TABLE 1.
Sequences of PCR primers and probes
| Gene or locus | Primer or probe | Coordinatesa | Nucleotide sequencec (5′-3′) | Reference |
|---|---|---|---|---|
| capC | CAPC-F | 55852-55874 | ATTCATGATTTTATATGGCCGTA | This work |
| CAPC-R | 55778-55801 | TGGCATAACAGGATAACAATAATC | This work | |
| CAPC-1b | 55842-55822 | HEX-CGGCAACGCTAATTACAGGTA-BHQ1 | This work | |
| pagA | PAGA-F | 277-300 | TCTGAGTTAGAAAATATTCCATCG | This work |
| PAGA-R | 351-374 | GCAAATGTATATTCATCACTCTTC | This work | |
| PAGA-1b | 319-343 | FAM-TGATAAATCCTGACCAAATAGCAGA-BHQ1 | This work | |
| CL7 | CL7F-Cy5 | 1891607-1891626 | Cy5-TCCCCCAATACACTCCCATA | 22 |
| CL7R | 1892335-1891354 | AAATTGGTTCTGCAGCTGGT | 22 | |
| CL10 | CL10F | 4571209-4571229 | TTCGAAAACGGTAGAACAACA | 22 |
| CL10R2-Cy5 | 4570959-4570981 | Cy5-TCGTTTTCATACGTTTCATTACC | This work | |
| CL12 | CL12F-Cy5 | 1448194-1448213 | Cy5-TCTCACTGTGCCTCGCTAAA | 22 |
| CL12R | 1448040-1448059 | AAGCCAGGTGCAAAAACAGT | 22 | |
| CL33 | CL33F | 60120-60139 | TGGGGTATATTCCCATCGAA | 22 |
| CL33R-Cy5 | 60413-60432 | Cy5-TGTACCGCAGATACCAACCA | 22 |
a
Coordinates are given according to the numbering of GenBank entries AF188935 (capC), AF306782 (pagA), AE017225 (CL7, CL10, and CL12), and AE17335 (CL33).
b
Probe used for real-time PCR detection. Underlined positions in the nucleotide sequence identify locked nucleic acids.
c
HEX, 6-carboxy-2′,4,4′,5′,7,7′-hexachlorofluorescein; BHQ1, black hole quencher 1; FAM, 6-carboxyfluorescein.