Table 1.
Selected genes regulated by YtrA.*
| Functional groups † | Gene or ID locus ‡ | log2 FC, M/W § |
|---|---|---|
| Regulatory functions | ||
| Two‐component system | XAC1228, XAC1229 | 3.6–4.4 |
| Sigma factor | fliA, rpoN | −1.7 to −2.7 |
| Sigma factor | prtI | 2.1 |
| Other | XAC0807, pcaQ, XAC1548, salR | 1.8–6.1 |
| Other | phoU, XAC2166 | −1.6 to −2.4 |
| Cellular process | ||
| Chemotaxis and motility | flgBCDEFGHIJKL, fliEFGHILMNOPQR, fliC, flhF, fleN, tsrXAC1893, tsrXAC1894, tsrXAC1895, tsrXAC1897, tsrXAC1899, tsrXAC1900, cheAXAC1903, cheAXAC1930, cheAXAC2865, cheWXAC1906, cheWXAC2867, cheYXAC1904, cheYXAC1932, cheRVZ, motBC, mcpXAC1996, mcpXAC2448, mcpXAC2866, mcpXAC3132 | −1.6 to −3.1 |
| Detoxification | katE, btuE, yapH, XAC0540 | −1.6 to −3.6 |
| Iron uptake | ||
| Iron binding and transport | pfeA, fhuAXAC2941, fpvA, fecA, fhuAXAC1435, fhuEXAC3370, fhuEXAC3498, phuRXAC2829, phuRXAC0823, feoB, XAC0492 | 1.9–4.2 |
| Siderophore biosynthesis | lysA, iucA, yceE, XAC3177, XAC3178 | 1.7–4.1 |
| Iron binding and transport | fhuAXAC2830, fyuA, btuB, brf, XAC1149 | −1.6 to −2.6 |
| Type III secretion system (T3SS) and T3SS effectors | ||
| T3SS key regulators | hrpG, hrpX | 1.7–1.9 |
| T3SS | hrcCJNQRTUV, hrpB1B2B4B5B7D5D6, hpa1, hpa2, hpaABFP, XAC0395 | 1.6–2.7 |
| T3SS effectors | avrXacE2, avrBs2, hrpW, XAC0277, XAC0754, XAC1208, XAC2009, XAC3085, XAC3090, XAC3230, XAC3666, XAC4213, XAC4333 | 1.6–2.3 |
| T3SS effectors | XAC1209 ¶ , XAC1210 ¶ | −1.6 to −1.7 |
| Energy metabolism and central intermediary metabolism | ||
| Extracellular enzymes | amy, egl, engXCA | −1.7 to −3.1 |
| The tricarboxylic acid (TCA) cycle | mls, aceA | −3.0 to −5.0 |
| Oxidoreductase | yagRS, petABC, vanB, aslB, XAC3738 | −1.6 to −4.0 |
| Oxidase | cox3, cox11, ctaCD | −1.7 to −1.9 |
| Dehydrogenase | yagT, fdh, ybdR, gcd | −1.6 to −4.4 |
| Dehydrogenase | acdA | 2.2 |
| DNA metabolism | ||
| DNA recombination, replication and repair | lig3, XAC0035 | −2.0 to −2.2 |
| DNA recombination, replication and repair | XAC3006 | 1.7 |
| Fatty acid and phospholipid metabolism | ||
| Degradation | paaF, fedE9, XAC0375 | 1.8–2.0 |
| Other | mdoB | 1.6 |
| Protein fate | ||
| Folding and stabilization | groESL, htpX, hslVU | 1.6–1.8 |
| Secretion and trafficking | tolC | 3.8 |
| Modification and repair | pcm | 3.1 |
| Degradation | XAC2832, XAC0609, XAC3309, dcpXAC1456, dcpXAC0249, XAC0262, XAC0591, XAC0628, ptrB, pepNXAC1159, pepNXAC3318, XAC1204, XAAC2745, XAC2999, sppA, XAC4106 | 1.6–6.1 |
| Degradation | pfpI, rrpX, XAC0465 | −1.7 to −3.3 |
*Data were selected from the microarray results. Detailed information is provided in Table S3.
†Functional groups were manually modified based on the result of Fig. S3 for the easy understanding of the content.
‡Genes annotated with the same name are indicated by their specific ID locus.
§FC, fold change; M/W, mutant vs. wild‐type.
¶Inactive/pseudogene.