Table 1 Primers and probes for ARMS-PCR and Sanger sequencing
Methods | Gene | Primers/probes | Sequence (5′-3′) | Modification |
|---|---|---|---|---|
ARMS-PCR | 16S rRNA | HP-F | CCCATCAGGAAACATCGCTTCA | |
HP-R | TCCACTATGCTGGAGAATTGGCTA | |||
HP-P-ROX | TGCTTGCCACGCCATCCATCACATCA | 5′ROX, 3′BHQ1 | ||
gyrA | 259-F | CACCCCCATGGCGGTT | ||
261G-F | CCCCATGGCGATACG | |||
261A-F | CCCCATGGCGATACA | |||
271A-F | CATGGCGATAATGCGGTTTGTA | |||
271T-F | CATGGCGATAATGCGGTTTGTT | |||
272G-F | ACCCCCATGGCGATAATGCGGTTTATCG | |||
HP-F-R | ACTCGCCTTAGTCATTC | |||
HP-F-P-HEX | CGTTATCGCCATCAATAGAGCCAA | 5′HEX, 3′BHQ2 | ||
23S rRNA | 2142C-F | TCCTACCCGCGGCAAGACTGC | ||
2142G-F | TTCCTCCTACCCGCGGCAAGACAGG | |||
2143G-F | CCTACCCGCGGCAAGACGACG | |||
HP-C-R | GGATGACTCCATAAGAGCCAAAGC | |||
HP-C-P-FAM | CGTCTTGCCGCGGGTAGGAGGAATTTTCAC | 5′FAM, 3′BHQ1 | ||
Internal control | ACTIN-F | CCCATCTACGAGGGCTACGC | ||
ACTIN-R | GGATCTTCATGAGGTAGTCGGTCAG | |||
ACTIN-P-CY5 | CCATCCTGCGTCTGGACCTGGCTGGC | 5′CY5, 3′BHQ2 | ||
Sanger sequencing | 23S rRNA | 23S-F | TCCCTCCCGACTGTTTACCAAA | |
23S-R | GCCATTACACTCAACTTGCGATTTC | |||
gyrA | gyrA-F | GCAAGATAATTCAGTCAATGAAACA | ||
gyrA-R | CCACAGCGATCCCATTAGC |