TABLE 1.

Genes significantly up-regulated in E. coli 83972 in all three patients compared with growth in both MOPS and in vitro urinea

GeneCodeFunction or productChange (fold) in expression compared with that in MOPSChange (fold) in expression compared with that in urine
Pat1Pat2Pat3Pat1Pat2Pat3
narHc1686Respiratory nitrate reductase 1, beta subunit9.95.89.953.4258.7383.8
fdnIb1476Formate dehydrogenase N, gamma subunit, nitrate inducible10.13.13.337.962.215.9
narJb1226Nitrate reductase 1, assembly function11.16.69.196.759.1177.0
yoaGb1796Hypothetical protein2.89.523.312.555.9229.8
ytfEb4209Hypothetical protein2.310.913.69.753.294.8
narKb1223Nitrite extrusion protein5.68.72.624.951.511.3
fdnGECs5443Formate dehydrogenase N, alpha subunit, nitrate inducible6.42.72.880.239.935.2
yeaRb1797Putative tellurite resistance protein9.582.490.39.536.981.4
narGZ2001Nitrate reductase 1, subunit8.03.85.671.732.254.5
ydfZb1541Hypothetical protein9.25.24.538.524.227.4
Z0893Z0893Putative glutamate mutase, subunit E139.879.757.623.622.917.3
narIb1227Nitrate reductase 1, gamma subunit7.06.08.023.321.529.1
narHb1225Nitrate reductase 1, Fe-S (beta) subunit10.65.88.332.121.329.6
metAb4013Homoserine transsuccinylase4.612.72.04.818.12.2
yqgDb2941Hypothetical protein3.54.77.112.016.932.9
hmpAb2552Dihydropteridine reductase, ferrisiderophore reductase activity6.222.224.13.616.028.3
nirBc4141Nitrite reductase [NAD(P)H] large subunit2.81.91.618.214.313.2
fdnHb1475Formate dehydrogenase N, beta subunit, nitrate inducible6.52.93.228.014.013.9
hcpb0873HCP4.82.54.720.213.564.6
yhcPb3240Putative membrane protein, transport5.63.55.017.910.516.5
cspAb3556Cold shock protein 7.4, transcriptional activator of hns6.23.02.923.110.212.5
ygbAb2732Hypothetical protein2.05.711.33.29.6921.0
gntKb3437Gluconate kinase 2 in GNT I system, thermoresistant5.82.35.610.67.410.3
yhcRb3242Hypothetical protein9.97.313.69.77.217.5
hcrb0872NADH oxidoreductase for HCP3.73.64.65.76.79.3
ryfAc3046Small RNA1.53.55.02.36.08.9
gltBc3973Glutamate synthase (NADPH) large chain precursor1.62.21.63.35.64.2
ndhc1382NADH dehydrogenase4.12.33.78.15.39.5
ydcXb1445Hypothetical protein1.71.72.95.15.310.0
citBb0620Response regulator in two-component regulatory system with DpiB2.82.11.85.54.63.6
dsdAc2901d-Serine dehydratase7.82.48.314.24.616.9
yhcQb3241Putative membrane-located multidrug resistance protein6.92.95.811.84.510.2
ogtb1335O-6-Alkylguanine-DNA/cysteine-protein methyltransferase1.72.34.92.44.08.9
Z1954Z1954Putative Na+/H+ exchanger, YcgO5.22.82.38.23.73.0
tehBb1430Tellurite resistance protein2.93.54.92.23.04.8
yhcNb3238Hypothetical protein3.63.24.63.02.94.7
grxAb0849Glutaredoxin 1 redox coenzyme, ribonucleotide reductase9.94.46.15.92.74.0
fhuCb0151ATP-binding component of hydroxamate-dependent iron transporter5.04.44.12.12.52.1
fepEc0674Ferric enterobactin transport protein FepE3.83.52.72.62.41.8
ydhCb1660Putative transport protein4.43.85.23.02.43.5
evgAb2369Putative positive transcription regulator (sensor EvgS)2.41.81.52.02.02.0
nlpIb3163Lipoprotein believed to be involved in cell division2.21.82.02.01.72.4
Z4919Z4919Putative ATP-binding protein of ABC/hemin transport system5.44.64.61.61.51.5
  • a The genes are ordered from the highest to lowest change in Pat2 compared with growth in urine.