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
tufBProtein chain elongation factor EF-Tu34.271.020.015++
rpsK30S ribosomal subunit protein S1133.991.15<0.001++
rplE50S ribosomal subunit protein L532.911.730.004+
fimAbMajor type 1 fimbrial subunit; fimbrin/pilin32.752.970.009
rpsS30S ribosomal subunit protein S1931.582.310.003
rplX50S ribosomal subunit protein L2431.271.71<0.001+
rpsE30S ribosomal subunit protein S529.861.93<0.001+
rpsN30S ribosomal subunit protein S1429.281.650.006+
rplR50S ribosomal subunit protein L1829.011.87<0.001+
rplJ50S ribosomal subunit protein L1028.112.240.013
rpmD50S ribosomal subunit protein L3027.972.390.004+
tufAProtein chain elongation factor EF-Tu27.530.940.039+
rplD50S ribosomal subunit protein L427.182.750.006
rplC50S ribosomal subunit protein L327.002.880.003
ompAOuter membrane protein A (II*)26.05−1.230.016++
rplO50S ribosomal subunit protein L1525.602.070.008+
rpsD30S ribosomal subunit protein S425.490.970.028+
rplF50S ribosomal subunit protein L625.422.170.012+
rplL50S ribosomal subunit protein L7/L1225.112.040.038
prlAPutative ATPase subunit of translocase24.741.980.011+
rpsJ30S ribosomal subunit protein S1024.112.59<0.001
rplW50S ribosomal subunit protein L2323.922.490.018
rpsM30S ribosomal subunit protein S1323.911.040.029+
rpsH30S ribosomal subunit protein S823.271.960.013+
rpsC30S ribosomal subunit protein S322.352.020.009
gapAGlyceraldehyde-3-phosphate dehydrogenase A22.310.040.178++
fusAGTP-binding protein chain elongation factor EF-G21.961.760.002+
rplB50S ribosomal subunit protein L221.832.300.007+
rplP50S ribosomal subunit protein L1621.091.720.018
rplV50S ribosomal subunit protein L2220.591.710.010
rpoARNA polymerase, alpha subunit20.331.280.007+
ptsHPTS system protein HPr18.670.53<0.001
rpsG30S ribosomal subunit protein S718.451.440.001+
fimIType 1 fimbrial protein of unknown function17.973.650.007
rpsL30S ribosomal subunit protein S1217.711.280.008+
rplN50S ribosomal subunit protein L1417.401.700.006+
ompCOuter membrane protein C (porin)17.27−0.840.002++
rplK50S ribosomal subunit protein L1116.782.09<0.001
c1041Unknown16.08−1.010.016+
rpsR30S ribosomal subunit protein S1815.992.66<0.001
rpsB30S ribosomal subunit protein S215.752.200.001
uxuAMannonate hydrolase15.604.740.003
rpsA30S ribosomal subunit protein S115.512.16<0.001
c4086Hypothetical protein15.503.570.017
ahpCAlkyl hydroperoxide reductase, C22 subunit15.130.890.005
rplA50S ribosomal subunit protein L114.912.740.020
infCProtein chain initiation factor IF-314.46−0.090.408++
c0287Hypothetical protein14.461.280.036
aceEPyruvate dehydrogenase (decarboxylase)14.141.050.042
acpPAcyl 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.