Culturing: Keio_ML9a, 96 deep-well microplate; Multitron, Anaerobic, at 37 (C), shaken=0 rpm
| Pathway | #Steps | #Present | #Specific |
|---|
| L-serine degradation | 3 | 3 | 3 |
| purine ribonucleosides degradation | 6 | 6 | 5 |
| dTDP-β-L-rhamnose biosynthesis | 5 | 5 | 4 |
| purine deoxyribonucleosides degradation I | 4 | 4 | 3 |
| purine deoxyribonucleosides degradation II | 3 | 3 | 2 |
| L-tryptophan degradation II (via pyruvate) | 3 | 3 | 2 |
| D-serine degradation | 3 | 3 | 2 |
| L-cysteine degradation II | 3 | 2 | 2 |
| dTDP-4-O-demethyl-β-L-noviose biosynthesis | 5 | 3 | 3 |
| superpathway of purine deoxyribonucleosides degradation | 7 | 7 | 4 |
| adenine and adenosine salvage III | 4 | 4 | 2 |
| siroheme biosynthesis | 4 | 4 | 2 |
| dTDP-N-acetylthomosamine biosynthesis | 4 | 4 | 2 |
| adenine and adenosine salvage I | 2 | 2 | 1 |
| guanine and guanosine salvage I | 2 | 2 | 1 |
| glycerol-3-phosphate to fumarate electron transfer | 2 | 2 | 1 |
| NADH to fumarate electron transfer | 2 | 2 | 1 |
| pseudouridine degradation | 2 | 2 | 1 |
| xanthine and xanthosine salvage | 2 | 2 | 1 |
| succinate to cytochrome bd oxidase electron transfer | 2 | 2 | 1 |
| di-trans,poly-cis-undecaprenyl phosphate biosynthesis | 2 | 2 | 1 |
| dTDP-L-daunosamine biosynthesis | 6 | 3 | 3 |
| dTDP-sibirosamine biosynthesis | 6 | 3 | 3 |
| dTDP-6-deoxy-α-D-allose biosynthesis | 4 | 2 | 2 |
| dTDP-N-acetylviosamine biosynthesis | 4 | 2 | 2 |
| dTDP-β-D-fucofuranose biosynthesis | 4 | 2 | 2 |
| hydrogen to fumarate electron transfer | 2 | 1 | 1 |
| lipoate salvage I | 2 | 1 | 1 |
| succinate to cytochrome aa3 oxidase electron transfer | 2 | 1 | 1 |
| succinate to cytochrome bo oxidase electron transfer | 2 | 1 | 1 |
| phospholipid remodeling (phosphatidate, yeast) | 2 | 1 | 1 |
| palmitoleate biosynthesis III (cyanobacteria) | 2 | 1 | 1 |
| 2-carboxy-1,4-naphthoquinol biosynthesis | 7 | 7 | 3 |
| glycine betaine degradation III | 7 | 4 | 3 |
| dTDP-3-acetamido-3,6-dideoxy-α-D-glucose biosynthesis | 5 | 2 | 2 |
| dTDP-α-D-mycaminose biosynthesis | 5 | 2 | 2 |
| dTDP-3-acetamido-α-D-fucose biosynthesis | 5 | 2 | 2 |
| felinine and 3-methyl-3-sulfanylbutan-1-ol biosynthesis | 5 | 2 | 2 |
| glycine betaine degradation I | 8 | 4 | 3 |
| O-antigen building blocks biosynthesis (E. coli) | 11 | 11 | 4 |
| superpathway of demethylmenaquinol-8 biosynthesis I | 9 | 9 | 3 |
| superpathway of pyrimidine deoxyribonucleosides degradation | 6 | 6 | 2 |
| superpathway of guanine and guanosine salvage | 3 | 3 | 1 |
| 2-deoxy-α-D-ribose 1-phosphate degradation | 3 | 3 | 1 |
| cardiolipin biosynthesis II | 3 | 3 | 1 |
| adenine and adenosine salvage V | 3 | 3 | 1 |
| cardiolipin biosynthesis I | 3 | 3 | 1 |
| pyrimidine deoxyribonucleosides degradation | 3 | 3 | 1 |
| glycine degradation | 3 | 3 | 1 |
| superpathway of demethylmenaquinol-9 biosynthesis | 9 | 8 | 3 |
| superpathway of demethylmenaquinol-6 biosynthesis I | 9 | 8 | 3 |
| L-methionine biosynthesis II | 6 | 5 | 2 |
| oleate biosynthesis III (cyanobacteria) | 3 | 2 | 1 |
| aerobic respiration III (alternative oxidase pathway) | 3 | 2 | 1 |
| dTDP-D-desosamine biosynthesis | 6 | 2 | 2 |
| dTDP-α-D-ravidosamine and dTDP-4-acetyl-α-D-ravidosamine biosynthesis | 6 | 2 | 2 |
| heptadecane biosynthesis | 3 | 1 | 1 |
| alkane biosynthesis I | 3 | 1 | 1 |
| superpathway of menaquinol-8 biosynthesis I | 10 | 10 | 3 |
| superpathway of menaquinol-11 biosynthesis | 10 | 9 | 3 |
