Table S4. C. rodentium ICC168 virulence-related genes and their homologues in EPEC and EHEC

CDS ID / Location / Gene / Predicted product / EPEC orthologue / Sakai orthologue
Non-fimbrial adhesins
ROD_00511 / backbone / adhesin autotransporter / - / -
ROD_02111 / backbone / adhesin autotransporter / - / -
ROD_03611 / backbone / adhesin autotransporter / - / -
ROD_03891 / backbone / adhesin autotransporter / - / -
ROD_03921 / backbone / adhesin autotransporter / - / -
ROD_09931 / backbone / intimin-like protein / - / -
ROD_10521 / backbone / adhesin autotransporter (pseudogene) / - / -
ROD_11911 / backbone / adhesin autotransporter / - / -
ROD_11971 / backbone / adhesin autotransporter / - / -
ROD_15731 / backbone / adhesin autotransporter / - / -
ROD_16841 / backbone / adhesin autotransporter / - / -
ROD_17861 / backbone / intimin-like protein / E2348_C_1344 / ECs1725
ROD_26401 / GI7 / lifA / lymphocyte inhibitory factor A / E2348_C_3234 / -
ROD_29831 / LEE / eae / intimin / E2348_C_3939 / ECs4559
ROD_31811 / GI9 / lifA2 / LifA-like protein / - / -
ROD_38761 / backbone / adhesin autotransporter / - / -
ROD_40781 / GI11 / intimin-like protein (pseudogene) / - / -
ROD_41301 / backbone / adcA / adhesin autotransporter / - / -
ROD_47771 / GI12 / lifA3 / LifA-like protein / - / -
ROD_49731 / GI16 / adhesin autotransporter / - / ECs1396
ROD_p1121 / pCROD1 / adhesin autotransporter / - / -
Regulators
ROD_05151 / backbone / haemolysin expression regulatory protein / E2348_C_0395 / ECs0513
ROD_23491 / backbone / rcsD / two-component system response regulator / E2348_C_2361 / ECs3105
ROD_23501 / backbone / rcsB / two-component system response regulator / E2348_C_2362 / ECs3106
ROD_23521 / backbone / rcsC / two-component system response regulator / E2348_C_2363 / ECs3107
ROD_29511 / GI8 / croR / quorum sensing transcriptional regulator CroR / - / -
ROD_29521 / GI8 / croI / N-acyl homoserine lactone synthase CroI / - / -
ROD_30051 / LEE / grlA / GrlA, global regulator of LEE activator / E2348_C_3957 / ECs4577
ROD_30061 / LEE / grlR / GrlR, global regulator of LEE repressor / E2348_C_3958 / ECs4578
ROD_30151 / LEE / ler / Ler transcriptional regulator / E2348_C_3968 / ECs4588
ROD_30681 / backbone / rpoS / RNA polymerase sigma factor (sigma-38) / - / ECs3595
ROD_41321 / backbone / regA / transcriptional regulator of virulence RegA / - / -
ROD_49801 / GI16 / haemolysin expression regulatory protein / - / -
ROD_49921 / GI16 / hlyB / haemolysin activator HlyB / - / -
ROD_49931 / GI16 / hlyC / haemolysin activator HlyC / - / -
ROD_p2281 / pCROD2 / haemolysin expression regulatory protein / - / -
Secretion machineries
ROD_08941 / GI2 / membrane fusion protein of T1SS / - / -
ROD_08951 / GI2 / ATP-binding protein of T1SS / - / -
ROD_08961 / GI2 / outer membrane efflux protein of T1SS / - / -
ROD_25711 / GI6 / outer membrane efflux protein of T1SS / - / -
ROD_25721 / GI6 / ATP-binding protein of T1SS / - / -
ROD_25731 / GI6 / membrane fusion protein of T1SS / - / -
ROD_27641 / backbone / cts1D / T6SS lysozyme-related protein Cts1D / - / -
ROD_27651 / backbone / cts1E / ImpE family T6SS protein Cts1E / - / -
ROD_27661 / backbone / cts1F / T6SS protein Cts1F / - / -
ROD_27671 / backbone / cts1G / VgrG family T6SS protein Cts1G / - / -
ROD_27681 / backbone / cts1T / T6SS protein Cts1T / - / -
