Table 1.
Alignment of primers and TaqMan probes with corresponding sequences of korB genes which represent all of the variants described so far of the known IncP-1 plasmid subgroups
| Plasmid (accession no.) | Sga | Sequence (5′−3′) |
||
|---|---|---|---|---|
| Forward primerb | Reverse primer | TaqMan probec | ||
| TCATCGACAACGACTACAACG (F) | TTCTTCTTGCCCTTCGCCAG (R) | TCAGYTCRTTGCGYTGCAGGTTCTCVAT (P) | ||
| TCGTGGATAACGACTACAACG (Fz) | TTYTTCYTGCCCTTGGCCAG (Rge) | TSAGGTCGTTGCGTTGCAGGTTYTCAAT (Pgz) | ||
| TTCTTGACTCCCTTCGCCAG (Rd) | ||||
| pB3 (AJ639924) | β1 | TCATCGACAACGACTACAACG | TTCTTCTTGCCCTTCGCCAG | TCAGCTCGTTGCGTTGCAGGTTCTCGAT |
| pBP136 (AB237782) | β1 | TCATCGACAACGACTACAACG | TTCTTCTTGCCCTTCGCCAG | TCAGCTCATTGCGTTGCAGGTTCTCGAT |
| pA1 (AB231906) | β2 | TCATCGACAACGACTACAACG | TTCTTCTTGCCCTTCGCCAG | TCAGCTCGTTGCGTTGCAGGTTCTCGAT |
| pA81 (AJ515144) | β2 | TCATCGACAACGACTACAACG | TTCTTCTTGCCCTTCGCCAG | TCAGTTCGTTGCGTTGCAGGTTCTCGAT |
| pAKD4 (GQ983559) | δ | TCATCGACAACGACTACAACG | TTCTTGACTCCCTTCGCCAG | TCAGTTCATTGCGCTGCAGGTTCTCCAC |
| pIJB1 (JX847411) | δ | TCATCGACAACGACTACAACG | TTCTTGACTCCCTTCGCCAG | TCAGTTCATTGCGCTGCAGGTTCTCCAC |
| pBS228 (AM261760) | α | TCATCGACAACGACTACAACG | TTCTTCTTGCCCTTCGCCAG | TCAGCTCGTTGCGTTGCAGGTTCTCGAT |
| pTB11 (AJ744860) | α | TCATCGACAACGACTACAACG | TTCTTCTTGCCCTTCGCCAG | TCAGCTCGTTGCGTTGCAGGTTCTCGAT |
| pQKH54 (AM157767) | γ | TCATCGACAACGACTACAACG | TTTTTCTTGCCCTTGGCCAG | TCAGGTCGTTGCGTTGCAGGTTCTCAAT |
| pKS208 (JQ432564) | γ | GGATCGACAACGACTACAACG | TTCTTCTTGCCCTTGGCCAG | TGAGGTCGTTGCGTTGCAGGTTTTCAAT |
| pMCBF1 (AY950444) | ζ | TCGTGGATAACGACTACAACG | TTCTTCTTACCCTTCGCCAG | TCAGCTCGTTGCGTTGCAGGTTCTCAAT |
| pMCBF6 (EF107516) | ζ | TCGTGGATAACGACTACAACG | TTCTTCTTACCCTTCGCCAG | TCAGCTCGTTGCGTTGCAGGTTCTCAAT |
| pKJK5 (AM261282) | ε | TCATCGACAACGACTACAACG | TTTTTCCTGCCCTTGGCCAG | TCAGCTCGTTGCGTTGCAGGTTCTCGAT |
| pAKD16 (JN106167) | ε | TCATCGACAACAACTACAACG | TTCTTCTTGCCCTTGGCCAG | TCAGCTCGTTGCGTTGCAGGTTCTCGAT |
a
Sg, IncP-1 subgroup.
b
Primer- or TaqMan probe-to-target mismatches are underlined.
c
5′ 6-carboxyfluorescein (FAM), 3′ 6-carboxytetramethylrhodamine (TAMRA).