Table 4.
Publicly available finished and unfinished genome sequence databases used in this study
| Acidithiobacillus ferrooxidans | Escherichia coli O157:H7 EDL933 | Rhodobacter sphaeroides |
| Actinobacillus actinomycetemcomitans | *Enterococcus faecalis | Salmonella dublin |
| Aquifex aeolicus | Geobacter sulfurreducens | Salmonella enteritidis |
| *Bacillus anthracis | Haemophilus ducreyi 35000HP | Salmonella paratyphi |
| *Bacillus halodurans | Haemophilus influenzae Rd | Salmonella typhi |
| *Bacillus subtilis | Helicobacter pylori 26695 | Salmonella typhimurium LT2 |
| *Bacillus stearothermophilus | Helicobacter pylori J99 | Shewanella putrefaciens |
| Bordetella bronchiseptica | Klebsiella pneumoniae | Sinorhizobium meliloti |
| Bordetella parapertussis | *Lactococcus lactis subsp. lactis | *Staphylococcus aureus COL |
| Bordetella pertussis | Legionella pneumophila | *Staphylococcus aureus MRSA |
| Borrelia burgdorferi | *Listeria monocytogenes | *Staphylococcus aureus MSSA |
| Brucella melitensis biovar Suis | Mesorhizobium loti | *Staphylococcus aureus Mu50 |
| Buchnera sp. APS | Methylococcus capsulatus | *Staphylococcus aureus N315 |
| Burkholderia mallei | *Mycobacterium avium | *Staphylococcus aureus NCTC 8325 |
| Burkholderia pseudomallei | *Mycobacterium avium subsp. paratuberculosis | *Staphylococcus epidermidis |
| Campylobacter jejuni NCTC 11168 | *Mycobacterium bovis | *Streptococcus equi |
| Carboxydothermus hydrogenoformans | *Mycobacterium leprae | *Streptococcus gordonii |
| Caulobacter crescentus | *Mycobacterium smegmatis | *Streptococcus mutans |
| Chlamydia muridarum | *Mycobacterium tuberculosis 210 | *Streptococcus pneumoniae |
| Chlamydia pneumoniae | *Mycobacterium tuberculosis CDC1551 | *Streptococcus pyogenes |
| Chlamydia trachomatis D/UW-3/CX | *Mycobacterium tuberculosis H37Rv | |
| Chlamydophila pneumoniae AR39 | *Mycoplasma genitalium G37 | *Streptococcus pyogenes Manfredo |
| Chlamydophila psittaci | *Mycoplasma pneumoniae M129 | *Streptomyces coelicolor A3(2) |
| Chlorobium tepidum | Neisseria gonorrhoeae | Synechocystis PCC6803 |
| *Clostridium acetobutylicum | Neisseria meningitidis MC58 | Thermotoga maritima |
| *Clostridium difficile | Neisseria meningitidis Z2491 | Treponema denticola |
| *Corynebacterium diphtheriae | Pasteurella multocida PM70 | Treponema pallidum |
| Coxiella burnetii | Porphyromonas gingivalis W83 | *Ureaplasma urealyticum |
| Dehalococcoides ethenogenes | Pseudomonas aeruginosa | Vibrio cholerae |
| Desulfovibrio vulgaris | Pseudomonas putida KT2440 | Wolbachia |
| Deinococcus radiodurans | Pseudomonas putida PRS1 | Xylella fastidiosa |
| Escherichia coli K-12 MG1655 | Pseudomonas syringae pv. tomato | Yersinia enterocolitica |
| Escherichia coli O157:H7 | Rickettsia prowazekii | Yersinia pestis |
Finished genome sequences are indicated in bold, * indicates Gram-positive species.