| MMDBm0002641 | Sulfolobus solfataricus P2 | Archaea | Crenarchaeota | Not Available | Metabolic reconstruction | VMH |
| MMDBm0881917 | Methanomassiliicoccus luminyensis B10 | Archaea | Euryarchaeota | Not Available | Metabolic reconstruction | VMH |
| MMDBm0002693 | Thermococcus sibiricus MM 739 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0002423 | Pyrococcus abyssi GE5 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0002690 | Thermococcus kodakarensis KOD1 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0002425 | Pyrococcus furiosus DSM 3638 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0002691 | Thermococcus onnurineus NA1 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0002424 | Pyrococcus horikoshii OT3 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0000107 | Cloacibacillus evryensis DSM 19522 | Bacteria | Synergistetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0645329 | Pyramidobacter piscolens W5455 | Bacteria | Synergistetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0085327 | Pestalotiopsis fici W106-1 | Fungi | Ascomycota | Not Available | Not Available | RHEA |
| MMDBm0101577 | Schizosaccharomyces pombe 972h- | Fungi | Ascomycota | Not Available | Not Available | RHEA |
| MMDBm0000583 | Saccharomyces cerevisiae | Fungi | Ascomycota | Human Feces | Unknown | YMDB |
| MMDBm0098378 | Saccharomyces cerevisiae S288C | Fungi | Ascomycota | Not Available | Not Available | RHEA |
| 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 |
| MMDBm0000003 | Acidaminococcus fermentans DSM 20731 | Bacteria | Firmicutes | Pig | Metabolic reconstruction | VMH |
| MMDBm0809098 | Megamonas funiformis YIT 11815 | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0809111 | Mitsuokella jalaludinii DSM 13811 | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001817 | Methanobrevibacter ruminantium M1 | Archaea | Euryarchaeota | Not Available | Metabolic reconstruction | VMH |
| MMDBm0881919 | Halococcus morrhuae DSM 1307 | Archaea | Euryarchaeota | Not Available | Metabolic reconstruction | VMH |
| MMDBm0541555 | Escherichia coli K-12 | Bacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0002778 | Yersinia pseudotuberculosis IP 32953 | Bacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0001188 | Acinetobacter baumannii AB0057 | Bacteria | Proteobacteria | Human | Not Available | RHEA |
| MMDBm0000368 | Shigella flexneri | Bacteria | Proteobacteria | Human | Not Available | RHEA |
