Table 1. Primer sequences for gel-based PCR.
| Gene | Primer name | Sequence | Start/end | Size | Reference |
|---|---|---|---|---|---|
| porA | porA 2F | GCG GTT TTG CCG GGA ACT AT | 755–1017 | 251 | Bennett, DE, 2006 |
| porA 15R | AGT GGC GGC AAT TTC GGT CGT ACT | ||||
| galE-cnl-tex | GH26R (cnl aF) | GGT CGT CTG AAA GCT TGC CTT GCT C | 250–226 | 432 | Claus, H, 2002 |
| HC344 (cnl aR) | GGA TTG GAC GAG CGA GAC | 72–55 | |||
| sodC | sodC-F2 | GCG GTT AGT GCA GTA TGT TCA G | 113–641 | 530 | Present study |
| sodC-R2 | TAA TCA CGC CAC ATG CCA TA | ||||
| mynB/csaB | 98–28 (AF) | CGC AAT AGG TGT ATA TAT TCT TCC | 270–664 | 395 | Taha, MK, 2000 |
| 98–29 (AR) | CGT AAT AGT TTC GTA TGC CTT CTT | ||||
| siaD (csw) | 98–32 (W135F) | CAG AAA GTG AGG GAT TTC CAT A | 911–1030 | 120 | Taha, MK, 2000 |
| 98–33 (W135R) | CAC AAC CAT TTT CAT TAT AGT TAC TGT | ||||
| Xcba (csxA) | X-10 (F) | ACA GCC CAT AAA ACA CCC GTA TCA TC | 142–343 | 202 | Yaro, S, 2012 |
| X-11 (R) | GTG ATT GGA ATC TTC CAA TAT CGG T | ||||
| siaD (csb) | 98–20 (BF) | GCA TGC TGG AGG AAT AAG CAT TAA | 645–1099 | 455 | Taha, MK, 2000 |
| 98–19 (BR) | GGA TCA TTT CAG TGT TTT CCA CCA | ||||
| siaD (csc) | 98–17 (CF) | TCA AAT GAG TTT GCG AAT AGA AGG T | 789–1054 | 266 | Taha, MK, 2000 |
| 98–18 (CR) | CAA TCA CGA TTT GCC CAA TTG AC | ||||
| siaD (csy) | 98–34 (YF) | CTC AAA GCG AAG GCT TTG GTT A | 911–1030 | 120 | Taha, MK, 2000 |
| 98–35 (YR) | CTG AAG CGT TTT CAT TAT AAT TGC TAA | ||||
| cshC | cshC-F1 | GTG CCG ATA TTG CCT CAG AT | 2378–2533 | 156 | Present study |
| cshC-R1 | CTT CGG ATG GGA ACT TGA AA | ||||
| cap29EH | 39429 (29E aF) | TTG GCG GTT GAA ACC TTA C | 22–715 | 694 | Zhu, H, 2011 |
| 39430 (29E aR) | GCG TAT CAT GCT CCA TTA CCA | ||||
| cszC | cszC-Fwd (ZF) | AGG TTC ATC TGC TGG GAT TAC GCT | 3506–3806 | 301 | Present study |
| cszC-Rev (ZR) | AAG CGA TTA ATG GCC TGT TGC TGG |
Sequences, positions and amplicons size of each primer pair used in the 4 multiplexes. In bold are base pairs that showed a mismatch with at least one of the alleles present in pubMLST, but not with the majority of them.