Table 3.
Genetic elements with potential impact to virulence of pathogenic erwinias were summarized and the presence of the key genes is indicated for the analysed genomes (for details please see Additional file 3).
| Functional context | Description | Key genes | Ep1/96 | Et1/99 | Eb661 |
|---|---|---|---|---|---|
| Secretion systems and effectors | |||||
| hrp/hsv/dsp cluster (T3SS) | Hrp-associated enzymes (HAE) | hrpK, hsvABC | + | - | - |
| Hrp/hrc secretion/translocation pathway | hrcUTSRQ, hrpPO, hrcN;hrpQIJLXYSAB; hrcJ, hrpDEFG, hrcC, hrpTV | + | + | - | |
| Hrp elicitor/effector region (HEE) | hrpN, orfABC, hrpW, dspEF | + | + | - | |
| Salmonella SPI-1-like T3SS | Invasion proteins | invHFGEABCIJ | (+) | (+) | - |
| Surface presentation of antigens (SPA) | spaOPQRST | (+) | (+) | - | |
| Cell invasion proteins | sicA, sipBCDA, sptP, prgHIJK, orgA | (+) | (+) | - | |
| Invasion plasmid antigen (IPA) | ipaBCDA | - | - | - | |
| T6SS | T6S proteins and effectors | various | +* | +* | +* |
| Effector and virulence associated | putative operon involved in virulence | srfABC | + | + | + |
| proteins | Outer membrane protease | sopA | + | - | - |
| Maintenance of virulence plasmid | mvpT | + | + | - | |
| Virulence protein; regulator for acidic stress; integral membrane protein, outer membrane protein | msgA, phoPQ, mviN, ompX | + | + | + | |
| Outer membrane invasion protein | pagC | + | - | + | |
| Virulence associated protein | virK | - | + | + | |
| Metabolism | |||||
| Capsular polysaccharide systems | Capsular polysaccharide- biosynthesis | amsGHIABCDEFKL, galFE/cpsGHIABCDEFKL, galFE | + | +* | +* |
| Putative cps biosynthesis system | ymcABC | + | + | + | |
| Regulators | rcsA, rcsB, rcsC, rcsF | + | + | + | |
| Levan-metabolism | Levan synthesis | lsc | - | + | - |
| Regulators | rlsA, rlsB, rlsC | + | + | - | |
| Sorbitol-Operon | Sorbitol uptake, metabolization | srlAEBDMR | + | - | + |
| Sucrose-Operon | Sucrose uptake, metabolization | scrKYABR | + | + | - |
| Non-ribosomal peptide synth. | Suggested phytotoxin | eppT | + | - | - |
| Adhesion & extracellular factors | |||||
| Cell-influencing factors | Necrosis factors | cnf1, cnf2 | + | + | - |
| Proteases | ptrA, ptrB | + | + | + | |
| Siderophores | foxR, dfoA, alcA | + | + | (+) | |
The presence is weighted by three criteria: "+" completely present, "(+)" present in parts and "-" absent. An extended gene content by the presence of additional genes is marked by "*".