A type-specific nested PCR assay established and applied for investigation of HBV genotype and subgenotype in Chinese patients with chronic HBV infection

Virology Journal

Volumn 9, Issue , 2012, Pages

  Nie, Jing Jing ^a   Sun, Kui Xia ^a   Li, Jie ^a   Wang, Jie ^a   Jin, Hui ^a   Wang, Ling ^a   Lu, Feng Min ^a   Li, Tong ^a   Yan, Ling ^a   Yang, Jing Xian ^a   Sun, Mi Shu ^a   Zhuang, Hui ^a  

^a PEKING UNIVERSITY HEALTH SCIENCE CENTER   (China)

Author keywords

Genotype; Hepatitis B virus; Nested PCR; Subgenotype; Type specific nested PCR

Indexed keywords

TAQ POLYMERASE; VIRUS DNA;

ARTICLE; BLOOD ANALYSIS; CHINESE; CONTROLLED STUDY; DISEASE SEVERITY; DNA EXTRACTION; DNA SEQUENCE; GENE AMPLIFICATION; GENOTYPE; HEPATITIS B; HEPATITIS B VIRUS; HUMAN; MAJOR CLINICAL STUDY; NESTED POLYMERASE CHAIN REACTION; NUCLEOTIDE SEQUENCE; PLASMID; POLYMERASE CHAIN REACTION; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY;

ASIAN CONTINENTAL ANCESTRY GROUP; CHINA; DNA PRIMERS; GENOTYPE; HEPATITIS B VIRUS; HEPATITIS B, CHRONIC; HUMANS; MOLECULAR EPIDEMIOLOGY; POLYMERASE CHAIN REACTION; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY; VIROLOGY;

HEPATITIS B VIRUS;

EID: 84862272143     PISSN: None     EISSN: 1743422X     Source Type: Journal    
DOI: 10.1186/1743-422X-9-121     Document Type: Article

References (36)

