Table 1.
Results of gene set analysis of gene expression responses to environmental stress in Pomacentrus moluccensis
| Gene Ontology/GO ID | # of probes on array | # of genes on array | p-value (FDR-corrected) | ||||||
| 31°C 5 d | 22°C 3 h | 31°C 3 h | 34°C 3 h sum. | 34°C 3 h winter | Hypoxia | Hyposm. | |||
| Cell growth and Cytoskeleton | |||||||||
| Actin cytoskeleton organization/GO:0030036 | 253 | 81 | 0.019 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.013 |
| Anti-apoptosis/GO:0006916 | 76 | 72 | 0.017 | 0.000 | 0.079 | 0.033 | 0.025 | 0.000 | 0.065 |
| Induction of apoptosis/GO:0006917 | 75 | 73 | 0.001 | 0.001 | 0.034 | 0.007 | 0.002 | 0.220 | 0.000 |
| Cell growth/GO:0016049 | 65 | 63 | 0.044 | 0.000 | 0.454 | 0.000 | 0.001 | 0.075 | 0.167 |
| Mitotic cell cycle/GO:0000278 | 30 | 30 | 0.106 | 0.082 | 0.572 | 0.127 | 0.027 | 0.069 | 0.417 |
| Protein turnover | |||||||||
| Regulation of translation/GO:0006445 | 82 | 81 | 0.000 | 0.000 | 0.002 | 0.005 | 0.000 | 0.001 | 0.012 |
| Ubiquitin-dependent protein catabolism/GO:0006511 | 98 | 96 | 0.200 | 0.092 | 0.024 | 0.002 | 0.001 | 0.003 | 0.011 |
| Protein folding/GO:0006457 | 75 | 74 | 0.000 | 0.191 | 0.005 | 0.000 | 0.002 | 0.000 | 0.446 |
| Metabolism | |||||||||
| Carbohydrate metabolism/GO:0005975 | 67 | 67 | 0.057 | 0.217 | 0.076 | 0.011 | 0.000 | 0.001 | 0.088 |
| Lipid metabolism/GO:0006629 | 75 | 75 | 0.001 | 0.113 | 0.007 | 0.000 | 0.000 | 0.127 | 0.018 |
| Glycolysis/GO:0006096 | 31 | 31 | 0.319 | 0.598 | 0.304 | 0.127 | 0.009 | 0.086 | 0.226 |
| Gluconeogenesis/GO:0006094 | 21 | 21 | 0.644 | 0.408 | 0.353 | 0.154 | 0.013 | 0.087 | 0.430 |
| Stress | |||||||||
| Response to pest, pathogen or parasite/GO:0009613 | 92 | 89 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.000 | 0.024 |
| Response to temperature stimulus/GO:0009266 | 57 | 52 | 0.023 | 0.148 | 0.001 | 0.000 | 0.010 | 0.163 | 0.225 |
| Osmoregulation GO:0018987 | 16 | 16 | 0.272 | 0.136 | 0.162 | 0.035 | 0.067 | 0.457 | 0.178 |
| Response to oxidative stress/GO:0006979 | 22 | 22 | 0.072 | 0.306 | 0.274 | 0.270 | 0.865 | 0.273 | 0.239 |
| Other | |||||||||
| DNA repair/GO:0006281 | 84 | 84 | 0.115 | 0.040 | 0.291 | 0.081 | 0.000 | 0.068 | 0.365 |
| Hemoglobin complex/GO:0005833 | 16 | 11 | 0.017 | 0.651 | 0.227 | 0.027 | 0.050 | 0.151 | 0.446 |
For each gene ontology an aggregate score was computed based on the p-values for differential expression of the genes in that category. The significance of the resulting gene set score was determined by random sampling of the data using the software ermineJ [72]. P-values are FDR-corrected with values smaller than 0.1 indicated in bold. "3 h" indicates three hour exposure,"5 d" five day exposure to stressor, 'sum." refers to exposure experiments performed in summer, "Hyposm." refers to hyposmotic exposure experiments.