Culturing: Putida_ML5_JBEI, 96 deep-well microplate; 1.2 mL volume, Aerobic, at 30 (C), shaken=700rpm
| Pathway | #Steps | #Present | #Specific |
|---|
| ferulate degradation | 3 | 3 | 3 |
| vanillin and vanillate degradation II | 2 | 2 | 2 |
| 3-oxoadipate degradation | 2 | 2 | 2 |
| acetaldehyde biosynthesis I | 1 | 1 | 1 |
| protocatechuate degradation II (ortho-cleavage pathway) | 4 | 4 | 3 |
| trans-caffeate degradation (aerobic) | 4 | 3 | 3 |
| benzoyl-CoA biosynthesis | 3 | 3 | 2 |
| 4-hydroxybenzoate biosynthesis III (plants) | 5 | 5 | 3 |
| 4-coumarate degradation (aerobic) | 5 | 4 | 3 |
| aromatic compounds degradation via β-ketoadipate | 9 | 9 | 5 |
| catechol degradation III (ortho-cleavage pathway) | 6 | 6 | 3 |
| 4-coumarate degradation (anaerobic) | 6 | 3 | 3 |
| pyruvate fermentation to ethanol II | 2 | 1 | 1 |
| vanillin and vanillate degradation I | 2 | 1 | 1 |
| acetoacetate degradation (to acetyl CoA) | 2 | 1 | 1 |
| ethanol degradation I | 2 | 1 | 1 |
| 4-hydroxybenzoate biosynthesis IV (plants) | 2 | 1 | 1 |
| toluene degradation III (aerobic) (via p-cresol) | 11 | 7 | 5 |
| superpathway of salicylate degradation | 7 | 7 | 3 |
| 2-methyl-branched fatty acid β-oxidation | 14 | 10 | 6 |
| 4-methylcatechol degradation (ortho cleavage) | 7 | 5 | 3 |
| adipate degradation | 5 | 5 | 2 |
| adipate biosynthesis | 5 | 4 | 2 |
| 5,6-dehydrokavain biosynthesis (engineered) | 10 | 6 | 4 |
| fatty acid β-oxidation II (plant peroxisome) | 5 | 3 | 2 |
| benzoate biosynthesis III (CoA-dependent, non-β-oxidative) | 5 | 2 | 2 |
| ethanol degradation II | 3 | 3 | 1 |
| ketolysis | 3 | 3 | 1 |
| formaldehyde oxidation II (glutathione-dependent) | 3 | 3 | 1 |
| valproate β-oxidation | 9 | 7 | 3 |
| L-isoleucine degradation II | 3 | 2 | 1 |
| L-valine degradation II | 3 | 2 | 1 |
| umbelliferone biosynthesis | 3 | 2 | 1 |
| L-leucine degradation III | 3 | 2 | 1 |
| polyhydroxybutanoate biosynthesis | 3 | 2 | 1 |
| 1,3-dimethylbenzene degradation to 3-methylbenzoate | 3 | 1 | 1 |
| caffeoylglucarate biosynthesis | 3 | 1 | 1 |
| pyruvate fermentation to ethanol III | 3 | 1 | 1 |
| D-phenylglycine degradation | 3 | 1 | 1 |
| 1,4-dimethylbenzene degradation to 4-methylbenzoate | 3 | 1 | 1 |
| L-methionine degradation III | 3 | 1 | 1 |
| pyruvate fermentation to ethanol I | 3 | 1 | 1 |
| toluene degradation to benzoate | 3 | 1 | 1 |
| 3-chlorotoluene degradation II | 3 | 1 | 1 |
| oleate β-oxidation | 35 | 30 | 11 |
| fatty acid β-oxidation I (generic) | 7 | 5 | 2 |
| fatty acid β-oxidation VI (mammalian peroxisome) | 7 | 4 | 2 |
| benzoyl-CoA degradation I (aerobic) | 7 | 3 | 2 |
| capsaicin biosynthesis | 7 | 3 | 2 |
| (8E,10E)-dodeca-8,10-dienol biosynthesis | 11 | 6 | 3 |
| catechol degradation to β-ketoadipate | 4 | 4 | 1 |
| salidroside biosynthesis | 4 | 3 | 1 |
| phytol degradation | 4 | 3 | 1 |
| L-phenylalanine degradation III | 4 | 2 | 1 |
| 4-sulfocatechol degradation | 4 | 2 | 1 |
| L-tyrosine degradation III | 4 | 2 | 1 |
| (2S)-ethylmalonyl-CoA biosynthesis | 4 | 2 | 1 |
| naringenin biosynthesis (engineered) | 4 | 1 | 1 |
| benzoate biosynthesis II (CoA-independent, non-β-oxidative) | 4 | 1 | 1 |
| hydroxycinnamate sugar acid ester biosynthesis | 4 | 1 | 1 |
| xanthohumol biosynthesis | 4 | 1 | 1 |
| phenylacetate degradation I (aerobic) | 9 | 9 | 2 |
