TABLE 2.
Species-specific primers used in the nested-PCR assays
| Assay | Primera | Sequence (5′-3′) | Amplicon (bp) |
|---|---|---|---|
| M-N-PCR alphavirus | nVEE (+) | ACGGAGGTAGACCCATCCGA | 400b |
| nEEE (+) | CCACGGTACCGTTGCC | 124b | |
| nWEE (+) | GGCGGCAGACCTGCTGGAA | 208b | |
| nAURA (+) | TCAATGCACCTTCGACCA | 86b | |
| nMAY (+) | GGAAGTTGGCCAAGGC | 270b | |
| M-N-PCR flavivirus | nDEN1 (−) | CGTTTTGCTCTTGTGTGCGC | 472c |
| nDEN2 (−) | GAACCAGTTTGTTTDRTTTCATAGCTGCCd,e | 316c | |
| nDEN3 (−) | TTCCTCGTCCTCAACAGCAGCTCTCGCACT | 659c | |
| nYF (−) | TCAGAAGACCAAGAGGTCATGTd | 253c | |
| N-PCR | nDEN4 (−) | GCAATCGCTGAAGCCTTCTCCC | 222c |
| nSLE (−) | ATTCTTCTCTCAATCTCCGTd | 232c | |
| nBSQ (−) | AAGTGACACCTGTTCAGGGTA | 388c | |
| nILH (−) | TCCACCGCTGATCTGAGCCCGTGA | 474c | |
| nROC (−) | TCACTCTTCAGCCTTTCG | 230c |
a
(+), forward; (−), reverse.
b
With cM3W primer.
c
With FG1 primer.
d
Consensus primer.
e
Degenerated primer.