Table 1. Amplification oligonucleotide primers for DENV genotyping RT-PCRs, Queensland, Australia, 2001–2010*†.
| DENV assay | Forward primer | Reverse primer |
|---|---|---|
| DENV-1‡ | 5′760-AACGTGGATGTCCTCTGAAGG-7803′ | 5′1600-CGAGGTCCAAGGCAGTG-15843′ |
| 5′1418-GCAACCATAACACCTCAA-14353′ | 5′2600-TGGCTGATCGAATTCCACAC-25813′ | |
| DENV-2§ | 5′-789GAAACATGCCCAGAGAATTGAAACT-8133′ | 5′-1920CCCTTCATATTGTACTCTGATAACTATTGTTCC-18883′ |
| 5′-1547AAGCTTGGCTGGTGCACAGGCAATGGTT-15743′ | 5′-2537GGGGATTCTGGTTGGAACTTGTATTGTTCTGTCC-25043′ | |
| DENV-3¶ | 5′-291TGGCTAGATGGGGTACCTTC-3103′ or5′-722GCTCCCCATGTCGGCATGGGACTGG-7463′ | 5′-1819CATCCCTTTGAGTTTCAATTTGTCCAT-17933′ |
| 5′-1685CTAGGATCTCAAGAAGGAGCAATGCA-17103′ | 5′-2550ATGGCTGTTGCCACTCTTTTGGGGGA-25253′ | |
| DENV-4# | 5′-742TGGGATTGGAAACAAGAGCTGAGACATGGATGTC-7753′ | 5′-1838CGTGTATGACATTCCCTTGATTCTCAATTTCTCCA-18043′ |
| 5′-1569CAATGGTTTTTGGACCTACCTCTACCATGG-15983′ | 5′-2539GGGGACTCTGGTTGAAATTTGTACTGTTCTGTCCA-25053′ |
*DENV, dengue virus; RT-PCR, reverse transcription PCR. †Numbering is based on DENV-1 strain DENV-1BR/90 (AF226685), DENV-2 strain New Guinea C (AF038403), DENV-3 strain Ba51 (AY858037), DENV-4 strain Dominica 1981 (AF326573). For each DENV serotype, forward primers were paired with the shown respective reverse primers in two separate genotyping RT-PCR assays (A. Pyke, unpub. method). ‡A. Pyke and D. Beasley, unpub. method. §S. Mei Lok, unpub. data. ¶I. Serafin and A. Pyke, unpub. method. #C. Howard and A. Pyke, unpub. method.