Table 2.
Top 20 differentially connected genes associated with amoebic gill disease (AGD) pathology in Atlantic salmon. Data for tissue of maximum expression, differential connectivity between naïve and AGD disease states, and mean expression are shown.
| GeneID | Tissue | TF | ΔConnectivity | DE | Mean | Gene description | Putative role |
|---|---|---|---|---|---|---|---|
| Increased connections in AGD-affected network | |||||||
| 106573105 | G | – | 609 | ✓ | 3.164 | aurora kinase B-like | Inhibit pathogen invasion (69) |
| 106575349 | G | ✓ | 537 | – | 2.374 | zinc finger protein OZF-like | DNA replication under stress |
| 106560250 | HK | – | 524 | ✓ | 1.180 | protein NDNF-like | Inhibit pathogen invasion (70) |
| 106578124 | G | ✓ | 507 | – | 1.597 | zinc finger protein 70-like | Inhibit invasion and proliferation (71) |
| 106562393 | S | ✓ | 490 | – | 1.104 | TOX high mobility group box family member 3-like | Activate CD8+ cytotoxic T lymphocytes; inhibit pathogen invasion (72, 73) |
| 100194566 | S | – | 488 | ✓ | 4.863 | muscle specific ring finger protein 1-like | proteasome-mediated degradation of pathogen proteins (74) |
| 106564566 | G | ✓ | 484 | – | 5.658 | transcription factor jun-B-like | AP-1 signaling in response to pathogen invasion (75) |
| 106586175 | S | – | 483 | ✓ | 5.911 | catalase-like | Tissue repair, oxidative stress response, host invasion (76) |
| 100136550 | G | – | 482 | ✓ | 1.621 | insulin-like growth factor (IGF) 2b | Tissue repair, IGF-mediated pathogen invasion (77) |
| 106608858 | S | – | 470 | ✓ | 3.242 | svep1 sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 | Inhibit invasion and proliferation (78) |
| Decreased connections in AGD-affected network | |||||||
| 100194948 | G | – | -878 | ✓ | 3.307 | CEF-10 | Oxidative stress (79) |
| 106561981 | G | – | -874 | ✓ | 3.161 | CKLF-like MARVEL transmembrane domain-containing protein 4 | Inflammatory response (80) |
| 100136434 | G | – | -799 | ✓ | 3.226 | matrix Gla protein | Chronic inflammation (81, 82) |
| 106587822 | G | – | -797 | ✓ | 1.110 | ceramide synthase 2-like | Inhibit invasion and replication (83) |
| 106575389 | G | ✓ | -789 | – | 2.819 | zinc finger protein 135-like | Cytoskeleton organization (84) |
| 106602777 | G | – | -788 | ✓ | 1.105 | uncharacterized LOC106602777 | Uncharacterized |
| 106573037 | HK | ✓ | -785 | – | 3.052 | HMG box-containing protein 1-like | P13K/Akt and wnt pathway; pathogen invasion (85, 86) |
| 106602470 | G | ✓ | -774 | – | 2.380 | Krueppel-like factor 9 | Inhibits IGF-mediated invasion of tissue (87) |
| 106572685 | G | – | -760 | ✓ | 3.391 | rho guanine nucleotide exchange factor 25-like | Promote tissue invasion (88) |
| 106578385 | HK | ✓ | -754 | – | 5.824 | protein disulfide isomerase family A, member 4 | MHCI/antigenic peptides (89) |
TF, transcription factor; DE, gene differential expression; G, gill; HK, head kidney; S, spleen.
DE, gene differential expression.