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Table 1 Primers used for HCV NS3 protease gene amplification

From: Naturally occurring mutations associated with resistance to HCV NS5B polymerase and NS3 protease inhibitors in treatment-naïve patients with chronic hepatitis C

HCV genotype I-PCR primers II-PCR primers 5’-3’ sequenceb H77 location
1b MarsF2a
MarsR1a
NS31b Fb
MarsR2a
5'- TRCCHGTCTCCGCCCGVAG-3'c 3291-3310
4215–4237
3340–3358
4035-4054
2c MarsF1a
MarsR1a
NS3 2c Fb
NS3 2c Rb
5'- TGGGCCCTGCTGATGGATAC-3'd
5'- GTAGGTCTGGGGCACAGCTG-3'
3291-3310
4215–4237
3376–3395
4010-3991
4d G4F1a
G4R1a
NS3 4d Fb
NS3 4d Rb
5’-ATGCGCACRCYAYGAAGGG-3’e
5’-GGCACGGCAGGAGGAGTGGA-3’
3369-3388
3997–4018
3388–3407
4000-3981
  1. a Previously published primers (Vallet S [30])
  2. b Primers selected by alignment of sequences from Los Alamos databank
  3. c Amplification conditions in the second PCR for genotype 1b, were: 2’ at 94 °C, and then 30 cycles at 94 °C for 30”, 60 °C for 30” and 72 °C for 45”, plus extension at 72 °C for 7’
  4. d Amplification conditions in the second PCR for genotype 2c, were: 2’at 94 °C, and then 30 cycles at 94 °C for 30”, 62 °C for 30” and 72 °C for 45”, plus extension at 72 °C for 7’
  5. e Amplification conditions in the second PCR for genotype 4, were: 2’at 94 °C, and then 30 cycles at 94 °C for 30”, 60 °C for 40” and 72 °C for 45”, plus extension at 72 °C for 7’