| * Ensembl Bacteria - genome sequences from bacteria and archaea |
| IMG | * Integrated Microbial Genomes |
| * NCBI Microbial Genomes Resources |
| ARDB | Antibiotic Resistance Genes Database |
| BSORF | Bacillus subtilis Genome Database |
| Chlamydomonas Resource Center -Green alga Chlamydomonas reinhardtii |
| MolliGen | Comparative genomics of Mollicutes |
| PRODORIC | Database for gene regulation and gene expression in prokaryotes |
| PromEC | Database of E. coli mRNA promoters with experimentally identified transcriptional start sites |
| PanDaTox | Database of genes and intergenic regions that are unclonable in E. coli. Genes that are potentially toxic to bacteria. |
| PubMLST | Databases for Multilocus sequence typing (MLST) and microbial genome diversity |
| GenExpDB | E. coli Gene Expression Database |
| CyanoBase | Genome Database for Cyanobacteria |
| Halobacterium NRC-1 genome database |
| HMP | Human Microbiome Project |
| BacMap | Interactive Atlas for Exploring Bacterial Genomes |
| LPSN | List of Prokaryotic names with Standing in Nomenclature |
| MicrobesOnline Genome Database |
| Microbial Genome Browser |
| MBGD | Microbial Genome Database for Comparative Analysis |
| Mycoplasma pneumoniae Genome Project |
| ODB | Operon DataBase |
| Pseudomonas aeruginosa Genome Database |
| Sinorhizobium meliloti Genome Project |
