TABLE 1.
Primers and probes used for C. trachomatis PCR-RLB and DNA sequencing
| Primer/probea | Tm (°C)b | Target | GenBank accession no. | Sequencec | Source or reference |
|---|---|---|---|---|---|
| CP24b | 67.33 | Cryptic plasmid | X06707 | 840GGGATTCCTGTAACAACAAGTCAGG864 | 22 |
| CTS1p | 63.59 | omp1 | X06707 | 865TTGCGCATAATTTTAGGCTTG885 | This study |
| CTA2p | 62.57 | omp1 | X06707 | 1021ACACTTTGTCTCGATGAAAGACA999 | This study |
| CP27b | 67.38 | Cryptic plasmid | X06707 | 1047CCTCTTCCCCAGAACAATAAGAACAC1022 | 22 |
| CTSb | 61.96 | omp1 | J03813 | 556AATATYTGGGATCGYTTTGATGT578 | This study |
| CTSNb | 62.55 | omp1 | J03813 | 572TTGATGTATTYTGTACAYTRGGAGC596 | 13 (modified) |
| CTSp | 61.86 | omp1 | J03813 | 613AAAGGAAAYTCHGCWTCYTTCAA635 | 13 (modified) |
| CTANb | 62.92 | omp1 | J03813 | 774GCTGCDCGAGCDCCNACRCT757 | 13 (modified) |
| CTAb | 60.99 | omp1 | J03813 | 791CCRCAYTCCCASARAGCTGC772 | 13 (modified) |
| CMP1 | 64.98 | omp1 | J03813 | 333bTGACGCTATCAGCATGCG349 | 10 |
| CMP6AS | 61.85 | omp1 | J03813 | 808TGAGCRTATTGGAAWGAAGC827 | 10 (modified) |
| Ap | 69.4 | Serovar A omp1 | J03813 | 664CAATCTTCTGGCTTTGATACAGCGAAT690 | 17 |
| B/Bap | 61.57 | Serovar B/Ba omp1 | AF063208 | 394TCAAATGGTACGTTTGTACCAA415 | 12 (modified) |
| Cp | 61.44 | Serovar C omp1 | M17343 | 978TCTAGCTTTAATACAGCGAAGCTTAT1003 | This study |
| D/Dap | 67.08 | Serovar D/Da omp1 | AF063195 | 610AAAAAACGGTCAAAGCGGAGTC631 | This study |
| Ep | 59.89 | Serovar E omp1 | AF063198 | 448ACAGATACTGCCTTCTCTTGG468 | This study |
| Fp | 61.01 | Serovar F omp1 | AF063212 | 388ACGAAACCTGCTGCAGATA406 | 12, 17 |
| G/Gap | 77.99 | Serovar G/Ga omp1 | AF063199 | 496GCCACGCAGCCTGCTGCAACA516 | 12 |
| Hp | 59.54 | Serovar H omp1 | X16007 | 661ACAAAATCTTCTGATTTTAATACAGC686 | 12 (modified) |
| Ip | 60.87 | Serovar I omp1 | AF063200 | 494CACAATCTTCTAACTTTAATACAGCG519 | 12 |
| Jp | 60.51 | Serovar J omp1 | AF063202 | 519GAATCTTTTTCCTAACACTGCTTT542 | 12 (modified) |
| Jap | 60.51 | Serovar Ja omp1 | AF063203 | 519GAAGCTTATTCCTAACACTGCTTT542 | This study |
| Kp | 70.34 | Serovar K omp1 | AF063207 | 421AACACTGCTTTGGATCGAGCTGTG444 | 17 |
| L1p | 63.35 | Serovar L1 omp1 | M36533 | 700GGTCAAAAAGGATGCTGTCC720 | This study |
| L2p | 59.32 | Serovar L2 omp1 | M14738 | 975GTTTCAGATAGTAAGCTTGTACCAA999 | This study |
| L3p/Jap | 60.1 | Serovar L3 omp1 | X55700 | 541TTGAATCAAGCTGTAGTTGAGC562 | This study |
a
p indicates biotin-labeled probe, and b indicates biotin-labeled primer.
b
Melting temperatures provided by manufacturer.
c
Numbers relate to positions in GenBank sequences. Underlined sequences indicate modifications compared with published sequences.