TABLE 4.
Quantitative analysis of expression array data for A-72310-, tetracycline-, clarithromycin-, and ciprofloxacin-treated B. subtilis
| Functional category and gene name | Protein | Fold changea
|
|||
|---|---|---|---|---|---|
| A-72310 | Tetracycline | Clarithromycin | Ciprofloxacin | ||
| Ribosomal proteins | |||||
| rplB | Ribosomal protein L2 (BL2) | 34.3 | 38.6 | 14.8 | 0.6 |
| rplC | Ribosomal protein L3 (BL3) | 6.4 | 7.1 | 11.8 | 0.5 |
| rplD | Ribosomal protein L4 | 2.9 | 2.0 | 4.7 | 1.0 |
| rplE | Ribosomal protein L5 (BL6) | 13.6 | 5.8 | 17.4 | 1.2 |
| rplF | Ribosomal protein L6 (BL8) | 7.7 | 7.1 | 10.8 | 1.4 |
| rplJ | Ribosomal protein L10 (BL5) | 1.8 | 1.4 | 6.1 | 1.1 |
| rplK | Ribosomal protein L11 (BL11) | 4.3 | 2.2 | 6.1 | 0.5 |
| rplL | Ribosomal protein L12 (BL9) | 7.9 | 6.7 | 16.2 | 0.7 |
| rplN | Ribosomal protein L14 | 24.8 | 16.8 | 17.2 | 0.6 |
| rplO | Ribosomal protein L15 | 1.8 | 1.6 | 4.1 | 1.0 |
| rplP | Ribosomal protein L16 | 5.6 | 4.9 | 18.3 | 0.5 |
| rplQ | Ribosomal protein L17 (BL15) | 36.6 | 27.5 | 10.4 | 0.9 |
| rplR | Ribosomal protein L18 | 46.5 | 42.1 | 19.0 | 0.8 |
| rplT | Ribosomal protein L20 | 10.9 | 25.3 | 11.8 | 0.6 |
| rplV | Ribosomal protein L22 (BL17) | 33.6 | 9.8 | 21.8 | 0.4 |
| rplW | Ribosomal protein L23 | 37.4 | 32.9 | 12.7 | 0.4 |
| rplX | Ribosomal protein L24 (BL23) (histone-like protein HPB12) | 10.1 | 7.7 | 15.5 | 0.8 |
| rpmA | Ribosomal protein L27 (BL24) | 4.0 | 4.1 | 4.1 | 0.9 |
| rpmC | Ribosomal protein L29 | 23.8 | 16.6 | 22.4 | 0.6 |
| rpmD | Ribosomal protein L30 (BL27) | 9.4 | 8.3 | 16.7 | 0.7 |
| rpmI | Ribosomal protein L35 | 2.5 | 4.6 | 8.4 | 0.7 |
| rpmJ | Ribosomal protein L36 (ribosomal protein B) | 6.0 | 4.5 | 4.5 | 1.0 |
| rpsC | Ribosomal protein S3 (BS3) | 24.5 | 11.0 | 22.1 | 0.7 |
| rpsD | Ribosomal protein S4 (BS4) | 0.6 | 1.1 | 4.4 | 0.4 |
| rpsE | Ribosomal protein S5 | 7.7 | 9.1 | 7.2 | 1.8 |
| rpsG | Ribosomal protein S7 (BS7) | 1.7 | 1.8 | 8.1 | 0.6 |
| rpsH | Ribosomal protein S8 (BS8) | 21.0 | 10.5 | 19.7 | 0.9 |
| rpsJ | Ribosomal protein S10 (BS13) | 8.6 | 7.8 | 8.5 | 0.3 |
| rpsL | Ribosomal protein S12 (BS12) | 6.9 | 3.0 | 5.8 | 0.4 |
| rpsM | Ribosomal protein S13 | 13.6 | 6.5 | 9.6 | 0.8 |
| rpsN | Ribosomal protein S14 | 4.1 | 4.6 | 11.0 | 1.0 |
| rpsQ | Ribosomal protein S17 (BS16) | 23.9 | 19.2 | 20.5 | 0.8 |
| rpsS | Ribosomal protein S19 (BS19) | 11.5 | 7.2 | 19.0 | 0.4 |
| ybxF | Similar to ribosomal protein L7AE family | 1.6 | 1.5 | 5.3 | 4.9 |
| Translation factors | |||||
| efp | Elongation factor P | 2.6 | 0.5 | 0.1 | 0.7 |
