TABLE 3.
agr-downregulated genes
| ORFa | Geneb | Patternc | SarA effectd | Functione | Fold changef | N315 ORFg | Role categoryh | Sar boxi |
|---|---|---|---|---|---|---|---|---|
| 2515 | bsaA | 1 (2) | Glutathione peroxidase | 5.8 | SA1146 | Adaptation | ||
| 1889 | ald | 2 (2) | Alanine dehydrogenase | 11.9 | SA1272 | Amino acid metabolism | ||
| 5061 | bfmBAB | 1 (2) | Thiamine pyrophosphate-dependent dehydrogenases | 26.8 | SA1347 | Amino acid metabolism | ||
| 626 | nasE | 1 (3) | Assimilatory nitrite reductase | 115.7 | SA2187 | Amino acid metabolism | ||
| 1888 | tdcB | 2 (2) | Down | Threonine dehydratase | 33.8 | Amino acid metabolism | ||
| 1664 | ddh | 1 (2) | d-specific d-2-hydroxyacid dehydrogenase | 2.5 | SA2312 | Carbohydrate metabolism | ||
| 482 | treA | 1 (1) | Alpha-glucosidase | 10.8 | SA0433 | Carbohydrate metabolism | ||
| 4571 | folD | 1 (2) | 5,10-Methylene-tetrahydrofolate dehydrogenase | 6.5 | SA0915 | Coenzyme metabolism | ||
| 2000 | hemL | 1 (4) | Glutamate-1-semialdehyde aminotransferase | 10.9 | SA1491 | Coenzyme metabolism | ||
| 625 | sirB | 1 (3) | S-adenosyl-l-methionine | ND | SA2186 | Coenzyme metabolism | ||
| 4186 | thiD | 1 (2) | Down | Hydroxymethylpyrimidine/phosphomethylpyrimidine kinase | 3.7 | SA0537 | Coenzyme metabolism | |
| 5593 | dinG2 | 1 (4) | Putative ATP-dependent DNA helicase | 4.7 | SA1288 | DNA replication | ||
| 777 | gyrA | 2 (7) | DNA gyrase | 6.2 | SA0006 | DNA replication | ||
| 5293 | mnhA | 1 (7) | Multisubunit Na+/H+ antiporter | 5.1 | SA0813 | Electron transport | ||
| 2092 | mnhF | 1 (1) | Multisubunit Na+/H+ antiporter | 11.5 | SA0808 | Electron transport | ||
| 3524 | narG | 2 (9) | Anaerobic dehydrogenases | 93.4 | SA2185 | Electron transport | ||
| 622 | narJ | 1 (2) | Nitrate reductase | ND | SA2183 | Electron transport | ||
| 4539 | hit | 1 (2) | Diadenosine tetraphosphate (Ap4A) hydrolase | 2.7 | SA1656 | Miscellaneous | ||
| 1366 | 1 (2) | Protease related to collagenase | 3.0 | SA1441 | Miscellaneous | |||
| 483 | 1 (3) | Transcriptional regulator, GntR family | 6.5 | SA0434 | Transcriptional regulation | |||
| 1505 | pth | 1 (2) | Peptidyl-tRNA hydrolase | 2.2 | SA0460 | Translation elongation | ||
| 1732 | dltD | 1 (3) | DttD protein | 58.3 | SA0796 | Transport | ||
| 4405 | glpF | 1 (2) | Down | Glycerol uptake facilitator | 3.9 | SA1140 | Transport | |
| 952 | opuD | 1 (2) | Choline-glycine betaine transporter | 3.0 | SA1183 | Transport | Yes | |
| 481 | treP | 1 (1) | Phosphotransferase system IIC component | 13.1 | SA0432 | Transport | ||
| 4806 | 2 (4) | Putative efflux membrane protein | 18.4 | SA1269 | Transport | |||
| 1887 | 2 (3) | Amino acid permease | ND | SA1270 | Transport | |||
| 2206 | 1 (2) | Putative glucarate transporter | 4.6 | SA2300 | Transport | |||
| 121 | 1 (3) | Conserved hypothetical | ND | SA0212 | Unknown | |||
| 100 | 1 (2) | Down | Conserved hypothetical | 34.0 | SA0412 | Unknown | ||
| 4122 | 1 (2) | Down | Conserved hypothetical | 11.5 | SA2378 | Unknown | Yes | |
| 4081 | spa | 2 (2) | Down | Protein A | 4.4 | SA0107 | Virulence factors | Yes |
| 3910 | ssaA | 1 (2) | Secretory antigen precursor | 17.0 | SA2093 | Virulence factors | ||
| 1941 | 3 (3) | Myosin cross-reactive antigen | 2.8 | SA0102 | Virulence factors | Yes |
Designated S. aureus GeneChip ORF number.
Previously described gene name.
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).
Expected SarA contribution to agr-regulated gene transcription.
Previously described gene product function.
Fold change in expression of agr-regulated genes as cells transition from the early-log to the stationary phase of growth. ND, not determined.
Corresponding designated S. aureus strain N315 gene (20).
Expected metabolic role.
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.