Table 1.
List of biofilm, stress and motility-related genes differentially expressed by PEOVW
| Group and genes | Description | FC T1 | FC T2 | FC T3 |
|---|---|---|---|---|
| Biofilm related | ||||
| bhsA (ycfR) | Outer membrane protein | – | 16.12 | 23.47 |
| csgC | Curli production protein | – | −8.23 | −6.36 |
| flu | Antigen 43 | – | – | −2.64 |
| gadE | Transcriptional activator | – | −3.65 | −4.29 |
| mdtIJ | Spermidine transport | – | −3.17/−2.83 | −3.36/−3.06 |
| ompC | Outer membrane porin C | – | 2.42 | 3.21 |
| ompF | Outer membrane porin F | – | 14.36 | 9.36 |
| ompT | Outer membrane protease VII | – | −2.29 | – |
| ompR | Transcriptional dual regulator | – | 2.2 | – |
| lamB | Sugar porin | – | 3.96 | – |
| potFGHI | Putrescine transport | – | 3.70/6.83 | 3.10/5.74 |
| rcsA | Transcriptional regulator | – | −3.52 | −3.07 |
| yceP (bssS) | Regulator of biofilm formation | 3.77 | 7.34 | 3.96 |
| YcgR | Flavoprotein | – | −14.35 | −41.04 |
| ydaM | Diguanylate cyclase | – | – | −2.14 |
| yddV | Diguanylate cyclase | – | −2.64 | – |
| yhjH | c-di-GMP phosphodiesterase | – | −14.52 | −34.08 |
| yliH (bssR) | Regulator of biofilm formation | – | – | −2.19 |
| tnaA | Tryptophanase | – | −2.99 | −8.01 |
| pgaAD | Beta-1,6-N-acetylglucosamine residues (PGA) | – | −2.04/2.02 | −2.22 |
| fimI | Fimbrial protein | – | −2.23 | – |
| gadE | Transcriptional activator | – | −3.65 | −4.29 |
| hdeD | Acid-resistance membrane protein | – | −3.20 | −2.94 |
| slp | Starvation lipoprotein | – | −4.62 | −6.40 |
| mlrA | Regulator of curli production | – | – | −2.78 |
| mdtEF | MdtEF multidrug transporter | – | −4.88/−4.23 | −4.96/−4.29 |
| Stress related | ||||
| clpB | Chaperone | – | 19.01 | 5.07 |
| cyoA | Cytochrome oxidase | – | – | 2.13 |
| dnaKJ | Heat shock protein | – | 4.34/10.90 | – |
| htpG | Chaperone | – | 10.68 | 2.19 |
| ibpAB | Heat shock protein | 3.53/13.65 | 14.06/31.54 | 3.64/65.89 |
| prc | Tail-specific protease | – | 2.15 | – |
| pspABCDEG | Psp operon, phage-shock-protein | – | 2.66/8.85 | 3.68/9.81 |
| sodA | superoxide dismutase | – | 3.00 | 2.50 |
| soxS | DNA-binding transcriptional dual regulator | – | 7.00 | 4.50 |
| spy | ATP independent periplasmic chaperone | – | 8.97 | 4.75 |
| uvrAB | Nucleotide excision repair | – | 2.20/2.75 | 2.70 |
| YqhC | Transcriptional activator of yqhD | 28.90 | 21.90 | 15.40 |
| yqhD | Aldehyde reductase, NADPH-dependent | 64.40 | 171.60 | 85.70 |
| Motility and chemotaxis related | ||||
| aer | Aerotaxis sensor receptor | – | −5.19 | −16.49 |
| flgBCDEFHIJ | Flagellar motor | – | −13.08/−7.69 | −15.50/−9.31 |
| flgLMNOPQR | Proteins for flagellar development | – | −10/−6.57 | −7.36/−4.35 |
| flhBAE | Flagellar export apparatus | – | −10.86/−7.38 | −8.67/−7.50 |
| flhDC | Transcriptional regulator | – | −2.90/−2.30 | – |
| motAB-cheAW | Flagellar motor complex | – | −18.96/−12.68 | −31.91/−25.7 |
| tar,tap | Chemoreceptor | – | −20.78/−14.24 | −34.11/−23.91 |
| trg | Chemoreceptor | – | −3.34 | −22.65 |
| tsr | chemoreceptor | – | −6.99 | −11.29 |
Genes induced and repressed more than twofold in E. coli K-12 treated with PEOVW (1 mg ml−1). Two-class SAM analysis was performed with an FDR < 0.05. Genes in the same operon are presented together and FC values are shown as a range representing the minimum and the maximum FC values of operon's genes.