Table 1.
PCR used or of potential use to generate Leptospira “barcodes”. The PCR published for diagnostic purpose are usually optimized for sensitivity and specificity.
| Initial purpose | Gene target | Technology | Product size | Reference |
|---|---|---|---|---|
| Diagnostic | 16S rRNA rrs | Conventional nested PCR | 331 bp 290 bp |
(Merien et al., 1992) Primers A & D detect all Leptospira species |
| Diagnostic | lipL32 | SYBR Green I qPCR | 423 bp | (Levett et al., 2005) |
| Diagnostic | lipL32 | TaqMan qPCR | 242 bp | (Stoddard et al., 2009) |
| Diagnostic | secY | SYBR Green I qPCR | 202 bp | (Ahmed et al., 2009) |
| Diagnostic | lfb1 | SYBR Green I qPCR | 331 bp | (Merien et al., 2005) |
| Diagnostic | flaB | Conventional PCR | 793 bp | (Kawabata et al., 2001) |
| Diagnostic | secY | Conventional PCR | 285 bp | (Gravekamp et al., 1993) |
| Typing | gyrB | Conventional PCR or SYBR Green I qPCR | 504 bp | (Slack et al., 2006) |
| Typing | rpoB | Conventional PCR | 600 bp | (La Scola et al., 2006) |
| Typing (MLST) | 16SrRNA rrs | Conventional PCR | 541 bp | (Ahmed et al., 2006) |
| Typing (MLST) | secY | Conventional PCR | 549 bp | (Ahmed et al., 2006) |
| Typing (MLST) | lipL32 | Conventional PCR | 474 bp | (Ahmed et al., 2006) |
| Metagenomics | 16SrRNA rrs regions V3-V4 |
Conventional PCR | ~450 bp | (Klindworth et al., 2013) |
| Metagenomics | cpn60 (hsp60) | Conventional PCR | ~550-600 bp | (Goh et al., 1996; Klindworth et al., 2013) |
| Barcoding | COI-1 | Conventional PCR | ~550 bp | (Smith et al., 2012) |