TABLE 5.
SarA-downregulated genes
| ORFa | Geneb | Patternc | Functiond | N315 ORFe | Role categoryf | Sar boxg |
|---|---|---|---|---|---|---|
| 2462 | clpL | 2 (2) | ATPase/chaperone | SA2336 | Adaptation | |
| 1220 | arcC | 2 (2) | Carbamate kinase | SA2425 | Amino acid metabolism | |
| 1191 | gudB | 1 (2) | Glutamate dehydrogenase/leucine dehydrogenase | SA0819 | Amino acid metabolism | Upstream |
| 4470 | rocD | 1 (3) | Ornithine aminotransferase | SA0818 | Amino acid metabolism | Yes |
| 1075 | 2 (2) | Proline dehydrogenase | SA1585 | Amino acid metabolism | ||
| 1888 | 1 (2) | Threonine dehydratase | Amino acid metabolism | |||
| 2369 | aldA | 1 (3) | NAD-dependent aldehyde dehydrogenases | SA0162 | Carbohydrate metabolism | |
| 4567 | fhs | 1 (5) | Formyl-tetrahydrofolate synthetase | SA1553 | Carbohydrate metabolism | |
| 1416 | 2 (3) | Dihydroxyacetone kinase | SA0605 | Carbohydrate metabolism | ||
| 5238 | atl | 1 (5) | Autolysin | SA0905 | Cell division | |
| 2381 | pbp3 | 1 (2) | Penicillin-binding protein 3 | SA1381 | Cell wall | |
| 4186 | thiD | 1 (2) | Hydroxymethylpyrimidine/phosphomethylpyrimidine kinase | SA0537 | Coenzyme metabolism | |
| 2912 | 1 (3) | Homology to N-carbamoylsarcosine amidohydrolase | SA2438 | Coenzyme metabolism | ||
| 4407 | mutL | 1 (4) | DNA mismatch repair protein | SA1138 | DNA repair | |
| 3933 | ndhF | 1 (3) | NADH-ubiquinone oxidoreductase subunit 5 | SA0411 | Electron transport | |
| 35 | rocA | 3 (4) | 1-Pyrroline-5-carboxylate dehydrogenase | SA2341 | Electron transport | |
| 4603 | 1 (3) | Carboxylesterase type B | SA2240 | Lipid metabolism | ||
| 123 | IrgB | 1 (2) | Holin-like protein | SA0253 | Miscellaneous | |
| 2047 | purM | 1 (3) | Phosphoribosylaminoimidazol synthetase | SA0923 | Nucleotide and nucleic acid metabolism | |
| 1996 | citC | 1 (1) | Isocitrate dehydrogenase | SA1517 | TCA cycle | |
| 265 | 1 (6) | Putative transcription antiterminator, BgIG family | SA1961 | Transcription termination | ||
| 1221 | arcR | 1 (1) | Transcriptional regulator, Crp/Fnr family | SA2424 | Transcriptional regulation | |
| 3985 | 1 (3) | Transcriptional regulator, RpiR family | SA0187 | Transcriptional regulation | Upstream | |
| 4405 | glpF | 1 (2) | Glycerol uptake facilitator | SA1140 | Transport | |
| 2839 | gntP | 1 (4) | Gluconate permease | SA2293 | Transport | |
| 205 | 1 (2) | Phosphotransferase system IIB components | SA0186 | Transport | Upstream | |
| 4259 | 1 (2) | SA0021 | Unknown | |||
| 3420 | 1 (3) | Conserved hypothetical | SA0212 | Unknown | ||
| 2103 | 1 (2) | Conserved hypothetical | SA0271 | Unknown | ||
| 2424 | 1 (2) | SA0363 | Unknown | |||
| 100 | 1 (2) | Conserved hypothetical | SA0412 | Unknown | ||
| 2823 | 2 (3) | Conserved hypothetical | SA1618 | Unknown | ||
| 827 | 1 (1) | Conserved hypothetical | SA1937 | Unknown | ||
| 4122 | 1 (1) | Conserved hypothetical | SA2378 | Unknown | Yes | |
| 367 | 1 (2) | Conserved hypothetical | SA2448 | Unknown | ||
| 203 | 1 (1) | Hypothetical protein | Unknown | |||
| 2577 | 1 (2) | Hypothetical protein | Unknown | |||
| 426 | aur | 1 (5) | Aureolysin | SA2430 | Virulence factors | Upstream |
| 427 | isaB | 1 (2) | Immunodominant antigen B | SA2431 | Virulence factors | Yes |
| 4197 | lip | 1 (2) | Lipase | SA2463 | Virulence factors | Yes |
| 2574 | nuc | 1 (1) | Nuclease | SA0746 | Virulence factors | Yes |
| 4081 | spa | 2 (2) | Protein A | SA0107 | Virulence factors | Yes |
| 2174 | sspB | 1 (1) | Cysteine protease precursor | SA0900 | Virulence factors | |
| 2175 | sspC | 1 (1) | Protease | SA0899 | Virulence factors |
a
Designated S. aureus GeneChip ORF number.
b
Previously described gene name.
c
Many genes are represented on the S. aureus GeneChip in a redundant manner as full or partial fragments. Values are the number of times a gene transcript was identified as fitting a pattern (number of times the gene was either partially or completely represented on the GeneChip).
d
Previously described gene product function.
e
Corresponding designated S. aureus strain N315 gene (20).
f
Expected metabolic role. TCA, tricarboxylic acid.
g
Yes, putative Sar box identified within the gene's promoter region. Upstream, the gene is expected to be part of an operon with a potential Sar box located in an upstream promoter region.