| MMDBm0000194 | Klebsiella aerogenes KCTC 2190 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0000431 | Streptococcus oralis | Eubacteria | Firmicutes | Human | Microbial culture | Not Available |
| MMDBm0000583 | Saccharomyces cerevisiae | Fungi | Ascomycota | Human Feces | Microbial culture | Not Available |
| MMDBm0000584 | Candida albicans | Fungi | Ascomycota | Human Feces | Microbial culture | Not Available |
| MMDBm0000585 | Candida tropicalis | Fungi | Ascomycota | Human Feces | Not Available | RHEA |
| MMDBm0000712 | Acidovorax delafieldii | Eubacteria | Proteobacteria | Human | Microbial culture | Not Available |
| MMDBm0000750 | Actinobacillus succinogenes | Eubacteria | Proteobacteria | Not Available | Microbial culture | Not Available |
| MMDBm0000768 | Acidovorax avenae | Eubacteria | Proteobacteria | Not Available | Microbial culture | Not Available |
| MMDBm0000840 | Streptococcus lutetiensis | Eubacteria | Firmicutes | Human | Microbial culture | Not Available |
| MMDBm0000864 | Clostridium saccharobutylicum | Eubacteria | Firmicutes | Not Available | Microbial culture | Not Available |
| MMDBm0000931 | Emticicia oligotrophica | Eubacteria | Bacteroidetes | Not Available | Microbial culture | Not Available |
| MMDBm0001052 | Clostridium saccharoperbutylacetonicum | Eubacteria | Firmicutes | Not Available | Microbial culture | Not Available |
| MMDBm0001066 | Klebsiella pneumoniae | Eubacteria | Proteobacteria | Human | Microbial culture | Not Available |
| MMDBm0001067 | Klebsiella variicola | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001086 | Streptococcus pasteurianus | Eubacteria | Firmicutes | Not Available | Microbial culture | Not Available |
| MMDBm0001155 | Lachnospiraceae bacterium 5_1_57FAA | Eubacteria | Firmicutes | Not Available | Indirect association between microbiota composition and metabolites measured in host biospecimen | Not Available |
| MMDBm0001450 | Citrobacter koseri ATCC BAA-895 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0001529 | Delftia acidovorans SPH-1 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001596 | Escherichia fergusonii ATCC 35469 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0001727 | Klebsiella pneumoniae subsp. pneumoniae MGH 78578 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0002190 | Vibrio furnissii NCTC 11218 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0002429 | Ralstonia solanacearum GMI1000 | Eubacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0002785 | Yersinia pseudotuberculosis YPIII | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0095325 | Candida albicans WO-1 | Fungi | Ascomycota | Not Available | Not Available | RHEA |
| MMDBm0095826 | Scheffersomyces stipitis CBS 6054 | Fungi | Ascomycota | Not Available | Not Available | RHEA |
