Table 2. Antibiotic resistance-genes differently transcribed in IST439 and IST4113.
| CDS/Gene | Function | mRNA IST4113/mRNA IST439 | |
| Microarray analysis | qRT-PCR | ||
| Chromossome 1 | |||
| BCAL1079/mdtA | Multidrug efflux transporter of the Resistance Nodulation Family (known as RND6) | 1.6 | 1.5 |
| BCAL1079/mdtB | 1.6 | 2.2 | |
| BCAL1079/mdtC | 1.7 | 7.0 | |
| BCAL2822/bpeA | Subunit of the drug efflux transporter RND4 | 1.6 | - |
| BCAL1076/ompA | Outer membrane protein | −1.7 | - |
| BCAL1510 | Outer membrane protein | −2.3 | - |
| BCAL1511/emrA | Putative multidrug resistance transporter | −1.7 | - |
| BCAL1829 | Outer membrane protein | −5.3 | - |
| BCAL2205 | D-alanyl-D-alanine endopeptidase (penicillin-binding protein precursor) | −1.6 | - |
| BCAL2645 | Outer membrane protein; has some similarity with P. aeruginosa OprF | −2.3 | - |
| BCAL2958/ompA | Outer membrane protein | −1.8 | - |
| BCAL3008 | Outer membrane protein; has some similarity with P. aeruginosa OprE | −5.2 | - |
| BCAL3110/waaA | Protein involved in incorporation of 3-deoxy-D-manno-octulosonic-acid in lipid A during LPS biosynthesis | −1.6 | - |
| BCAL3473 | Outer membrane protein | −1.6 | - |
| Chromossome 2 | |||
| BCAM0201 | MFS efflux transporter | 1.6 | 1.7 |
| BCAM2188 | Component of a putative macrolide-specific efflux transporter | 2.2 | - |
| BCAM0791 | MFS efflux transporter | 2.3 | 2.2 |
| BCAM1015 | Outer membrane protein | −2.7 | - |
| BCAM1738 | Putative penicillin-binding protein | −1.8 | - |
| BCAM1787 | Outer membrane protein | −1.7 | - |
| BCAM1931 | Outer membrane protein; homologous to B. cepacia Opcp1 | −3.4 | - |
| BCAM2385/arr | Rifampin ADP-ribosyl transferase | −1.7 | - |
| Chromossome 3 | |||
| BCAS0016 | Transporter of the fusaric acid resistance family | −2.0 | - |
| BCAS0460 | Outer membrane protein | −2.1 | −7.5 |
The microarray dataset of genes differently transcribed in IST439 and IST4113 was searched for antibiotic-resistance determinants identified by Holden et al., 2009 and Bazzini et al., 2011. To confirm the results obtained in the microarray analysis, the transcript levels from some of the genes listed were compared by quantitative real time RT-PCR (qRT-PCR).