TABLE 2.
Up-regulated genes in the ΔstkP mutant strain
| Functional category | Gene no. | Gene product (gene) | Mean of log2 ratios | P value | Expression ratioa |
|---|---|---|---|---|---|
| Early competence genes | spr0020 | Competence protein (comW) | 2.84 | 1.80E-04 | 7.18 |
| spr0043 | Transport ATP binding protein ComA (comA) | 3.27 | 2.77E-05 | 9.65 | |
| spr0044 | Transport protein ComB (comB) | 4.99 | 7.60E-06 | 31.73 | |
| spr2041 | Response regulator (comE) | 5.12 | 1.20E-05 | 34.76 | |
| spr2042 | Histidine protein kinase (comD) | 5.24 | 1.98E-06 | 37.81 | |
| spr2043 | Competence stimulating peptide precursor (comC) | 3.29 | 2.29E-04 | 9.76 | |
| spr0013/1819 | Competence-specific global transcription modulator (comX/comX2) | 4.22 | 1.13E-04 | 18.59 | |
| Late competence genes | spr0857 | Competence protein (celB) | 1.39 | 7.00E-03 | 2.62 |
| spr1144 | DNA processing Smf protein (smf) | 1.46 | 3.43E-03 | 2.75 | |
| spr1724 | Single-stranded DNA binding protein (ssbB) | 1.71 | 8.68E-05 | 3.27 | |
| spr1758 | Competence induced protein A (cinA) | 1.17 | 5.70E-04 | 2.26 | |
| spr1861 | Competence protein (cglD) | 1.35 | 4.29E-03 | 2.54 | |
| spr1863 | Competence protein (cglB) | 3.00 | 2.55E-03 | 8.02 | |
| spr1864 | Competence protein (cglA) | 2.92 | 1.19E-03 | 7.57 | |
| Competence-related CSP-induced genes | |||||
| Bacteriocin production | spr0472 | BlpY protein (blpY) | 1.50 | 3.99E-03 | 2.83 |
| spr0473 | Hypothetical protein (blpZ) | 1.24 | 6.54E-03 | 2.36 | |
| spr0474 | ABC transporter ATP binding protein (pncP) | 1.07 | 3.25E-03 | 2.10 | |
| spr1561 | ABC transporter membrane-spanning permease-Na+ export (natB) | 1.88 | 2.43E-03 | 3.69 | |
| spr1562 | ABC transporter ATP binding protein-Na+ export (natA) | 2.10 | 1.09E-03 | 4.30 | |
| Purine metabolism | spr0021 | Adenylosuccinate synthetase (purA) | 2.11 | 1.54E-05 | 4.31 |
| spr0053 | Phosphoribosylaminoimidazole carboxylase, catalytic subunit (purE) | 1.46 | 1.32E-03 | 2.75 | |
| spr0054 | Phosphoribosyl glucinamide formyltransferase (purK) | 1.33 | 3.12E-04 | 2.52 | |
| spr1109 | Formate-tetrahydrofolate ligase (fhs) | 1.07 | 7.59E-07 | 2.10 | |
| spr1128 | GMP reductase (guaC) | 1.01 | 2.20E-06 | 2.01 | |
| Hypothetical genes | spr0128 | Hypothetical protein | 1.75 | 3.26E-04 | 3.36 |
| spr1407 | Hypothetical protein | 1.66 | 1.45E-04 | 3.16 | |
| spr1760 | Conserved hypothetical protein | 1.12 | 1.73E-03 | 2.18 | |
| spr1761 | Conserved hypothetical protein | 1.18 | 9.78E-04 | 2.27 | |
| spr1857 | Hypothetical protein | 2.67 | |||
| spr1858 | Hypothetical protein | 1.72 | 2.79E-03 | 3.30 | |
| spr1859 | Conserved hypothetical protein | 2.46 | 9.51E-03 | 5.50 | |
| Riboflavin metabolism | spr0161 | Riboflavin synthase beta chain (ribE) | 1.08 | 9.07E-06 | 2.12 |
| spr0162 | Riboflavin biosynthesis; GTP-cyclohydrolase II (ribA) | 1.60 | 2.04E-07 | 3.03 | |
| spr0164 | Riboflavin biosynthese; a deaminase (ribD) | 1.53 | 1.12E-07 | 2.89 | |
| spr1017 | Macrolide efflux protein (mreA) | 2.73 | 2.97-E04 | 6.64 | |
| Other | spr0059 | Beta-galactosidase 3 (bgaC) | 1.01 | 2.31E-03 | 2.01 |
| spr0060 | Phosphotransferase system sugar-specific EIIB component | 1.37 | 6.01E-04 | 2.58 | |
| spr0561 | Cell wall-associated serine proteinase precursor PrtA (prtA) | 1.16 | 1.15E-04 | 2.23 | |
| spr1324 | Thiamine biosynthesis lipoprotein (apbE) | 1.17 | 8.63E-05 | 2.25 | |
| spr1408 | Formylmethionine deformylase (def) | 1.88 | 8.62E-05 | 3.69 | |
| spr1935 | Dihydroxyacid dehydratase (ilvD) | 1.73 | 3.32E-05 | 3.31 | |
| spr1945 | Choline binding protein (pcpA) | 1.47 | 9.96E-05 | 2.77 | |
| Hypothetical genes | spr1482 | Hypothetical protein | 1.22 | 1.56E-06 | 2.33 |
| spr1623 | Hypothetical protein | 1.82 | 3.30E-10 | 3.52 | |
| spr1624 | Conserved hypothetical protein | 1.91 | 9.22E-10 | 3.75 | |
| spr1625 | Conserved hypothetical protein | 1.75 | 1.60E-11 | 3.37 | |
| spr1626 | Hypothetical protein | 1.52 | 6.09E-07 | 2.87 | |
| spr1768 | Conserved hypothetical protein, related to Trp repressor binding protein | 1.11 | 8.90E-06 | 2.15 |
a
The ratio of the gene expression level in the ΔstkP mutant strain compared to that of the wild-type strain.