+ diet=StandardDiet; sample=FecalPellet; coculture_with=Bacteroides thetaiotaomicron
| Pathway | #Steps | #Present | #Specific |
|---|
| L-glutamate biosynthesis I | 2 | 2 | 2 |
| L-glutamine degradation I | 1 | 1 | 1 |
| L-glutamine degradation II | 1 | 1 | 1 |
| long-chain fatty acid activation | 1 | 1 | 1 |
| L-glutamate biosynthesis IV | 1 | 1 | 1 |
| ammonia assimilation cycle III | 3 | 3 | 2 |
| L-leucine biosynthesis | 6 | 6 | 3 |
| ammonia assimilation cycle I | 2 | 2 | 1 |
| pyrimidine ribonucleosides salvage III | 2 | 2 | 1 |
| pyrimidine nucleobases salvage II | 2 | 2 | 1 |
| L-phenylalanine biosynthesis III (cytosolic, plants) | 2 | 2 | 1 |
| L-glutamate degradation II | 2 | 2 | 1 |
| guanosine deoxyribonucleotides de novo biosynthesis II | 4 | 2 | 2 |
| adenosine deoxyribonucleotides de novo biosynthesis II | 4 | 2 | 2 |
| guanosine deoxyribonucleotides de novo biosynthesis I | 2 | 1 | 1 |
| γ-linolenate biosynthesis II (animals) | 2 | 1 | 1 |
| linoleate biosynthesis II (animals) | 2 | 1 | 1 |
| trehalose degradation I (low osmolarity) | 2 | 1 | 1 |
| adenosine deoxyribonucleotides de novo biosynthesis I | 2 | 1 | 1 |
| methylglyoxal degradation III | 2 | 1 | 1 |
| pseudouridine degradation | 2 | 1 | 1 |
| trehalose degradation II (cytosolic) | 2 | 1 | 1 |
| 3-methylbutanol biosynthesis (engineered) | 7 | 6 | 3 |
| L-glutamate and L-glutamine biosynthesis | 7 | 5 | 3 |
| trehalose degradation IV | 3 | 3 | 1 |
| L-phenylalanine biosynthesis I | 3 | 3 | 1 |
| L-aspartate degradation II (aerobic) | 3 | 2 | 1 |
| GDP-α-D-glucose biosynthesis | 3 | 2 | 1 |
| trehalose degradation V | 3 | 2 | 1 |
| NAD salvage pathway III (to nicotinamide riboside) | 3 | 2 | 1 |
| L-aspartate degradation III (anaerobic) | 3 | 2 | 1 |
| superpathway of ammonia assimilation (plants) | 3 | 2 | 1 |
| 3-methyl-branched fatty acid α-oxidation | 6 | 3 | 2 |
| aliphatic glucosinolate biosynthesis, side chain elongation cycle | 30 | 10 | 10 |
| alkane biosynthesis II | 3 | 1 | 1 |
| N-acetylneuraminate and N-acetylmannosamine degradation II | 3 | 1 | 1 |
| oleate biosynthesis I (plants) | 3 | 1 | 1 |
| UTP and CTP dephosphorylation I | 7 | 5 | 2 |
| superpathway of adenosine nucleotides de novo biosynthesis II | 7 | 5 | 2 |
| superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli) | 14 | 9 | 4 |
| purine nucleotides degradation II (aerobic) | 11 | 4 | 3 |
| glutaminyl-tRNAgln biosynthesis via transamidation | 4 | 4 | 1 |
| L-asparagine biosynthesis III (tRNA-dependent) | 4 | 4 | 1 |
| sucrose degradation III (sucrose invertase) | 4 | 4 | 1 |
| glycogen degradation I | 8 | 7 | 2 |
| sucrose biosynthesis II | 8 | 6 | 2 |
| starch degradation V | 4 | 3 | 1 |
| phytol degradation | 4 | 3 | 1 |
| adenosine nucleotides degradation I | 8 | 5 | 2 |
