TABLE 9.
Primers and targets used to detect Plesiomonas shigelloides in environmental and clinical specimens by PCR and LAMP assays
| Target gene | Methoda | Primer or probe sequence (5′–3′) | PCR product size (bp) | Reference(s) |
|---|---|---|---|---|
| 23S rRNA | C | Forward (PS23FW3), CTCCGAATACCGTAGAGTGCTATCC | 284 | 42 |
| Reverse (PS23RV3), CTCCCCTAGCCCAATAACACCTAAA | ||||
| 23S rRNA | RT | Forward, AGCGCCTCGGACGAACACCTA | 112 | 221 |
| Reverse, GTGTCTCCCGGATAGCAC | ||||
| LCRed640, GGTAGAGCACTGTTAAGGCTAGGGGGTCATC-P | ||||
| 23S rRNA | C | Forward (PS-F), GCAGGTTGAAGGTTGGGTAA | 628 | 222 |
| Reverse (PS-R), TTGAACAGGAACCCTTGGTC | ||||
| gyrB | SY | Forward (237-F), TTCCAGTACGAGATCCTGGCTAA | 68 | 223, 224 |
| Reverse (304-R), TGAATCGACACGCCAGAGTTC | ||||
| hugA | C | Forward, GCGAGCGGGAAGGGAAGAACC | 435 | 51 |
| Reverse, GTCGCCCCAAACGCTAACTCATCA | ||||
| hugA | LA | F3, AACACGTTGCAGCCCATC | 225 | |
| B3, ACTTTACCGCCGAAGACAAG | ||||
| FIP, CGTTACGACGAAGCGTTCCGTGAAGTGAGTACCGGTGGTGTb | ||||
| BIP, GTCAGCCAATCAGTCGCCGCAATATCGCCGGCTCCGAGc | ||||
| LF- ACCGAGCATGGAAGAGATGT | ||||
| LB, GCGACAGGTGATCTTCGCTAC | ||||
| hugA | RT | Forward, GGAATATCGGCCTGTACAT | 116 | 225 |
| Reverse, TATGGCGGCGATATTTA | ||||
| Probe, FAM-CCCCAGACTTTGCTGCGACCATCGG-BHQ-1 |
a
Abbreviations: C, conventional PCR; RT, real-time PCR using hybridization probes; SY, real-time PCR using SYBR green stain; LA, loop-mediated isothermal amplification; FAM, 6-carboxyfluorescein; BHQ-1, Black Hole quencher 1.
b
FIP, forward inner primer. The sequence for target recognition is underlined, and the sequence for loop formation is not underlined.
c
BIP, backward inner primer. The sequence for target recognition is underlined, and the sequence for loop formation is not underlined.