Table 5.
List of selected transcripts significantly modulated in the HK of fish injected with poly(I:C) and dependant on prior feeding regime. The selection was based on the results of the GO analysis (Fig. 7)
| Trait | SeC | SeP | CP | SeP5 | Acc. Number6 | Identity7 | HGNC | Gene Function9 |
|---|---|---|---|---|---|---|---|---|
| Identifier1 | HK2 | HK3 | HK4 | CP | symbol8 | |||
| CUST_201_ | −1.2 | 19.2 | 5.9 | 2.7 | FM864346.1 | Interferon gamma2 | IFNG | Positive regulation of interleukin-12 production |
| PI429021944 | ||||||||
| IMM 478 | −1.1 | 15.1 | 8.0 | 1.7 | NM_001124446 | Glycogen synthase kinase binding protein | GBP1 | Response to interferon-gamma |
| IMM 851 | 1.0 | 13.5 | 6.8 | 2.0 | AF401631 | TNF decoy receptor | TNFRSF6B | Regulation of cellular response to stress |
| TC151161 | −1.1 | 9.4 | 4.9 | 1.7 | BT072291 | Salmo salar clone ssal-rgf-519–364, | MAVS | Positive regulation of chemokine production |
| unknown large open reading frame | Response to exogenous dsRNA | |||||||
| TC160031 | −1.3 | 7.6 | 2.8 | 2.1 | BT058838 | Metalloproteinase inhibitor 3 | TIMP3 | Response to organic substance |
| TC132324 | −1.1 | 5.6 | 3.3 | 1.5 | NM_001124412 | Toll-like receptor 22 | TLR3 | Positive regulation of interleukin-12 production |
| Positive regulation of chemokine production | ||||||||
| TC144460 | −1.2 | 5.5 | 2.7 | 1.7 | BT074153 | Sorcin | SRI | Regulation of transcription factor import into nucleus |
| Cellular transition metal ion homeostasis | ||||||||
| TC138806 | −2.5 | 5.4 | 2.0 | 1.1 | EU481821 | Salmo salar physical map contig 483 genomic sequence | NR2F2 | Positive regulation of macromolecule metabolic process |
| Regulation of DNA binding | ||||||||
| TC142451 | −1.5 | 4.5 | 1.8 | 1.6 | BT048169 | Lipopolysaccharide-induced tumor necrosis factor-alpha factor | LITAF | Regulation of transcription factor import into nucleus |
| Regulation of NF-kappaB import into nucleus | ||||||||
| TC144371 | −1.3 | 4.1 | 2.4 | 1.3 | NM_001124746 | Transducer/activator of transcription | STAT1 | Response to exogenous dsRNA |
| Response to interferon-gamma | ||||||||
| TC155255 | −1.4 | 3.9 | 1.3 | 2.2 | BT072728 | B-cell lymphoma 3-encoded protein | BCL3 | Regulation of transcription factor import into nucleus |
| Regulation of NF-kappaB import into nucleus | ||||||||
| TC155255 | −1.4 | 3.9 | 1.3 | 2.2 | BT072728 | B-cell lymphoma 3-encoded protein | BCL3 | Regulation of transcription factor import into nucleus |
| Regulation of NF-kappaB import into nucleus | ||||||||
| TC148036 | −1.2 | 3.4 | 2.5 | 1.2 | NM_001165385 | Macrosialin | SSC5D | Response to molecule of bacterial origin |
| TC164429 | −1.2 | 2.4 | 1.4 | 1.5 | FR751081 | Caspase 3 | CASP3 | Neurotrophin TRK receptor signaling pathway |
| CUST_118_ | −1.1 | 2.4 | 1.5 | 1.5 | NM_001124438 | Interferon regulatory factor 2 | IRF2 | Response to interferon-gamma |
| _PI420312184 | ||||||||
| TC162287 | −1.2 | 2.4 | 1.7 | 1.2 | not-annotated | not-annotated | RIPK2 | Positive regulation of interleukin-12 production |
| Positive regulation of chemokine production | ||||||||
| TC161320 | −1.2 | 2.2 | 1.5 | 1.2 | BT057463 | Proteasome subunit alpha type-6 putative | PSMA6 | Regulation of G1/S transition of mitotic cell cycle |
| CUST_75 | −1.0 | 2.1 | 1.6 | 1.3 | GQ169787.1 | TNF receptor superfamily member 5A | CD40 | Positive regulation of interleukin-12 production |
| _PI429021944 | ||||||||
| TC137335 | −1.5 | −1.2 | −2.2 | 1.2 | not-annotated | not-annotated | ECT2 | Maintenance of protein location in cell |
| Positive regulation of I-kappaB kinase/NF-kappaB signaling | ||||||||
| TC141297 | −1.6 | −1.2 | −2.4 | 1.2 | BT073959 | Proteasome subunit beta type 1-A | PSMB1 | Regulation of G1/S transition of mitotic cell cycle |
| Antigen processing and presentation of peptide antigen | ||||||||
| TC144499 | −1.2 | −1.4 | −2.2 | 1.3 | NM_001165391 | Cyclin D1 | CCND1 | Regulation of G1/S transition of mitotic cell cycle |
| response to nutrient | ||||||||
| TC134399 | −1.3 | −1.5 | −2.1 | 1.1 | BT072801 | Mitogen-activated protein kinase 7-interacting protein homolog 2 | TAB2 | Toll-like receptor signaling pathway |
| MyD88-dependent toll-like receptor signaling pathway | ||||||||