ROD_27701 / backbone / cts1I / IcmF family T6SS protein Cts1I / - / -
ROD_27711 / backbone / cts1U / T6SS protein Cts1U / - / -
ROD_27721 / backbone / cts1M / T6SS protein Cts1M / - / -
ROD_27731 / backbone / cts1N / T6SS protein Cts1N / - / -
ROD_27741 / backbone / cts1H / Hcp family T6SS protein Cts1H / - / -
ROD_27751 / backbone / cts1B / T6SS protein Cts1B / - / ECs0231
ROD_27761 / backbone / cts1S / T6SS protein Cts1S / - / -
ROD_27811 / backbone / cts1V / T6SS protein Cts1V / - / ECs0223
ROD_27821 / backbone / cts1C / T6SS protein Cts1C / - / -
ROD_27831 / backbone / cts1R / T6SS protein Cts1R / - / -
ROD_27841 / backbone / cts1A / T6SS protein Cts1A / - / -
ROD_27871 / backbone / cts1O / T6SS protein Cts1O / - / -
ROD_27881 / backbone / cts1W / T6SS protein Cts1W / - / -
ROD_29591 / GI8 / outer membrane efflux protein of T1SS / - / -
ROD_29601 / GI8 / ATP-binding protein of T1SS / - / -
ROD_29611 / GI8 / membrane fusion protein of T1SS / - / -
ROD_29711 / LEE / T3SS component / E2348_C_3931 / ECs4551
ROD_29721 / LEE / escF / T3SS structural protein EscF / E2348_C_3932 / ECs4552
ROD_29731 / LEE / cesD2 / T3SS chaperone CesD2 / E2348_C_3933 / ECs4553
ROD_29751 / LEE / espD / T3SS translocator protein EspD / E2348_C_3935 / ECs4555
ROD_29761 / LEE / espA / T3SS translocator protein EspA / E2348_C_3936 / ECs4556
ROD_29771 / LEE / sepL / T3SS secretion switching protein SepL / E2348_C_3937 / ECs4557
ROD_29781 / LEE / escD / T3SS structural protein EscD / E2348_C_3938 / ECs4558
ROD_29841 / LEE / cesT / T3SS chaperone CesT / E2348_C_3940 / ECs4560
ROD_29882 / LEE / cesF / T3SS chaperone CesF / E2348_C_3943 / ECs4563
ROD_29901 / LEE / sepQ / T3SS structural protein SepQ / E2348_C_3945 / ECs4565
ROD_29911 / LEE / T3SS component / E2348_C_3946 / ECs4566
ROD_29921 / LEE / T3SS component / E2348_C_3947 / ECs4567
ROD_29931 / LEE / escN / T3SS translocator EscN / E2348_C_3948 / ECs4568
ROD_29941 / LEE / escV / T3SS structural protein EscV / E2348_C_3949 / ECs4569
ROD_29951 / LEE / mpc / T3SS regulator Mpc / E2348_C_3950 / ECs4570
ROD_29971 / LEE / T3SS component / E2348_C_3952 / ECs4572
ROD_29981 / LEE / escJ / T3SS structural protein EscJ / E2348_C_3953 / ECs4573
ROD_29991 / LEE / sepD / T3SS secretion switching protein SepD / E2348_C_3954 / ECs4574
ROD_30001 / LEE / escC / T3SS structural protein EscC / E2348_C_3955 / ECs4575
ROD_30011 / LEE / cesD / T3SS chaperone CesD / E2348_C_3956 / ECs4576
ROD_30071 / LEE / T3SS component / E2348_C_3959 / ECs4579
ROD_30081 / LEE / escU / T3SS structural protein EscU / E2348_C_3960 / ECs4580
ROD_30091 / LEE / escT / T3SS structural protein EscT / E2348_C_3961 / ECs4581
ROD_30092 / LEE / escS / T3SS structural protein EscS / E2348_C_3962 / ECs4582
ROD_30101 / LEE / escR / T3SS structural protein EscR / E2348_C_3963 / ECs4583
ROD_30111 / LEE / T3SS component / E2348_C_3964 / ECs4584
ROD_30121 / LEE / T3SS component / E2348_C_3965 / ECs4585
ROD_30131 / LEE / T3SS component / E2348_C_3966 / ECs4586
ROD_30141 / LEE / T3SS component / E2348_C_3967 / ECs4587
ROD_34111 / backbone / cts2A / T6SS protein Cts2A / - / -
ROD_34121 / backbone / cts2I / T6SS protein Cts2I (pseudogene) / - / -
ROD_34141 / backbone / cts2U / T6SS protein Cts2U / - / -
ROD_34151 / backbone / cts2M / T6SS protein Cts2M / - / -