| superpathway of guanosine nucleotides de novo biosynthesis II | 8 | 5 | 2 |
| purine nucleotides degradation I (plants) | 12 | 7 | 3 |
| guanosine nucleotides degradation II | 4 | 2 | 1 |
| superpathway of L-aspartate and L-asparagine biosynthesis | 4 | 2 | 1 |
| guanosine nucleotides degradation I | 4 | 2 | 1 |
| inosine 5'-phosphate degradation | 4 | 2 | 1 |
| phosphatidylcholine acyl editing | 4 | 1 | 1 |
| long chain fatty acid ester synthesis (engineered) | 4 | 1 | 1 |
| wax esters biosynthesis II | 4 | 1 | 1 |
| guanosine nucleotides degradation III | 4 | 1 | 1 |
| pyrimidine deoxyribonucleotides de novo biosynthesis I | 9 | 6 | 2 |
| pyrimidine deoxyribonucleotides de novo biosynthesis III | 9 | 5 | 2 |
| sporopollenin precursors biosynthesis | 18 | 4 | 4 |
| L-histidine biosynthesis | 10 | 10 | 2 |
| tRNA processing | 10 | 8 | 2 |
| superpathway of adenosine nucleotides de novo biosynthesis I | 5 | 4 | 1 |
| glucose and glucose-1-phosphate degradation | 5 | 3 | 1 |
| sphingosine and sphingosine-1-phosphate metabolism | 10 | 4 | 2 |
| octane oxidation | 5 | 2 | 1 |
| adenosine nucleotides degradation II | 5 | 1 | 1 |
| superpathway of branched chain amino acid biosynthesis | 17 | 17 | 3 |
| L-tryptophan biosynthesis | 6 | 6 | 1 |
| superpathway of guanosine nucleotides de novo biosynthesis I | 6 | 4 | 1 |
| UDP-N-acetyl-D-glucosamine biosynthesis II | 6 | 4 | 1 |
| glycogen degradation II | 6 | 4 | 1 |
| stearate biosynthesis II (bacteria and plants) | 6 | 4 | 1 |
| superpathway of guanosine nucleotides degradation (plants) | 6 | 3 | 1 |
| stearate biosynthesis IV | 6 | 3 | 1 |
| glyoxylate cycle | 6 | 3 | 1 |
| superpathway of purines degradation in plants | 18 | 7 | 3 |
| stearate biosynthesis I (animals) | 6 | 1 | 1 |
| 6-gingerol analog biosynthesis (engineered) | 6 | 1 | 1 |
| fatty acid salvage | 6 | 1 | 1 |
| L-canavanine degradation II | 6 | 1 | 1 |
| superpathway of purine nucleotides de novo biosynthesis II | 26 | 21 | 4 |
| L-lysine biosynthesis VI | 7 | 6 | 1 |
| L-lysine biosynthesis III | 7 | 6 | 1 |
| UDP-N-acetyl-D-galactosamine biosynthesis II | 7 | 5 | 1 |
| pyrimidine deoxyribonucleotides de novo biosynthesis IV | 7 | 4 | 1 |
| ureide biosynthesis | 7 | 2 | 1 |
| ceramide degradation by α-oxidation | 7 | 2 | 1 |
| capsaicin biosynthesis | 7 | 1 | 1 |
| icosapentaenoate biosynthesis II (6-desaturase, mammals) | 7 | 1 | 1 |
| arachidonate biosynthesis III (6-desaturase, mammals) | 7 | 1 | 1 |
| icosapentaenoate biosynthesis III (8-desaturase, mammals) | 7 | 1 | 1 |
| superpathway of histidine, purine, and pyrimidine biosynthesis | 46 | 39 | 6 |
| L-isoleucine biosynthesis II | 8 | 6 | 1 |
| nitrogen remobilization from senescing leaves | 8 | 5 | 1 |
| L-citrulline biosynthesis | 8 | 5 | 1 |
