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Table 1 Genes up- and down-regulated for at least two of four S. aureus strains following a 30-min exposure to the cranberry product NC90 (2 mg/mL)

From: In vitro and in vivo antibacterial activities of cranberry press cake extracts alone or in combination with β-lactams against Staphylococcus aureus

ORF SACOL Gene name Gene annotation Fold expressionafor each strain      
    ATCC 29213 MRSA N315 SHY97 4023 SHY97 3906 DAP b VAN b OXA b OBC c Vra d
Up-regulated genes          
0263   Peptidoglycan hydrolase 15.0 24.5 3.6 9.8 + = = =  
1066 fmt Fmt protein 6.8 3.8 2.9 2.0 + + + + +
1459   Methionine sulfoxide reductase 2.3 6.0 −1.5 1.2 = + + +  
1490 pbp2 Penicillin binding protein 2 2.5 2.8 1.0 1.9 + + + + +
1777 htrA Putative serine protease Htra 4.6 8.9 1.0 2.1 + + + =  
1932   Transglycosylase domain protein 8.5 6.8 2.2 2.5 + = = + +
1942 vraR DNA-binding response regulator 8.8 10.9 nd 2.7 + + + = +
1943 vraS Sensor histidine kinase VraS 14.2 10.5 7.6 4.0 + + + + +
1944   Hypothetical protein 5.1 7.5 1.3 1.4 + + + + +
2017 groES Chaperonin nd 2.2 2.3 2.2 + + + =  
2116 mur AB UDP-N-AcGlc-1-carbotransferase 4.0 7.6 2.5 2.6 + + + + +
2291   Staphyloxanthin biosynthesis 6.0 2.2 4.5 3.9 =  
2352 tcaA TcaA protein 5.1 6.3 1.1 1.4 + + + + +
2584 isaA Immunodominant antigen A 2.1 1.8 2.3 2.1 = = = =  
Down-regulated genes          
0095 spa IgG binding protein −33.3 −2.0 −37.5 nd = =   
0096 sarS Accessory regulator −2.0 −2.9 −2.7 −2.2   
0136-0150e capA-O Capsular polysaccharide −4.9 nd −3.1 −1.9 =   
0317   Lipase precursor −8.6 −6.8 −4.1 −1.7 =   
451-452e ahpFC Alkyl hydroperoxide reductase −3.4 −3.6 −8.2 −1.2 = =   
0679   Na+/H+ antiporter, MnhA −4.5 −10.0 −13.0 −25.0 = = =   
0688-0690e mntABC ABC transporter −43.5 −66.7 −86.7 −91.7 = =   
0765-0766e saeSR Sensor/Histidine kinase −1.5 −3.7 −1.5 −3.6 = = =   
1072 folD THF dehydrogenase −2.1 −2.6 −2.7 nd = = =   
1079 purF amidophosphoribosyltransferase nd −10.0 −0.8 −2.6 =   
1140 isdA Heme-iron transport −5.3 −2.1 −2.9 nd = =   
1158-1160e sdhABC Succinate dehydrogenase −5.1 −7.9 −4.5 −3.8 =   
1173 hla Alpha-hemolysin −3.6 −4.3 nd −2.6 = =   
1262-1263e sucCD Succinyl-CoA synthetase −5.6 −3.1 −6.4 −2.3 = = =   
1328 glnR Glutamine synthetase repressor −3.7 −6.3 −3.4 −5.3 =   
1329 femC Glutamine synthetase FemC −2.7 −4.2 −3.2 −2.9 = =   
1368 katA Catalase −3.2 −2.4 −5.2 −2.1 = + =   
1385 acnA Aconitate hydratase −3.4 −3.0 −6.3 nd = = =   
1396 fmtC FmtC protein −0.9 −2.4 −2.0 nd   
1448-1449e sucAB 2-oxoglutarate dehydrogenase −8.1 −5.4 −4.8 −4.9 = = =   
1741 icd Isocitrate dehydrogenase, NADP −5.6 −2.2 −11.5 −2.5 = = +   
1742 gtlA Citrate synthase −6.7 −2.3 −14.3 −2.2 = = +   
1743   Amino acid permease −3.1 −1.2 −4.8 −1.5 = = =   
2055 rsbW Anti-sigma B factor −2.6 nd −1.6 −2.1 =   
2057 rsbU Sigma factor B regulator protein −1.3 −3.1 −0.9 −2.1 = =   
2066-2068e kdpABC Potassium-transporting ATPase −3.5 nd −2.3 −1.7 = = =   
2293   NAD/NADP dehydrogenase −2.0 −2.4 −1.3 nd =   
2694 geh lipase −27.3 −4.3 −20.0 nd = = =   
  1. a Data are expressed in log2 ratios of Cy5(cranberry-treated)/Cy3(untreated control); see material and methods.
  2. b Up (+) or down (−) expression of the indicated gene by exposure to daptomycin (DAP), vancomycin (VAN) or oxacillin (OXA), as reported by Muthaiyan et al. [29]; the equal sign (=) indicates genes that were not affected.
  3. c Up (+) or down (−) expression of the indicated gene by exposure to oxacillin (O), bacitracin (B) and D-cycloserine (C) as reported by Utaida et al. [30]; the equal sign (=) indicates genes that were not affected.
  4. d The plus sign (+) indicates genes known to be regulated by the two-component response regulator VraSR following a cell wall stress [42].
  5. e To avoid repetition, the fold modulation of genes arranged in operons is represented as an average for the indicated gene set.