Table 2

ORFs downregulated in vraS and vraT mutantsa

Fold induction by Ox in wt strain 923Fold decrease in mutantsaORF descriptionFunctionS. aureus locus no.First to identify ORF to be vraSR regulated
923ΔvraT923vraSUSA300N315
2.71.413vraRvra operonSAUSA300_1865SA1700Kuroda et al. (9)
2.91.32.6vraSvra operonSAUSA300_1866SA1701Kuroda et al. (9)
4.6232.43vraTvra operonSAUSA300_1867SA1702Kuroda et al. (9)
5.62.54.4vraUvra operonSAUSA300_1868SA1703Kuroda et al. (9)
4.92.73.7Hypothetical mechanosensitive channel MscSMembrane transportSAUSA300_0362SA0349This study
1013.816.6vraXCell wall relatedUSA300HOU_0572SAS016Kuroda et al. (9)
7.66.87.4Hypothetical proteinHypotheticalSAUSA300_0622SA0591This studyb
3.12.63.5Probable membrane protein, SNARE associatedTransport and protein processingSAUSA300_0866SA0824This study
2.15.36.4Chitinase BHypotheticalSAUSA300_0964SA0914Kuroda et al. (9)
3.72.42.4guaC, GMP reductasePurine metabolismSAUSA300_1235SA1172This studyb
3.42.22.4MsrR, methionine sulfoxide reductase regulatorRegulation of protein foldingSAUSA300_1257SA1195This studyb
4.22.32.8Hypothetical proteinHypotheticalSAUSA300_1314SA1254Kuroda et al. (9)
127.915.1Hypothetical proteinHypotheticalSAUSA300_1606SA1476Kuroda et al. (9)
2.52.12.1prsA, peptidyl-prolyl cis-isomeraseProtein translocation and foldingSAUSA300_1790SA1659Kuroda et al. (9)
3.34.14sgtB, monofunctional glycosyltransferasePeptidoglycan synthesisSAUSA300_1855SA1691Kuroda et al. (9)
9.911.111.8RNA methyltransferaseRNA modificationSAUSA300_1877SA1712Kuroda et al. (9)
2.13.63.6Hypothetical phage protein/ϕPVL, ORF41-likePhage-related processesSAUSA300_1961SA1795This study
2.74.82.1Hypothetical proteinHypotheticalSAUSA300_1964SA1799This study
2.74.72.1Antirepressor phage ϕNMPhage-related processesSAUSA300_1966SA1801This study
3.45.72.9Putative phage transcriptional regulatorPhage-related processesSAUSA300_1968SA1804
3.42.42.7murZPeptidoglycan synthesisSAUSA300_2078SA1926Kuroda et al. (9)
3.12.52.9lytRPeptidoglycan degradationSAUSA300_2259SA2103Kuroda et al. (9)
8.311.717.4Hypothetical proteinHypotheticalSAUSA300_2269SA2113Kuroda et al. (9)
4.23.54tcaA, teicoplanin resistance proteinAntimicrobial resistanceSAUSA300_2302SA2146Kuroda et al. (9)
3.52.83Hypothetical proteinHypotheticalSAUSA300_2378SA2221Kuroda et al. (9)
4.32.13.3fmtAPeptidoglycan synthesisSAUSA300_2386SA2230Kuroda et al. (9)
3.44.24.5Transcriptional regulator, MerR familyRegulationSAUSA300_2445SA2296Kuroda et al. (9)
3.44.14.2GTP pyrophosphokinase, relA homologueMetabolismSAUSA300_2446SA2297Kuroda et al. (9)
3.13.63.2Drp35 lactonaseβ-Lactam resistanceSAUSA300_2621SA2480Kuroda et al. (9)
2.82.42.7Hypothetical proteinHypotheticalSAUSA300_2622SA2481This studyb
2.19.84.9Nitrite extrusion protein narUKNitrate/nitrite metabolismSAUSA300_2333SA2176This study
2.55.54Nitrate reductase gamma chain, narINitrate/nitrite metabolismSAUSA300_2340SA2182This study
2.89.65.2Respiratory nitrate reductase, delta subunitNitrate/nitrite metabolismSAUSA300_2341SA2183This study
2.37.54Nitrate reductase beta chain, narHNitrate/nitrite metabolismSAUSA300_2342SA2184This study
2.76.54.6Uroporphyrin-III C-methyltransferase, putativeNitrate/nitrite metabolismSAUSA300_2344SA2186This study
3.66.85.5Assimilatory nitrite reductase, nirD, nasENitrate/nitrite metabolismSAUSA300_2345SA2187This study
2.26.34Nitrite reductase protein nasD, nirBNitrate/nitrite metabolismSAUSA300_2346SA2188This study
18.732.837.2Hypothetical, related to SCINPathogenesisSAUSA300_2493SA2343Kuroda et al. (9)
ORFs with ≥2-fold lower expression in either 923ΔvraT or 923vraSa
2.42.31.9psmβ1 and -β2Antibacterial and hemolyticSAUSA300_1068NFThis study
2.13.31.7RecTPhage-related processesSAUSA300_1960SA1794This study
2.521.7Phage ϕN315, ϕPVL ORF39-likePhage-related processesSAUSA300_1962SA1797This study
2.74.51.9Phage protein, ϕN315Phage-related processesSAUSA300_1967–68SA1802This study
2.21.82.1Hypothetical proteinHypotheticalSAUSA300_0639SA0608Kuroda et al. (9)
2.11.92.4Hypothetical proteinHypotheticalSAUSA300_0779SA0749This study
2.81.92.6Signal peptidase, spsAFolding, sorting, and degradationSAUSA300_0867SA0825Kuroda et al. (9)
2.41.72Undecaprenyl pyrophosphatase synthetase, uppSPeptidoglycan synthesisSAUSA300_1153SA1103This studyb
2.71.82.2PTS system glucose-specific enzyme II AGlycolysis and starch metabolismSAUSA300_1315SA1255Kuroda et al. (9)
  • a Strains were compared with the wild type in the presence of Ox. ORFs are listed in the ascending order of the USA300 locus number. The SA prefix indicates that the annotation is from the genome sequence of strain N315; the USA300 prefix is from the sequence of USA300 strain FPR3757. USA300HOU_0572 is from the genome sequence of USA300_TCH1516 (CA methicillin-susceptible S. aureus). Functions were ascertained from annotations in the KEGG database. NF, not found; SCIN, staphylococcal complement inhibitor; PTS, phosphoenol pyruvate phosphotransferase system.

  • b ORFs that are newly identified members of the vraSR stimulon that were induced by Ox by Utaida et al. (36).