| Genus | Species Num | Strain Num | SOURCE |
|---|---|---|---|
| Elusimicrobium | 1 | 1 | HMP |
| Emergencia | 1 | 1 | MGYG |
| Endomicrobium | 1 | 1 | HMP |
| Enhydrobacter | 1 | 1 | HMP |
| Enorma | 1 | 2 | MGYG |
| Enterobacter | 6 | 12 | HMP/MGYG |
| Enterocloster | 4 | 6 | HMP/MGYG |
| Enterococcus | 17 | 47 | HMP/MGYG |
| Enteroscipio | 1 | 1 | MGYG |
| Epilithonimonas | 1 | 1 | MGYG |