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Table 1 Methods used for HCV genotyping in mainland China

From: Hepatitis C Virus in mainland China with an emphasis on genotype and subtype distribution

Region Province Genotyping method Amplified fragment
Central China1* Hunan, Hubei, Henan Nested-PCR and sequence analysis, PCR-RDB, GT-specific primers PCR method, gene chip assay Core and E1, NS5B and/or Core-E1, NS5B, 5’UTR, core
East China2* Shandong, Jiangsu, Anhui, Jiangxi, Fujian, Shanghai, Zhejiang Nested-PCR and sequence analysis, RFLP, GT-specific primers PCR method, gene chip assay, Genotyping detection kit (DNA sequence assay), PCR-RDB, Micro plate nucleic acid hybridization-ELISA technique, LiPA 5’-UTR, core, NS5B and/or core-E1, 5’-UTR and/or NS5B, NS5B and C/E2, core and NS5B and 5’-UTR, E2, NS5B and E2
South China3* Guangdong, Guangxi, Hainan Nested-PCR and sequence analysis, GT-specific primers PCR method, gene chip assay, PCR – RDB, LiPA NS5B and E1, core and NS5B, E1, NS5B, 5’-UTR and NS5B
North China4* Beijing, Shanxi, Tianjin, Hebei, IM RFLP, Nested-PCR and sequence analysis, GT-specific primers PCR method, gene chip assay, PCR fluorescent probe method Core, C/E1, 5’-UTR
Southwest5* Sichuan, Yunnan, Chongqing, Guizhou gene chip assay, RFLP, Nested-PCR and sequence analysis, PCR-RDB, Type specific probe hybridization method 5’-UTR, 5’UTR-core and E1-E2 and NS5B, 5’NCR-C and NS5B, core/E1 and NS5B, E1/E2 and NS5B, 5’-UTR and Core, core and E1, core, C/E1, NS5B
Northwest6* Gansu, Sha anxi, Xinjiang Nested-PCR and sequence analysis, RFLP, PCR-RDB,GT-specific primers PCR method,LiPA, restriction endonuclease cleaving method E1 and NS5B, 5’NCR, NS5B
Northeast7* Liaoning, Heilongjiang, Jilin RFLP, Nested-PCR and sequence analysis, PCR – RDB, type-specific primers PCR method, gene chip assay NS5, Core, 5’UTR, C and E1 and NS5
  1. PCR-RDB: Polymerase chain reaction-reverse dot blot; RFLP: Restriction fragment length polymorphism
  2. LiPA: Line probe hybridization method
  3. 1*. See reference [7, 1630, 131, 155, 193]
  4. 2*. See reference [6, 8, 3167, 132139, 147150, 156166, 199, 201]
  5. 3*. See reference [12, 13, 6782, 167178, 202]
  6. 4*. See reference [8389, 145, 151, 152, 179182, 203]
  7. 5*. See reference [82, 90102, 153, 179, 188192, 194198]
  8. 6*. See reference [103120, 141144, 146, 184187]
  9. 7*. See reference [121130, 140, 154, 183]