Table 1.
C. difficile PCR ribotypes and corresponding REA groups and types.
| Ribotype (n) | REA Groups (n) | REA Types (n) |
|---|---|---|
| 001 (7) | J (6), Y (1) | J2 (1), J7 (1), J9 (2), J27 (1), J33 (1), Y35 (1) |
| 002 (5) | G (4), J (1) | G1 (1), G9 (1), G11 (1), G13 (1), J17 (1) |
| 003 (2) | L (1), AB (1) | L3 (1), AB* (1) |
| 004 (1) | CL (1) | CL2 (1) |
| 005 (6) | E (5), Y (1) | E1 (1), E5 (1), E7 (1), E9 (1), E12 (1), Y20 (1) |
| 006 (1) | Y (1) | Y33 (1) |
| 007 (1) | Y (1) | Y4 (1) |
| 009 (1) | T (1) | T* (1) |
| 010 (1) | M (1) | M11 (1) |
| 011 (1) | AJ (1) | AJ* (1) |
| 012 (4) | R (4) | R1 (1), R23 (1), R24 (1), R25 (1) |
| 014 (7) | Y (7) | Y4 (4), Y12 (1), Y31 (1), Y33 (1) |
| 015 (2) | N (2) | N1p (1), N7 (1) |
| 016 (1) | BI (1) | BI8 (1) |
| 017 (3) | CF (3) | CF1 (1), CF2 (1), CF7 (1) |
| 018 (1) | W (1) | W10 (1) |
| 019 (2-dup) | AH (2-dup) | AH7 (2-dup) |
| 020 (4) | Y (4) | Y1p (3), Y38 (1) |
| 022 (1) | AJ (1) | AJ* (1) |
| 023 (1) | AN (1) | AN* (1) |
| 025 (1) | Y (1) | Y5 (1) |
| 026 (1) | CW (1) | CW2 (1) |
| 027 (5) | BI (5) | BI1ˆ (1), BI3ˆ (1), BI17 (1), BI23 (1), BI29 (1) |
| 029 (1) | DI (1) | DI1 (1) |
| 031 (1) | AE (1) | AE* (1) |
| 033 (3) | AA (3) | AA1 (2), AA2 (1) |
| 035 (1) | AD (1) | AD5 (1) |
| 036 (1) | BI (1) | BI21 (1) |
| 037 (1) | DN (1) | DN1 (1) |
| 039 (1) | AQ (1) | AQ6 (1) |
| 040 (1) | DP (1) | DP1 (1) |
| 042 (1) | E (1) | E11 (1) |
| 043 (1) | BX (1) | BX* (1) |
| 045 (2) | BK (2) | BK3, BK15 |
| 046 (1) | F (1) | F11 (1) |
| 047 (1) | CF (1) | CF16 (1) |
| 050 (1) | N (1) | N* (1) |
| 051 (1) | CQ (1) | CQ3 (1) |
| 053 (9) | K (5), B (4) | K1 (1), K3 (2), K14 (1), K16 (1), B1 (2), B2 (1), B3 (1) |
| 054 (4) | A (4) | A1 (2), A5 (1), A7 (1) |
| 055 (2-dup) | J (2-dup) | J33 (2-dup) |
| 056 (2) | A (1), AL (1) | A4 (1), AL4 (1) |
| 057 (1) | L (1) | L* (1) |
| 058 (1) | AN (1) | AN5 (1) |
| 060 (1) | P (1) | P* (1) |
| 062 (2) | N (2) | N2 (1), N5 (1) |
| 063 (1) | BH (1) | BH3 (1) |
| 064 (1) | CX (1) | CX1 (1) |
| 066 (4) | BK (2), CF (2) | BK3 (1), BK17 (1), CF19 (2) |
| 067 (2-dup) | AQ (2-dup) | AQ4 (2-dup) |
| 068 (1) | CR (1) | CR* (1) |
| 070 (2) | L (2) | L5 (1), L* (1) |
| 072 (1) | J (1) | J25 (1) |
| 075 (3) | X (3) | X1 (2), X3 (1) |
| 076 (4) | Y (4) | Y1 (1), Y1p (1), Y8 (1), Y9 (1) |
| 077 (1) | Y (1) | Y4 (1) |
| 078 (4 [2-dup]) | BK (4 [2-dup]) | BK1 (1), BK10 (2-dup), BK13 (1) |
| 079 (1) | DK (1) | DK1 (1) |
| 081 (2-dup) | D (2-dup) | D5 (2-dup) |
| 083 (1) | DO (1) | DO1 (1) |
| 084 (1) | AP (1) | AP* (1) |
| 085 (1) | AZ (1) | AZ* (1) |
| 087 (1) | Z (1) | Z4 (1) |
| 088 (1) | AZ (1) | AZ* (1) |
| 095 (1) | Y (1) | Y1 (1) |
| 103 (3) | BM (3) | BM1 (1), BM5 (1), BM9 (1) |
| 106 (4) | DH (4) | DH4 (1), DH7 (1), DH10 (1), DH17 (1) |
| 115 (2) | J (2) | J32 (1), J35 (1) |
| 117 (1) | R (1) | R30 (1) |
| 118 (1) | DH (1) | DH2 (1) |
| 122 (1) | DM (1) | DM1 (1) |
| 126 (4) | BK (4) | BK6 (3), BK16 (1) |
| 131 (1) | DL (1) | DL1 (1) |
| 147 (1) | DH (1) | DH10 (1) |
| 153 (1) | DG (1) | DG1 (1) |
| 163 (1) | CO (1) | CO3 (1) |
| 169 (1) | Y (1) | Y5 (1) |
| 174 (1) | DH (1) | DH2 (1) |
| 190 (1) | AL (1) | AL1 (1) |
| 251 (2) | AH (2) | AH1 (1), AH6 (1) |
| 265 (2) | CG (2) | CG1 (1), CG3 (1) |
| 288 (1) | AA (1) | AA3 (1) |
*
Isolates identified by REA group, but specific REA type not assigned (see methods).
ˆ
Historic BI strains isolated in the late 1980s/early 1990s, well before the BI/NAP1/027 epidemic, which started in the early 2000s.
Dup-two of the isolates analyzed were blinded duplicates of the same isolate.
p-Plasmid accounts for a distinguishing band in the REA pattern of the whole genome HindIII digest.