Table 1.
T3/T1 datasets of the transcriptome (RNA-seq), translatome (Ribo-seq), and proteome (MS) analyses of genes encoding the (A) MexGHI-OpmD efflux pump and (B) functions required for synthesis of 5-Methyl-phenazine (5-Me-PCA) and pyocyanin.
| Gene name | RNA-seq | Ribo-seq | MS | |||
|---|---|---|---|---|---|---|
| Mannitol T3 (–CCR) vs. Succinate T1 (+CCR) | ||||||
| FC | p value | FC | p value | FC | p value | |
| A | ||||||
| mexG | 47.36 | 0.00E+00 | 45.57 | 0 | x | x |
| mexH | 43.21 | 0.00E+00 | 21.73 | 1.1945E−160 | 3.48 | 8.63E−04 |
| mexI | 39.36 | 0.00E+00 | 14.06 | 2.6345E−140 | 4.58 | 3.71E−02 |
| opmD | 32.53 | 1.88E−11 | 32.53 | 1.88E−11 | 2.91 | 1.37E−02 |
| B | ||||||
| phzA1 | 156.03 | 7.20E−68 | 5.33 | 5.13E−39 | x | x |
| phzA2 | 1023.78 | 8.88E−05 | 22.95 | 3.49E−96 | x | x |
| phzB1 | 202.76 | 6.25E−31 | 11.47 | 7.33E−141 | x | x |
| phzB2 | 902.22 | 6.21E−16 | 40.52 | 0 | 25.15 | 1.07E−02 |
| phzC1 | 129.51 | 4.75E−176 | 8.74 | 4.39E−21 | x | x |
| phzC2 | 613.74 | 1.54E−25 | 31.86 | 1.76E−78 | x | x |
| phzG1 | 42.67 | 1.54E−23 | x | x | x | x |
| phzG2 | 143.89 | 8.08E−161 | x | x | x | x |
| phzH | 2.49 | 4.00E−11 | x | x | x | x |
| phzM | 45.53 | 8.71E−04 | 8.79 | 8.81E−104 | 13.21 | 7.02E−04 |
| phzS | 48.73 | 3.36E−05 | 6.25 | 1.88E−119 | 6.43 | 9.80E−04 |
FC, fold-change, value of p ≤ 0.05. x, not efficiently translated/synthesized.