TABLE 3.

Genes downregulated by Rot

Chip ORF no.aN315 ORF no.bN315 genebN315 descriptionbFold changecagr or sar effectdRole categoryd
4877SA1811 hlb Truncated beta-hemolysin6.9
4218SA0143 adhE Alcohol-acetaldehyde dehydrogenase3.8
1726SA0471 cysK Cysteine synthase (o-acetylserine sulfhydrylase) homologue4.6
1664SA2312 ddh D-specific d-2-hydroxyacid dehydrogenase11.5 agr, downCarbohydrate metabolism
904SA1267 ebhA HP, similar to streptococcal adhesin Emb567.4
1885SA1268 ebhB HP, similar to streptococcal adhesin EmbUpregulated agr, upVirulence factors
1434SA1091 fmhC (eprh)FmhC proteinUpregulated
1527SA0309 geh Glycerol ester hydrolase8.4 agr, upVirulence factors
4046SA2294 gntK Gluconokinase3.1
5281SA2293 gntP Gluconate permease4.6 sar, downTransport
1928SA2209 hlgB Gamma-hemolysin component B31.9 agr, upVirulence factors
1927SA2208 hlgC Gamma-hemolysin component C19.6 agr, upVirulence factors
1700SA1881 kdpA Probable potassium-transporting ATPase A chain2.8
4715SA1879 kdpC Probable potassium-transporting ATPase C chain3.7
4583SA1090 lytN LytN proteinUpregulated
5046SA0549 mvaK2 Phosphomevalonate kinaseUpregulated
2268SA2334 mvaS 3-Hydroxy-3-methylglutaryl CoA synthase8.1
3524SA2185 narG Respiratory nitrate reductase alpha chain6.2 agr, downElectron transport
431SA2435 pmi Mannose-6-phosphate isomerase3.0
4537SA1659 prsA Peptidyl-prolyl cis/trans isomerase homolog6.5
3551SA2326 ptsG PTS system, glucose-specific IIABC component2.7
1071SA1589 ribD Riboflavin-specific deaminaseUpregulated
5329SA1631 splA Serine protease SplA (pathogenicity island SaPIn3)Upregulated agr, upVirulence factors
2929SA1630 splB Serine protease SplB (pathogenicity island SaPIn3)Upregulated agr, upVirulence factors
3742SA1629 splC Serine protease SplC (pathogenicity island SaPIn3)62.5
324SA1628 splD Serine protease SplD (pathogenicity island SaPIn3)Upregulated agr, upVirulence factors
325 splE Serine protease SplE133.4
2377SA1627 splF Serine protease SplF (pathogenicity island SaPIn3)Upregulated agr, upVirulence factors
2174SA0900 sspB Cysteine protease precursor10.4 agr, upVirulence factors
2175SA0899 sspC Cysteine protease5.2 agr, upVirulence factors
4823SA2082 ureA Urease gamma subunitUpregulated
4822SA2083 ureB Urease beta subunitUpregulated
1900SA2084 ureC Urease alpha subunitUpregulated
4817SA2088 ureD Urease accessory protein UreD2.9
1899SA2085 ureE Urease accessory protein UreE6.7
1898SA2086 ureF Urease accessory protein UreF6.0
1897SA2087 ureG Urease accessory protein UreG23.7
401SA0124HP, similar to glycosyltransferase TuaA5.6
657SA2455Capsular polysaccharide biosynthesis, CapC11.1
849SA2414HP, similar to glutathione peroxidase10.8
1386SA0368HP, similar to proton/sodium-glutamate symport protein6.4 agr, upTransport
1574SA2062HP3.5
1815SA2200HP, similar to ABC transporter, ATP binding subunit3.0
1816SA2201HP, similar to ABC transporter, permease protein3.2
1994SA1812HP, similar to synergohymenotropic toxin precursor of Staphylococcus intermedius3.1
2064SA2218Reverse complement of HP4.4
2067SA1437Conserved HP3.6
2238SA2434Fructose phosphotransferase system enzyme FruA homolog5.4
2543SA1725Staphopain, cysteine proteinase11.9
2612SA1093DNA topoisomerase I TopA homologUpregulated
2860SA0989Conserved HP7.2
2926SA0663HP3.0
3017SA0127HP, similar to capsular polysaccharide synthesis protein 14L50.7
3078SA0165HP, similar to alpha-helical coiled-coil protein SrpF2.7
3373SA0904HP, probable autolysin transcription regulatorUpregulated
3768SA0850HP, similar to oligopeptide ABC transporter oligopeptide- binding proteinUpregulated
4061SA1007Alpha-hemolysin precursor24.5 agr, upVirulence factors
4069SA0123HP, similar to UDP-glucose 4-epimerase (Gale-1)Upregulated
4530SA0710Conserved HPUpregulated
5131SA2297HP, similar to GTP-pyrophosphokinase2.8
  • a S. aureus GeneChip ORF number.

  • b Based on the published sequence of strain N315 (accession no. NC_002745 ). For genes not present in N315, the gene name and description are from the COL genome, available from The Institute for Genomic Research Comprehensive Microbial Resource website (http://www.tigr.org ). HP, hypothetical protein; CoA, coenzyme A; PTS, phosphotransferase system.

  • c Normalized values in the agr rot mutant over values in the agr strain. “Upregulated” denotes genes highly downregulated in the agr strain, such that the transcripts were below detectable levels and the fold change could not be accurately calculated.

  • d As described by Dunman et al. (12). up, upregulated; down, downregulated.