts.
2024-09-20 | GSE184485 | GEO
Project description:Seaweeds may represent immunostimulants that could be used as health-promoting fish feed components thereby offering an alternative for the use of antibiotics. This study was performed to gain insights into the immunomodulatory effects of dietary seaweeds in Atlantic salmon. Specifically tested were 10% inclusion levels of Laminaria digitata (SW1) and a commercial blend of seaweeds (Oceanfeed®) (SW2) against a fishmeal based control diet (FMC). Differences between groups were assessed in growth, feed conversion ratio (FCR) and blood parameters hematocrit (Hct) and hemoglobin (Hb). After a LPS challenge of fish representing each of the three groups, RNAseq was performed on head kidneys to determine transcriptomic differences in response to the immune activation, to our knowledge for the first time in fish in this context. Atlantic salmon fed with dietary seaweeds showed slightly higher FCRs and more homogenous growth but in general no major differences in performance in comparison with fishmeal fed fish. RNAseq resulted in ~154 million reads which were mapped against a NCBI Salmo salar reference and against a de novo assembled Salmo salar reference for analyses of expression of immune genes and ontology of immune processes among the 87,600 cDNA contigs. The dietary seaweeds provoked a more efficient immune response which involved more efficient identification of the infection site, and processing and presentation of antigens. More specifically, chemotaxis and the chemokine-mediated signaling pathway with involvement of genes such as C-C motif chemokine 19 were improved and the defense response to Gram-positive bacterium reduced. The predicted integrin alpha-2-like gene had by far the highest up-regulated expression and may therefore represent a key marker gene of the LPS immune response in salmonids. Specific Laminaria digita effects included reduction of the cytokine-mediated signalling pathway as indicated by the cytokine macrophage migration inhibitory factor, and interferon-gamma-mediated signalling as indicated by STAT1 and the gamma-interferon-inducible lysosomal thiol reductase precursor. Highly upregulated and specific for this diet was the expression of Major histocompatibility complex class I-related gene protein. The commercial blend of seaweeds caused more differential expression than Laminaria digita and improved immune processes such as receptor-mediated endocytosis, inflammatory response, cell adhesion and response to lipopolysaccharide. Particularly expression of many important immune receptors was up-regulated illustrating increased responsiveness. NF-kappa-B inhibitor alpha is an important gene that marked the difference between both seaweed diets as Laminaria digita inhibits the production of this cytokine while the blend of seaweeds stimulates it. It can be concluded that replacing fishmeal partly with seaweeds such as Laminaria digita can have important modulatory effects on the immune capacity of Atlantic salmon resulting in a more efficient immune response.
2018-06-14 | GSE101545 | GEO
Project description:Norway is the largest producer and exporter of farmed Atlantic salmon (Salmo salar) worldwide. Skin disorders correlated with bacterial infections represent an important challenge for fish farmers due to the economic losses caused. Little is known about this topic, thus studying the skin-mucus of Salmo salar and its bacterial community depict a step forward in understanding fish welfare in aquaculture. In this study, we used label free quantitative mass spectrometry to investigate the skin-mucus proteins associated with both Atlantic salmon and bacteria. In addition, the microbial temporal proteome dynamics during 9 days of mucus incubation with sterilized seawater was investigated, in order to evaluate their capacity to utilize mucus components for growth in this environment.
2019-07-15 | PXD008838 | Pride
Project description:The present study aimed to identify the persistent molecular changes occurring in Atlantic Salmon salmon (Salmo salar) eggs after 24h exposure to high concentrations (5000 mg/L) of road salt at fertilization.
2015-08-05 | GSE71714 | GEO
Project description:The present study aimed to identify the persistent molecular changes occurring in Atlantic Salmon salmon (Salmo salar) eggs after 24h exposure to high concentrations (5000 mg/L) of road salt at fertilization. Atlantic Salmon (Salmo salar) eggs after fertilization were exposed to high concentrations (5000 mg/L) of road salt for 24 h and used for gene expression analysis.
2015-08-05 | E-GEOD-71714 | biostudies-arrayexpress
Project description:Atlantic salmon (Salmo salar L.) is an environmentally and economically important organism and its gene content is reasonably well characterized. From a transcriptional standpoint, it is important to characterize the normal changes in gene expression over the course of early development, from fertilization through to the parr stage.S. salar samples were taken at 17 time points from 2 to 89 days post fertilization. Total RNA was extracted and cRNA was synthesized and hybridized to a new 44K oligo salmonid microarray platform. Quantified results were subjected to preliminary data analysis and submitted to NCBI’s Gene Expression Omnibus. Throughout the entire period of development, several thousand genes were found to be differentially regulated. This work represents the trancriptional characterization of a very large geneset that will be extremely valuable in further examination of the transcriptional changes in Atlantic salmon during the first few months of development. The expression profiles can help to annotate salmon genes in addition to being used as references against any number of experimental variables that developing salmonids might be subjected to.
2010-12-10 | GSE25938 | GEO
Project description:To study the short term (48 h) hepatic transcriptional changes and identify potential modes of action, Atlantic salmon (Salmo salar) were exposed to 0.25 mg/L, 0.5 mg/L and 1.0 mg/L depleted uranium. A combination of high density (60 k) custom oligonucleotide salmonid miacroarray and quantitative real-time reverse transcription polymerase chain reaction (qPCR) was employed to perform gene expression analyses. Differentially expressed genes (DEGs) were determined using one-way analysis of variance (ANOVA) and Tukey posthoc tests. Functional enrichment analysis based on Gene Ontology (GO) was performed to link DEGs to their biological functions. The Salmo salar DEGs were further mapped to mammlian orthologs. By using ortholog DEGs, gene networks were built based on well-curated mammlian protein-protein interactions and pathways analyses were performed to link DEGs to specific toxicological/biological functions. The results obtained from microarray analysis were further verified using qPCR.
2014-06-26 | GSE58824 | GEO
Project description:To study the short-term hepatic transcriptional changes and identify potential modes of action, Atlantic salmon (Salmo salar) were exposed to 70 mGy external gamma radiation, 0.25 mg/L depleted uranium and combination of these two. A combination of high density (60 k) custom oligonucleotide salmonid microarray and quantitative real-time reverse transcription polymerase chain reaction (qPCR) was used to perform gene expression analyses. Differentially expressed genes (DEGs) were determined using one-way analysis of variance (ANOVA) and Tukey posthoc tests. Functional enrichment analysis based on Gene Ontology (GO) was performed to link DEGs to their biological functions. The Salmo salar DEGs were further mapped to mammlian orthologs. By using ortholog DEGs, gene networks were built based on well-curated mammlian protein-protein interactions and pathways analyses were performed to link DEGs to specific toxicological/biological functions. The results obtained from microarray analysis were further verified using qPCR.
2015-10-14 | GSE74012 | GEO