Table 5.
Cross-reactions of fliCH1 and fliCH12 real time PCR assays with other flagellar types of E. coli.
| Reference straina | H-type | GenBank Accession No. | Detector testedb | Ct-valuec | Mismatch FP/P/RPd |
|---|---|---|---|---|---|
| A20 | H6 | AY249991.1 | fliCH1 | 26.8 | 0/0/0 |
| fliCH12 | – | 0/2/1 | |||
| U5-41 | H7 | AB028474.1 | fliCH1 | 26.0 | 0/1/0 |
| fliCH12 | 24.5 | 0/1/1 | |||
| E39a | H15 | AY249999.1 | fliCH1 | 28.2 | 1/1/1 |
| fliCH12 | – | 3/2/2 | |||
| H3306 | H20 | AY250003.1 | fliCH1 | 27.0 | 0/0/1 |
| fliCH12 | – | 2/2/2 | |||
| HW30 | H28 | AY337469.1 | fliCH1 | – | 0/2/1 |
| fliCH12 | 21.9 | 0/0/0 | |||
| HW33 | H31 | AF345849.1 | fliCH1 | – | 0/2/4 |
| fliCH12 | 22.9 | 0/0/0 | |||
| BP 12665 | H34 | AY250016.1 | fliCH1 | 20.9 | 0/0/0 |
| fliCH12 | – | 0/2/1 | |||
| P11a | H37 | AY250017.1 | fliCH1 | 26.4 | 1/0/1 |
| fliCH12 | – | 3/2/1 | |||
| RVC1787 | H41 | AY250020.1 | fliCH1 | 27.1 | 0/1/1 |
| fliCH12 | 24.0 | 0/1/1 | |||
| 4106-54 | H45 | AY250023.1 | fliCH1 | 25.5 | 0/0/0 |
| fliCH12 | – | 0/3/1 | |||
| 5306-56 | H46 | AY250024.1 | fliCH1 | 27.6 | 0/0/1 |
| fliCH12 | – | 0/1/2 | |||
| 2147-59 | H49 | AY250026.1 | fliCH1 | 24.6 | 0/0/0 |
| fliCH12 | – | 0/3/1 | |||
| C2187-69 | H52 | AY250028.1 | fliCH1 | 26.8 | 0/1/1 |
| fliCH12 | – | 0/3/1 | |||
| Su1242 | H1 | AB028471.1 | fliCH1 | 21.1–24.3 | 0/0/0 |
| fliCH12 | – | 0/2/1 | |||
| Bi316/42 | H12 | AY249997.1 | fliCH1 | – | 0/2/1 |
| fliCH12 | 18.6–23.6 | 0/0/0 |
a
H-type reference strains (Orskov and Orskov, 1984).
b
As listed in Table 1.
c
Mean of real-time cycle threshold (CT-values) calculated from duplicate PCRs. Negative reactions are indicated with the “–” sign.
d
Number of mismatches found between real-time detector sequence and target gene sequence. FP, forward primer; P, gene probe; RP, reverse primer.