| mandelate degradation to acetyl-CoA | 18 | 11 | 4 |
| benzoate biosynthesis I (CoA-dependent, β-oxidative) | 9 | 3 | 2 |
| fatty acid β-oxidation IV (unsaturated, even number) | 5 | 4 | 1 |
| (R)- and (S)-3-hydroxybutanoate biosynthesis (engineered) | 5 | 4 | 1 |
| ethanolamine utilization | 5 | 4 | 1 |
| gallate degradation II | 5 | 4 | 1 |
| pyruvate fermentation to isobutanol (engineered) | 5 | 4 | 1 |
| glutaryl-CoA degradation | 5 | 3 | 1 |
| protein S-nitrosylation and denitrosylation | 5 | 3 | 1 |
| phenylethanol biosynthesis | 5 | 3 | 1 |
| acetylene degradation (anaerobic) | 5 | 3 | 1 |
| ketogenesis | 5 | 3 | 1 |
| superpathway of aromatic compound degradation via 3-oxoadipate | 35 | 19 | 7 |
| superpathway of aerobic toluene degradation | 30 | 13 | 6 |
| 3-phenylpropanoate degradation | 10 | 4 | 2 |
| 9-cis, 11-trans-octadecadienoyl-CoA degradation (isomerase-dependent, yeast) | 10 | 4 | 2 |
| fatty acid β-oxidation VII (yeast peroxisome) | 5 | 2 | 1 |
| (S)-propane-1,2-diol degradation | 5 | 2 | 1 |
| 4-hydroxybenzoate biosynthesis I (eukaryotes) | 5 | 2 | 1 |
| chlorogenic acid biosynthesis II | 5 | 1 | 1 |
| phaselate biosynthesis | 5 | 1 | 1 |
| mandelate degradation I | 5 | 1 | 1 |
| ethylbenzene degradation (anaerobic) | 5 | 1 | 1 |
| flavonoid biosynthesis | 5 | 1 | 1 |
| pyruvate fermentation to acetone | 5 | 1 | 1 |
| isopropanol biosynthesis (engineered) | 5 | 1 | 1 |
| superpathway of phenylethylamine degradation | 11 | 11 | 2 |
| pyruvate fermentation to hexanol (engineered) | 11 | 8 | 2 |
| fatty acid salvage | 6 | 6 | 1 |
| L-isoleucine degradation I | 6 | 5 | 1 |
| pyruvate fermentation to butanol II (engineered) | 6 | 4 | 1 |
| propanoate fermentation to 2-methylbutanoate | 6 | 4 | 1 |
| methyl ketone biosynthesis (engineered) | 6 | 3 | 1 |
| 6-gingerol analog biosynthesis (engineered) | 6 | 3 | 1 |
| 4-hydroxymandelate degradation | 6 | 2 | 1 |
| 4-ethylphenol degradation (anaerobic) | 6 | 2 | 1 |
| salicin biosynthesis | 6 | 1 | 1 |
| 10-trans-heptadecenoyl-CoA degradation (MFE-dependent, yeast) | 6 | 1 | 1 |
| jasmonic acid biosynthesis | 19 | 4 | 3 |
| noradrenaline and adrenaline degradation | 13 | 8 | 2 |
| superpathway of Clostridium acetobutylicum solventogenic fermentation | 13 | 4 | 2 |
| coumarins biosynthesis (engineered) | 13 | 4 | 2 |
| (4Z,7Z,10Z,13Z,16Z)-docosapentaenoate biosynthesis (6-desaturase) | 13 | 2 | 2 |
| 3-methylbutanol biosynthesis (engineered) | 7 | 6 | 1 |
| superpathway of glyoxylate cycle and fatty acid degradation | 14 | 11 | 2 |
| acetyl-CoA fermentation to butanoate | 7 | 4 | 1 |
| serotonin degradation | 7 | 4 | 1 |
| pyruvate fermentation to butanoate | 7 | 3 | 1 |
| docosahexaenoate biosynthesis III (6-desaturase, mammals) | 14 | 2 | 2 |
| mevalonate pathway I (eukaryotes and bacteria) | 7 | 1 | 1 |
| mevalonate pathway II (haloarchaea) | 7 | 1 | 1 |
| 2-deoxy-D-ribose degradation II | 8 | 4 | 1 |
| pyruvate fermentation to butanol I | 8 | 3 | 1 |
| butanol and isobutanol biosynthesis (engineered) | 8 | 3 | 1 |
| 2-methylpropene degradation | 8 | 2 | 1 |
| chlorogenic acid biosynthesis I | 8 | 1 | 1 |
| mevalonate pathway IV (archaea) | 8 | 1 | 1 |
| isoprene biosynthesis II (engineered) | 8 | 1 | 1 |
| mevalonate pathway III (Thermoplasma) | 8 | 1 | 1 |
| androstenedione degradation I (aerobic) | 25 | 7 | 3 |
