| 1 | VD8 | Universal flaviviridae primers | GGGTCTCCTCTAACCTCTAG | CS2 [consensus sequence 2] (100 nt from 3' end) | RT-PCR | | NA | NA | 7520190
|
| 2 | EMF1 | Universal flaviviridae primers | TGGATGAC(C,G)AC(G,T)GA(A,G)GA(C,T)ATG | WMTTEDM [500-700 nucleotides upstream from CS2] | RT-PCR | | NA | NA | 7520190
|
| 3 | Flav100F | Universal flaviviridae primers | AA(C,T)TCIACICAIGA(A,G)ATGTA(C,T) | 8276-8296 (YF ref (NC_002031) | RT-PCR | Forward | KT200609, EU303241 | MR766 (p4 15/9/76) [EU303241] | 18218114, 26615388
|
| 4 | Flav200R | Universal flaviviridae primers | CCIA(A,G)CCACAT(A,G)(A,T)ACCA | 9062-9078 (YF ref (NC_002031) | RT-PCR | Reverse | KT200609, EU303241 | MR766 (p4 15/9/76) EU303241[] | 18218114, 26615388
|
| 5 | FU1 | Universal flaviviridae primers | TACAACATGATGGGAAAGAGAGAGAA | 8993 (YF virus (K02749)) | nested RT-PCR | Forward | AF013415 | | 9420202
|
| 6 | cFD3 | Universal flaviviridae primers | AGCATGTCTTCCGTGGTCATCCA | 10077 (YF virus (K02749)) | nested RT-PCR | Reverse | AF013415 | | 9420202
|
| 7 | PF1S5 | pan-flavivirus | TG(C,T)(A,G)T(C,G,T)TA(C,T)AACATGATGGG | 8869-8888 (YF virus (NC_002031)) | real time RT-PCR | Forward | identical to AF013415, KJ776791, KU321639, KF993678. | | 18020965, 22305269
|
| 8 | PF2R-bis | pan-flavivirus | GTGTCCCAICC(A,G,C,T)GC(A,G,C,T)GT(A,G)TC | 9, 121-9, 140 (YF virus (NC_002031)) | real time RT-PCR | Reverse | identical to AF013415, KJ776791, KU321639, KF993678. | | 18020965, 22305269
|
| 9 | ZIKENVF | ZIKV specific | GCTGG(A,G,T)GC(A,G)GACAC(A,C,T)GG(A,G)ACT | 1538-1558 (AY632535) | RT-PCR | Forward | KR816333, KR816336, ArD7117, ArD9957, ArD30101, ArD 30156, AnD 30332, HD 78788, ArD 127707, ArD 127710, ArD 127984, ArD 127987, ArD 127988, ArD 127994, ArD 128000, ArD 132912, ArD 132915, ArD 141170, ArD 142623, ArD 149917, ArD 149810, ArD 149938, ArD 157995, ArD 158084, ArD 165522, ArD 165531, ArA 1465, ArA 27096, ArA 27101, ArA 27106, ArA 27290, ArA 27407, ArA 27443, ArA 506/96, ArA 975-99, ArA 982-99, ArA 986-99, ArA 2718, ArB 1362 | | 26401719, 18674965
|
| 10 | ZIKENVR | ZIKV specific | (A,G)TC(C,T)AC(C,T)GCCAT(C,T)TGG(A,G)CTG | 1902-1883 (AY632535) | RT-PCR | Reverse | KR816333, KR816336, ArD7117, ArD9957, ArD30101, ArD 30156, AnD 30332, HD 78788, ArD 127707, ArD 127710, ArD 127984, ArD 127987, ArD 127988, ArD 127994, ArD 128000, ArD 132912, ArD 132915, ArD 141170, ArD 142623, ArD 149917, ArD 149810, ArD 149938, ArD 157995, ArD 158084, ArD 165522, ArD 165531, ArA 1465, ArA 27096, ArA 27101, ArA 27106, ArA 27290, ArA 27407, ArA 27443, ArA 506/96, ArA 975-99, ArA 982-99, ArA 986-99, ArA 2718, ArB 1362 | | 26401719, 18674965
|
| 11 | ZIKAf | ZIKV-specific | TGGAGATGAGTACATGTATG | | real-time RT-PCR | Forward | NA | NA | 24507467, 26084316, 25600600, 25898277
