Table 2.

ORFs shared by the EPEC and EHEC LEEs

EDL933 ORF (product length [aa])E2348/69 ORF (product length [aa])Gene name (former name)Protein descriptionComparison of EDL933 and E2348/69 coding regionsa
% IdentityNo. of variable sitesNo. of gaps (length)dS ± SEdN ± SE
L 0016 (248)orf30 (206)Unknown93.40411 (126)0.1233 ± 0.02890.0505 ± 0.0109
L 0017 (92)orf29 (92)Unknown97.85600.0174 ± 0.01750.0233 ± 0.0105
L 0018 (73)orf28 (73) escF Type III secretion apparatus100.00000.0000 ± 0.00000.0000 ± 0.0000
L 0019 (135)orf27 (135)Unknown99.02400.0357 ± 0.02080.0031 ± 0.0031
L 0020 (312)orf26 (321) espB(eaeB)Secreted protein74.012618 (27)b 1.0843 ± 0.14320.2084 ± 0.0198
L 0021 (374)orf25 (380) espD Secreted protein80.362221 (18)b 0.5402 ± 0.06020.1503 ± 0.0144
L 0022 (192)orf24 (192) espA Secreted protein84.638900.4329 ± 0.07310.1110 ± 0.0167
L 0023 (351)orf23 (351)Unknown94.326000.1943 ± 0.03270.0268 ± 0.0058
L 0024 (406)rorf12 (406) escD Type III secretion apparatus98.28212 (4)b 0.0524 ± 0.01410.0075 ± 0.0029
L 0025 (934)orf22 (939) eae Intimin87.233606 (33)b 0.2850 ± 0.02430.1023 ± 0.0073
L 0026 (156)orf21 (156) orfU Putative chaperone95.332200.1885 ± 0.04740.0138 ± 0.0062
L 0027 (558)orf20 (550) tir Translocated intimin receptor66.485499 (54)1.0697 ± 0.10230.3168 ± 0.0191
L 0028 (203)orf19 (203)Similar to ShigellaIpgB (27%)82.5210700.4905 ± 0.08070.1369 ± 0.0182
L 0029 (127)rorf10 (120)Unknown78.06791 (21)b 1.4865 ± 0.40830.1231 ± 0.0221
L 0030 (168)orf18 (176)Unknown74.701274 (42)0.9421 ± 0.16140.1883 ± 0.0247
L 0031 (305)orf17 (305) sepQ Type III secretion apparatus95.324300.1145 ± 0.02520.0308 ± 0.0067
L 0032 (91)orf16 (91)Unknown98.91300.0000 ± 0.00000.0142 ± 0.0082
L 0033 (125)orf15 (125)Unknown99.74100.0126 ± 0.01260.0000 ± 0.0000
L 0034 (446)orf14 (446) escN (sepB)Type III secretion apparatus99.40800.0188 ± 0.00770.0020 ± 0.0014
L 0035 (675)orf13 (675) escV (sepA)Type III secretion apparatus99.61800.0107 ± 0.00480.0019 ± 0.0011
L 0036 (117)orf12 (117)Unknown99.44200.0290 ± 0.02060.0000 ± 0.0000
L 0037 (99)rorf9 (98) sepZ Type III secretion apparatus70.71871 (3)0.6527 ± 0.13240.2947 ± 0.0435
L 0038 (142)rorf8 (142)Unknown93.013000.2223 ± 0.05340.0344 ± 0.0104
L 0039 (190)rorf7 (190) escJ (sepD)Type III secretion apparatus99.13500.0423 ± 0.01910.0000 ± 0.0000
L 0040 (151)rorf6 (151)Unknown98.46700.0433 ± 0.02180.0084 ± 0.0049
L 0041 (512)rorf5 (512) escC (sepC)Type III secretion apparatus99.42900.0143 ± 0.00640.0034 ± 0.0017
L 0042 (151)rorf4 (151) cesD (sepE)Chaperone ofespD 99.56200.0200 ± 0.01420.0000 ± 0.0000
L 0043 (137)orf11 (137)Unknown99.52200.0000 ± 0.00000.0063 ± 0.0045
L 0044 (123)orf10 (123)Unknown99.19300.0126 ± 0.01260.0070 ± 0.0049
L 0045 (152)rorf3 (152)Similar to E. coliP19 (40%)98.91500.0210 ± 0.01490.0084 ± 0.0049
L 0046 (345)orf9 (345) escU (sepF)Type III secretion apparatus99.52500.0172 ± 0.00860.0013 ± 0.0013
L 0047 (258)orf8 (258) escT (sepG)Type III secretion apparatus98.84900.0459 ± 0.01640.0017 ± 0.0017
L 0048 (89)orf7 (89) escS (sepH)Type III secretion apparatus100.00000.0000 ± 0.00000.0000 ± 0.0000
L 0049 (217)orf6 (217) escR (sepI)Type III secretion apparatus99.69200.0069 ± 0.00690.0020 ± 0.0020
L 0050 (231)orf5 (231)Unknown99.14600.0072 ± 0.00720.0091 ± 0.0041
L 0051 (199)orf4 (199)Unknown99.33400.0233 ± 0.01350.0021 ± 0.0021
L 0052 (107)orf3 (107)Unknown100.00000.0000 ± 0.00000.0000 ± 0.0000
L 0053 (72)orf2 (72)Unknown99.54100.0244 ± 0.02450.0000 ± 0.0000
L 0054 (129)orf1 (129)Similar to BordetellabpH3 (43%, 37 aa)99.74100.0000 ± 0.00000.0034 ± 0.0034
L 0055 (398)rorf2 (398)Similar to ShigellaVirA (22%)98.501800.0239 ± 0.00940.0126 ± 0.0037
L 0056 (272)rorf1 (272)Similar to E. coliYijK (36%)99.02800.0262 ± 0.01220.0053 ± 0.0029
  • a dS, rate of synonymous substitution; dN, rate of nonsynonymous substitution.

  • b One or more gap-containing regions were eliminated from the dS and dN analysis; all alignments are available upon request.