TABLE 2.

Top 50 genes expressed by E. coli CFT073 in vivo during UTI

GeneFunctionSignal intensityFold changeaP valueAmong top 50 in urinecAmong top 50 in LBc
tufB Protein chain elongation factor EF-Tu34.271.020.015++
rpsK 30S ribosomal subunit protein S1133.991.15<0.001++
rplE 50S ribosomal subunit protein L532.911.730.004+
fimA b Major type 1 fimbrial subunit; fimbrin/pilin 32.75 2.97 0.009
rpsS 30S ribosomal subunit protein S19 31.58 2.31 0.003
rplX 50S ribosomal subunit protein L2431.271.71<0.001+
rpsE 30S ribosomal subunit protein S529.861.93<0.001+
rpsN 30S ribosomal subunit protein S1429.281.650.006+
rplR 50S ribosomal subunit protein L1829.011.87<0.001+
rplJ 50S ribosomal subunit protein L10 28.11 2.24 0.013
rpmD 50S ribosomal subunit protein L30 27.97 2.39 0.004 +
tufA Protein chain elongation factor EF-Tu27.530.940.039+
rplD 50S ribosomal subunit protein L4 27.18 2.75 0.006
rplC 50S ribosomal subunit protein L3 27.00 2.88 0.003
ompA Outer membrane protein A (II*)26.05−1.230.016++
rplO 50S ribosomal subunit protein L15 25.60 2.07 0.008 +
rpsD 30S ribosomal subunit protein S425.490.970.028+
rplF 50S ribosomal subunit protein L6 25.42 2.17 0.012 +
rplL 50S ribosomal subunit protein L7/L12 25.11 2.04 0.038
prlA Putative ATPase subunit of translocase24.741.980.011+
rpsJ 30S ribosomal subunit protein S10 24.11 2.59 <0.001
rplW 50S ribosomal subunit protein L23 23.92 2.49 0.018
rpsM 30S ribosomal subunit protein S1323.911.040.029+
rpsH 30S ribosomal subunit protein S823.271.960.013+
rpsC 30S ribosomal subunit protein S3 22.35 2.02 0.009
gapA Glyceraldehyde-3-phosphate dehydrogenase A22.310.040.178++
fusA GTP-binding protein chain elongation factor EF-G21.961.760.002+
rplB 50S ribosomal subunit protein L2 21.83 2.30 0.007 +
rplP 50S ribosomal subunit protein L1621.091.720.018
rplV 50S ribosomal subunit protein L2220.591.710.010
rpoA RNA polymerase, alpha subunit20.331.280.007+
ptsH PTS system protein HPr18.670.53<0.001
rpsG 30S ribosomal subunit protein S718.451.440.001+
fimI Type 1 fimbrial protein of unknown function 17.97 3.65 0.007
rpsL 30S ribosomal subunit protein S1217.711.280.008+
rplN 50S ribosomal subunit protein L1417.401.700.006+
ompC Outer membrane protein C (porin)17.27−0.840.002++
rplK 50S ribosomal subunit protein L11 16.78 2.09 <0.001
c1041 Unknown16.08−1.010.016+
rpsR 30S ribosomal subunit protein S18 15.99 2.66 <0.001
rpsB 30S ribosomal subunit protein S2 15.75 2.20 0.001
uxuA Mannonate hydrolase 15.60 4.74 0.003
rpsA 30S ribosomal subunit protein S1 15.51 2.16 <0.001
c4086 Hypothetical protein 15.50 3.57 0.017
ahpC Alkyl hydroperoxide reductase, C22 subunit15.130.890.005
rplA 50S ribosomal subunit protein L1 14.91 2.74 0.020
infC Protein chain initiation factor IF-314.46−0.090.408++
c0287 Hypothetical protein14.461.280.036
aceE Pyruvate dehydrogenase (decarboxylase)14.141.050.042
acpP Acyl carrier protein13.850.090.579
  • a Fold change refers to growth in vivo relative to growth in LB.

  • b Genes statistically upregulated in vivo at least twofold are in boldface.

  • c A plus sign indicates this gene was also present among the 50 most expressed genes in human urine or LB.