| TC145638 | −1.4 | −1.5 | −2.4 | 1.1 | BT027690 | CGX87-B08 | TTK | Positive regulation of signal transduction |
| Positive regulation of cell proliferation | ||||||||
| TC142766 | −1.4 | −1.5 | −2.4 | 1.1 | FP236858 | Zebrafish DNA sequence from clone CH73-339E3 | TJP1 | Response to molecule of bacterial origin |
| Response to lipopolysaccharide | ||||||||
| TC168733 | −1.5 | −1.5 | −2.5 | 1.1 | BT059118 | Choline transporter-like protein 2 | SLC44A2 | Regulation of I-kappaB kinase/NF-kappaB signaling |
| Positive regulation of I-kappaB kinase/NF-kappaB signaling | ||||||||
| TC159957 | −1.7 | −1.7 | −3.1 | 1.1 | BT072217 | Fibronectin | FN1 | Defence response |
| Response to wounding | ||||||||
| TC132905 | 3.0 | 1.5 | 3.4 | 1.3 | NM_001124288 | Hypoxia-inducible factor 1 alpha subunit | HIF1A | Regulation of chemokine production |
| positive regulation of chemokine production | ||||||||
| TC156038 | 1.5 | 1.5 | 2.5 | −1.2 | BT044876 | Ras-related C3 botulinum toxin substrate 1 precursor | RAC1 | Positive regulation of protein polymerization |
| TC169458 | 1.9 | 1.8 | 2.5 | 1.4 | BT074060 | NF-kappa-B inhibitor alpha | NFKBIA | Regulation of NF-kappaB import into nucleus |
| Response to exogenous dsRNA | ||||||||
| TC135280 | 1.5 | 1.6 | 2.4 | 1.0 | BT044949 | Tyrosine-protein kinase HCK | HCK | Positive regulation of protein polymerization |
| Regulation of actin filament polymerization | ||||||||
| TC151093 | 1.2 | 1.5 | 2.3 | −1.2 | BT044981 | Histone deacetylase 3 | HDAC3 | Neurotrophin TRK receptor signaling pathway |
| TC137681 | 1.7 | 1.3 | 2.3 | −1.1 | BT045910 | Mitogen-activated protein kinase-activated | MAPKA | Regulation of tumor necrosis factor production |
| Regulation of interleukin-6 production | ||||||||
| TC148701 | 1.7 | −1.0 | 2.1 | −1.2 | NM_001171899 | Red cell arrestin 2 | ARRB2 | Regulation of interleukin-12 production |
| Regulation of tumor necrosis factor production | ||||||||
| TC135368 | 1.4 | 1.0 | 2.1 | −1.4 | NM_001172498 | CCAAT/enhancer binding protein beta2 | CEBPB | Regulation of interleukin-6 production |
| IMM 136 | 1.8 | 1.1 | 2.0 | −1.0 | AJ620466 | Complement receptor-like protein 1 splice variant 2 | CD55 | Response to molecule of bacterial origin |
| Response to lipopolysaccharide | ||||||||
| IMM 505 | 1.6 | 1.1 | 2.0 | −1.1 | DQ399551 | Dual specificity phosphatase 6 (dusp6) | DUSP6 | Toll-like receptor signaling pathway |
| MyD88-dependent toll-like receptor signaling pathway | ||||||||
| TC167434 | 1.8 | 1.1 | 2.0 | 1.0 | NM_001140341 | Sequestosome-1 | SQSTM1 | regulation of I-kappaB kinase/NF-kappaB signaling |
| neurotrophin TRK receptor signaling pathway | ||||||||
| TC132407 | 1.5 | 1.2 | 2.0 | −1.1 | NM_001124559 | cAMP-dependent transcription factor | ATF1 | toll-like receptor signaling pathway |
| MyD88-dependent toll-like receptor signaling pathway | ||||||||
| IMM 223 | 1.5 | −2.0 | −1.2 | −1.1 | BT047880 | Heme oxygenase putative mRNA | HMOX1 | regulation of chemokine production |
| cellular transition metal ion homeostasis |
Genes with corresponding microarray feature code1 found involved in a biological process significantly altered by the experimental diet in the HK were selected. If the transcripts were significantly modulated also in fish fed the experimental diet enriched with 4 mg Se Kg−1 and injected with poly(I:C)3, or in the same tissue of fish fed the control diet and injected with poly(I:C)4, these values are given. Also the fold change of the expression of the same targets between these last two groups is reported, as given from Genespring software5. All the transcripts shown were significantly modulated at p < 0.05 following the Benjamini–Hochberg correction and had a fold change ≥2. Accession numbers of the cDNA sequences6, their identity7 and the corresponding human orthologue8 determined by BLASTx within the Ensemble database are reported. For each gene the function assigned by ClueGO software is also indicated. SeC represents the groups comparison addressed to analyse the effects of the 4 mg Se Kg−1 diet. CP and SeP instead represent the comparisons addressed to analyse the effect of poly(I:C) stimulation on fish fed either a control diet or the experimental diet respectively