TABLE 1.
Primer sequences used for pathogen detection
| Pathogen | Primer | Sequence 5′→3′a | PCR product size (bp) | Referenceb | MgCl2 (mM) | Annealing temp (°C) |
|---|---|---|---|---|---|---|
| Neisseria gonorrhoeae | HO1 | GCTACGCATACCCGCGTTGC | 392 | 17 | 2 | 55 (multiplex PCR) |
| HO3 | CGAAGACCTTCGAGCAGACA | |||||
| Chlamydia trachomatis | KL1 | TCCGGAGCGAGTTACGAAGA | 236 | 17 | 2 | |
| KL2 | AATCAATGCCCGGGATTGGT | |||||
| HSV | HSVBR | CGGAGCCGCCGACGCCACC | 334 (HSV-1), 310 (HSV-2) | 2 | 65 to 50 (reduced by 0.4°C per cycle) (multiplex PCR) | |
| HSVBA | CCSGACTGCAGCCGCCCGACCTCCGAAG | |||||
| CMV | CMV2 | TCCAGAGGTGGTGGGTTCYTCA | 118 | 2 | ||
| CMV1 | GGGTGCTCAGGAGGAGCRGG | |||||
| EBV | EBV1 | CTCTGGTAGTGATTTGGACCCG | 240 | 12 (modified) | 2 | |
| EBV2 | GTGAAGTCACAAACAAGCCCACT | |||||
| HHV-6 | HHV61 | CTTTGTGTAGGTGGTCGAATGCGAC | 494 | 22 (modified) | 2.5 | 60 |
| HHV62 | ACAGCGCAGCAACATGTTTCAGAGC | |||||
| HS6AE | CGGCCATTTAACGGAACCCTAG | 751 | 5 | 2.5 | 61 | |
| HS6AF | TCCAGAGAAAGGGTGTTGCG | |||||
| HHV-7 | HHV71 | ATCCAGAAATGATAGACAGATGTTGG | 133 | 22 (modified) | 3 | 61 |
| HHV72 | GGTAGCACTAGATTTTTTGAAAAAGATTTAATAAC | |||||
| HHV-8 | KS3-5 | CCCTTCTAGCGTTGGCTAGTC | 608 | 21 | 2 | 60 |
| KS1-3 | TCCGTGTTGTCTACGTCCA | |||||
| AAV | AAV1 | GCGGAGGCCATAGCCC | 218 | 7 | 1.5 | 64 |
| AAV2 | ACGGGAGTCGGGTCTATCTG |
a
Y is T or C, R is G or A, and S is G or C.
b
Where no reference is given, the primers were designed with the Gene Runner program (Hastings Software Inc., Hastings, N.Y.).