TABLE 1.
Oligonucleotide primer sequences utilized to detect GBV-C RNA
| Region | RT-PCR product size (bp)a | GBV-C primer sequence
|
|
|---|---|---|---|
| Outer | Inner | ||
| 5′ NTR | 204 | + AAGCCCCAGAAACCGACGCC | CGGCCAAAAGGTGGTGGATG |
| − TGAAGGGCGACGTGGACCGT | GTAACGGGCTCGGTTTAACG | ||
| E2b | 745 | + GDC GYG AYT CGA ARA TMG AYG | GATATCGAARATMGAYGTGTGGAG |
| − AAGATCAACGGGACCAGCCGTGCCTCA | TTAGGTACCGCCTCAGCCAGCTTCAT | ||
| E2newb | 340 | + TGTGGGGTTCCGTDTCTTGGTT | TGGNTCWGCCAGCTGYACCATAGC |
| − RAACGTHCCRCTVGGAGGCT | DTCYCGGATCTTGGTCATGG | ||
| NS3 | 310 | + GGTRWCCCTTGATCCCACCAT | TCGGCWGAAYTGTCGATGCA |
| − CACATBGTCCGCTGAAC | ACGCCGCGHACYTTTGCCCA | ||
| NS5A | 200 | + ATGGTYTAYGGYCCTGGVCAAA | CTGGVCAAAGYGTYACCATT |
| − TACTGCARTCYTCCATGATGACAT | TTCAAGAATCCTCGCAGCATTCT | ||
| 5′ NTRc | + 5′ TACCGGTGTGAATAAGGGCC | CTCGTCGTTAAACCGAGCCCGTCAd | |
| − CGTCGTTTGCCCAGGTG | |||
a
Numbering is based on the sequence of the infectious GBV-C clone (GenBank accession number AF121950).
b
E2 primers contain restriction endonuclease sites designed for previous studies.
c
Primers used for real-time PCR experiments.
d
Probe.