| MMDBm0000012 | Agrobacterium tumefaciens F2 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000055 | Bacteroides thetaiotaomicron VPI-5482 | Eubacteria | Bacteroidetes | Human | Not Available | RHEA |
| MMDBm0000095 | Bradyrhizobium elkanii USDA 76 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000194 | Klebsiella aerogenes KCTC 2190 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0000221 | Ochrobactrum anthropi ATCC 49188 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0000222 | Ochrobactrum intermedium LMG 3301 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000310 | Treponema bryantii | Eubacteria | Spirochaetes | Not Available | Microbial culture | Not Available |
| MMDBm0000361 | Zymomonas mobilis | Eubacteria | Proteobacteria | Not Available | Microbial culture | Not Available |
| MMDBm0000628 | Ruminiclostridium cellobioparum | Eubacteria | Firmicutes | Not Available | Microbial culture | Not Available |
| MMDBm0000687 | Actinosynnema mirum | Eubacteria | Actinobacteria | Not Available | Microbial culture | Not Available |
| MMDBm0000790 | Thermus igniterrae | Eubacteria | Deinococcus-thermus | Not Available | Microbial culture | Not Available |
| MMDBm0000890 | Parvularcula bermudensis | Eubacteria | Proteobacteria | Not Available | Microbial culture | Not Available |
| MMDBm0000925 | Proteiniphilum acetatigenes | Eubacteria | Bacteroidetes | Not Available | Microbial culture | Not Available |
| MMDBm0000929 | Bacteroides pyogenes | Eubacteria | Bacteroidetes | Human | Microbial culture | Not Available |
| MMDBm0000986 | Thermus islandicus | Eubacteria | Deinococcus-thermus | Not Available | Microbial culture | Not Available |
| MMDBm0001064 | Haemophilus parainfluenzae | Eubacteria | Proteobacteria | Human | Indirect association between microbiota composition and metabolites measured in host biospecimen | Not Available |
| MMDBm0001119 | Clostridium hathewayi | Eubacteria | Firmicutes | Not Available | Indirect association between microbiota composition and metabolites measured in host biospecimen | Not Available |
| MMDBm0001131 | Oscillibacter | Eubacteria | Firmicutes | Human Feces | 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 |
| MMDBm0001596 | Escherichia fergusonii ATCC 35469 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0001727 | Klebsiella pneumoniae subsp. pneumoniae MGH 78578 | Eubacteria | Proteobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0001810 | Mesorhizobium loti MAFF303099 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0423522 | Bradyrhizobium japonicum USDA 6 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0453897 | Paracoccus yeei ATCC BAA-599 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0534800 | Enterobacter hormaechei YT2 | Eubacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