| superpathway of menaquinol-9 biosynthesis | 10 | 9 | 3 |
| superpathway of menaquinol-7 biosynthesis | 10 | 9 | 3 |
| superpathway of menaquinol-10 biosynthesis | 10 | 9 | 3 |
| superpathway of menaquinol-13 biosynthesis | 10 | 9 | 3 |
| superpathway of menaquinol-6 biosynthesis | 10 | 9 | 3 |
| superpathway of menaquinol-12 biosynthesis | 10 | 9 | 3 |
| peptidoglycan recycling II | 10 | 7 | 3 |
| factor 430 biosynthesis | 7 | 3 | 2 |
| dTDP-β-L-olivose biosynthesis | 7 | 3 | 2 |
| dTDP-β-L-digitoxose biosynthesis | 7 | 3 | 2 |
| dTDP-β-L-mycarose biosynthesis | 7 | 2 | 2 |
| purine nucleotides degradation II (aerobic) | 11 | 11 | 3 |
| superpathway of phospholipid biosynthesis III (E. coli) | 12 | 12 | 3 |
| CDP-diacylglycerol biosynthesis I | 4 | 4 | 1 |
| guanosine nucleotides degradation III | 4 | 4 | 1 |
| glycogen biosynthesis I (from ADP-D-Glucose) | 4 | 4 | 1 |
| inosine 5'-phosphate degradation | 4 | 4 | 1 |
| CDP-diacylglycerol biosynthesis II | 4 | 4 | 1 |
| cardiolipin and phosphatidylethanolamine biosynthesis (Xanthomonas) | 4 | 3 | 1 |
| peptidoglycan maturation (meso-diaminopimelate containing) | 12 | 6 | 3 |
| L-mimosine degradation | 8 | 4 | 2 |
| phosphatidylcholine acyl editing | 4 | 2 | 1 |
| aerobic respiration II (cytochrome c) (yeast) | 4 | 2 | 1 |
| aerobic respiration I (cytochrome c) | 4 | 2 | 1 |
| glutathione-mediated detoxification I | 8 | 3 | 2 |
| dTDP-β-L-4-epi-vancosamine biosynthesis | 8 | 3 | 2 |
| dTDP-β-L-megosamine biosynthesis | 8 | 3 | 2 |
| lipoate salvage II | 4 | 1 | 1 |
| glycogen biosynthesis II (from UDP-D-Glucose) | 4 | 1 | 1 |
| superpathway of cardiolipin biosynthesis (bacteria) | 13 | 11 | 3 |
| dTDP-α-D-olivose, dTDP-α-D-oliose and dTDP-α-D-mycarose biosynthesis | 9 | 3 | 2 |
| dTDP-α-D-forosamine biosynthesis | 9 | 3 | 2 |
| peptidoglycan recycling I | 14 | 14 | 3 |
| superpathway of dTDP-glucose-derived O-antigen building blocks biosynthesis | 19 | 7 | 4 |
| CMP-3-deoxy-D-manno-octulosonate biosynthesis | 5 | 5 | 1 |
| polyisoprenoid biosynthesis (E. coli) | 5 | 5 | 1 |
| adenosine nucleotides degradation II | 5 | 5 | 1 |
| galactitol degradation | 5 | 5 | 1 |
| superpathway of enterobacterial common antigen biosynthesis | 10 | 9 | 2 |
| starch biosynthesis | 10 | 6 | 2 |
| CDP-diacylglycerol biosynthesis III | 5 | 3 | 1 |
| phosphatidate biosynthesis (yeast) | 5 | 3 | 1 |
| superpathway of phylloquinol biosynthesis | 15 | 7 | 3 |
| nucleoside and nucleotide degradation (archaea) | 10 | 4 | 2 |
| phospholipases | 5 | 1 | 1 |
| peptidoglycan biosynthesis IV (Enterococcus faecium) | 17 | 12 | 3 |
| peptidoglycan biosynthesis II (staphylococci) | 17 | 12 | 3 |
| phosphatidylglycerol biosynthesis II | 6 | 6 | 1 |
| phosphatidylglycerol biosynthesis I | 6 | 6 | 1 |
| nucleoside and nucleotide degradation (halobacteria) | 6 | 3 | 1 |
| anandamide biosynthesis I | 12 | 4 | 2 |
| palmitoyl ethanolamide biosynthesis | 6 | 2 | 1 |
| superpathway of stearidonate biosynthesis (cyanobacteria) | 6 | 2 | 1 |
| juvenile hormone III biosynthesis I | 6 | 1 | 1 |
| fluoroacetate and fluorothreonine biosynthesis | 6 | 1 | 1 |
| superpathway of novobiocin biosynthesis | 19 | 4 | 3 |
| cob(II)yrinate a,c-diamide biosynthesis II (late cobalt incorporation) | 13 | 2 | 2 |
| superpathway of purine nucleotide salvage | 14 | 13 | 2 |
| ureide biosynthesis | 7 | 5 | 1 |
| pyruvate fermentation to propanoate I | 7 | 5 | 1 |
| incomplete reductive TCA cycle | 7 | 5 | 1 |
| CMP-8-amino-3,8-dideoxy-D-manno-octulosonate biosynthesis | 7 | 4 | 1 |
