Table 2. Assignment of KEGG level B functional annotations.
On the left panel all prokaryotic maximum likelihood trees were annotated and sorted according to their average verticality score (Vavg). The number of clusters employed for this analysis are indicated (Nclust). The same procedure was performed on the right panel only for conserved protein families–determined by average branch length ≤ 0.1.
| All 101,422 protein families | The 8,547 most conserved protein families | ||||
|---|---|---|---|---|---|
| Function | Vavg | Nclust | Function | Vavg | Nclust |
| Translation | 5.31 | 2,428 | Translation | 14.82 | 284 |
| Metabolism of cofactors and vitamins | 4.86 | 2,443 | Nucleotide metabolism | 10.21 | 160 |
| Nucleotide metabolism | 4.28 | 1,419 | Metabolism of cofactors and vitamins | 7.95 | 199 |
| Amino acid metabolism | 3.83 | 3,777 | Carbohydrate metabolism | 7.23 | 534 |
| Carbohydrate metabolism | 3.63 | 4,836 | Replication and repair | 7.11 | 187 |
| Biosynthesis of other secondary metabolites | 3.62 | 507 | Energy metabolism | 7.07 | 208 |
| Glycan biosynthesis and metabolism | 3.42 | 3,349 | Amino acid metabolism | 7.06 | 438 |
| Metabolism | 3.31 | 4,260 | Folding, sorting and degradation | 6.77 | 118 |
| Energy metabolism | 3.28 | 2,705 | Metabolism of other amino acids | 5.87 | 81 |
| Xenobiotics biodegradation and metabolism | 3.26 | 1,606 | Metabolism | 5.67 | 337 |
| Replication and repair | 3.14 | 3,502 | Enzyme families | 5.53 | 164 |
| Transport and catabolism | 3.02 | 2,843 | Biosynthesis of other secondary metabolites | 5.50 | 25 |
| Metabolism of terpenoids and polyketides | 2.97 | 1,473 | Xenobiotics biodegradation and metabolism | 5.36 | 103 |
| Metabolism of other amino acids | 2.95 | 745 | Glycan biosynthesis and metabolism | 5.33 | 158 |
| Transcription | 2.84 | 7,245 | Signal transduction | 5.10 | 240 |
| Folding, sorting and degradation | 2.79 | 1,873 | Membrane transport | 4.69 | 1,431 |
| Lipid metabolism | 2.65 | 2,864 | Cell motility | 4.37 | 124 |
| Enzyme families | 2.59 | 3,735 | Metabolism of terpenoids and polyketides | 4.31 | 85 |
| Cellular processes and signaling | 2.49 | 3,905 | Transport and catabolism | 4.31 | 143 |
| Signal transduction | 2.48 | 6,712 | Lipid metabolism | 4.20 | 215 |
| Membrane transport | 2.46 | 19,992 | Transcription | 4.12 | 409 |
| Genetic information processing | 2.31 | 4,838 | Cellular processes and signaling | 3.75 | 257 |
| Cellular community prokaryotes | 2.21 | 3,986 | Cellular community prokaryotes | 3.55 | 172 |
| Drug resistance | 2.15 | 1,754 | Genetic information processing | 3.23 | 269 |
| Cell motility | 1.94 | 3,620 | Drug resistance | 3.10 | 88 |
| Poorly characterized | 1.41 | 178,665 | Poorly characterized | 1.68 | 2,970 |