ROD_34161 / backbone / cts2N / T6SS protein Cts2N / - / -
ROD_34171 / backbone / cts2S / T6SS protein Cts2S / - / -
ROD_34181 / backbone / cts2B / T6SS protein Cts2B / - / -
ROD_34191 / backbone / cts2H / Hcp family T6SS protein Cts2H / - / -
ROD_34201 / backbone / ctsD / T6SS protein Cts2D / E2348_C_4631 / -
ROD_34211 / backbone / cts2C / T6SS protein Cts2C / - / -
ROD_34221 / backbone / cts2R / T6SS protein Cts2R / - / -
ROD_34231 / backbone / cts2V / T6SS protein Cts2V / - / -
ROD_34241 / backbone / cts2G / VgrG family T6SS protein Cts2G / - / -
ROD_38091 / backbone / ctsH1 / Hcp family T6SS protein CtsH1 / - / -
ROD_43481 / backbone / ctsH2 / Hcp family T6SS protein CtsH2 / - / -
ROD_43831 / backbone / ctsH3 / Hcp family T6SS protein CtsH3 / - / -
ROD_44051 / backbone / ctsH4 / Hcp family T6SS protein CtsH4 / - / ECs0216
ROD_44871 / backbone / gspO / T2SS leader peptidase GspO / E2348_C_3252 / -
ROD_44881 / backbone / gspM / T2SS protein M / - / -
ROD_44891 / backbone / gspL / T2SS protein L / - / -
ROD_44901 / backbone / gspK / T2SS protein K / - / -
ROD_44911 / backbone / gspJ / T2SS protein J / - / -
ROD_44921 / backbone / gspI / T2SS protein I / - / -
ROD_44931 / backbone / gspH / T2SS protein H / - / -
ROD_44941 / backbone / gspG / T2SS protein G / E2348_C_3246 / -
ROD_44951 / backbone / gspF / T2SS protein F / E2348_C_3247 / -
ROD_44961 / backbone / gspE / T2SS protein E / E2348_C_3248 / -
ROD_44971 / backbone / gspD / T2SS protein D / E2348_C_3249 / -
ROD_44981 / backbone / gspC / T2SS protein C / - / -
ROD_44991 / backbone / gspA / T2SS protein A / - / -
ROD_45001 / backbone / gspB / T2SS component / - / -
ROD_48151 / GI13 / outer membrane efflux protein of T1SS / - / ECs0540
ROD_48181 / GI13 / ATP-binding protein of T1SS / - / ECs0543
ROD_48191 / GI13 / membrane fusion protein of T1SS / - / ECs0544
Putative T1SS substrates
ROD_08971 / GI2 / large repetitive protein (pseudogene) / - / -
ROD_25701 / GI6 / large repetitive protein / - / -
ROD_29581 / GI8 / large repetitive protein / - / -
ROD_48171 / GI13 / large repetitive protein (pseudogene) / - / ECs0542
Putative T2SS substrates
ROD_00151 / backbone / polysaccharide degrading enzyme / - / -
ROD_01891 / backbone / polysaccharide degrading enzyme (pseudogene) / - / -
ROD_12351 / backbone / yodA / metal-binding protein / E2348_C_2084 / ECs2711
ROD_36011 / backbone / polysaccharide degrading enzyme / - / -
ROD_44811 / backbone / polysaccharide degrading enzyme / - / -
ROD_44821 / backbone / polysaccharide degrading enzyme / - / -
ROD_44831 / backbone / polysaccharide degrading enzyme / - / -
ROD_44841 / backbone / polysaccharide degrading enzyme / - / -
ROD_46591 / backbone / polysaccharide degrading enzyme / - / -
T3SS effectors
ROD_03391 / GI1 / espS / T3SS effector protein EspS / - / -
ROD_03401 / GI1 / espI / T3SS effector protein NleA/EspI / E2348_C_1442 / ECs1812
ROD_05791 / backbone / nleD-1 / T3SS effector protein NleD-1 / - / -
ROD_10781 / GI4 / espL2 / T3SS effector EspL2 / E2348_C_3230 / ECs3855
ROD_10831 / GI4 / nleB1 / T3SS effector protein NleB1 / E2348_C_3231 / ECs3857
ROD_10841 / GI4 / nleE / T3SS effector protein NleE / E2348_C_3232 / ECs3858
ROD_12071 / CRPr13 / espX7 / T3SS effector protein EspX7 / - / ECs1560
ROD_12081 / CRPr13 / espN1 / T3SS effector protein EspN1 (pseudogene) / - / ECs1561