| frr | Ribosome recycling factor | 3.1 | 1.1 | 1.4 | 0.4 |
| fus | Elongation factor G | 3.4 | 1.4 | 9.9 | 1.3 |
| infA | Initiation factor IF-1 | 9.4 | 6.0 | 8.0 | 0.9 |
| infB | Initiation factor IF-2 | 3.0 | 1.9 | 1.1 | 1.0 |
| infC | Initiation factor IF-3 | 2.3 | 3.5 | 4.2 | 1.0 |
| prfA | Peptide chain release factor 1 | 0.9 | 0.9 | 1.0 | 0.8 |
| prfB | Peptide chain release factor 2 | 1.8 | 1.0 | 1.2 | 0.8 |
| tufA | Elongation factor Tu | 9.6 | 3.0 | 1.8 | 1.0 |
| ykrS | Similar to initiation factor elF-2B (alpha subunit) | 4.7 | 5.5 | 0.6 | 1.3 |
| ylaG | Similar to GTP-binding elongation factor | 3.2 | 2.1 | 0.4 | 0.2 |
| tRNA synthetases | |||||
| glyQ | Glycyl-tRNA synthetase (alpha subunit) | 1.7 | 1.8 | 1.0 | 0.9 |
| glyS | Glycyl-tRNA synthetase (beta subunit) | 3.5 | 1.3 | 0.2 | 0.7 |
| hisS | Hlstidyl-tRNA synthetase | 2.0 | 1.4 | 0.7 | 0.8 |
| ileS | Isoleucyl-tRNA synthetase | 3.9 | 0.2 | 0.5 | 0.1 |
| pheS | Phenylalanyl-tRNA synthetase (alpha subunit) | 2.8 | 1.1 | 0.6 | 1.1 |
| pheT | Phenylalanyl-tRNA synthetase (beta subunit) | 1.8 | 1.5 | 0.7 | 1.0 |
| serS | Seryl-tRNA synthetase | 1.2 | 1.1 | 0.8 | 1.2 |
| thrS | Threonyl-tRNA synthetase | 1.8 | 1.7 | 0.7 | 1.4 |
| tyrS | Tyrosyl-tRNA synthetase | 1.0 | 2.2 | 1.0 | 0.5 |
| valS | Valyl-tRNA synthetase | 0.8 | 0.8 | 0.4 | 1.0 |
| Amino acid biosynthesis | |||||
| ilvN | Acetolactate synthase (acetohydroxy-acid synthase) (small subunit) | 0.7 | 5.6 | 1.0 | 0.6/PICK> |
| leuD | 3-Isopropylmalate dehydratase (small subunit) | 1.7 | 8.4 | 5.8 | 1.0 |
| metK | S-Adenosylmethionine synthetase | 3.1 | 2.6 | 1.3 | 1.0 |
| trpA | Tryptophan synthase (alpha subunit) | 1.0 | 0.5 | 0.6 | 9.8 |
| Other categories | |||||
| adk | Adenylate kinase | 10.2 | 9.2 | 10.6 | 1.9 |
| lexA | Transcriptional regulator | 1.0 | 1.0 | 0.8 | 0.9 |
| map | Methionine aminopeptidase | 6.8 | 5.2 | 9.4 | 0.9 |
| recA | Multifunctional SOS repair regulator | 3.8 | 1.8 | 1.8 | 3.3 |
| rsbW | Switch protein/serine kinase and anti-sigma factor | 5.6 | 3.4 | 1.5 | 3.1 |
| rsbX | Serine phosphatase (dephosphorylation of RsbS) | 6.7 | 5.1 | 0.5 | 3.9 |
| ruvA | Holiday junction DNA helicase | 1.5 | 3.1 | 2.5 | 0.7 |
| ruvB | Holiday junction DNA helicase | 0.6 | 1.5 | 1.9 | 1.1 |
| secY | Preprotein translocase subunit | 10.4 | 9.2 | 8.4 | 1.1 |
| ssb | Single-strand DNA-binding protein | 17.9 | 9.6 | 15.6 | 0.6 |
| uvrA | Excinuclease ABC (subunit A) | 3.1 | 2.1 | 1.1 | 2.4 |
| ybyB | Unknown | 2.5 | 2.6 | 0.1 | 6.1 |
| yqgZ | Unknown | 0.8 | 0.9 | 0.5 | 3.9 |
| ywzA | Unknown | 3.0 | 1.2 | 1.1 | 3.2 |
a
Fold change relative to vehicle-treated control.