1. Genetic variability in hepatitis B viruses. Kidd-Ljunggren K, Miyakawa Y, Kidd AH, J Gen Virol 2002 83 1267 1280 12029141
2. Kramvis A, Kew M, Francois G, Hepatitis B virus genotypes. Vaccine 2005 23 2409 2423
3. Typing hepatitis B virus by homology in nucleotide sequence: comparison of surface antigen subtypes. Okamoto H, Tsuda F, Sakugawa H, Sastrosoewignjo RI, Imai M, Miyakawa Y, Mayumi M, J Gen Virol 1988 69 2575 2583 10.1099/0022-1317-69-10-2575 3171552
4. Comparison of the amino acid sequences of nine different serotypes of hepatitis B surface antigen and genomic classification of the corresponding hepatitis B virus strains. Norder H, Hammas B, Lofdahl S, Courouce AM, Magnius LO, J Gen Virol 1992 73 1201 1208 10.1099/0022-1317-73-5-1201 1588323
5. A new genotype of hepatitis B virus: complete genome and phylogenetic relatedness. Stuyver L, De Gendt S, Van Geyt C, Zoulim F, Fried M, Schinazi RF, Rossau R, J Gen Virol 2000 81 67 74 10640543
6. Genotype H: a new Amerindian genotype of hepatitis B virus revealed in Central America. Arauz-Ruiz P, Norder H, Robertson BH, Magnius LO, J Gen Virol 2002 83 2059 2073 12124470
7. Hepatitis B virus genetic variability and evolution. Kay A, Zoulim F, Virus Res 2007 127 164 176 10.1016/j.virusres.2007.02.021 17383765
8. Epidemiological serosurvey of hepatitis B in China-declining HBV prevalence due to hepatitis B vaccination. Liang XF, Bi SL, Yang WZ, Wang LD, Cui G, Cui FQ, Zhang Y, Liu JH, Gong XH, Chen YS, Wang FZ, Zheng H, Wang F, Guo J, Jia ZY, Ma JC, Wang HQ, Luo HM, Li L, Jin SG, Hadler SC, Wang Y, Vaccine 2009 27 6550 6557 10.1016/j.vaccine.2009.08.048 19729084
9. Geographic distribution, virologic and clinical characteristics of hepatitis B virus genotypes in China. Zeng G, Wang Z, Wen S, Jiang J, Wang L, Cheng J, Tan D, Xiao F, Ma S, Li W, Luo K, Naoumov NV, Hou J, J Viral Hepatitis 2005 12 609 617 10.1111/j.1365-2893.2005.00657.x
10. Hepatitis B virus genotypes and subgenotypes in China. Wang ZH, Huang YH, Wen SJ, Zhou B, Hou JL, Hepatol Res 2007 37 Suppl 1 36 41
11. Distribution and clinical significance of hepatitis B virus (HBV) genotypes and subtypes in HBV-infected patients. Li YJ, Zhuang H, Li J, Dong QM, Chen YJ, Niu JQ, Ma WM, Zhao W, Zhao BA, Zhong JQ, Chin J Hepatol 2005 13 724 729
12. Improved multiplex-PCR to identify hepatitis B virus genotypes A-F and subgenotypes B1, B2, C1 and C2. Chen JS, Yin JH, Tan XJ, Zhang HQ, Zhang HW, Chen BC, Chang WJ, Schaefer S, Cao GW, J Clin Virol 2007 38 238 243 10.1016/j.jcv.2006.12.007 17224304
13. Genotyping of hepatitis B virus-genotypes A to G by multiplex polymerase chain reaction. Liu WC, Lindh M, Buti M, Phiet PH, Mizokami M, Li HH, Sun KT, Yong KC, Cheng PN, Wu IC, Chang TT, Intervirology 2008 51 247 252 10.1159/000156484 18812698
14. A multiplex-PCR to identify hepatitis B virus-genotypes A-F. Kirschberg O, Schuttler C, Repp R, Schaefer S, J Clin Virol 2004 29 39 43 10.1016/S1386-6532(03)00084-2 14675868
15. Rapid and specific genotyping system for hepatitis B virus corresponding to six major genotypes by PCR using type-specific primers. Naito H, Hayashi S, Abe K, J Clin Microbiol 2001 39 362 364 10.1128/JCM.39.1.362-364.2001 11136801
16. Hepatitis B virus genotype assignment using restriction fragment length polymorphism patterns. Mizokami M, Nakano T, Orito E, Tanaka Y, Sakugawa H, Mukaide M, Robertson BH, FEBS Lett 1999 450 66 71 10.1016/S0014-5793(99)00471-8 10350059
17. A novel hepatitis B virus genotyping system by using restriction fragment length polymorphism patterns of S gene amplicons. Zeng GB, Wen SJ, Wang ZH, Yan L, Sun J, Hou JL, World J Gastroenterol 2004 10 3132 3136 15457558
18. Genotyping of hepatitis B virus by restriction pattern analysis of a pre-S amplicon. Lindh M, Gonzalez JE, Norkrans G, Horal P, J Virol Methods 1998 72 163 174 10.1016/S0166-0934(98)00026-3 9694324
19. Evaluation of the INNO-LiPA HBV genotyping assay for determination of hepatitis B virus genotype. Osiowy C, Giles E, J Clin Microbiol 2003 41 5473 5477 10.1128/JCM.41.12.5473-5477.2003 14662927
