| MMDBm0000015 | Akkermansia muciniphila ATCC BAA-835 | Bacteria | Verrucomicrobia | Human | Metabolic reconstruction | VMH |
| MMDBm0810309 | Anaerococcus vaginalis ATCC 51170 | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0810478 | Peptoniphilus harei ACS-146-V-Sch2b | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0810479 | Peptoniphilus indolicus ATCC 29427 | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001963 | Thermotoga maritima MSB8 | Bacteria | Thermotogae | Not Available | Not Available | RHEA |
| MMDBm0002641 | Sulfolobus solfataricus P2 | Archaea | Crenarchaeota | Not Available | Metabolic reconstruction | VMH |
| MMDBm0001366 | Caldivirga maquilingensis IC-167 | Archaea | Crenarchaeota | Not Available | Not Available | RHEA |
| MMDBm0002702 | Thermoplasma volcanium GSS1 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0881917 | Methanomassiliicoccus luminyensis B10 | Archaea | Euryarchaeota | Not Available | Metabolic reconstruction | VMH |
| MMDBm0001955 | Picrophilus torridus DSM 9790 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0002701 | Thermoplasma acidophilum DSM 1728 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0002423 | Pyrococcus abyssi GE5 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0002425 | Pyrococcus furiosus DSM 3638 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0002424 | Pyrococcus horikoshii OT3 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0645329 | Pyramidobacter piscolens W5455 | Bacteria | Synergistetes | Human Feces | 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 |
| MMDBm0002002 | Leptospira biflexa serovar Patoc strain 'Patoc 1 (Ames)' | Bacteria | Spirochaetes | Not Available | Not Available | RHEA |
| MMDBm0641709 | Brachyspira pilosicoli B2904 | Bacteria | Spirochaetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001999 | Leptospira biflexa serovar Patoc strain 'Patoc 1 (Paris)' | Bacteria | Spirochaetes | Not Available | Not Available | RHEA |
| MMDBm0002489 | Salinibacter ruber DSM 13855 | Bacteria | Bacteroidetes | Not Available | Not Available | RHEA |
| MMDBm0101577 | Schizosaccharomyces pombe 972h- | Fungi | Ascomycota | Not Available | Not Available | RHEA |
| MMDBm0098378 | Saccharomyces cerevisiae S288C | Fungi | Ascomycota | Not Available | Not Available | RHEA |
| MMDBm0639412 | Schlesneria paludicola DSM 18645 | Bacteria | Planctomycetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0002448 | Rhodopirellula baltica SH 1 | Bacteria | Planctomycetes | Not Available | Not Available | RHEA |
