TABLE 2.
Validation of RNA-Seq data by qRT-PCR
| Gene | Fold change in expression between WT and the indicated mutant bya: |
||
|---|---|---|---|
| RNA-Seq for Δrrp1 mutant | qRT-PCR |
||
| Δrrp1 mutant | Δhk1 mutant | ||
| ospC (bbb19) | 1.55 | −2.03 | −1.01 |
| bb0021 | −3.66 | −4.47 | −1.32 |
| malX-1 (bb0116) | −2.27 | −6.22 | −6.66 |
| glpF (bb0240) | 11.94 | 12.77 | 31.99 |
| glpK (bb0241) | 10.70 | 12.97 | 11.68 |
| glpD (bb0243) | 12.30 | 11.37 | 26.62 |
| bb0323 | 2.33 | 1.88 | 2.47 |
| bb0629 | 2.21 | 6.69 | −1.05 |
| bosR (bb0647) | 1.56 | 1.41 | 1.23 |
| bb0680 | 2.14 | 5.29 | 1.15 |
| rpoS (bb0771) | 3.35 | 1.64 | −1.14 |
| spoVG (bb0785) | 3.00 | 3.05 | 6.30 |
| arcA (bb0841) | 2.40 | 1.11 | −1.58 |
| bba07 | 3.60 | 2.84 | 2.45 |
| ospA (bba15) | 1.05 | −1.20 | −1.30 |
| dbpA (bba24) | −1.07 | −1.83 | −1.40 |
| bba52 | 2.81 | 3.80 | 5.53 |
| bba57 | 2.68 | 1.65 | 4.13 |
| bba59 | 2.10 | 3.69 | 6.00 |
| lp6.6 (bba62) | 2.31 | 2.67 | 1.98 |
| bba73 | 2.60 | 2.05 | 1.95 |
| bba74 | 7.51 | 6.12 | 12.36 |
| malX-2 (bbb29) | 2.19 | 6.01 | 10.84 |
| bbh28 | 2.79 | 6.97 | 6.92 |
| bbo39 | 3.44 | 3.44 | −1.30 |
| bbp38 | 3.76 | 3.47 | 1.50 |
| bbq47 | 2.60 | 2.67 | −3.22 |
| ospE | 3.02 | 3.23 | 1.89 |
a
See Fig. S3 in the supplemental material for a graphical display of these data.