Table 2.
Results of Quantitative Real-Time PCR Assays
| Transcript assayed | Strain | Expression ratio |
|---|---|---|
| aroP | ArgRpdhR clone 1 | 1.3 (0.33) |
| pdhR | ArgRpdhR clone 1 | 2.4 (0.35) |
| ppa | GalRytfQ clone 1 | 1.11 (0.45) |
| ytfQ | GalRytfQ clone 1 | 1.34 (0.23) |
| ybdH | MetJybdH clone 1 | 1.19 (0.21) |
| ybdH | MetJybdH clone 2 | 1.55 (0.21) |
| ybdL | MetJybdH clone 1 | 3.25 (0.36) |
| ybdL | MetJybdH clone 2 | 3.82 (0.40) |
| yqeF | PhoByqeG clone 1 | 0.208 (0.049) |
| yqeF | PhoByqeG clone 2 | 0.203 (0.051) |
| yqeG | PhoByqeG clone 1 | 1.35 (0.18) |
| yqeG | PhoByqeG clone 2 | 1.39 (0.26) |
| dinJ | PhoByafL clone 1 | 0.73 (0.16) |
| dinJ | PhoByafL clone 2 | 0.85 (0.22) |
| dinJ | PhoByafL clone 3 | 0.68 (0.18) |
| yafL | PhoByafL clone 1 | 3.0 (0.6) |
| yafL | PhoByafL clone 2 | 2.2 (0.5) |
| yafL | PhoByafL clone 3 | 2.2 (0.5) |
| pdhR | ΔargR clone 1 | 1.3 (0.43) |
Ratios resulting from mean values of triplicate assays are shown, with standard deviations given in parentheses. Ratios given are relative to wild-type MG1655 grown under the same conditions as the particular knockout strain. In the notation for naming the binding site knockouts, the name of the transcription factor whose site(s) have been mutated is followed by the name of one of the genes downstream of the mutated site(s). For example, "ArgRpdhR" indicates that at least one ArgR-binding site was knocked out upstream of the pdhR gene.