TABLE 1 

PCR assays used to confirm viruses identified from each sequencing strategy

TABLE 1 
  • a Abbreviations: DV2, dengue virus 2; EBV, Epstein-Barr virus; qPCR, quantitative PCR; HIV-1, human immunodeficiency virus type 1; HPgV, human pegivirus; WNV, West Nile virus.

  • b NS5, nonstructural protein 5; EBER, EBV-encoded RNA; 5′ NCR, 5′ noncoding region; NS3, nonstructural protein 3.

  • c Forward primers are indicated by F, F1, or F2 before a colon. FAM, 6-carboxyfluorescein; TAMRA, 6-carboxytetramethylrhodamine.

  • d Reverse primers are indicated by R, R1, or R2 before a colon.

  • e nt, nucleotides.

  • f AT, PCR annealing temperature; TD, touchdown PCR (temperature decreased 0.5°C each cycle for 10 cycles).

  • g HTS, high-throughput sequencing.

  • h Tropical fever core real-time reverse transcription-PCR (RT-PCR) from Fast Track Diagnostics (Sliema, Malta).