Table 1.
Properties of metabolic reconstruction of P. putida KT2440
|
Reconstruction & Organism |
iJN746 P. putida |
iAF1260 E. coli |
iYO844 B. subtilis |
iNJ661 M. tuberculosis |
iMO1056 P. aeruginosa |
| Protein coding genes per genome | 5,350a | 4,464b | 4,106a | 3,989a | 5669 |
| SKI valuec | 0.74 | 55.87 | 4.97 | 7.84 | 5.12 |
| Genes (% of genome) | 746 (14%) | 1260 (28%) | 844 (21%) | 661 (17%) | 1056 (18,6%) |
| Reactions | 950 | 2077 | 1020 | 939 | 883 |
| Gene-reaction associated | 810 | 1919 | 904 | 723 | 839 |
| Non-gene- associated network reaction (% of network reactions) | 140 (17%) | 158 (8%) | 116 (13%) | 116 (16%) | 44 (5%) |
| Exchange reactions | 90 | 304 | 225 | 88 | - |
| Metabolites | 911 | 1039 | 988 | 828 | - |
Properties of metabolic reconstruction of P. putida KT2440 were compared with recently published metabolic reconstructions of E. coli MG1655 (iAF1260 [36]), B. subtilis (iYO844 [37]), and M. tuberculosis H37Rv (iNJ661 [39]) and P. aeruginosa (iMO1056 [64]). a taken from KEGG [57]; b based on Riley et al. [98]; c Species Knowledge Index (SKI) was calculated as described in [65].