TABLE 2.
Genes upregulated by TRAPa
| Affymetrix Probe set no. | N315 ORFb | N315 genec | N315 description | Repeat 1 | Repeat 2 | Repeat 3 | H66A |
|---|---|---|---|---|---|---|---|
| c4149s | SA1844 | agrA | Accessory gene regulator A | 4.6 | 4.8 | 2.1 | 3.7 |
| c1047s | SA1842 | agrB | Accessory gene regulator B | 4.6 | 5.4 | 1.2 | 3.2 |
| c10473s | SA1843 | agrC | Accessory gene regulator C | 4.3 | 4.7 | 1.8 | 3.6 |
| c4148s | SAS066 | agrD | Accessory gene regulator D | 4.1 | 4.2 | − | 2.1 |
| c4144s | SAS065 | hld | δ-hemolysin | 5.3 | 4.3 | 1.5 | 2.6 |
| c1023s | SA1007 | hla | α-Hemolysin | 1.9 | 3.7 | 4.6 | 2 |
| c4094s | SA1752 | hlb | β-Hemolysin | − | 4.3 | 4.7 | 4.9 |
| c5668s | SA2209 | hlgB | γ-hemolysin component B | 1.3 | 3.8 | 1.9 | 4.1 |
| c2346s | SA0144 | capA | Capsular polysaccharide synthesis enzyme Cap5A | − | 3.7 | 3.8 | 1.6 |
| c2413s | SA0147 | capD | Capsular polysaccharide synthesis enzyme Cap5D | − | 3.8 | 3.9 | 1.5 |
| c2479s | SA149 | capF | Capsular polysaccharide synthesis enzyme Cap5F | − | 2.7 | 3.7 | 1.2 |
| c10088s | SA0153 | capJ | Capsular polysaccharide synthesis enzyme Cap5J | 2.6 | 1.9 | 2.3 | − |
| c10089s | SA0154 | capK | Capsular polysaccharide synthesis enzyme Cap5K | 1.2 | 1.6 | 2.1 | − |
| c2662s | SA0155 | capL | Capsular polysaccharide synthesis enzyme Cap5L | − | 1.2 | 1.8 | − |
| c6688s | SA2463 | lip | Triacylglycerol lipase precursor | 4.6 | 8.3 | 3.4 | 4.9 |
| c6266s | SA0253 | lrgB | Holin-like protein LrgB | 1 | 3.3 | 2.3 | |
| c6975s | SA0309 | geh | Glycerol ester hydrolase | 1.5 | 2.2 | 2.3 | 2.1 |
| c3504s | SA2003 | hysA | Hyaluronate lyase precursor | − | 1.4 | 3.4 | 2.3 |
| c570s3 | SA0901 | sspA | Staphylococcal serine protease (V8 protease) | 6.9 | 7.3 | 5.3 | 6.5 |
| c568s3 | SA0900 | sspB | Cysteine protease precursor | 6.1 | 7 | 4.8 | 6.1 |
| c564s3 | SA0899 | sspC | Cysteine protease | 6.6 | 7.1 | 5.2 | 6.2 |
| c3834s | SA1725 | staphopain | Staphopain, cysteine proteinase | 4.1 | 3 | 4.3 | 5 |
| c724s5 | SA0091 | plc | 1-Phosphatidylinositol phosphodiesterase | 2 | 4.4 | 2.5 | 4.4 |
| c6539s | SA2430 | aur | Zinc metalloproteinase aureolysin precursor | 2.8 | 6.7 | 3.7 | 4.4 |
| c6531s | SA2428 | arcA | Arginine deaminase | 2.5 | 2.5 | 3.1 | 5.2 |
| c6527s | SA2427 | arcB | Ornithine transcarbamoylase | 2.5 | 2.4 | 3.3 | 5.2 |
| c6513s | SA2425 | arcC | Carbamate kinase | 2.7 | 1.4 | 2.4 | 2.5 |
| c6509s | SA2424 | arcR | HP, similar to transcription regulator Crp/Fnr family protein | 2 | 1.1 | 2.5 | 2.2 |
| c6673s | SA2458 | icaR | Ica operon transcriptional regulator IcaR | − | 1 | − | − |
| c5023s | SA2082 | ureA | Urease gamma subunit | − | 1.8 | 2.1 | 2.2 |
| c5029s | SA2083 | ureB | Urease beta subunit | − | 1.9 | 1.9 | 2.7 |
| c5031s | SA2084 | ureC | Urease alpha subunit | − | 2.2 | 2 | 2.2 |
| c9293s | SA2088 | ureD | Urease accessory protein UreD | − | 1 | 1.6 | 1.6 |
