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Article: Transcriptomic responses of Atlantic salmon (Salmo salar) to environmental enrichment during juvenile rearing.
Full Text (publisher's website) ; Article Metadata ; Article Data (extracted) Evans ML; Hori TS; Rise ML; Fleming IA PLoS ONE, 2015
The analysis of relative gene transcript abundance among juveniles from each of three families (X11, X22, X35) was performed using the cGRASP-designed 4×44K microarray. Significantly differentially transcribed genes were identified using a FDR = 5%. Fold-changes (enriched/unenriched) in gene transcript abundance are shown across all families and separately for each of the three families. Only genes that were successfully annotated using BLASTx are shown. Up to five GO terms associated with each gene are also indicated.
| Probe ID | Best BLASTx hit |
All families fold-change |
Fold-change(X11) | Fold-change(X22) | Fold-change(X35) | GO terms |
|
|---|---|---|---|---|---|---|---|
| Relatively upregulated enriched | C067R138 | protein-glutamine gamma-glutamyltransferase e-like | 8.55 | 4.21 | 20.72 | 2.21 | Peptide cross-linking (P); protein-glutamine gamma-glutamyltransferase activity (F); metal ion binding (F) |
| C204R103 | cytochrome p450 2m1 | 4.23 | 5.37 | 4.99 | 3.06 | Heme binding (F); iron ion binding (F); oxidoreductase activity (F); organic acid metabolic process (P); small molecular metabolic process (P) | |
| C237R040 | PREDICTED: hypothetical protein LOC324610 | 2.87 | 3.40 | 2.66 | 2.58 | - | |
| C205R145 | claudin-10-like | 2.41 | 3.92 | 1.38 | 2.48 | Structural molecule activity (F); cell junction (C); plasma membrane (C) | |
| C211R110 | complement receptor type 1-like | 2.26 | 1.99 | 2.87 | 2.12 | Receptor activity (F) | |
| C051R138 | hypothetical protein MTR_5g050970 | 2.05 | 2.22 | 1.92 | 2.09 | - | |
| C211R161 | metalloproteinase inhibitor 2 precursor | 2.05 | 2.76 | 2.51 | 1.32 | Metalloendopeptidase inhibitor activity (F); metal ion binding (F); negative regulation of endopeptidase activity (P); extracellular region (C) | |
| C026R035 | protein phosphatase 1 regulatory subunit 14b | 1.90 | 2.82 | 1.43 | 1.52 | Regulation of phosphorylation (P); protein phosphatase inhibitor activity (F); protein phosphatase type 1 regulator activity (F) | |
| C001R030 | metalloproteinase inhibitor 2 precursor | 1.89 | 2.12 | 2.02 | 1.60 | Metalloendopeptidase inhibitor activity (F); metal ion binding (F); negative regulation of endopeptidase activity (P); extracellular region (C) | |
| C155R133 | gtpase imap family member 7 | 1.87 | 2.20 | 1.40 | 2.49 | GTP binding (F); biological process (P); cellular component (C) | |
| Relatively upregulated unenriched | C152R152 |
ependymin-1 precursor | 0.46 | 0.20 | 0.57 | 0.69 | Cell-matrix adhesion (P); calcium ion binding (F); extracellular region (C) |
| C147R072 | asph protein | 0.46 | 0.25 | 0.51 | 0.78 | Negative regulation of cell proliferation (P); face morphogenesis (P); limb morphogenesis (P); endoplasmic reticulum membrane (C); oxidoreductase activity (F) | |
| C228R108 | ttd non-photosensitive 1 protein homolog | 0.46 | 0.25 | 0.49 | 0.95 | None | |
| C233R135 | myosin heavy chain | 0.45 | 0.33 | 0.68 | 0.46 | Metabolic process (P); muscle cell development (P); motor activity (F); myosin complex (C); plasma membrane (P) | |
| C211R037 | ubiquitin thioesterase partial | 0.44 | 0.23 | 0.43 | 0.79 | Cell surface (C) | |
| C113R135 | regulator of chromosome condensation | 0.44 | 0.23 | 0.60 | 0.75 | Nuclear membrane (C); spindle assembly (P); nucleosomal DNA binding (F); mitosis (P); regulation of S phase of mitotic cell cycle (P) | |
| C020R131 | phosphatidylinositol transfer protein beta isoform isoform 2 | 0.31 | 0.22 | 0.46 | 0.42 | Lipid binding (F); in utero embryonic development (P); phosphatidylinositol transported activity (F); Golgi apparatus (C); phospholipid binding (F) | |
| C176R119 | apolipoprotein a-i precursor | 0.15 | 0.16 | 0.07 | 0.59 | Lipid metabolic process (P); lipid transport (P); cholesterol metabolic process (P); cholesterol transport (P); lipid binding (F) | |
| C251R080 | myosin regulatory light chain atrial isoform | 0.10 | 0.06 | 0.12 | 0.13 | Calcium ion binding (F); dendritic spine (C); heart morphogenesis (P); atrial cardiac myofibril assembly (P); cardiac muscle tissue development (P) | |
| C086R103 | myosin light polypeptide 4 | 0.06 | 0.04 | 0.08 | 0.08 | Calcium ion binding (F); sarcomere organization (P); heart morphogenesis (P); ventricular cardiac myofibril assembly (P); cardiac muscle tissue development (P) |
aSignificantly differentially transcribed genes were annotated in Blast2GO using the BLASTx algorithm; the best BLASTx hit (E-value < 10-6) is presented.
b Fold-changes are presented as output from siggenes.
cUp to five examples of GO terms mapped to each microarray probe in Blast2GO are indicated. The associated GO category, biological process (P), molecular function (F), and cellular component (C), is also indicated for each term in parentheses.
*While this gene was initially annotated as ependymin-1, further analyses suggest that contig C152R152 is chimeric (data not shown).
Inferred neuron-electrophysiology data values
| Neuron Type | Neuron Description | Ephys Prop | Extracted Value | Standardized Value | Content Source |
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