TABLE 3

Genes downregulated in S. Typhimurium and upregulated in S. Typhi in bile

Gene nameLocus tagProductLog2 fold change
TmTy2H58
fliOt0899Flagellar biosynthesis protein FliO−1.871.571.35
fliNt0900Flagellar motor switch protein FliN−1.551.441.62
fliMt0901Flagellar motor switch protein FliM−1.711.401.71
fliLt0902Flagellar basal body protein FliL−1.741.411.78
fliKt0903Flagellar hook length control protein−1.671.332.08
fliJt0904Flagellar biosynthesis chaperone−1.371.432.25
fliIt0905Flagellum-specific ATP synthase−1.431.251.69
fliHt0906Flagellar assembly protein H−1.451.411.57
fliGt0907Flagellar motor switch protein G−1.441.341.53
fliFt0908Flagellar MS-ring protein−1.891.321.41
fliEt0909Flagellar hook basal body protein FliE−2.491.762.01
flhDt0952Transcriptional activator FlhD−1.721.051.33
flgJt1738Flagellar rod assembly protein/muramidase FlgJ−1.561.301.38
flgIt1739Flagellar basal body P-ring biosynthesis protein FlgA−1.691.411.39
flgHt1740Flagellar basal body L-ring protein−1.711.421.68
flgCt1745Flagellar basal body rod protein FlgC−1.861.391.79
flgBt1746Flagellar basal body rod protein FlgB−2.051.401.73
flgAt1747Flagellar basal body P-ring biosynthesis protein FlgA−1.291.371.70
sprBt2768AraC family transcriptional regulator−3.761.974.11
sprAt2769AraC family transcriptional regulator−3.291.973.29
t2770Hypothetical protein−3.691.222.11
orgAt2771Oxygen-regulated invasion protein−3.901.341.79
orgAt2772Oxygen-regulated invasion protein−5.651.623.50
prgJt2774Pathogenicity island 1 effector protein−6.051.433.83
prgIt2775Pathogenicity island 1 effector protein−6.151.413.89
prgHt2776Pathogenicity island 1 effector protein−6.361.574.02
hilAt2778Invasion protein regulator−6.981.543.67
iagBt2779Cell invasion protein−6.641.353.83
sicPt2781Chaperone−3.061.403.19
t2782Hypothetical protein−3.101.562.98
sipF or iacPt2783Acyl carrier protein−5.621.463.43
sipAt2784Pathogenicity island 1 effector protein−5.841.553.60
sipDt2785Pathogenicity island 1 effector protein−6.241.483.87
spaSt2789Surface presentation of antigens protein SpaS−5.701.243.29
spaQt2791Virulence-associated secretory protein−7.261.403.00
spaPt2792Surface presentation of antigens protein SpaP−6.871.433.25
spaOt2793Surface presentation of antigens protein SpaO−6.721.603.66
spaNt2794Antigen presentation protein SpaN−6.661.583.91
spaMt2795Virulence-associated secretory protein−6.911.763.83
spaL or invCt2796ATP synthase SpaL−6.611.533.43
spaK or invBt2797Virulence-associated secretory protein−6.041.914.01
invAt2798Virulence-associated secretory protein−6.501.403.34
invEt2799Cell invasion protein−6.861.353.59
invGt2800Virulence-associated secretory protein−7.121.373.60
invFt2801AraC family transcriptional regulator−6.971.273.84
invHt2802Cell adherence/invasion protein−4.541.572.97
sopDt2846Hypothetical protein−3.761.054.33
rtsBt4220GerE family regulatory protein−7.591.993.58
rtsAt4221AraC family transcriptional regulator−7.331.803.83
t0944Lipoprotein−2.251.202.22
t1774Hypothetical protein−2.091.462.60
lpxRt1208Hypothetical protein−7.021.193.44
srfAt1503Virulence effector protein−1.751.641.81
srfBt1504Virulence effector protein−1.481.581.88