Table 4.
Major groups of B. cenocepacia genes with altered gene expression in sputum
| Gene number: | Fold change in expression | Putative gene function: |
| Antimicrobial resistance | ||
| upregulated | ||
| BCAL1675 | 2.67 | multidrug efflux system transporter protein AmrB |
| BCAM0200 | 2.20 | efflux system transport protein |
| BCAM0791 | 2.11 | Major Facilitator Superfamily protein |
| BCAM0792 | 2.45 | efflux system transport protein |
| BCAM1362 | 2.06 | putative penicillin-binding protein |
| BCAM1947 | 3.76 | putative quinoxaline efflux system transport protein |
| BCAS0034 | 19.84 | metallo-beta-lactamase superfamily protein |
| downregulated | ||
| BCAL0704 | 2.61 | D-alanyl-D-alanine carboxypeptidase (penicillin-binding protein precursor) |
| BCAL1510 | 2.72 | putative multidrug resistance transporter protein |
| BCAL1813 | 2.37 | multidrug efflux system outer membrane protein |
| BCAL2832 | 2.07 | D-alanyl-D-alanine carboxypeptidase/endopeptidase (penicillin-binding protein precursor) |
| BCAL3511 | 2.08 | multidrug resistance transporter protein |
| BCAL3514 | 2.11 | outer membrane efflux protein |
| BCAS0015 | 2.09 | efflux system transport protein |
| Iron uptake & metabolism | ||
| upregulated | ||
| BCAL0270 | 35.59 | ferric reductase-like transmembrane component |
| BCAL0273 | 8.23 | protein CyaY |
| BCAM2231 | 2.86 | transcriptional regulator PchR |
| BCAM2232 | 2.11 | putative pyochelin biosynthetic protein PchD |
| downregulated | ||
| BCAL2812 | 2.59 | putative Fur family transcriptional regulator |
| BCAL3201 | 2.59 | putative TolR-related protein |
| BCAL3203 | 2.18 | putative periplasmic TolB protein |
| BCAL3204 | 2.67 | putative OmpA family lipoprotein |
| Protection against reactive oxygen and nitrogen species | ||
| upregulated | ||
| BCAL1766 | 2.23 | OsmC-like protein |
| BCAM1676 | 19.99 | putative nitrite/sulfite reductase |
| BCAM1677 | 26.75 | conserved hypothetical protein |
| BCAM2753 | 8.00 | putative organic hydroperoxide resistance protein, ohr gene |
| Downregulated (none) | ||
| Motility and adherence | ||
| upregulated | ||
| BCAL0124 | 2.02 | flagellar regulon master regulator subunit FlhD |
| BCAL0525 | 2.17 | flagellar M-ring protein FliF |
| BCAL0527 | 2.34 | flagellar protein FliS |
| BCAL3506 | 2.58 | flagellar motor switch protein FliM |
| BCAM0987 | 2.69 | flagellar hook protein 2 FlgE2 |
| BCAM2143 | 2.33 | cable pilus associated adhesin protein |
| BCAS0299 | 3.55 | flp type pilus subunit |
| downregulated | ||
| BCAL3504 | 3.31 | flagellar protein FliO |
| BCAM2758 | 2.35 | two-component regulatory system, sensor kinase protein |
| BCAM2759 | 3.73 | putative minor pilin and initiator |
| BCAM2761 | 2.53 | giant cable pilus |
| BCAM2762 | 2.81 | giant cable pilus chaperone protein |
| BCAS0301 | 2.03 | putative flp type pilus leader peptidase |
| Secretion | ||
| upregulated | ||
| BCAL0849 | 3.39 | metallo peptidase, subfamily M48B |
| BCAL3517 | 2.36 | type II secretion system protein L |
| BCAM2040 | 2.98 | type III secretion system protein |
| BCAM2042 | 2.16 | type III secretion system protein |
| BCAS0196 | 3.25 | putative polygalacturonase |
| BCAS0409 | 6.36 | zinc metalloprotease ZmpA |
| downregulated | ||
| BCAL3515 | 2.62 | type II secretion system protein N |
| BCAL3521 | 3.19 | type II secretion system protein I |
| BCAL3522 | 2.21 | type II secretion system protein H |
| BCAM0240 | 2.47 | N-acylhomoserine lactone dependent regulatory protein |
| Selected gene clusters | ||
| upregulated | ||
| BCAL0269 | 20.82 | putative oxidoreductase |
| BCAL0270 | 35.59 | ferric reductase-like transmembrane component |
| BCAL1106 | 90.32 | cytochrome b561 family protein |
| BCAL1107 | 65.79 | putative oxidoreductase |
| BCAL1153 | 3.30 | putative salicylaldehyde/benzaldehyde dehydrogenase |
| BCAL1156 | 2.02 | putative 4-hydroxybenzoate transporter |
| BCAL1157 | 2.51 | putative monooxygenase |
| BCAM1676 | 19.99 | putative nitrite/sulfite reductase |
| BCAM1677 | 26.75 | conserved hypothetical protein |
| BCAM2749 | 31.39 | carboxymuconolactone decarboxylase family protein |
| BCAM2750 | 14.06 | putative exported protein |
| BCAM2751 | 7.13 | LysR family regulatory protein |
| BCAM2752 | 12.35 | NAD dependent epimerase/dehydratase family protein |
| BCAM2753 | 8.00 | putative organic hydroperoxide resistance protein |
| BCAM2754 | 10.46 | putative ketoreductase |
| downregulated | ||
| BCAL1130 | 2.10 | conserved hypothetical protein |
| BCAL1161 | 2.46 | conserved hypothetical protein |
| BCAL1162 | 2.30 | TetR family regulatory protein |
| BCAL1165 | 5.59 | conserved hypothetical protein |
| BCAL1166 | 4.07 | conserved hypothetical protein |
| BCAL1168 | 3.06 | conserved hypothetical protein |
| BCAL1169 | 2.05 | conserved hypothetical protein (pseudogene) |
| BCAL3104 | 8.00 | urease gamma subunit |
| BCAL3105 | 2.22 | urease beta subunit |
| BCAL3106 | 2.34 | urease alpha subunit |
| BCAL3109 | 2.42 | urease accessory protein |
| BCAM0066 | 5.13 | putative lipoprotein |
| BCAM0067 | 14.47 | putative short chain dehydrogenase |
| BCAM0068 | 11.74 | Major Facilitator Superfamily protein |
| BCAM0069 | 21.83 | conserved hypothetical protein |
| BCAM0070 | 15.46 | putative hydrolase |
| BCAM0071 | 11.11 | puatative mandelate racemase lactonizing enzyme |
| BCAM0072 | 16.58 | putative thiamine pyrophosphate enzyme |
| BCAM0073 | 6.85 | hypothetical protein |
| BCAM0074 | 9.43 | conserved hypothetical protein |