| superpathway of Clostridium acetobutylicum acidogenic and solventogenic fermentation | 17 | 6 | 2 |
| superpathway of Clostridium acetobutylicum acidogenic fermentation | 9 | 5 | 1 |
| 4-oxopentanoate degradation | 9 | 5 | 1 |
| superpathway of fermentation (Chlamydomonas reinhardtii) | 9 | 4 | 1 |
| avenanthramide biosynthesis | 9 | 1 | 1 |
| superpathway of testosterone and androsterone degradation | 28 | 7 | 3 |
| superpathway of vanillin and vanillate degradation | 10 | 7 | 1 |
| L-glutamate degradation V (via hydroxyglutarate) | 10 | 5 | 1 |
| superpathway of geranylgeranyldiphosphate biosynthesis I (via mevalonate) | 10 | 4 | 1 |
| L-lysine fermentation to acetate and butanoate | 10 | 3 | 1 |
| suberin monomers biosynthesis | 20 | 4 | 2 |
| rosmarinic acid biosynthesis I | 10 | 2 | 1 |
| methyl tert-butyl ether degradation | 10 | 2 | 1 |
| pinoresinol degradation | 10 | 2 | 1 |
| curcuminoid biosynthesis | 10 | 1 | 1 |
| superpathway of cholesterol degradation I (cholesterol oxidase) | 42 | 9 | 4 |
| Spodoptera littoralis pheromone biosynthesis | 22 | 4 | 2 |
| ethylmalonyl-CoA pathway | 11 | 2 | 1 |
| superpathway of cholesterol degradation II (cholesterol dehydrogenase) | 47 | 9 | 4 |
| superpathway of C1 compounds oxidation to CO2 | 12 | 5 | 1 |
| L-glutamate degradation VII (to butanoate) | 12 | 3 | 1 |
| 10-trans-heptadecenoyl-CoA degradation (reductase-dependent, yeast) | 12 | 2 | 1 |
| 10-cis-heptadecenoyl-CoA degradation (yeast) | 12 | 2 | 1 |
| toluene degradation IV (aerobic) (via catechol) | 13 | 6 | 1 |
| platensimycin biosynthesis | 26 | 6 | 2 |
| Amaryllidacea alkaloids biosynthesis | 26 | 3 | 2 |
| L-tryptophan degradation V (side chain pathway) | 13 | 1 | 1 |
| androstenedione degradation II (anaerobic) | 27 | 5 | 2 |
| superpathway of rosmarinic acid biosynthesis | 14 | 2 | 1 |
| flavonoid di-C-glucosylation | 15 | 3 | 1 |
| L-tryptophan degradation III (eukaryotic) | 15 | 3 | 1 |
| monolignol biosynthesis | 15 | 1 | 1 |
| mixed acid fermentation | 16 | 12 | 1 |
| glycerol degradation to butanol | 16 | 9 | 1 |
| crotonate fermentation (to acetate and cyclohexane carboxylate) | 16 | 4 | 1 |
| benzoate fermentation (to acetate and cyclohexane carboxylate) | 17 | 4 | 1 |
| cholesterol degradation to androstenedione I (cholesterol oxidase) | 17 | 2 | 1 |
| heterolactic fermentation | 18 | 12 | 1 |
| 3-hydroxypropanoate/4-hydroxybutanate cycle | 18 | 9 | 1 |
| toluene degradation VI (anaerobic) | 18 | 4 | 1 |
| sitosterol degradation to androstenedione | 18 | 1 | 1 |
| hexitol fermentation to lactate, formate, ethanol and acetate | 19 | 14 | 1 |
| superpathway of anaerobic sucrose degradation | 19 | 13 | 1 |
| superpathway of aromatic compound degradation via 2-hydroxypentadienoate | 42 | 13 | 2 |
| superpathway of N-acetylneuraminate degradation | 22 | 12 | 1 |
| cholesterol degradation to androstenedione II (cholesterol dehydrogenase) | 22 | 2 | 1 |
| superpathway of cholesterol degradation III (oxidase) | 49 | 5 | 2 |
| photosynthetic 3-hydroxybutanoate biosynthesis (engineered) | 26 | 19 | 1 |
| superpathway of ergosterol biosynthesis I | 26 | 3 | 1 |
| 1-butanol autotrophic biosynthesis (engineered) | 27 | 19 | 1 |
| superpathway of cholesterol biosynthesis | 38 | 3 | 1 |
| superpathway of L-lysine degradation | 43 | 23 | 1 |
| Methanobacterium thermoautotrophicum biosynthetic metabolism | 56 | 21 | 1 |