TABLE 2.
Hha-YdgT-dependent expression of SPI, flagellar, and pSLT genes identified by transcriptomic analysis
| Genea | hha ydgT/wt expression ratio | Protein function |
|---|---|---|
| SPI5 | ||
| pipB | 4.18 | Secreted effector protein |
| pipC | 3.08 | Pathogenicity island-encoded protein C |
| sopB | 14.37 | Secreted effector protein |
| SPI2 | ||
| STM1381 | 0.30 | Putative cytoplasmic protein |
| STM1382 | 3.46 | Putative regulatory protein |
| STM1390 | 3.28 | Putative regulatory protein |
| ssrB | 5.26 | Transcriptional activator |
| ssrA | 8.85 | Sensor kinase |
| ssaE | 4.91 | Secretion system effector |
| sseB | 12.04 | Translocation machinery component |
| sscA | 5.24 | Secretion system chaperone |
| sseC | 9.88 | Translocation machinery component |
| sseD | 7.16 | Translocation machinery component |
| sseE | 3.19 | Secreted effector protein |
| sscB | 4.44 | Secretion system chaperone |
| ssaH | 3.82 | Type III secretion system apparatus protein |
| ssaI | 3.72 | Type III secretion system apparatus protein |
| ssaJ | 3.38 | Needle complex inner membrane lipoprotein |
| ssaK | 2.89 | Type III secretion system apparatus protein |
| ssaV | 2.49 | Type III secretion system apparatus protein |
| ssaO | 3.72 | Type III secretion system apparatus protein |
| ssaT | 0.34 | Type III secretion system apparatus protein |
| SPI1 | ||
| avrA | 7.73 | Secreted effector protein |
| sprB | 13.36 | Transcriptional regulator |
| hilC | 2.55 | Invasion regulatory protein |
| orgC | 4.69 | Putative cytoplasmic protein |
| orgB | 16.80 | Needle complex export protein |
| prgK | 6.34 | Needle complex inner membrane lipoprotein |
| prgJ | 8.17 | Needle complex minor subunit |
| prgI | 2.45 | Needle complex major subunit |
| prgH | 12.77 | Needle complex inner membrane protein |
| hilA | 2.78 | Invasion protein transcriptional activator |
| sptP | 3.52 | Protein tyrosine phosphatase/GTPase activating protein |
| sicP | 13.74 | Secretion chaperone |
| iacP | 3.48 | Acyl carrier protein |
| sipA | 3.59 | Secreted effector protein |
| sipD | 28.15 | Translocation machinery component |
| sipC | 19.90 | Translocation machinery component |
| sipB | 14.17 | Translocation machinery component |
| spaS | 5.22 | Type III secretion protein |
| spaR | 2.45 | Needle complex export protein |
| invJ | 13.18 | Needle length control protein |
| invI | 13.18 | Needle complex assembly protein |
| invB | 6.04 | Secretion chaperone |
| invA | 3.47 | Needle complex export protein |
| invF | 3.39 | Invasion regulatory protein |
| invH | 4.03 | Needle complex outer membrane lipoprotein precursor |
| STM2913 | 0.37 | Putative permease |
| SPI3 | ||
| slsA | 4.41 | Putative inner membrane protein |
| cigR | 3.71 | Putative inner membrane protein |
| mgtC | 4.18 | Mg2+ transport protein |
| STM3767 | 0.28 | Putative cytoplasmic protein |
| STM3770 | 4.21 | Putative phosphotransferase system enzyme IIC |
| STM3774 | 2.52 | Putative inner membrane protein |
| STM3782 | 3.81 | Putative phosphotransferase system galactitol-specific enzyme IIC |
| Flagellar genes | ||
| flgN | 0.16 | Putative FlgK/FlgL export chaperone |
| flgM | 0.22 | Anti-FliA factor |
| flgB | 0.16 | Flagellar basal body rod protein |
| flgC | 0.21 | Flagellar basal body rod protein |
| flgD | 0.13 | Flagellar basal body rod modification protein |
| flgE | 0.24 | Flagellar hook protein |
| flgF | 0.16 | Cell-proximal portion of basal body rod |
| flgH | 0.17 | Flagellar L-ring protein precursor |
| flgI | 0.37 | Flagellar P-ring protein precursor |
| flgJ | 0.29 | Flagellar biosynthesis protein |
| flgK | 0.22 | Flagellar hook-associated protein |
| cheB | 0.16 | Chemotaxis-specific methylesterase |
| cheW | 0.12 | Chemotaxis docking protein |
| fliD | 0.41 | Flagellar hook-associated protein |
| fliS | 0.41 | Flagellar protein FliS |
| fliT | 0.33 | Possible FliD export chaperone |
| fliF | 0.20 | Flagellar M-ring protein |
| fliH | 0.16 | Flagellar assembly protein |
| fliN | 0.30 | Flagellar motor switch protein |
| fliO | 0.22 | Flagellar biosynthetic protein |
| fljB | 0.14 | Flagellar biosynthesis protein |
| pSLT genes | ||
| rcK | 11.04 | Resistance to complement killing |
| srgA | 5.58 | Putative thiol-disulfide isomerase or thioredoxin |
| orf7 | 8.08 | Putative bacterial regulatory protein |
| pefI | 6.94 | Putative bacterial regulatory protein |
| orf6 | 9.58 | Putative outer membrane protein |
| orf5 | 8.08 | Putative outer membrane protein |
| pefA | 4.29 | Major fimbrial subunit |
| repA2 | 4.08 | DNA replication protein |
| PSLT025 | 0.46 | Putative cytoplasmic protein |
| PSLT045 | 3.81 | Putative resolvase |
| PSLT046 | 11.00 | Putative carbonic anhydrase |
| tlpA | 2.89 | Alpha-helical coiled-coil protein |
| psiB | 4.98 | Plasmid SOS inhibition |
| psiA | 4.24 | Plasmid SOS inhibition |
| traA | 4.84 | Pilus subunit |
| traL | 3.62 | Pilus assembly protein |
| traK | 8.34 | Pilus assembly protein |
| traP | 6.96 | Conjugative transfer protein |
| traC | 3.28 | ATP-binding protein |
| trbI | 2.55 | Pilus assembly protein |
| traU | 5.30 | Pilus assembly protein |
| trbC | 3.82 | Pilus assembly protein |
| traF | 5.05 | Pilus assembly protein |
| trbB | 3.57 | Conjugative transfer protein |
| traG | 10.89 | Mating pair stabilization and pilus assembly protein |
| traS | 4.41 | Entry exclusion protein |
| traT | 3.90 | Surface exclusion protein |
| PSLT107 | 2.75 | Putative cytoplasmic protein |
| finO | 2.61 | FinP binding protein |
| traJ | 2.55 | Conjugative transfer regulation |
| traM | 3.30 | Conjugative transfer mating signal |
| traN | 3.01 | Conjugative transfer aggregate stability |
| traQ | 2.29 | Conjugative transfer fimbrial synthesis |
a
Bold type indicates the genes containing binding sites for H-NS as described by Navarre et al. (28).