Table 3. Selection of transcripts with highest correlation to transcript co-expression module eigengene (module membership, MM) in the pink consensus module identified in Aplysia californica sensory neurons by WGCNA.
| RefSeq ID | MM | MM p value | TAS | TAS p value | Human Ortholog | Ortholog Name | Ortholog Function |
|---|---|---|---|---|---|---|---|
| XM_005111489.2** | 0.95 | 1.8E-36 | 0.66 | 1.4E-10 | NFKBIA | NF-kappa-B inhibitor alpha | NF-kappa-B inhibition [81], anti-inflammatory [82] |
| XM_005111747.2**! | 0.93 | 0.74 | 6.8E-14 | BIRC3 | Baculoviral IAP repeat-containing protein 3 | E3 ubiquitin-protein ligase, NF-kappa-B signaling regulation [83], innate immunity regulation [84] | |
| XM_005106964.2* | 0.84 | 4.1E-32 | 0.56 | 2.3E-20 | |||
| XM_013081148.1 | 0.78 | 3.15E-16 | 0.48 | 2.1E-05 | |||
| XM_005098591.2** | 0.93 | 1.5E-31 | 0.68 | 5.6E-11 | ZUP1 | Zinc finger-containing ubiquitin peptidase 1 | Deubiquitination, DNA damage, replication stress [85] |
| XM_005098861.2 | 0.92 | 1.2E-30 | 0.63 | 2.3E-09 | UBC | Polyubiquitin-C (Fragment) | Ubiquitination [86] |
| XM_005098862.2 | 0.87 | 5.6E-23 | 0.53 | 1.7E-06 | |||
| XM_005105067.2**! | 0.91 | 6.5E-29 | 0.65 | 7.3E-10 | HERC4 | Probable E3 ubiquitin-protein ligase HERC4 | E3 ubiquitin-protein ligase [87] |
| XM_005112342.2** | 0.91 | 6.6E-29 | 0.66 | 1.4E-10 | ZNF343 | Zinc finger protein 343 | transcriptional regulation |
| XM_005108387.2** | 0.91 | 2.1E-28 | 0.63 | 1.7E-09 | ACP7 | Acid phosphatase type 7 | Iron transport, innate immunity, ROS generation [88] |
| XM_005092478.2* | 0.90 | 7.5E-27 | 0.47 | 2.4E-05 | INTS1 | Integrator complex subunit 1 | snRNA [89], eRNA [90], transcriptional attenuation [91,92] |
| XM_005097515.2** | 0.90 | 9.3E-27 | 0.63 | 2.3E-09 | GM2A | Ganglioside GM2 activator | Ganglioside metabolism [93] |
| XM_005111000.2** | 0.90 | 1.3E-26 | 0.61 | 1.1E-08 | GCN1 | eIF-2-alpha kinase activator GCN1 | Global translation repression, gene-specific mRNA translation [94] |
| XM_005090686.2** | 0.89 | 5.2E-26 | 0.60 | 2.4E-08 | SLC16A5 | Monocarboxylate transporter 6 | Glucose and lipid metabolism, possible immune regulation [95] |
| XM_005104555.2** | 0.89 | 6.9E-26 | 0.59 | 3.5E-08 | EFL1 | Elongation factor-like GTPase 1 | Ribosome biogenesis [96] |
| XM_005093568.2** | 0.89 | 7.1E-26 | 0.53 | 1.3E-06 | NAT10 | RNA cytidine acetyltransferase | Ribosome biogenesis [97], E3 ubiquitin-protein ligase, cellular stress sensor [98], translation efficiency [99] |
| XM_005095929.2** | 0.89 | 8.2E-26 | 0.58 | 7.5E-08 | MOS | Proto-oncogene serine/threonine-protein kinase mos | Serine/threonine-protein kinase, MAPK pathway [100] |
| XM_005093424.2*! | 0.89 | 1.8E-25 | 0.66 | 1.5E-10 | BIRC7 | Baculoviral IAP repeat-containing protein 7 | E3 ubiquitin-protein ligase, apoptosis inhibitor [101] |
| XM_005094992.2*! | 0.81 | 2.81E-18 | 0.66 | 1.9E-10 | |||
| XM_005102721.2* | 0.89 | 2.0E-25 | 0.63 | 3.4E-09 | GIMAP4 | GTPase IMAP family member 4 | Apoptosis [102], cytokine signaling [103] |
| XM_005106556.2** | 0.88 | 6.1E-25 | 0.60 | 2.3E-08 | ETF1 | Eukaryotic peptide chain release factor subunit 1 | Translation termination [104] |
| XM_005093041.2 | 0.88 | 1.3E-24 | 0.62 | 5.5E-09 | RNASET2 | Ribonuclease T2 | Innate immunity [105], mtRNA degradation [106] |
| XM_005104568.2** | 0.88 | 3.1E-24 | 0.61 | 1.0E-08 | PLIN2 | Perilipin-2 | Lipid storage, ROS defense [107] |
