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Table 5 Alleles of the Binary Toxin, corresponding probes, GenBank entries and typing data

From: DNA-Microarray-based Genotyping of Clostridium difficile

cdtA/B alleles Reference sequences Other GenBank entries Hybridization pattern for cdtA Hybridization pattern for cdtB Associated slpA alleles Associated ribotypes Associated clades Associated sequence types Associated hybridization profiles
cdtA 630 +cdtB 630 AM180355.1 ABHD02000025.1, ABKJ02000018.1, ADEJ01000391.1, AGAC01000133.1, AM180355.1, AY341253.1 probe-1023 + probe-1026 (probe-1038) + probe-1039 slpA 23m63, slpA 79685, slpA DJNS0578, slpA JND08162, slpA JND09041, slpA MRY060211, slpA R12885, slpA R13711, slpA 630, slpA 6407, slpA BI9, slpA Kohn, slpA R12884, slpA R12884 trunc., slpA R13541, slpA-negatives RT-001, RT-002, RT-005, RT-009, RT-011, RT-012, RT-013, RT-014, RT-015, RT-029, RT-031, RT-045, RT-049, RT-054, RT-056, RT-057, RT-064, RT-070, RT-071, RT-072, RT-087, RT-094, RT-103, RT-137, RT-150, RT-159, RT-163 I ST-03, ST-04, ST-08, ST-17, ST-42, ST-45, ST-46, ST-54, ST-55, ST-58 HP-01, HP-02, HP-03, HP-04, HP-05, HP-06, HP-07, HP-08, HP-09, HP-10, HP-12, HP-13, HP-14, HP-22, HP-23, HP-24
cdtA R20291 + cdtB R20291 FN545816.1 AAML04000014.1, ABFD02000010.1, ABHE02000029.1, ABHF02000033.1, ABHG02000020.1, ABKK02000028.1, AF271719.1, EF581852.1, FN538970.1, FN665654.1, FN668941.1, HQ639670.1, HQ639671.1, HQ639672.1, HQ639673.1, HQ639675.1, HQ639676.1, HQ639677.1, HQ639678.1, L76081.2 probe-1026 + probe-1027 + probe-1029 probe-1031 + probe-1038 + (probe-1039) + probe-1040 slpA R20291 RT-027 II ST-01 HP-31, HP-32
cdtA Clade III+ cdtB R20291 - - probe-1027 + probe-1029 (probe-1031) + probe-1038 + probe-1039 + (probe-1040) slpA R12884, slpA R12884 trunc., RT-023 III N/A HP-33, HP-34
cdtA R20291 + cdtB M120 FN665653.1 ABKL02000028.1, ADDE01000043.1, ADNX01000028.1, ADVM01000026.1, HQ639674.1, HQ639679.1 probe-1026 + probe-1027 + probe-1029 probe-1030 + probe-1038 + (probe-1039) + probe-1041 slpA 23m63, slpA R13540 RT-078 V ST-11 HP-37, HP-38, HP-39
cdtA/B negative - - - - slpA 1446, slpA R13711, slpA 6407, slpA 79685, slpA CF5, slpA JND08037, slpA 6503, slpA 6503 trunc., slpA J9952 trunc., slpA Kohn, slpA R13700, slpA-negatives RT-010, RT-011, RT-012, RT-013, RT-015, RT-017, RT-029, RT-039, RT-046, RT-049, RT-056, RT-071, RT-081, RT-087, RT-094 I, IV, ”VI” ST-09, ST-35, ST-37, ST-54, ST-58, ST-86, ST-127dlv HP-04, HP-11, HP-15, HP-19, HP-21, HP-25, HP-26, HP-27, HP-28, HP-29, HP-30, HP-35, HP-36