Table 3.

agr-downregulated genes

ORFaGenebPatterncSarA effectdFunctioneFold changefN315 ORFgRole categoryhSar boxi
2515 bsaA 1 (2)Glutathione peroxidase5.8SA1146Adaptation
1889 ald 2 (2)Alanine dehydrogenase11.9SA1272Amino acid metabolism
5061 bfmBAB 1 (2)Thiamine pyrophosphate-dependent dehydrogenases26.8SA1347Amino acid metabolism
626 nasE 1 (3)Assimilatory nitrite reductase115.7SA2187Amino acid metabolism
1888 tdcB 2 (2)DownThreonine dehydratase33.8Amino acid metabolism
1664 ddh 1 (2) d-specificd-2-hydroxyacid dehydrogenase2.5SA2312Carbohydrate metabolism
482 treA 1 (1)Alpha-glucosidase10.8SA0433Carbohydrate metabolism
4571 folD 1 (2)5,10-Methylene-tetrahydrofolate dehydrogenase6.5SA0915Coenzyme metabolism
2000 hemL 1 (4)Glutamate-1-semialdehyde aminotransferase10.9SA1491Coenzyme metabolism
625 sirB 1 (3) S-adenosyl-l-methionineNDSA2186Coenzyme metabolism
4186 thiD 1 (2)DownHydroxymethylpyrimidine/phosphomethylpyrimidine kinase3.7SA0537Coenzyme metabolism
5593 dinG2 1 (4)Putative ATP-dependent DNA helicase4.7SA1288DNA replication
777 gyrA 2 (7)DNA gyrase6.2SA0006DNA replication
5293 mnhA 1 (7)Multisubunit Na+/H+ antiporter5.1SA0813Electron transport
2092 mnhF 1 (1)Multisubunit Na+/H+ antiporter11.5SA0808Electron transport
3524 narG 2 (9)Anaerobic dehydrogenases93.4SA2185Electron transport
622 narJ 1 (2)Nitrate reductaseNDSA2183Electron transport
4539 hit 1 (2)Diadenosine tetraphosphate (Ap4A) hydrolase2.7SA1656Miscellaneous
13661 (2)Protease related to collagenase3.0SA1441Miscellaneous
4831 (3)Transcriptional regulator, GntR family6.5SA0434Transcriptional regulation
1505 pth 1 (2)Peptidyl-tRNA hydrolase2.2SA0460Translation elongation
1732 dltD 1 (3)DttD protein58.3SA0796Transport
4405 glpF 1 (2)DownGlycerol uptake facilitator3.9SA1140Transport
952 opuD 1 (2)Choline-glycine betaine transporter3.0SA1183TransportYes
481 treP 1 (1)Phosphotransferase system IIC component13.1SA0432Transport
48062 (4)Putative efflux membrane protein18.4SA1269Transport
18872 (3)Amino acid permeaseNDSA1270Transport
22061 (2)Putative glucarate transporter4.6SA2300Transport
1211 (3)Conserved hypotheticalNDSA0212Unknown
1001 (2)DownConserved hypothetical34.0SA0412Unknown
41221 (2)DownConserved hypothetical11.5SA2378UnknownYes
4081 spa 2 (2)DownProtein A4.4SA0107Virulence factorsYes
3910 ssaA 1 (2)Secretory antigen precursor17.0SA2093Virulence factors
19413 (3)Myosin cross-reactive antigen2.8SA0102Virulence factorsYes
  • a Designated S. aureusGeneChip 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 Expected SarA contribution toagr-regulated gene transcription.

  • e Previously described gene product function.

  • f Fold change in expression ofagr-regulated genes as cells transition from the early-log to the stationary phase of growth. ND, not determined.

  • g Corresponding designated S. aureusstrain N315 gene (20).

  • h Expected metabolic role.

  • i 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.