Table 2. Comparative distribution of ORF function among selected free-living organisms.
| cv* | bs* | ec* | dr* | tm* | pa* | sc* | xcc* | pp* | |
|---|---|---|---|---|---|---|---|---|---|
| cog categories | |||||||||
| C, energy production and conversion | 204 | 168 | 275 | 110 | 109 | 305 | 345 | 182 | 299 |
| 4.6% | 4.0% | 6.4% | 4.1% | 5.8% | 5.5% | 4.4% | 4.4% | 6.7% | |
| D, cell division and chromosome partitioning | 41 | 34 | 34 | 19 | 18 | 32 | 46 | 39 | 48 |
| 0.9% | 0.8% | 0.7% | 0.7% | 2.8% | 0.6% | 0.6% | 0.9% | 1.1% | |
| E, amino acid transport and metabolism | 334 | 291 | 350 | 202 | 177 | 477 | 425 | 229 | 491 |
| 7.5% | 7.0% | 8.1% | 7.6% | 9.5% | 8.6% | 5.4% | 5.5% | 11.1% | |
| F, nucleotide transport and metabolism | 79 | 82 | 87 | 69 | 49 | 101 | 102 | 63 | 85 |
| 1.8% | 1.9% | 2.0% | 2.6% | 2.6% | 1.8% | 1.3% | 1.5% | 1.9% | |
| G, carbohydrate transport and metabolism | 205 | 289 | 367 | 95 | 160 | 223 | 539 | 217 | 242 |
| 4.6% | 7.0% | 8.5% | 3.6% | 8.6% | 4.0% | 6.9% | 5.2% | 5.5% | |
| H, coenzyme metabolism | 152 | 106 | 123 | 66 | 47 | 150 | 172 | 115 | 164 |
| 3.4% | 2.5% | 2.8% | 2.5% | 2.5% | 2.7% | 2.2% | 2.7% | 3.7% | |
| I, lipid metabolism | 118 | 88 | 83 | 72 | 24 | 195 | 213 | 109 | 162 |
| 2.7% | 2.1% | 1.9% | 2.7% | 1.2% | 3.5% | 2.7% | 2.6% | 3.6% | |
| J, translation, ribosomal structure, and biogenesis | 168 | 243 | 258 | 211 | 178 | 326 | 205 | 162 | 171 |
| 3.7% | 5.9% | 6.0% | 8.0% | 9.5% | 5.9% | 2.6% | 3.9% | 3.9% | |
| K, transcription | 270 | 289 | 280 | 118 | 73 | 447 | 713 | 187 | 392 |
| 6.1% | 7.0% | 6.5% | 4.4% | 4.6% | 8.0% | 9.1% | 4.5% | 8.9% | |
| L, DNA replication, recombination, and repair | 143 | 133 | 220 | 119 | 87 | 140 | 233 | 252 | 240 |
| 3.2% | 3.2% | 5.1% | 4.5% | 0.9% | 2.5% | 3.0% | 6.0% | 5.4% | |
| M, cell envelope biogenesis, outer membrane | 222 | 178 | 235 | 78 | 70 | 257 | 258 | 217 | 244 |
| 5.0% | 4.3% | 5.4% | 2.9% | 3.7% | 4.6% | 3.3% | 5.2% | 5.5% | |
| N, cell motility and secretion | 255 | 54 | 107 | 11 | 56 | 141 | 68 | 183 | 177 |
| 5.8% | 1.3% | 2.5% | 0.4% | 3.0% | 2.5% | 0.9% | 4.4% | 4.0% | |
| O, Posttranslational modification, protein turnover, chaperones | 134 | 98 | 128 | 89 | 52 | 182 | 159 | 148 | 158 |
| 3.0% | 2.3% | 2.9% | 3.3% | 2.8% | 3.3% | 2.0% | 3.5% | 3.6% | |
| P, inorganic ion transport and metabolism | 159 | 161 | 191 | 81 | 69 | 293 | 195 | 187 | 233 |
| 3.6% | 3.9% | 4.4% | 3.0% | 3.7% | 5.3% | 2.5% | 4.5% | 5.3% | |
| Q, secondary metabolites biosynthesis, transport, and catabolism | 130 | 88 | 68 | 44 | 18 | 173 | 290 | 122 | 181 |
| 2.9% | 2.1% | 1.5% | 1.6% | 0.9% | 3.1% | 3.7% | 2.9% | 4.1% | |
| R, general function prediction only | 358 | 348 | 338 | 241 | 191 | 491 | 609 | 332 | 458 |
| 8.0% | 8.6% | 7.9% | 9.1% | 10% | 8.8% | 7.8% | 7.9% | 10.4% | |
| S, function unknown | 250 | 308 | 309 | 220 | 130 | 459 | 299 | 209 | 329 |
| 5.6% | 7.4% | 7.2% | 8.3% | 7.0% | 8.2% | 3.8% | 5.0% | 7.4% | |
| T, Transduction mechanisms | 304 | 121 | 134 | 75 | 50 | 233 | 390 | 194 | 345 |
| 6.4% | 2.9% | 3.1% | 2.8% | 2.6% | 4.2% | 5.0% | 4.6% | 7.8% | |
| Not in cogs | 1162 | 1033 | 692 | 709 | 300 | 942 | 2564 | 1035 | 931 |
| 24% | 25% | 16% | 26% | 16% | 16.9% | 32.8% | 24.8% | 17.4% | |
| Total no. of ORFs | 4431 | 4112 | 4279 | 2629 | 1858 | 5567 | 7825 | 4182 | 5350 |
| Genome size, Mb | 4.75 | 4.21 | 4.64 | 2.65 | 1.86 | 6.26 | 8.67 | 5.08 | 6.18 |
| ORFs/100 kb | 93.22 | 97.56 | 92.25 | 99.30 | 99.90 | 88.88 | 90.33 | 82.44 | 86.54 |
*
cv, C. violaceum; bs, Bacillus subtilis; ec, Escherichia coli; dr, Deinococcus radiodurans; tm, Thermotoga maritima; pa, P. aeruginosa; sc, Streptomyces coelicolor; xcc, Xanthomonas campestris citrus; pp, Pseudomonas putida.