20. Evaluation of hepatitis B virus genotyping EIA kit. Tanaka Y, Sugauchi F, Matsuuraa K, Naganuma H, Tatematsu K, Takagi K, Hiramatsu K, Kani S, Gotoh T, Wakimoto Y, Mizokami M, Rinsho Byori 2009 57 42 47 19227189
21. Differentiation of hepatitis B virus genotypes D and E by ELISA using monoclonal antibodies to epitopes on the preS2-region product. Usuda S, Okamoto H, Tanaka T, Kidd-Ljunggren K, Holland PV, Miyakawa Y, Mayumi M, J Virol Methods 2000 87 81 89 10.1016/S0166-0934(00)00153-1 10856755
22. Hepatitis B virus genotyping: current methods and clinical implications. Guirgis BSS, Abbas RO, Azzazy HME, Int J Infect Dis 2010 14 941 E953 10.1016/j.ijid.2010.03.020 20674432
23. Distribution and hepatocellular carcinoma-related viral properties of hepatitis B virus genotypes in Mainland China: a community-based study. Yin JH, Zhang HW, He YC, Xie JX, Liu SJ, Chang WJ, Tan XJ, Gu CY, Lu W, Wang HY, Bi SL, Cui FQ, Liang XF, Schaefer S, Cao GW, Cancer Epidemiol Biomarkers Prev 2010 19 777 786 10.1158/1055-9965.EPI-09-1001 20160279
24. Comparison of nested PCR-restriction fragment length polymorphism with mutiple-PCR by type-specific primers for HBV genotyping and subgenotyping. Zhang XR, Li W, Shen YY, Ren LF, Li Q, Shen R, Zhao HP, Acad J PLA Postgrad Med Sch 2008 29 280 282
25. Construction of whole-genome lamivudine-resistant hepatitis B virus mutant and its replication and expression in HepG2 cells. Sun J, Wang C, Wen SJ, Wang ZH, Hou JL, J South Med Univ 2007 27 991 993
26. Effect of the G1896A precore mutation on drug sensitivity and replication yield of lamivudine-resistant HBV in vitro. Chen RYM, Edwards R, Shaw T, Colledge D, Delaney WE, Isom H, Bowden S, Desmond P, Locarnini SA, Hepatology 2003 37 27 35 10.1053/jhep.2003.50012 12500185
27. Establishment of a semi-nested PCR for identifying the sub-genotypes (Ba and Bj) of hepatitis B virus of genotype B. Wang J, Gao JW, Li J, Zhuang H, Wang J, Li YJ, Jin H, Chin J Epidemiol 2008 29 177 180
28. Epidemiologic and virologic characteristics of hepatitis B virus genotype B having the recombination with genotype C. Sugauchi F, Orito E, Ichida T, Kato H, Sakugawa H, Kakumu S, Ishida T, Chutaputti A, Lai CL, Gish RG, Ueda R, Miyakawa Y, Mizokami M, Gastroenterology 2003 124 925 932 10.1053/gast.2003. 50140 12671889
29. Evaluation of the Abbott RealTime HBV DNA assay and comparison to the Cobas AmpliPrep/Cobas TaqMan 48 assay in monitoring patients with chronic cases of hepatitis B. Ciotti M, Marcuccilli F, Guenci T, Prignano MG, Perno CF, J Clin Microbiol 2008 46 1517 1519 10.1128/JCM.02046-07 18272717
30. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Saitou N, Nei M, Mol Biol Evol 1987 4 406 425 3447015
31. Discrimination of primer 3 '-nucleotide mismatch by Taq DNA polymerase during polymerase chain reaction. Ayyadevara S, Thaden JJ, Reis RJS, Anal Biochem 2000 284 11 18 10.1006/abio.2000.4635 10933850
32. Analysis of any point mutation in DNA. The ampliflcation refractory mutation system (ARMS). Newton CR, Graham A, Heptinstall LE, Powell SJ, Summers C, Kalsheker N, Smith JC, Markham AF, Nucleic Acids Res 1989 17 2503 2516 10.1093/nar/17.7.2503 2785681
33. A new intertype recombinant between genotypes C and D of hepatitis B virus identified in China. Wang ZH, Liu ZH, Zeng GB, Wen SJ, Qi YP, Ma SW, Naoumov NV, Hou JL, J Gen Virol 2005 86 985 990 10.1099/vir.0.80771-0 15784891
34. Genotyping of HBV DNA in Shenzhen and clinical manifestations. Dai JY, Shi ZL, Dai Y, Du H, Chen DH, Wang SY, Chin J Hepatol 2004 12 199 200
35. Relationship between the distribution of hepatitis B virus genotypes and clinical types of the disease in Han nationality hepatitis B patients in Xinjiang. Xu H, Zhang YX, Xiao L, Lu XB, Wei L, Cong X, Chin J Hepatol 2005 13 848 849
36. Distribution and characteristics of hepatitis B virus genotypes in Uighur patients with chronic hepatitis B in Xinjiang province of China. Lu XB, Wang XL, Deng GH, Kuang XM, Aman GL, Zhang YX, Zhang JL, Wang YM, Chin J Hepatol 2007 15 241 244