ROD_12111 / CRPr13 / espK / T3SS effector protein EspK / - / ECs1568
ROD_16491 / CRPr17 / nleC / T3SS effector protein NleC / E2348_C_1042 / ECs0847
ROD_16492 / CRPr17 / nleB2 / T3SS effector protein NleB2 (pseudogene) / - / -
ROD_16511 / CRPr17 / nleG1 / T3SS effector protein NleG1 / - / -
ROD_19111 / backbone / espV / T3SS effector protein EspV / - / -
ROD_29681 / LEE / espG / T3SS effector protein EspG / E2348_C_3970 / ECs4590
ROD_29701 / LEE / espF / T3SS effector protein EspF / - / ECs4550
ROD_29741 / LEE / espB / T3SS effector protein EspB / E2348_C_3934 / ECs4554
ROD_29851 / LEE / tir / Tir, translocated intimin receptor / E2348_C_3941 / ECs4561
ROD_29871 / LEE / map / T3SS effector protein Map / E2348_C_3942 / ECs4562
ROD_29891 / LEE / espH / T3SS effector protein EspH / E2348_C_3944 / ECs4564
ROD_29961 / LEE / espZ / T3SS effector protein EspZ / E2348_C_3951 / ECs4571
ROD_31761 / CRPr33 / nleG2 / T3SS effector protein NleG2 (pseudogene) / E2348_C_1040 / ECs1994
ROD_31781 / CRPr33 / nleG / T3SS effector protein NleG (pseudogene) / - / -
ROD_31791 / CRPr33 / espM3 / T3SS effector protein EspM3 / - / ECs3485
ROD_31851 / GI9 / espN2-1 / T3SS effector protein EspN2-1 (pseudogene) / - / -
ROD_38691 / backbone / nleD-2 / T3SS effector protein NleD-2 / E2348_C_1044 / ECs0850
ROD_40861 / GI11 / espM1 / T3SS effector protein EspM1 (pseudogene) / - / -
ROD_40881 / GI11 / espO / T3SS effector protein EspO / - / ECs1821
ROD_40911 / GI11 / espT / T3SS effector protein EspT / - / -
ROD_40971 / GI11 / nleG8 / T3SS effector protein NleG8 / - / ECs1824
ROD_40981 / GI11 / espM2 / T3SS effector protein EspM2 / - / -
ROD_47811 / GI12 / espN2-2 / T3SS effector protein EspN2-2 / - / -
ROD_48861 / GI14 / nleH / T3SS effector protein NleH / E2348_C_0718 / ECs1814
ROD_48871 / GI14 / nleF / T3SS effector protein NleF / E2348_C_1445 / ECs1815
ROD_48891 / GI14 / nleG7 / T3SS effector protein NleG7 / - / -
ROD_48901 / GI14 / espJ / T3SS effector protein EspJ / E2348_C_0723 / ECs2714
Other
ROD_03421 / GI1 / Aap-like exported virulence protein / - / -
ROD_13591 / backbone / Rhs protein / - / -
ROD_13611 / backbone / Rhs protein (fragment) / - / -
ROD_15861 / backbone / SrfA-like virulence effector protein / - / -
ROD_15871 / backbone / SrfB-like virulence effector protein / - / -
ROD_15881 / backbone / SrfC-like virulence effector protein / - / -
ROD_16201 / backbone / SfpA-like virulence protein (pseudogene) / E2348_C_0684 / ECs0814
ROD_19261 / backbone / Rhs protein (pseudogene) / - / -
ROD_20721 / backbone / Rhs protein (fragment) / - / -
ROD_23641 / backbone / Rhs protein (fragment) / - / -
ROD_26491 / backbone / Rhs protein (pseudogene) / - / ECs0560
ROD_28191 / backbone / Rhs protein / - / ECs2060
ROD_28201 / backbone / Rhs protein (pseudogene) / - / -
ROD_28291 / backbone / Rhs protein (fragment) / - / -
ROD_35341 / backbone / Rhs protein (pseudogene) / - / -
ROD_40661 / backbone / Rhs protein (pseudogene) / - / -
ROD_40741 / backbone / Rhs protein (fragment) / - / -
ROD_45781 / backbone / Rhs protein (pseudogene) / - / -
ROD_49941 / GI16 / haemolysin/haemagglutinin / - / -
ROD_50001 / GI16 / PagC-like outer membrane protein / E2348_C_3226 / ECs3850
ROD_p1251 / pCROD1 / EspC-like serine protease autotransporter / - / -
ROD_p1411 / pCROD1 / Pic-like serine protease autotransporter / - / -