Table 3. Genes of the rpoQ, tad, and syp operons at low and high cell densities in the luxI−/wt transcriptome.
| VSAL_ID | LCD | HCD | Gene | Function | ||
|---|---|---|---|---|---|---|
| FC | p-value | FC | p-value | |||
| rpoQ genes | ||||||
| VSAL_II0319 | −8.15 | 1.78E-25 | −5.08 | 9.15E-28 | rpoQ | RNA polymerase sigma factor |
| VSAL_II0320 | −5.33 | 2.33E-19 | −6.69 | 6.19E-24 | Putative membrane associated signaling protein | |
| VSAL_II0321 | −4.82 | 1.20E-23 | −6.54 | 2.38E-32 | Putative glycosyl transferase | |
| VSAL_II0322 | −3.43 | 3.88E-15 | −6.52 | 7.94E-33 | Putative membrane protein | |
| VSAL_II0323 | −3.67 | 1.22E-20 | −5.67 | 5.44E-24 | Putative lipoprotein | |
| VSAL_II0324 | −1.74 | 0.0001 | −4.25 | 8.65E-26 | Putative lipoprotein | |
| VSAL_II0325 | −1.93 | 2.26E-05 | −4.20 | 3.29E-23 | Putative exported protein | |
| tad genes | ||||||
| VSAL_II0366 | 83.84 | 3.32E-45 | 151.51 | 2.68E-33 | ? | Fimbrial protein. Flp/Fap pilin component |
| VSAL_II0367 | 57.37 | 3.31E-157 | 39.53 | 7.92E-39 | tadV | Type IV leader peptidase |
| VSAL_II0368 | 22.97 | 7.63E-96 | 8.23 | 4.51E-32 | rcpC | Putative Flp pilus assembly protein |
| VSAL_II0369 | 18.78 | 5.99E-121 | 10.82 | 1.54E-38 | rcpA | Type II/III secretion system protein |
| VSAL_II0370 | 24.63 | 7.18E-155 | 18.12 | 4.12E-24 | rcpB | Putative lipoprotein |
| VSAL_II0371 | 24.11 | 4.75E-138 | 9.57 | 1.62E-27 | tadZ | Type II secretion system protein Z |
| VSAL_II0372 | 20.25 | 3.92E-140 | 10.26 | 3.51E-33 | tadA | Type II/IV secretion system protein. ATP binding domain |
| VSAL_II0373 | 15.02 | 6.78E-77 | 7.32 | 2.97E-33 | tadB | Bacterial type II secretion system protein F |
| VSAL_II0374 | 6.75 | 4.86E-59 | 2.17 | 7.26E-09 | tadC | Bacterial type II secretion system protein F |
| VSAL_II0375 | 3.63 | 6.47E-32 | 1.31 | 0.0135 | tadD | Putative secretion system protein |
| VSAL_II0376 | 3.85 | 3.98E-32 | 1.23 | 0.1109 | tadE | Membrane associated secretion system protein |
| VSAL_II0377 | 3.97 | 6.25E-43 | 1.37 | 0.0301 | tadF | Membrane associated secretion system protein |
| VSAL_II0378 | 3.58 | 1.99E-41 | 1.09 | 0.5780 | tadG | Membrane associated secretion system protein |
| syp genes | ||||||
| VSAL_II0295 | 1.97 | 0.001811 | sypR | Sugar transferase | ||
| VSAL_II0296 | 2.49 | 3.35E-09 | sypQ | Putative transmembrane glycosyl transferase | ||
| VSAL_II0297 | 3.63 | 1.34E-15 | sypP | Putative glycosyl transferase | ||
| VSAL_II0298 | 2.13 | 2.02E-07 | sypO | Putative membrane protein | ||
| VSAL_II0299 | 2.04 | 0.003254 | sypN | Putative glycosyl transferases | ||
| VSAL_II0300 | 3.86 | 4.63E-08 | sypM | Hypothetical protein | ||
| VSAL_II0301 | 1.07 | 0.742157 | sypL | O-antigen polymerase | ||
| VSAL_II0302 | 2.24 | 8.25E-07 | sypK | Putative polysaccharide biosynthesis protein | ||
| VSAL_II0303 | 2.91 | 3.04E-08 | sypJ | Putative glycosyl transferase | ||
| VSAL_II0304 | 3.31 | 5.28E-08 | sypI | Putative glycosyl transferase | ||
| VSAL_II0305 | 1.01 | 0.937840 | sypH | Putative glycosyl transferase | ||
| VSAL_II0306 | −1.03 | 0.001601 | sypG | Two-component response regulator. transcriptional regulatory protein LuxO | ||
| VSAL_II0307 | −1.11 | 0.294485 | sypF | Response regulator. histidine kinase | ||
| VSAL_II0308 | 1.04 | 0.691913 | sypE | Putative response regulator | ||
| VSAL_II0309 | 1.93 | 0.001993 | sypD | Putative capsular polysaccharide synthesis protein | ||
| VSAL_II0310 | 3.48 | 4.60E-12 | sypC | Polysaccharide biosynthesis/export protein | ||
| VSAL_II0311 | 6.41 | 3.45E-15 | sypB | Outer membrane protein. OmpA family | ||
| VSAL_II0312 | 9.55 | 4.70E-26 | sypA | Hypothetical protein. putative anti-sigma factor antagonist | ||
Note:
Values indicated in bold are genes filtered out from the analysis due to fold change values (FC) below ≤2 and ≥−2 (not significantly expressed).