| diacylglycerol and triacylglycerol biosynthesis | 7 | 3 | 1 |
| stigma estolide biosynthesis | 7 | 2 | 1 |
| superpathway of L-lysine, L-threonine and L-methionine biosynthesis II | 15 | 13 | 2 |
| cob(II)yrinate a,c-diamide biosynthesis I (early cobalt insertion) | 15 | 3 | 2 |
| purine nucleobases degradation II (anaerobic) | 24 | 17 | 3 |
| glycogen biosynthesis III (from α-maltose 1-phosphate) | 8 | 3 | 1 |
| anandamide biosynthesis II | 8 | 2 | 1 |
| superpathway of mycolyl-arabinogalactan-peptidoglycan complex biosynthesis | 33 | 14 | 4 |
| peptidoglycan biosynthesis V (β-lactam resistance) | 17 | 11 | 2 |
| superpathway of hexitol degradation (bacteria) | 18 | 18 | 2 |
| TCA cycle VI (Helicobacter) | 9 | 7 | 1 |
| Entner-Doudoroff pathway III (semi-phosphorylative) | 9 | 6 | 1 |
| tunicamycin biosynthesis | 9 | 2 | 1 |
| superpathway of erythromycin biosynthesis | 19 | 2 | 2 |
| Rubisco shunt | 10 | 9 | 1 |
| TCA cycle III (animals) | 10 | 8 | 1 |
| glycolysis IV | 10 | 8 | 1 |
| glycolysis V (Pyrococcus) | 10 | 7 | 1 |
| photorespiration II | 10 | 6 | 1 |
| glycolysis III (from glucose) | 11 | 11 | 1 |
| glycolysis II (from fructose 6-phosphate) | 11 | 11 | 1 |
| glycolysis VI (from fructose) | 11 | 8 | 1 |
| reductive TCA cycle I | 11 | 8 | 1 |
| L-glutamate degradation VIII (to propanoate) | 11 | 5 | 1 |
| mycobactin biosynthesis | 11 | 3 | 1 |
| superpathway of megalomicin A biosynthesis | 22 | 3 | 2 |
| superpathway of dTDP-glucose-derived antibiotic building blocks biosynthesis | 23 | 3 | 2 |
| peptidoglycan biosynthesis I (meso-diaminopimelate containing) | 12 | 12 | 1 |
| homolactic fermentation | 12 | 12 | 1 |
| reductive TCA cycle II | 12 | 8 | 1 |
| glycolysis I (from glucose 6-phosphate) | 13 | 13 | 1 |
| gluconeogenesis I | 13 | 13 | 1 |
| (S)-lactate fermentation to propanoate, acetate and hydrogen | 13 | 10 | 1 |
| superpathway of phospholipid biosynthesis II (plants) | 28 | 10 | 2 |
| Bifidobacterium shunt | 15 | 13 | 1 |
| peptidoglycan biosynthesis III (mycobacteria) | 15 | 11 | 1 |
| salinosporamide A biosynthesis | 15 | 3 | 1 |
| mixed acid fermentation | 16 | 16 | 1 |
| glycerol degradation to butanol | 16 | 11 | 1 |
| plasmalogen biosynthesis I (aerobic) | 16 | 1 | 1 |
| adenosylcobalamin biosynthesis II (aerobic) | 33 | 17 | 2 |
| superpathway of glycolysis and the Entner-Doudoroff pathway | 17 | 17 | 1 |
| superpathway of (Kdo)2-lipid A biosynthesis | 17 | 17 | 1 |
| superpathway of glucose and xylose degradation | 17 | 17 | 1 |
| arsenic detoxification (mammals) | 17 | 8 | 1 |
| gluconeogenesis II (Methanobacterium thermoautotrophicum) | 18 | 9 | 1 |
| adenosylcobalamin biosynthesis I (anaerobic) | 36 | 16 | 2 |
| hexitol fermentation to lactate, formate, ethanol and acetate | 19 | 19 | 1 |
| superpathway of anaerobic sucrose degradation | 19 | 17 | 1 |
| superpathway of chorismate metabolism | 59 | 54 | 3 |
| superpathway of N-acetylneuraminate degradation | 22 | 22 | 1 |
| superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle | 22 | 18 | 1 |
| superpathway of Kdo2-lipid A biosynthesis | 25 | 24 | 1 |
| ethene biosynthesis V (engineered) | 25 | 18 | 1 |
| superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass | 26 | 25 | 1 |
| photosynthetic 3-hydroxybutanoate biosynthesis (engineered) | 26 | 19 | 1 |
| 1-butanol autotrophic biosynthesis (engineered) | 27 | 19 | 1 |
| Methanobacterium thermoautotrophicum biosynthetic metabolism | 56 | 22 | 2 |