+ diet=StandardDiet; sample=FecalPellet; coculture_with=Bacteroides thetaiotaomicron
| Pathway | #Steps | #Present | #Specific |
|---|
| hydroxymethylpyrimidine salvage | 2 | 2 | 2 |
| L-glutamate biosynthesis I | 2 | 2 | 2 |
| L-glutamine degradation I | 1 | 1 | 1 |
| L-glutamine degradation II | 1 | 1 | 1 |
| L-glutamate biosynthesis IV | 1 | 1 | 1 |
| ammonia assimilation cycle III | 3 | 3 | 2 |
| 4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis I | 2 | 2 | 1 |
| ammonia assimilation cycle I | 2 | 2 | 1 |
| L-phenylalanine biosynthesis III (cytosolic, plants) | 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 |
| adenosine deoxyribonucleotides de novo biosynthesis I | 2 | 1 | 1 |
| trehalose degradation I (low osmolarity) | 2 | 1 | 1 |
| trehalose degradation II (cytosolic) | 2 | 1 | 1 |
| methylglyoxal degradation III | 2 | 1 | 1 |
| L-glutamate and L-glutamine biosynthesis | 7 | 5 | 3 |
| thiamine diphosphate salvage II | 5 | 4 | 2 |
| trehalose degradation IV | 3 | 3 | 1 |
| L-phenylalanine biosynthesis I | 3 | 3 | 1 |
| superpathway of ammonia assimilation (plants) | 3 | 2 | 1 |
| trehalose degradation V | 3 | 2 | 1 |
| GDP-α-D-glucose biosynthesis | 3 | 2 | 1 |
| N-acetylneuraminate and N-acetylmannosamine degradation II | 3 | 1 | 1 |
| thiamine diphosphate salvage IV (yeast) | 7 | 6 | 2 |
| superpathway of adenosine nucleotides de novo biosynthesis II | 7 | 5 | 2 |
| superpathway of pyrimidine deoxyribonucleotides de novo biosynthesis (E. coli) | 14 | 9 | 4 |
| sucrose degradation III (sucrose invertase) | 4 | 4 | 1 |
| glutaminyl-tRNAgln biosynthesis via transamidation | 4 | 4 | 1 |
| L-asparagine biosynthesis III (tRNA-dependent) | 4 | 4 | 1 |
| glycogen degradation I | 8 | 7 | 2 |
| sucrose biosynthesis II | 8 | 6 | 2 |
| starch degradation V | 4 | 3 | 1 |
| superpathway of guanosine nucleotides de novo biosynthesis II | 8 | 5 | 2 |
| thiamine diphosphate formation from pyrithiamine and oxythiamine (yeast) | 8 | 5 | 2 |
| pyrimidine deoxyribonucleotides de novo biosynthesis I | 9 | 6 | 2 |
| pyrimidine deoxyribonucleotides de novo biosynthesis III | 9 | 5 | 2 |
| superpathway of adenosine nucleotides de novo biosynthesis I | 5 | 4 | 1 |
| glucose and glucose-1-phosphate degradation | 5 | 3 | 1 |
| L-tryptophan biosynthesis | 6 | 6 | 1 |
| UDP-N-acetyl-D-glucosamine biosynthesis II | 6 | 4 | 1 |
| glycogen degradation II | 6 | 4 | 1 |
| superpathway of guanosine nucleotides de novo biosynthesis I | 6 | 4 | 1 |
| glyoxylate cycle | 6 | 3 | 1 |
| superpathway of purine nucleotides de novo biosynthesis II | 26 | 21 | 4 |
| L-lysine biosynthesis III | 7 | 6 | 1 |
| L-lysine biosynthesis VI | 7 | 6 | 1 |
| UDP-N-acetyl-D-galactosamine biosynthesis II | 7 | 5 | 1 |
| pyrimidine deoxyribonucleotides de novo biosynthesis IV | 7 | 4 | 1 |
| superpathway of thiamine diphosphate biosynthesis III (eukaryotes) | 7 | 4 | 1 |
| nitrogen remobilization from senescing leaves | 8 | 5 | 1 |
| partial TCA cycle (obligate autotrophs) | 8 | 5 | 1 |
| L-citrulline biosynthesis | 8 | 5 | 1 |
| pyrimidine deoxyribonucleotides biosynthesis from CTP | 8 | 4 | 1 |
| 4-amino-2-methyl-5-diphosphomethylpyrimidine biosynthesis II | 8 | 3 | 1 |
| superpathway of methylglyoxal degradation | 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 |
| TCA cycle V (2-oxoglutarate synthase) | 9 | 5 | 1 |
| chitin biosynthesis | 9 | 5 | 1 |
| TCA cycle II (plants and fungi) | 9 | 4 | 1 |
| 1,3-propanediol biosynthesis (engineered) | 9 | 4 | 1 |
| TCA cycle IV (2-oxoglutarate decarboxylase) | 9 | 4 | 1 |
| TCA cycle VI (Helicobacter) | 9 | 4 | 1 |
| TCA cycle VII (acetate-producers) | 9 | 4 | 1 |
| starch degradation II | 9 | 1 | 1 |
| superpathway of histidine, purine, and pyrimidine biosynthesis | 46 | 39 | 5 |
| superpathway of L-phenylalanine biosynthesis | 10 | 10 | 1 |
| L-histidine biosynthesis | 10 | 10 | 1 |
| superpathway of thiamine diphosphate biosynthesis I | 10 | 6 | 1 |
| TCA cycle III (animals) | 10 | 5 | 1 |
| TCA cycle I (prokaryotic) | 10 | 5 | 1 |
| detoxification of reactive carbonyls in chloroplasts | 10 | 1 | 1 |
| superpathway of purine nucleotides de novo biosynthesis I | 21 | 18 | 2 |
| glycolysis III (from glucose) | 11 | 10 | 1 |
| superpathway of thiamine diphosphate biosynthesis II | 11 | 7 | 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 |
| mixed acid fermentation | 16 | 11 | 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 chorismate metabolism | 59 | 32 | 2 |