| MMDBm0000015 | Akkermansia muciniphila ATCC BAA-835 | Bacteria | Verrucomicrobia | Human | Metabolic reconstruction | VMH |
| MMDBm0001015 | Peptoniphilus rhinitidis | Bacteria | Firmicutes | Not Available | Microbial culture | Not Available |
| MMDBm0810478 | Peptoniphilus harei ACS-146-V-Sch2b | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000651 | Anaerococcus vaginalis | Bacteria | Firmicutes | Human Feces | Microbial culture | Not Available |
| MMDBm0810479 | Peptoniphilus indolicus ATCC 29427 | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000728 | Peptoniphilus harei | Bacteria | Firmicutes | Human | Microbial culture | Not Available |
| MMDBm0810498 | Peptoniphilus timonensis JC401 | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000647 | Peptoniphilus lacrimalis | Bacteria | Firmicutes | Human | Microbial culture | Not Available |
| MMDBm0000646 | Peptoniphilus indolicus | Bacteria | Firmicutes | Human | Microbial culture | Not Available |
| MMDBm0000645 | Anaerococcus hydrogenalis | Bacteria | Firmicutes | Human Unknown | Microbial culture | Not Available |
| MMDBm0002641 | Sulfolobus solfataricus P2 | Archaea | Crenarchaeota | Not Available | Metabolic reconstruction | VMH |
| MMDBm0001952 | Aeropyrum pernix K1 | Archaea | Crenarchaeota | Not Available | Not Available | RHEA |
| MMDBm0881917 | Methanomassiliicoccus luminyensis B10 | Archaea | Euryarchaeota | Not Available | Metabolic reconstruction | VMH |
| MMDBm0645212 | Acetomicrobium hydrogeniformans ATCC BAA-1850 | Bacteria | Synergistetes | Not Available | Metabolic reconstruction | VMH |
| MMDBm0000107 | Cloacibacillus evryensis DSM 19522 | Bacteria | Synergistetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0645329 | Pyramidobacter piscolens W5455 | Bacteria | Synergistetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0641709 | Brachyspira pilosicoli B2904 | Bacteria | Spirochaetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000597 | Brachyspira innocens | Bacteria | Spirochaetes | Not Available | Microbial culture | Not Available |
| MMDBm0001021 | Brachyspira hampsonii | Bacteria | Spirochaetes | Not Available | Microbial culture | Not Available |
| MMDBm0000781 | Brachyspira intermedia | Bacteria | Spirochaetes | Not Available | Microbial culture | Not Available |
| MMDBm0002489 | Salinibacter ruber DSM 13855 | Bacteria | Bacteroidetes | Not Available | Not Available | RHEA |
| MMDBm0000583 | Saccharomyces cerevisiae | Fungi | Ascomycota | Human Feces | Unknown | YMDB |
| MMDBm0639412 | Schlesneria paludicola DSM 18645 | Bacteria | Planctomycetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0881918 | Candidatus Nitrososphaera gargensis Ga9.2 | Archaea | Thaumarchaeota | Not Available | Metabolic reconstruction | VMH |
| MMDBm0002107 | Megasphaera elsdenii DSM 20460 | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