| partial TCA cycle (obligate autotrophs) | 8 | 5 | 1 |
| pyrimidine deoxyribonucleotides biosynthesis from CTP | 8 | 4 | 1 |
| butanol and isobutanol biosynthesis (engineered) | 8 | 3 | 1 |
| ceramide and sphingolipid recycling and degradation (yeast) | 16 | 4 | 2 |
| superpathway of methylglyoxal degradation | 8 | 2 | 1 |
| 2-deoxy-D-ribose degradation II | 8 | 2 | 1 |
| superpathway of aromatic amino acid biosynthesis | 18 | 18 | 2 |
| L-lysine biosynthesis I | 9 | 9 | 1 |
| superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis | 18 | 13 | 2 |
| L-lysine biosynthesis II | 9 | 6 | 1 |
| chitin biosynthesis | 9 | 5 | 1 |
| TCA cycle V (2-oxoglutarate synthase) | 9 | 5 | 1 |
| TCA cycle VII (acetate-producers) | 9 | 4 | 1 |
| TCA cycle IV (2-oxoglutarate decarboxylase) | 9 | 4 | 1 |
| 1,3-propanediol biosynthesis (engineered) | 9 | 4 | 1 |
| TCA cycle II (plants and fungi) | 9 | 4 | 1 |
| TCA cycle VI (Helicobacter) | 9 | 4 | 1 |
| tunicamycin biosynthesis | 9 | 2 | 1 |
| starch degradation II | 9 | 1 | 1 |
| superpathway of L-phenylalanine biosynthesis | 10 | 10 | 1 |
| TCA cycle I (prokaryotic) | 10 | 5 | 1 |
| TCA cycle III (animals) | 10 | 5 | 1 |
| suberin monomers biosynthesis | 20 | 2 | 2 |
| detoxification of reactive carbonyls in chloroplasts | 10 | 1 | 1 |
| superpathway of purine nucleotides de novo biosynthesis I | 21 | 18 | 2 |
| superpathway of fatty acid biosynthesis II (plant) | 43 | 29 | 4 |
| glycolysis III (from glucose) | 11 | 10 | 1 |
| NAD salvage (plants) | 11 | 6 | 1 |
| homolactic fermentation | 12 | 11 | 1 |
| superpathway of L-citrulline metabolism | 12 | 7 | 1 |
| superpathway of glyoxylate bypass and TCA | 12 | 5 | 1 |
| superpathway of L-tryptophan biosynthesis | 13 | 13 | 1 |
| superpathway of purine nucleotide salvage | 14 | 9 | 1 |
| superpathway of glyoxylate cycle and fatty acid degradation | 14 | 3 | 1 |
| Bifidobacterium shunt | 15 | 15 | 1 |
| superpathway of L-lysine, L-threonine and L-methionine biosynthesis II | 15 | 13 | 1 |
| palmitate biosynthesis II (type II fatty acid synthase) | 31 | 22 | 2 |
| mixed acid fermentation | 16 | 11 | 1 |
| cutin biosynthesis | 16 | 1 | 1 |
| superpathway of L-lysine, L-threonine and L-methionine biosynthesis I | 18 | 16 | 1 |
| heterolactic fermentation | 18 | 16 | 1 |
| methylaspartate cycle | 19 | 6 | 1 |
| superpathway of cytosolic glycolysis (plants), pyruvate dehydrogenase and TCA cycle | 22 | 12 | 1 |
| aspartate superpathway | 25 | 23 | 1 |
| ethene biosynthesis V (engineered) | 25 | 16 | 1 |
| superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass | 26 | 15 | 1 |
| superpathway of fatty acids biosynthesis (E. coli) | 53 | 35 | 2 |
| palmitate biosynthesis III | 29 | 14 | 1 |
| superpathway of chorismate metabolism | 59 | 32 | 2 |
| oleate β-oxidation | 35 | 1 | 1 |