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Table 1 Comparison of genes significantly induced following drug treatment with in-house curated lists of genes.
From: Genome-wide dynamics of a bacterial response to antibiotics that target the cell envelope
| Entity list | Genes in entity list present on microarray | Vancomycin-induced (744 genes) | Bacitracin-induced (481 genes) | Moenomycin-induced (616 genes) | Induced by all (243 genes) | ||||
|---|---|---|---|---|---|---|---|---|---|
| Genes in entity list matched with induced genes | P-Value | Genes in entity list matched with induced genes | P-Value | Genes in entity list matched with induced genes | P-Value | Genes in entity list matched with induced genes | P-Value | ||
| SigB regulon | 87 | 39 | <1E-33 | 33 | <1E-34 | 42 | <1E-10 | 29 | <1E-11 |
| Heat shock regulon | 119 | 51 | <1E-33 | 27 | 3.13E-09 | 43 | <1E-10 | 26 | <1E-11 |
| ppGpp-induced genes | 98 | 50 | 1.46E-25 | 42 | <1E-34 | 28 | 1.48E-09 | 20 | <1E-11 |
| Gas vesicle 1 | 8 | 8 | 7.71E-09 | 7 | 2.81E-08 | 7 | 1.58E-07 | 7 | 2.33E-10 |
| SigE operon | 4 | 4 | 8.87E-05 | 4 | 1.54E-05 | 4 | 4.16E-05 | 4 | 9.92E-07 |
| Ectoine biosynthesis | 4 | 4 | 8.87E-05 | 4 | 1.54E-05 | 4 | 4.16E-05 | 4 | 9.92E-07 |
| CDA | 47* | 39 | 1.96E-32 | 35 | 6.87E-33 | 11 | 0.00100 | 11 | 1.67E-07 |
| Peptidoglycan biosynthesis (external) | 16 | 8 | 4.87E-05 | 5 | 0.00234 | 5 | 0.00686 | 4 | 0.001335 |
| Sigma factors | 64 | 14 | 0.00283 | 14 | 3.23E-05 | 11 | 0.01230 | 8 | 8.76E-04 |
| Red | 23* | 23 | 3.83E-24 | 9 | 5.25E-06 | ||||
| Wbl | 10 | 5 | 0.00142 | 3 | 0.02123 | ||||
| SsgA like | 8 | 4 | 0.00450 | 3 | 0.01089 | ||||
| Cell wall hydrolyases | 57 | 9 | 0.00856 | 14 | 1.23E-04 | ||||
| ppGpp-repressed genes | 189 | 28 | 0.00111 | ||||||
| Resuscitation-promoting factors | 7 | 5 | 6.09E-05 | ||||||
| Gly Ser Thr biosynthesis | 35 | 9 | 0.00140 | ||||||
| NRPS type II FAS | 10 | 4 | 0.00589 | ||||||
| Amino acid metabolism | 184 | 24 | 0.01225 | ||||||
| SigR regulon | 26 | 6 | 0.01517 | ||||||
| Hopanoids | 13 | 4 | 0.01651 | ||||||
| Amino acid transport | 34 | 7 | 0.01675 | 4 | 0.0217 | ||||
| Methionine biosynthesis | 9 | 3 | 0.03018 | ||||||
| Lysine bioysnhtesis | 16 | 4 | 0.03468 | ||||||
| Val Leu Ile biosynthesis | 25 | 5 | 0.04587 | ||||||
| Sensor kinase | 48 | 10 | 6.56E-04 | ||||||
| Response regulators | 94 | 11 | 0.0329 | ||||||
| Zur regulon | 22 | 19 | 5.50E-17 | ||||||
| van cluster genes | 7 | 7 | 8.00E-08 | ||||||
| Coelibactin | 13 | 7 | 8.11E-05 | ||||||
