| MMDBm0101577 | Schizosaccharomyces pombe 972h- | Fungi | Ascomycota | Not Available | Not Available | RHEA |
| MMDBm0000583 | Saccharomyces cerevisiae | Fungi | Ascomycota | Human Feces | Unknown | YMDB |
| MMDBm0017978 | Bipolaris zeicola | Fungi | Ascomycota | Human Feces | Not Available | RHEA |
| MMDBm0000592 | Plasmodium berghei | Eukaryota | Apicomplexa | Not Available | Microbial culture | Not Available |
| MMDBm0000586 | Leishmania major | Eukaryota | Euglenozoa | Not Available | Microbial culture | Not Available |
| MMDBm0002424 | Pyrococcus horikoshii OT3 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0001825 | Methanococcus maripaludis S2 | Archaea | Euryarchaeota | Not Available | Not Available | RHEA |
| MMDBm0534723 | Enterobacter cancerogenus ATCC 35316 | Bacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0002352 | Pelobacter carbinolicus DSM 2380 | Bacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0649150 | Corynebacterium ureicelerivorans | Bacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0002572 | Staphylococcus aureus subsp. aureus USA300TCH1516 | Bacteria | Firmicutes | Human | Not Available | RHEA |
| MMDBm0552405 | Trabulsiella guamensis ATCC 49490 | Bacteria | Proteobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0002607 | Streptococcus gordonii str. Challis substr. CH1 | Bacteria | Firmicutes | Human | Metabolic reconstruction | VMH |
| MMDBm0650438 | Gordonia rubripertincta NBRC 101908 | Bacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0002442 | Rhodobacter sphaeroides KD131 | Bacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0805488 | Faecalibacterium prausnitzii A2-165 | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0394807 | Alistipes putredinis DSM 17216 | Bacteria | Bacteroidetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001236 | Aromatoleum aromaticum EbN1 | Bacteria | Proteobacteria | Not Available | Not Available | RHEA |
| MMDBm0392190 | Bacteroides graminisolvens | Bacteria | Bacteroidetes | Not Available | Metabolic reconstruction | VMH |
| MMDBm0792777 | Lactobacillus reuteri MM2-3 | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0792742 | Lactobacillus gastricus PS3 | Bacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001702 | Herpetosiphon aurantiacus DSM 785 | Bacteria | Chloroflexi | Not Available | Not Available | RHEA |
| MMDBm0000058 | Bacteroides xylanisolvens XB1A | Bacteria | Bacteroidetes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001625 | Francisella philomiragia subsp. philomiragia ATCC 25017 | Bacteria | Proteobacteria | Human | Not Available | RHEA |
| MMDBm0392206 | Bacteroides oleiciplenus YIT 12058 | Bacteria | Bacteroidetes | Human Feces | Metabolic reconstruction | VMH |
