| Species | RefIntense Num | Refseq Num | Source |
|---|---|---|---|
| Epilithonimonas bovis | 1 | 1 | MGYG |
| Epulopiscium sp. 'N.t. morphotype B' | 1 | 1 | HMP |
| Erwinia amylovora | 2 | 236 | HMP |
| Erwinia billingiae | 1 | 5 | HMP |
| Erwinia pyrifoliae | 1 | 4 | HMP |
| Erwinia tasmaniensis | 1 | 1 | HMP |
| Erysipelatoclostridium ramosum | 2 | 88 | HMP/MGYG |
| Erysipelothrix rhusiopathiae | 1 | 17 | HMP |
| Erythrobacter litoralis | 1 | 3 | HMP |
| Erythrobacter sp. NAP1 | 1 | 1 | HMP |