TABLE 4.
Change in transcript levels of genes in B. subtilis in response to TPP
| Genea | thi Box elemente | Enzyme/functiona | Ratiob
|
|
|---|---|---|---|---|
| WT/WT+c | Dereg+/WT+d | |||
| thiC | + | Biosynthesis of hydroxymethylpyrimidine phosphate | 58 | 105 |
| ywbI | − | Similar to LysR family of transcriptional regulators | NC | NC |
| thiM | − | Hydroxyethylthiazole kinase | NC | NC |
| thiE | − | Thiamine phosphate synthase | NC | NC |
| tenA | + | Thiaminasef | 68 | 62 |
| tenI | + | Possible antagonist of TenA | 25 | 27 |
| thiO (goxB) | + | Glycine oxidase | 67 | 56 |
| thiS (yjbS) | + | Sulfur carrier protein | 87 | 86 |
| thiG (yjbT) | + | Thiazole synthase | 82 | 61 |
| thiF (yjbU) | + | ThiS adenylyltransferase | 87 | 96 |
| thiD (yjbV) | + | Phosphomethylpyrimidine kinase | 27 | 34 |
| pdxK (thiD) | − | Pyridoxal/pyridoxal/pyridoxamine kinase | NC | NC |
| thiL (ydiA) | − | TMP kinase | NC | NC |
| thiN (yloS) | − | Thiamine pyrophosphorylase | NC | NC |
| ytbJ | − | Possible thiI orthologs (sulfur transferase) | NC | NC |
| dxs (yqiE) | − | 1-Deoxy-d-xylulose synthase | NC | NC |
| ykoC | + | Possible transmembrane component of thiamine-related ABC transporter | 10 | 15 |
| ykoD | + | Possible ATPase component of thiamine-related ABC transporter | 11 | 16 |
| ykoE | + | Possible transmembrane component of thiamine-related ABC transporter | 22 | 32 |
| ykoF | + | Possible ligand-binding protein of thiamine-related ABC transporter | 17 | 23 |
| yuaJ | + | Possible thiamine permease | 6.6 | 8.4 |
| ylmB | + | Similar to acetylornithine deacetylase | 15 | 11 |
Gene names and functions were described by Perkins and Pero (27) and in SubtiList (http://genolist.pasteur.fr/SubtiList).
Transcript ratios were calculated by dividing the average difference values (after normalization) from hybridization experiments of wild-type cells grown to exponential phase in MM without TPP treatment by those with TPP treatment (WT−/WT+) or from hybridization experiments of deregulated mutant cells grown to exponential phase in MM with TPP treatment by those of wild-type cells grown under the same condition (Dereg+/WT+). For some genes (in bold), average difference values were obtained from duplicate probe sets per hybridization experiment: NC, no change in average difference values. Some data were taken from Table 1 in a report by Lee et al. (16).
r value of 0.95 (TPP-treated versus untreated data sets).
r value of 0.85 (TPP-treated TH48 versus TPP-treated PY79 data sets).
Under thi box element control according to report by Rodionov et al. (29).
See reference 32.