Table 4.
Overrepresented and Underrepresented Gos in the Set of Nuclearly Encoded Mitochondrial Duplicate Genes Compared With the Nuclearly Encoded Mitochondrial Nonduplicate Gene Set
| Ontology Level | Ontology | Adjusted P Valuea | Duplicate Versus Nonduplicate Genesb |
| Overrepresented ontologies in duplicate genes | |||
| Biological process | |||
| Level 3 | Catabolic process (GO:0009056) | 3.35 × 10−3 | 20.19% vs. 5.99% |
| Level 4 | Carbohydrate metabolic process (GO:0005975) | 1.54 × 10−5 | 21.57% vs. 3.53% |
| Generation of precursor metabolites and energy (GO:0006091) | 7.30 × 10−4 | 51.96% vs. 27.92% | |
| Cellular catabolic process (GO:0044248) | 1.46 × 10−3 | 18.63% vs. 4.59% | |
| Level 5 | Chemoorganotrophy (GO:0015980) | 6.00 × 10−6 | 25.88% vs. 3.95% |
| Cofactor catabolic process (GO:0051187) | 6.69 × 10−4 | 16.47% vs. 2.37% | |
| Level 6 | Cellular carbohydrate metabolic process (GO:0044262) | 8.28 × 10−7 | 34.38% vs. 4.85% |
| Acetyl-CoA metabolic process (GO:0006084) | 1.36 × 10−4 | 21.88% vs. 2.91% | |
| Coenzyme catabolic process (GO:0009109) | 1.36 × 10−4 | 21.88% vs. 2.91% | |
| Cellular respiration (GO:0045333) | 1.36 × 10−4 | 21.88% vs. 2.91% | |
| Dicarboxylic acid metabolic process (GO:0043648) | 9.38 × 10−4 | 12.50% vs. 0.49% | |
| Level 7 | Aerobic respiration (GO:0009060) | 1.46 × 10−3 | 26.92% vs. 4.23% |
| Acetyl-CoA catabolic process (GO:0046356) | 1.46 × 10−3 | 26.92% vs. 4.23% | |
| Tricarboxylic acid cycle intermediate metabolic process (GO:0006100) | 5.06 × 10−3 | 15.38% vs. 0.70% | |
| Molecular function | |||
| Level 3 | Oxidoreductase activity (GO:0016491) | 6.61 × 10−3 | 44.68% vs. 25.33% |
| Underrepresented ontologies in duplicate genes | |||
| Biological process | |||
| Level 3 | Biosynthetic process (GO:0009058) | 5.43 × 10−4 | 12.5% vs. 34.15% |
| Level 4 | Cellular biosynthetic process (GO:0044249) | 9.11 × 10−4 | 12.75% vs. 33.57% |
| Cellular macromolecule metabolic process (GO:0044260) | 2.28 × 10−3 | 10.78% vs. 28.98% | |
| Protein metabolic process (GO:0019538) | 2.34 × 10−3 | 11.76% vs. 30.39% | |
| Level 5 | Macromolecule biosynthetic process (GO:0009059) | 7.10 × 10−5 | 2.35% vs. 23.72% |
| Level 6 | Translation (GO:0006412) | 8.50 × 10−7 | 0% vs. 28.64% |
| Molecular function | |||
| Level 3 | Structural constituent of ribosome (GO:0003735) | 4.99 × 10−4 | 0% vs. 13.49% |
| Nucleic acid binding (GO:0003676) | 2.13 × 10−3 | 0% vs. 10.53% | |
a
Only differences significant at one per cent are selected.
b
Percentage of genes in duplicate and nonduplicate gene sets having this particular GO.