Table 1. Transcriptome analysis of a kre mutant (PG479).
Genes are listed with 4-fold expression differences between wild type and a kre deletion mutant (PG479). Genes with adjusted p-values for the expression difference larger than 0.05 are discarded. ComK-induced genes are highlighted in bold.
| gene | fold down | adj. P-val | function |
| kre | 88.2 | 0.001 | comK repressor |
| nrgA | 5.2 | 0.015 | ammonium transporter |
| ygzA | 4.8 | 0.016 | hypothetical protein |
| yvsH | 4.5 | 0.043 | putative lysine transporter |
| yqhR | 4.3 | 0.038 | hypothetical protein |
| gin | 4.2 | 0.015 | inhibitor of SigG and SigE |
| yfhI | 4.1 | 0.015 | hypothetical protein |
| gene | fold up | adj. P-val | function |
| dhbA | 15.1 | 0.027 | biosynthesis of siderophore bacillibactin |
| dhbC | 14.5 | 0.029 | biosynthesis of siderophore bacillibactin |
| dhbE | 13.8 | 0.029 | biosynthesis of siderophore bacillibactin |
| dhbB | 12.4 | 0.034 | biosynthesis of siderophore bacillibactin |
| ykuO | 11.0 | 0.029 | hypothetical protein |
| ykuP | 10.8 | 0.033 | flavodoxin |
| ysbB | 10.2 | 0.024 | hypothetical protein |
| licA | 9.8 | 0.030 | lichenan uptake and phosphorylation |
| dhbF | 9.7 | 0.038 | biosynthesis of siderophore bacillibactin |
| ysbA | 9.3 | 0.023 | putative anti-holin |
| ykuN | 9.2 | 0.028 | flavodoxin |
| licH | 8.9 | 0.036 | phospho-beta glucosidase (lichenan utilization) |
| licC | 8.0 | 0.033 | lichenan uptake and phosphorylation |
| rbsA | 6.9 | 0.016 | ribose ABC transporter |
| licB | 6.9 | 0.032 | lichenan uptake and phosphorylation |
| rbsB | 6.9 | 0.023 | ribose ABC transporter |
| rbsC | 6.9 | 0.020 | ribose ABC transporter |
| levD | 6.9 | 0.031 | fructose uptake and phosphorylation |
| yhaR | 6.8 | 0.023 | hypothetical protein |
| besA | 6.6 | 0.028 | trilactone hydrolase (iron acquisition) |
| sunT | 6.5 | 0.012 | sublancin lantibiotic ABC transporter |
| citZ | 6.4 | 0.012 | citrate synthase |
| rocG | 6.0 | 0.016 | glutamate dehydrogenase (arginine utilization) |
| levF | 5.9 | 0.031 | fructose uptake and phosphorylation |
| rbsD | 5.9 | 0.017 | ribose ABC transporter |
| kbl | 5.9 | 0.018 | amino-ketobutyrate CoA ligase (threonine utilization) |
| abn2 | 5.7 | 0.015 | arabinan degradation |
| bdbA | 5.5 | 0.014 | thiol-disulfide oxidoreductase |
| levG | 5.3 | 0.033 | fructose uptake and phosphorylation |
| ywsB | 5.2 | 0.033 | survival of ethanol and salt stresses |
| rbsK | 5.1 | 0.014 | ribokinase (ribose utilization) |
| abnA | 5.1 | 0.021 | arabinan degradation |
| phrA | 5.1 | 0.012 | phosphatase (RapA) inhibitor |
| ssbB | 5.1 | 0.014 | single-strand DNA-binding protein (ComK induced) |
| tdh | 5.0 | 0.020 | threonine dehydrogenase (threonine utilization) |
| gltP | 4.9 | 0.029 | similar to H+/glutamate symporter |
| araP | 4.9 | 0.014 | arabinose ABC transporter |
| sunS | 4.8 | 0.015 | biosynthesis of antimicrobial peptide sublancin |
| ywcE | 4.7 | 0.024 | holin required for spore morphogenesis germination |
| rocA | 4.7 | 0.017 | arginine, ornithine and citrulline utilization |
| rbsR | 4.7 | 0.016 | regulation of ribose utilization |
| dctP | 4.7 | 0.029 | uptake succinate, fumurate, malate and oxaloacetate |
| rapA | 4.6 | 0.012 | response regulator aspartate phosphatase |
| xynB | 4.6 | 0.023 | xylan beta-xylosidase |
| yobO | 4.6 | 0.016 | hypothetical protein |
| levE | 4.5 | 0.034 | fructose uptake and phosphorylation |
| ybbJ | 4.5 | 0.016 | hypothetical protein |
| sunA | 4.4 | 0.018 | sublancin lantibiotic antimicrobial precursor peptide |
| yxeB | 4.4 | 0.024 | hydroxamate siderophore ABC transporter |
| xynP | 4.4 | 0.029 | beta-xyloside permease (xylan utilization) |
| murQ | 4.4 | 0.016 | cell wall turnover |
| ybaR | 4.4 | 0.012 | hypothetical protein |
| ald | 4.3 | 0.020 | alanine dehydrogenase (alanine utilization) |
| yesL | 4.3 | 0.020 | hypothetical protein |
| btr | 4.3 | 0.015 | regulation of iron acquisition |
| araN | 4.1 | 0.016 | arabinose ABC transporter |
| ybxI | 4.1 | 0.022 | beta-lactamase |
| murR | 4.1 | 0.016 | probably regulation of muramic acid utilization |
| phrK | 4.1 | 0.020 | phosphatase (RapK) regulator |
| dprA | 4.0 | 0.018 | recombination mediator protein (ComK induced) |
| gcvPA | 4.0 | 0.016 | glycine dehydrogenase (glycine utilization) |