Table 2.
Primers used in LAMP and real-time PCR in this study
| Assay and primera | Position | Length (bp) | Primer sequence (5′ to 3′)b | Target and GenBank accession no. |
|---|---|---|---|---|
| Cps2J-LAMP | cps2J gene of S. suis 2, DQ410854 | |||
| B3 | 409–430 | 22 | GCACCTCTTTTATCTCTTCCAA | |
| F3 | 203–222 | 20 | GTGTTTCAAACGAAGGAAT | |
| BIP | B1c: 321–344 | 43 | AGAGAATGATAGTGATTTGTCGGG | |
| B2: 376–394 | TTTGCAGCTCAGATTCTTG | |||
| FIP | F1c: 225–245 | 46 | GTTGCCGTCAACAATATCATCAGAA | |
| F2: 267–291 | CGGTATCAAAAATAGCACAGC | |||
| LB | 345–368 | 24 | AGGGTTACTTGCTACTTTTGATGG | |
| Cps2J-qPCR | ||||
| Cps2J-F | 347–373 | 27 | GGTTACTTGCTACTTTTGATGGAAATT | |
| Cps2J-R | 409–431 | 23 | CGCACCTGTTTTATCTCTTCCAA | |
| Cps2J-Probe | 375–407 | 33 | FAM-TCAAGAATCTGAGCTGCAAAAGTGTCAAATTGA-BHQ1 | |
| SalK-LAMP | salK or salR gene of 89K PAI, CP000407 and SSU05_0944 | |||
| B3 | 1103–1120 | 18 | TAGAGTCCGCTTGCTCAA | |
| F3 | 912–932 | 21 | AGAGCTCGTTAATAACGCTTA | |
| BIP | B1c: 1032–1054 | 41 | ACCATTTAAACATGGACACGGAT | |
| B2: 1080–1097 | ATAGTCCCCCCTACTGAC | |||
| FIP | F1c: 938–957 | 45 | CCATAACTGATAAAGAGAGTTCCCG | |
| F2: 982–1006 | ATTCCAATGCTCAAACGGTT | |||
| LF | 958–981 | 24 | CCCATCTCTAGCCAATTTTACAGT | |
| SalK-qPCR | ||||
| SALK-P | 940–962 | 23 | TCCAATGCTCAAACGGTTACTGT | |
| SALK-R | 1060–1088 | 29 | CCTACTGACTTTACTTGTTCTTCCAAGAC | |
| SALK-Probe | 967–982 | 16 | FAM-TTGGCTAGAGATGGGC-BHQ1 |
a
FIP is a long primer with two recognition sequences, F1c and F2; BIP is also a long primer with two recognition sequences, B1c and B2.
b
FAM, 6-carboxyfluorescein; BHQ1, black hole quencher 1.