TABLE 1.
Sequences of circular probe, capture probe, RAM and PCR primers, and synthetic target sequencea
| Probes (no. of nucleotides) | Sequence (5′ to 3′) |
|---|---|
| C-probe (124) | GGTTTTGTCTTCGTAACTCGCTCCGGATGTCTGTGTATCTGCTAACCAAGAGCAACTACACGAATTCTCGATTAGGTTACTGCGATTAGCACAAGCTCTACAAGAGTACATCGGTCAACGAAGA |
| Capture probe (43) | Biotin-AAGAGCTTAAGAACCGTCAGACAGAAAAGAGGATTATTATAAC |
| RAM primer-1 (25) | CTTGTGCTAATCGCAGTAACCTAAT (forward) |
| RAM primer-2 (23) | ACCAAGAGCAACTACACGAATTC (reverse) |
| C. trachomatis target (97) | TCCGGAGCGAGTTACGAAGACAAAACC|TCTTCGTTGACCGATGTACTCTTGTAGAAA |
| GTTATAATAATCCTCTTTTCTGTCTGACGGTTCTTAAGC | |
| Molecular beacon (42) | CCGTCACTGGGAGAAAGAAATGGTAGGTTGTTGGAATGACGG |
| PCR primer 1 (20) | TCTTTTCTCTCTGACGGTTC |
| PCR primer 2 (20) | AGGTTGGAGATTAGTCAGAT |
a
Single underlines indicate sequences complementary to C. trachomatis EM; italic letters indicate restriction enzyme EcoRI recognition site (GAATTC); underline and bold letters indicate the binding region for RAM primer 1; dotted underline and bold letters indicate the binding region for RAM primer 2. For the C. trachomatis target, the single underlines indicate C-probe binding region; the vertical bar indicate contact sites of the 3′ and 5′ ends of the C-probe; double underline indicates the capture probe binding region. The underlined section in the molecular beacon highlights the stem portion of the molecular beacon.