Table 2.
Microarray and qRT-PCR analysis of selected genes showing differential expression in cepR, cciR or cepRcciIR mutants compared to K56-2.
| Gene | Functiona | Change (fold) for K56-R2 (cepR) vs K56-2 | Change (fold) for K56-2cciR vs K56-2 | Change (fold) for K56-2cepRcciIR vs K56-2 | |||
| microarrayb | qRT-PCRc | microarrayb | qRT-PCRc | microarrayb | qRT-PCRc | ||
| BCAS0409 | zinc metalloprotease ZmpA | -5.3 | -5.3 | 4.0 | 2.5 | -4.5 | -3.3 |
| BCAL1814 | MerR family regulatory protein | -2.9 | -1.4 | -2.7 | -1.4 | NC | 2.7 |
| BCAM0189 | AraC family regulatory protein | -2.1 | -1.3 | NC | -2.6 | NC | -3.4 |
| BCAM0191 | putative non-ribosomal peptide synthetase | -2.3 | -7.4 | NC | -2.1 | NC | -6.8 |
| BCAM0199 | outer membrane efflux protein | 2.1 | 1.6 | NC | -1.5 | NC | 1.8 |
| BCAS0293 | nematocidal protein AidA | -88.7 | -6647 | NC | 1.7 | -214.9 | -4632 |
| BCAL0114 | flagellin (type II) protein FliC | -2.4 | -164.1 | 2.2 | 7.7 | NC | -127.9 |
| BCAS0225 | Shiny variant regulator ShvR | -3.6 | -2.6 | NC | 1.5 | -2.3 | -2.2 |
| BCAS0220 | putative permease | -3.0 | -2.5 | 2.8 | 1.7 | NC | -1.2 |
| BCAS0204 | ABC transporter ATP-binding protein | -7.4 | -1.7 | 3.7 | 4.0 | NC | -1.6 |
| BCAM1420 | RND family efflux system transporter protein | -4.8 | -1.3 | 10.3 | 3.0 | -7.4 | -1.8 |
| BCAM1418 | two-component regulatory system, response | NC | -10.7 | 11.3 | 3.0 | NC | -2.1 |
| BCAM2626 | heme receptor protein HuvA | 3.4 | 2.2 | -2.2 | -2.0 | 2.7 | 2.6 |
aFunction derived from B. cenocepacia J2315 [34].
bChange in 16-h cultures of cepR, cciR or cepRcciIR mutants compared to 16-h cultures of K56-2 as determined by microarray analysis with at least two biological replicates (NC, no change).
cChange in 16-h cultures of cepR, cciR or cepRcciIR mutants compared to 16-h cultures of K56-2 as determined by qRT-PCR.