| XM_013087467.1** | 0.88 | 3.2E-24 | 0.60 | 1.7E-08 | EIF4A2 | Eukaryotic initiation factor 4A-II | Translation initiation [108], Translation inhibition [109] |
| XM_013087273.1** | 0.87 | 7.7E-24 | 0.56 | 2.4E-07 | HEATR1 | HEAT repeat-containing protein 1 | Ribosome biogenesis [110] |
| XM_005101849.2 | 0.87 | 8.5E-24 | 0.57 | 1.3E-07 | EXOSC10 | Exosome component 10 | RNA metabolism [111] |
| XM_005099415.2** | 0.87 | 1.1E-23 | 0.63 | 2.3E-09 | DUSP7 | Dual specificity protein phosphatase 7 | MAPK pathway [112] |
| XM_005088796.2**! | 0.87 | 1.2E-23 | 0.64 | 1.4E-09 | IRF8 | Interferon regulatory factor 8 | Microglia activation and neuroinflammation [113] |
| XM_013084591.1** | 0.87 | 1.6E-23 | 0.64 | 1.5E-09 | PSAP | Prosaposin | Sphingolipid metabolism [114] |
| XM_013087976.1** | 0.87 | 2.9E-23 | 0.60 | 1.9E-08 | EEF2 | Elongation factor 2 | Translation [115] |
| XM_005097092.2** | 0.86 | 6.1E-23 | 0.66 | 2.1E-10 | CTSL | Cathepsin L1 | Lysosomal protease [116], neuropeptide processing [117] |
| XM_005094650.2*! | 0.86 | 6.8E-23 | 0.69 | 2.1E-11 | CYLD | Ubiquitin carboxyl-terminal hydrolase CYLD | NF-kappa-B regulation, deubiquitination [118], Negative regulation of innate immunity [119] |
| XM_005090468.2** | 0.86 | 9.1E-23 | 0.71 | 2.6E-12 | PDE12 | 2’,5’-phosphodiesterase 12 | Negative regulation of innate immunity |
| XM_005099805.2* | 0.86 | 1.3E-22 | 0.49 | 9.2E-06 | CASP3 | Caspase-3 | Apoptosis [120] |
| XM_013087138.1** | 0.86 | 2.6E-22 | 0.50 | 6.1E-06 | GRN | Granulins | Lysosome biogenesis and homeostasis [121] |
| XM_013083177.1** | 0.85 | 6.4E-22 | 0.59 | 5.0E-08 | SIGIRR | Single Ig IL-1-related receptor | Negative regulation of immune signaling [122] |
| XM_005110683.2** | 0.84 | 2.0E-20 | 0.62 | 5.0E-09 | FTH1 | Ferritin heavy chain | Iron storage, ROS defense [123] |
| XM_013089050.1* | 0.81 | 1.8E-18 | 0.56 | 3.2E-07 | MAP3K8 | Mitogen-activated protein kinase kinase kinase 8 | MAPK signaling, NFkB signaling [124] |
| XM_005112843.2**! | 0.81 | 2.2E-18 | 0.50 | 6.3E-06 | RIOK1 | Serine/threonine-protein kinase RIO1 | Ribosome biogenesis [125], p38 MAPK innate immune response suppressor [126] |
| XM_005105539.2* | 0.8 | 2.3E-17 | 0.45 | 6.9E-05 | RIOK3 | Serine/threonine-protein kinase RIO3 | Ribosome biogenesis [127], INF signaling [128], NFkB inhibitor [129], innate immune response [130] |
| XM_005102490.2* | 0.79 | 8.4E-17 | 0.60 | 1.6E-08 | JKAMP | JNK1/MAPK8-associated membrane protein | MAPK signaling, inhibits MAPK8 [131] |
| XM_005092503.2** | 0.78 | 2.3E-16 | 0.66 | 2.3E-10 | TNIP1 | TNFAIP3-interacting protein 1 | NFkB inhibitor [132,133] |
| XM_013087081.2* | 0.78 | 5.3E-16 | 0.48 | 2.15E-05 | DUOX1 | Dual Oxidase 1 | ROS production [134] |
| XM_013088029.1! | 0.69 | 1.3E-11 | 0.54 | 8.6E-07 |
See Table 2 for description of organization. Transcripts are marked with “*” if they were among significantly upregulated transcripts in Kron et al 2020 [24] in one neuron type and with “**” if in both. Transcripts identified as orthologs to genes differentially expressed due to immune challenge in C. gigas are marked with a “!”in the first column. Common categories include ubiquitination, NFkB signaling, innate immunity, ribosome biogenesis, and regulation of transcription and translation. This module was positively correlated with age, suggesting these processes are upregulated in aging.