Table 2.
List of genes involved in the (oxidative) stress response of sessile B. cenocepacia J2315 cells exposed to H2O2 or NaOCl.
| Fold change in expression in treated biofilms vs untreated biofilms | ||||||
|---|---|---|---|---|---|---|
| Gene number | Annotation | Microarray: H2O2 (30 min) | qPCR: H2O2 (15 min) | qPCR: H2O2 (30 min) | qPCR: H2O2 (60 min) | Microarray: NaOCl (5 min) |
| Genes involved in the oxidative stress response | ||||||
| BCAS0085 | Organic hydroperoxide resistance protein | 49.3 | 1438.4 | 1307.0 | 560.7 | 20.3 |
| BCAM1217 | Alkyl hydroperoxide reductase C subunit (ahpC) | 41.3 | 68.7 | 46.7 | 20.4 | 15.0 |
| BCAL0771 | Non-heme chloroperoxidase | 37.7 | 27.0 | 65.8 | 97.5 | NS |
| BCAM0896 | Organic hydroperoxide resistance protein | 36.5 | 27.6 | 23.2 | 15.1 | 37.2 |
| BCAL1766 | OsmC-like protein (Ohr protein, see text) | 18.0 | 28.2 | 43.8 | 36.9 | 75.2 |
| BCAM1216 | Alkyl hydroperoxide reductase F subunit (ahpF) | 15.5 | 182.5 | 122.5 | 49.5 | 2.1 |
| BCAM0931 | Catalase precursor | 5.7 | 98.8 | 32.3 | 6.1 | NS |
| BCAL1106 | Cytochrome b561 family protein | 4.1 | 1.7 | 12.7 | 42.5 | 8.3 |
| BCAL2780 | Putative thioredoxin protein | 2.9 | 1.9 | 3.1 | 3.3 | NS |
| BCAL3035 | Thioredoxin reductase (trxB) | 2.8 | - | - | - | NS |
| BCAM0930 | Putative ankyrin-like protein (ankB) | 2.7 | - | - | - | NS |
| BCAL3477 | Putative catalase | 2.7 | 1.7 | 6.5 | 23.1 | NS |
| BCAL2014 | Carboxymuconolactone decarboxylase family | 2.7 | 2.3 | 2.1 | 1.7 | 3.3 |
| BCAL1761 | MarR family regulatory protein (ohrR) | 2.4 | - | - | - | NS |
| BCAL2013 | AhpC/TSA family protein | 2.1 | - | - | - | NS |
| BCAL1900 | Thioredoxin A (trxA) | 2.0 | - | - | - | 2.1 |
| BCAL3299 | Catalase (katB) | 1.8 | 1.4 | 1.7 | NS | NS |
| BCAM2107 | Catalase (katA) | NS | NS | NS | NS | NS |
| BCAL3214 | Carboxymuconolactone decarboxylase family | NS | - | - | - | 35.1 |
| Genes involved in protection and repair of DNA | ||||||
| BCAL0953 | Putative recombinase A (recA) | 2.6 | NS | 1.8 | NS | 1.9 |
| BCAL3297 | DNA-binding protein (dps) | NS | - | - | - | NS |
| Genes involved in the repair of iron-sulfur clusters and iron-sulfur cluster containing proteins | ||||||
| BCAM0961 | Aconitase A (acnA) | NS | - | - | - | NS |
| BCAM1833 | Aconitase B (acnB) | 5.1 | 2.7 | 3.5 | 3.1 | 2.1 |
| BCAL2192 | Conserved hypothetical protein (iscX) | 2.4 | - | - | - | 2.4 |
| BCAL2193 | Ferredoxin (fdx) | 2.5 | - | - | - | 2.5 |
| BCAL2194 | Chaperone protein HscA homologue (hscA) | 2.4 | - | - | - | 2.4 |
| BCAL2195 | Chaperone protein HscB homologue (hscB) | 2.3 | - | - | - | 2.3 |
| BCAL2196 | Iron-sulfur cluster assembly protein (iscA) | 1.6 | - | - | - | 1.6 |
| BCAL2197 | Iron-sulfur cluster scaffold protein (iscU) | 3.4 | - | - | - | 3.4 |
| BCAL2198 | Cysteine desulfurase (iscS) | 2.9 | - | - | - | 2.9 |
| BCAL2199 | Transcriptional regulator (iscR) | 2.3 | - | - | - | 2.3 |
| Sigma factors | ||||||
| BCAL0787 | RNA polymerase σ32 factor | 4.7 | 2.3 | 2.7 | 2.5 | 2.6 |
| BCAL1369 | Putative RNA polymerase σ70 factor (fecI) | 2.2 | - | - | - | NS |
| BCAL1688 | Putative RNA polymerase σ70 factor (orbS) | 6.4 | 5.7 | 5.9 | 12.9 | NS |
| BCAL3478 | Putative RNA polymerase σ factor | 3.4 | NS | 5.5 | 16.6 | NS |
The results represent the fold change in gene expression in the treated biofilms compared to the gene expression in the untreated biofilms. -: no qPCR experiments were performed. NS: no significant change in expression was observed between the treated and the untreated biofilms (p > 0.05).