Table 4.
Sequence conservation analysis.
| Gene | Product | Locus tag | nt | aa | Gene phylogeny | ||
|---|---|---|---|---|---|---|---|
| Length (bp) | % ID | length (aa) | % ID | ||||
| PHYLOGENETIC MARKER GENES ANALYZED IN Kurka et al. (2014) | |||||||
| atpA(V) | V-type ATP synthase subunit Alpha | CD630_29560 | 1779 | 100.0 | 592 | 100.0 | – |
| atpA | ATPase subunit Alpha | CD630_34700 | 1503 | 99.7 | 500 | 100.0 | SI 2A |
| atpD | V-type ATP synthase subunit D | CD630_29540 | 699 | 100.0 | 222 | 100.0 | – |
| atpB | ATPase subunit Beta | CD630_29550 | 1374 | 100.0 | 457 | 100.0 | – |
| rpoA | RNA polymerase A | CD630_00980 | 948 | 99.8 | 315 | 100.0 | SI 2B |
| rpoB | RNA polymerase B | CD630_00660 | 3717 | 99.9 | 1238 | 99.9 | SI 2C |
| rpoC | RNA polymerase C | CD630_00670 | 3486 | 99.9 | 1161 | 100.0 | SI 2D |
| gryA | Gyrase A | CD630_00060 | 2427 | 100.0 | 807 | 100.0 | – |
| gyrB | Gyrase B | CD630_00050 | 1902 | 100.0 | 633 | 100.0 | – |
| infB | Translation initiation factor IF-2 | CD630_13090 | 1941 | 100.0 | 646 | 100.0 | – |
| recA | Recombinase A | CD630_13280 | 1047 | 100.0 | 348 | 100.0 | – |
| dnaK | Heatshock protein 70 | CD630_24610 | 1848 | 100.0 | 615 | 100.0 | – |
| groEL | Heatshock protein 60 | CD630_01740 | 1629 | 100.0 | 542 | 100.0 | – |
| fusA | Elongation factor G | CD630_00700 | 2067 | 100.0 | 688 | 100.0 | – |
| MOTILITY | |||||||
| fliD | agellar hook-associated cap protein | CD630_02370 | 24 | 100.0 | 507 | 100.0 | – |
| fliC | Flagellin C | CD630_02390 | 873 | 100.0 | 290 | 100.0 | – |
| SPORULATION | |||||||
| spo0A | Stage 0 sporulation protein A | CD630_12140 | 810 | 100.0 | 274 | 100.0 | – |
| sodA | Spore coat protein-superoxide dismutase | CD630_16310 | 705 | 100.0 | 234 | 100.0 | – |
| ANTIMICROBIAL RESISTANCE | |||||||
| blaR | x003B2;-lactamase inducing penicillin binding protein | CD630_04700 | 00 | 98.7 | 599 | 97.8 | SI 2E |
| cme | Multidrug resistance transporter protein | CD630_31980 | 1251 | 100.0 | 416 | 100.0 | – |
| vanR | vanGcd: response regulator | CD630_16240 | 702 | 100.0 | 233 | 100.0 | – |
| vanS | vanGcd: sensor histadine kinase | CD630_16250 | 1143 | 100.0 | 380 | 100.0 | – |
| vanG | vanGcd: D-alanine–D-alanine ligase | CD630_16260 | 1099 | 100.0 | 366 | 100.0 | – |
| vanY | vanGcd: D-alanyl–D-alanine decarboxypeptidase | CD630_16270 | 807 | 100.0 | 268 | 100.0 | – |
| vanTG | vanGcd: alanine racemase | CD630_16280 | 2139 | 100.0 | 712 | 100.0 | – |
| TOXIN GENES [PATHOGENICITY LOCUS (PaLoc) AND BINARY TOXIN LOCUS (CdtLoc)] | |||||||
| tcdR | PaLoc: RNA polymerase sigma factor | CD630_06590 | 555 | 99.3 | 184 | 98.9 | SI 2F |
| tcdB | PaLoc: cytotoxin B | CD630_06600 | 7101 | 99.9 | 2366 | 99.8 | SI 2G |
| tcdE | PaLoc: holin-like pore forming protein | CD630_06610 | 501 | 100.0 | 166 | 100.0 | – |
| tcdC | PaLoc: negative regulator | CD630_06640 | 699 | 99.9 | 232 | 99.6 | SI 2H |
| cdtR | CdtLoc: binary toxin regulator | CD630_26030 | 747 | 100.0 | 248 | 100.0 | – |
| CELL WALL (S-LAYER AND cwp CLUSTER) | |||||||
| slpA | S-layer protein | CD630_27930 | 2199-2304 | 78.1 | 720-768 | 65.3 | SI 2I |
| sec2A | Cell surface secretory translocase subunit | CD630_27920 | 2346 | 100.0 | 781 | 100.0 | – |
| cwp84 | Cell surface binding protein 84 | CD630_27870 | 2412 | 100.0 | 803 | 100.0 | – |
| cwp66 | Cell surface binding protein 66 | CD630_27890 | 1833 | 72.0 | 611 | 63.0 | SI 2J |
| cwp2 | Cell surface binding protein 2 | CD630_27910 | 1872 | 90.4 | 623 | 89.2 | SI 2K |
| CD2790 | Putative LmbE-like deacetylase | CD630_27900 | 708 | 100.0 | 234 | 100.0 | – |
| cwp5 | Cell surface binding protein 5 | CD630_27860 | 1578 | 100.0 | 525 | 100.0 | – |
| cwp11 | Cell surface binding protein 11 | CD630_27950 | 1602 | 98.9 | 533 | 99.2 | SI 2L |
| cwp13 | Cell surface binding protein 13 | CD630_17510 | 2388 | 100.0 | 795 | 100.0 | – |
| cwp25 | Cell surface binding protein 25 | CD630_27910 | 942 | 99.6 | 313 | 99.7 | SI 2M |
| QUORUM SENSING (agr LOCUS) | |||||||
| agrC | Sensor kinase | CDR20291_02638 | 1380 | 100.0 | 459 | 100.0 | – |
| agrB | Accessory gene regulator | CD630_27500 | 579 | 99.8 | 192 | 99.5 | SI 2N |
| agrD | Cyclic autoinducer peptide | CD630_27491 | 147 | 100.0 | 48 | 100.0 | – |
| OTHER | |||||||
| fbpA | Fibronectin-binding protein A | CD630_25920 | 1776 | 100.0 | 591 | 100.0 | – |
| gluD | NAD-specific glutamate dehydrogenase | CD630_01790 | 1266 | 100.0 | 411 | 100.0 | – |