| c5035s | SA2085 | ureE | Urease accessory protein UreE | 1.7 | 1.3 | 1.8 | 1.9 |
| c5039s | SA2086 | ureF | Urease accessory protein UreF | − | 1.6 | 2 | 1.6 |
| c5043s | SA2087 | ureG | Urease accessory protein UreG | − | 1.2 | 1.6 | 1.3 |
| c2958s | SA0053 | radC | Truncated HP, similar to DNA repair protein | 1.5 | 2.4 | − | |
| c10233s | SA2285 | HP, similar to accumulation to methicillin-resistant surface protein | 5.2 | 3.3 | − | 4.8 | |
| c4755s | SA2006 | HP, similar to MHC class II analog | 2.1 | 6 | 3.4 | 1.9 | |
| c6626s | Serine-threonine rich antigen | 1 | 2.4 | − | 1 | ||
| c1063s | Phenol-soluble modulin beta 2 | 3 | 6.6 | 5.4 | 6.3 | ||
| c7931s | NADH-ubiquinone oxidoreductase chain 14 | − | 1 | 1.4 | − | ||
| c9065s | Lantibiotic epidermin biosynthesis protein EpiB | − | 1.5 | 1.7 | − | ||
| c9062s | Lantibiotic epidermin biosynthesis protein EpiC | − | 1.6 | 1.8 | − | ||
| c10345s | SA0171 | fad | NAD-dependent formate dehydrogenase | 2.1 | 5 | 3.2 | 4.3 |
| c3949s | Sa1751 | mapW | Cell surface protein map-w | − | 1.9 | 2.4 | 3.3 |
| c6088s | SA2318 | HP, similar to l-serine dehydratase | 1.1 | 1.8 | 1.7 | 1.5 | |
| c6092s | SA2319 | HP, similar to beta-subunit of l-serine dehydratas | 1.5 | 2.7 | 2.9 | 1.8 | |
| c1147s | SA1041 | pyrR | Pyrimidine operon repressor chain A | 1.2 | 1.1 | − | 1.3 |
| c1151s | SA1042 | pyrP | Uracil permease | 1.5 | 1.7 | 2.4 | 1.3 |
| c9991s | Sa1043 | pyrB | Aspartate transcarbamoylase chain A | 1.4 | 1.3 | 2 | 1.2 |
| c1155s | Sa1044 | pyrC | Dihydro-orotase | 1.5 | 1.3 | 1.8 | − |
| c1159s | SA1045 | carA | Carbamoyl-phosphate synthase small chain | 1.3 | 1 | 1.7 | − |
| c1165s | SA1046 | carB | Carbamoyl-phosphate synthase large chain | 1.3 | − | 1.3 | − |
| c9938s | SA1992 | lacE | PTS system, lactose-specific IIBC component | − | 1.7 | − | 1.9 |
| c10378s | Lantibiotic gallidermin precursor | − | 2.1 | 1.4 | − | ||
| c7937s | SA0582 | HP, similar to Na+:H+ antiport | − | 1.1 | 1.2 | − | |
| c9259s | SA0260 | HP, similar to ribose transporter RbsU | − | 3.1 | 1.1 | 1.8 | |
| c6443s | SA2411 | HP, similar to magnesium citrate secondary transporter | − | 2.5 | 2.2 | 2 | |
| c756s5 | SA0377 | HP (pathogenicity island SaPIn2) | − | 1.2 | 1.6 | − | |
| c7313s | SA0394 | HP (pathogenicity island SaPIn2) | − | 2.1 | 2.9 | 1.7 | |
| c767s9 | SA0406 | HP (pathogenicity island SaPIn2) | − | 1.2 | 1.6 | 1 | |
| c10102s | SA1634 | Truncated hypothetical protein (pathogenicity island SaPIn3) | − | 1.2 | 1.1 | − |
a
Log fold change of TRAP− mutant compared with parent 8325-4 TRAP+ (repeats 1, 2, and 3) and log fold change of mutant His66 (H66A) compared with parent TRAP+. A minus sign indicates no difference between control and mutant.
b
Designed S. aureus GeneChip ORF number.
c
Based on the published sequence of strain N315 (24).