| MMDBm0000002 | Micromonospora aurantiaca ATCC 27029 | Eubacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000026 | Bacillus cereus AH187 (F4810/72) | Eubacteria | Firmicutes | Human | Metabolic reconstruction | VMH |
| MMDBm0000096 | Brevibacillus borstelensis AK1 | Eubacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000097 | Brevibacillus brevis NBRC 100599 | Eubacteria | Firmicutes | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0000350 | Gluconobacter oxydans | Eubacteria | Proteobacteria | Not Available | Microbial culture | Not Available |
| MMDBm0000591 | Eimeria tenella | Eukaryota | Apicomplexa | Not Available | Microbial culture | Not Available |
| MMDBm0000795 | Ketogulonicigenium vulgare | Eubacteria | Proteobacteria | Not Available | Microbial culture | Not Available |
| MMDBm0001035 | Bacillus cereus | Eubacteria | Firmicutes | Human | Metabolic reconstruction | VMH |
| MMDBm0001264 | Bacillus cereus G9842 | Eubacteria | Firmicutes | Human | Metabolic reconstruction | VMH |
| MMDBm0001489 | Corynebacterium aurimucosum ATCC 700975 | Eubacteria | Actinobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0001490 | Corynebacterium kroppenstedtii DSM 44385 | Eubacteria | Actinobacteria | Human | Metabolic reconstruction | VMH |
| MMDBm0001732 | Kytococcus sedentarius DSM 20547 | Eubacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0001880 | Mycobacterium tuberculosis H37Rv | Eubacteria | Actinobacteria | Human | Not Available | RHEA |
| MMDBm0001882 | Mycobacterium tuberculosis CDC1551 | Eubacteria | Actinobacteria | Human | Not Available | RHEA |
| MMDBm0095324 | Candida albicans SC5314 | Fungi | Ascomycota | Not Available | Not Available | RHEA |
| MMDBm0098378 | Saccharomyces cerevisiae S288C | Fungi | Ascomycota | Not Available | Not Available | RHEA |
| MMDBm0101577 | Schizosaccharomyces pombe 972h- | Fungi | Ascomycota | Not Available | Not Available | RHEA |
| MMDBm0648904 | Corynebacterium amycolatum SK46 | Eubacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0649119 | Corynebacterium striatum ATCC 6940 | Eubacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0649955 | Dietzia cinnamea P4 | Eubacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0650438 | Gordonia rubripertincta NBRC 101908 | Eubacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0650453 | Gordonia terrae C-6 | Eubacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0650454 | Gordonia terrae NBRC 100016 | Eubacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0657325 | Mycolicibacterium fortuitum subsp. fortuitum DSM 46621 = ATCC 6841 | Bacteria | Actinobacteria | Human Feces | Metabolic reconstruction | VMH |
| MMDBm0658814 | Rhodococcus hoagii | Eubacteria | Actinobacteria | Human | Metabolic reconstruction | VMH |
