Table 2.
RNAseq expression values of genes from the GacS/GacA and Csr/Rsm transcriptional regulation systems from P. amygdali pv. phaseolicola 1448A.
| FPKMa | Fold change (log2)b | |||||||
|---|---|---|---|---|---|---|---|---|
| WT | gacA::IS | 18 °C/28 °C | gacA::IS/WT | |||||
| Gene | 18 °C | 28 °C | 18 °C | 28 °C | WT | gacA::IS | 18 °C | 28 °C |
| gacS | 81.3 | 71.5 | 44.1 | 40.9 | 0.2 | 0.1 | −0.9 | −0.8 |
| gacA | 347.3 | 354.7 | 200.3 | 144.9 | 0.0 | 0.5 | 0.8 | −1.3 |
| uvrC | 115.3 | 140.1 | 3.4 | 4.5 | −0.3 | −0.4 | −5.1 | −5.0 |
| rsmA | 932.9 | 565.1 | 1235.0 | 844.0 | 0.7 | 0.6 | 0.4 | 0.6 |
| rsmC | 53.8 | 75.1 | 67.1 | 43.9 | −0.5 | −0.6 | −0.3 | 0.2 |
| rsmE | 614.6 | 241.7 | 179.2 | 204.9 | 1.4 | −0.2 | −1.8 | 0.2 |
| rsmH1 | 179.8 | 228.2 | 168.2 | 280.5 | −0.3 | −0.7 | −0.1 | 0.3 |
| rsmH2 | 88.1 | 193.2 | 93.6 | 155.0 | −1.1 | −0.7 | 0.1 | −0.3 |
| rsmH3-1 | 96.2 | 169.5 | 86.2 | 419.2 | −0.8 | −2.3 | −0.2 | 1.3 |
| rsmH3-2 | 99.6 | 171.4 | 86.5 | 412.0 | −0.8 | −2.3 | −0.2 | 1.3 |
| sRNAs | ||||||||
| rsmX1 | 61440.0 | 181313.0 | 980.2 | 2283.9 | −1.6 | −1.2 | −6.0 | −6.3 |
| rsmX2 | 85990.4 | 129285.0 | 765.7 | 1228.2 | −0.6 | −0.7 | −6.8 | −6.7 |
| rsmX3 | 54830.1 | 51529.8 | 116.8 | 400.4 | 0.1 | −1.8 | −8.9 | −7.0 |
| rsmX4 | 338.7 | 737.1 | 71.4 | 100.1 | −1.1 | −0.5 | −2.3 | −2.9 |
| rsmX5 | 682.1 | 2853.5 | 32.6 | 26.0 | −2.1 | 0.3 | −4.4 | −6.8 |
| rsmY | 15372.1 | 11471.4 | 330.3 | 966.0 | 0.4 | −1.6 | −5.5 | −3.6 |
| rsmZ | 791.7 | 2504.5 | 357.5 | 2712.2 | −1.7 | −2.9 | −1.2 | 0.1 |
a> FPKM normalized, FPKM; fragments per kilobase of gene fragments per million readings. b Fold change (FC) indicates averaged differential gene expression (log2 normalized) in P. amygdali pv. phaseolicola 1448A (WT), or the derivative gacA mutant with respect to temperature or to each other; positive and negative fold changes reflect an increased or a decreased level of gene expression, respectively, at 18 °C or in the gacA::IS strain. Cells with grey shading indicate genes with a significant differential expression (p-value < 0.05).