|
| 12 | ZIKAr | ZIKV-specific | GGTAGATGTTGTCAAGAAG | | real-time RT-PCR | Reverse | NA | NA | 24507467, 26084316, 25600600, 25898277
|
| 13 | ZIKVF9027 | ZIKV-specific | CCTTGGATTCTTGAACGAGGA | 9121-9141 (AY632535.2) | RT-PCR | Forward | NA | NA | 22825831
|
| 14 | ZIKVR9197c | ZIKV-specific | AGAGCTTCATTCTCCAGATCAA | 9312-9290 (AY632535.2) | RT-PCR | Reverse | NA | NA | 22825831
|
| 15 | Unifor | ZIKV-specific (outer primer) | TGGGG(A,G,C,T)AA(C,T)(G,C)(A,G)(A,G,C,T)TG(C,T)GG(A,G,C,T)(C,T)T(A,G,C,T)TT(C,T)GG | 1171-1197 (AY632535) | RT-PCR | Forward | NA | NA | 18674965
|
| 16 | Unirev | ZIKV-specific (outer primer) | CC(A,G,C,T)CC(A,C,T)(A,G)(A,G,C,T)(A,G,C,T)GA(A,G,C,T)CC(A,G)AA(A,G)TCC- CA | 2178-2155 (AY632535) | RT-PCR | Reverse | NA | NA | 18674965
|
| 17 | Mounifor2 | ZIKV-specific (inner primer) | GG(A,G)(A,G,T)(A,G)(A,C)(A,G,T)- T(C,G,T)(G,T)(A,T)(G,C)A(C,T)(A,C,G)TG(C,T)GC(A,G,C,T)A(A,T)(A,G)TT | 1209-1235 (AY632535) | RT-PCR | Forward | NA | NA | 18674965
|
| 18 | Mounirev2 | ZIKV-specific (inner primer) | CC(A,G,C,T)AT(A,G,C,T)(G,C)(A,T)(A,G)CT(A,C,T)CC(A,C,T)(G,T)(A,C,T)(C,T)(C,T)T(A,G)(A,T)(A,G)CCA | 2095-2068 (AY632535) | RT-PCR | Reverse | NA | NA | 18674965
|
| 19 | ZIKV 835 | zika specific | TTGGTCATGATACTGCTGATTGC | 835-857 (AY632535 ) | RT-PCR | | EU545988 epidemic consensus (EC) sequence, KJ873160 and KJ873161, KJ680134 and KJ680135 | | 18680646, 25530324, 24856001, 24626205, 24721538, 24739982,23936579
|
| 20 | ZIKV 911c | zika specific | CCTTCCACAAAGTCCCTATTGC | 911-890 (AY632535 ) | RT-PCR | | EU545988 epidemic consensus (EC) sequence, KJ873160 and KJ873161, KJ680134 and KJ680135 | | 18680646, 25530324, 24856001, 24626205, 24721538, 24739982,23936579
|
| 21 | ZIKV 1086 | zika specific | CCGCTGCCCAACACAAG | 1086-1102 (AY632535 ) | RT-PCR | | EU545988 epidemic consensus (EC) sequence, KJ873160 and KJ873161, KJ680134 and KJ680135 | | 18680646, 25530324, 24856001, 24626205, 24721538, 24739982,23936579
|
| 22 | ZIKV 1162c | zika specific | CCACTAACGTTCTTTTGCAGACAT | 1162-1139 (AY632535 ) | RT-PCR | | EU545988 epidemic consensus (EC) sequence, KJ873160 and KJ873161, KJ680134 and KJ680135 | | 18680646, 25530324, 24856001, 24626205, 24721538, 24739982,23936579
|
| 23 | Not specified | ZIKV specific | AA(A,G)TACACATACCA(A,G)AACAAAGTGGT | 9271-9297 | rRT-PCR | Forward | capable to detect ZIKV strains (NS5 sequences of ZIKV) circulating in Africa and Asia | | 24148652
|
| 24 | Not specified | ZIKV specific | TCC(A,G)CTCCC(C,T)CT(C,T)TGGTCTTG | 9352-9373 | rRT-PCR | Reverse | capable to detect ZIKV strains (NS5 sequences of ZIKV) circulating in Africa and Asia | | 24148652 |