Complete genome analysis of hepatitis C virus subtypes 6t and 6u

References

1. Alter M. J. 1999; Hepatitis C virus infection in the United States. J Hepatol 31:Suppl. 188–91 [CrossRef]
   [Google Scholar]
2. Apichartpiyakul C., Chittivudikarn C., Miyajima H., Homma M., Hotta H. 1994; Analysis of hepatitis C virus isolates among healthy blood donors and drug addicts in Chiang Mai. Thailand. J Clin Microbiol 32:2276–2279
   [Google Scholar]
3. Caruana S. R., Kelly H. A., De Silva S. L., Chea L., Nuon S., Saykao P., Bak N., Biggs B. A. 2005; Knowledge about hepatitis and previous exposure to hepatitis viruses in immigrants and refugees from the Mekong Region. Aust N Z J Public Health 29:64–68 [CrossRef]
   [Google Scholar]
4. Chinchai T., Labout J., Noppornpanth S., Theamboonlers A., Haagmans B. L., Osterhaus A. D., Poovorawan Y. 2003; Comparative study of different methods to genotype hepatitis C virus type 6 variants. J Virol Methods 109:195–201 [CrossRef]
   [Google Scholar]
5. Choo Q. L., Richman K. H., Han J. H., Berger K., Lee C., Dong C., Gallegos C., Coit D., Medina-Selby R. other authors 1991; Genetic organization and diversity of the hepatitis C virus. Proc Natl Acad Sci U S A 88:2451–2455 [CrossRef]
   [Google Scholar]
6. Kuiken C., Yusim K., Boykin L., Richardson R. 2005; The Los Alamos hepatitis C sequence database. Bioinformatics 21:379–384 [CrossRef]
   [Google Scholar]
7. Kumar S., Tamura K., Nei M. 2004; mega3: integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment. Brief Bioinform 5:150–163 [CrossRef]
   [Google Scholar]
8. Li C., Fu Y., Lu L., Ji W., Yu J., Hagedorn C. H., Zhang L. 2006; Complete genomic sequences for hepatitis C virus subtypes 6e and 6g isolated from Chinese patients with injection drug use and HIV-1 co-infection. J Med Virol 78:1061–1069 [CrossRef]
   [Google Scholar]
9. Lu L., Nakano T., He Y., Fu Y., Hagedorn C. H., Robertson B. H. 2005; Hepatitis C virus genotype distribution in China: predominance of closely related subtype 1b isolates and existence of new genotype 6 variants. J Med Virol 75:538–549 [CrossRef]
   [Google Scholar]
10. Lu L., Nakano T., Li C., Fu Y., Miller S., Kuiken C., Robertson B. H., Hagedorn C. H. 2006; Hepatitis C virus complete genome sequences identified from China representing subtypes 6k and 6n and a novel, as yet unassigned subtype within genotype 6. J Gen Virol 87:629–634 [CrossRef]
    [Google Scholar]
11. Lu L., Li C., Fu Y., Gao F., Pybus O. G., Abe K., Okamoto H., Hagedorn C. H., Murphy D. 2007a; Complete genomes of hepatitis C virus (HCV) subtypes 6c, 6l, 6o, 6p and 6q: completion of a full panel of genomes for HCV genotype 6. J Gen Virol 88:1519–1525 [CrossRef]
    [Google Scholar]
12. Lu L., Li C., Fu Y., Thaikruea L., Thongswat S., Maneekarn N., Apichartpiyakul C., Hotta H., Okamoto H. other authors 2007b; Complete genomes for hepatitis C virus subtypes 6f, 6i, 6j and 6m: viral genetic diversity among Thai blood donors and infected spouses. J Gen Virol 88:1505–1518 [CrossRef]
    [Google Scholar]
13. Mizokami M., Gojobori T., Ohba K., Ikeo K., Ge X. M., Ohno T., Orito E., Lau J. Y. 1996; Hepatitis C virus types 7, 8 and 9 should be classified as type 6 subtypes. J Hepatol 24:622–624 [CrossRef]
    [Google Scholar]
14. Murphy D. G., Willems B., Deschenes M., Hilzenrat N., Mousseau R., Sabbah S. 2007; Use of sequence analysis of the NS5B region for routine genotyping of hepatitis C virus with reference to C/E1 and 5′ untranslated region sequences. J Clin Microbiol 45:1102–1112 [CrossRef]
    [Google Scholar]
15. Noppornpanth S., Lien T. X., Poovorawan Y., Smits S. L., Osterhaus A. D., Haagmans B. L. 2006a; Identification of a naturally occurring recombinant genotype 2/6 hepatitis C virus. J Virol 80:7569–7577 [CrossRef]
    [Google Scholar]
16. Noppornpanth S., Sablon E., De Nys K., Truong X. L., Brouwer J., Van Brussel M., Smits S. L., Poovorawan Y., Osterhaus A. D., Haagmans B. L. 2006b; Genotyping hepatitis C viruses from Southeast Asia by a novel line probe assay that simultaneously detects core and 5′ untranslated regions. J Clin Microbiol 44:3969–3974 [CrossRef]
    [Google Scholar]
17. Pybus O. G., Charleston M. A., Gupta S., Rambaut A., Holmes E. C., Harvey P. H. 2001; The epidemic behavior of the hepatitis C virus. Science 292:2323–2325 [CrossRef]
    [Google Scholar]
18. Rispeter K., Lu M., Lechner S., Zibert A., Roggendorf M. 1997; Cloning and characterization of a complete open reading frame of the hepatitis C virus genome in only two cDNA fragments. J Gen Virol 78:2751–2759
    [Google Scholar]
19. Robertson B., Myers G., Howard C., Brettin T., Bukh J., Gaschen B., Gojobori T., Maertens G., Mizokami M. other authors 1998; Classification, nomenclature, and database development for hepatitis C virus (HCV) and related viruses: proposals for standardization. International Committee on Virus Taxonomy. Arch Virol 143:2493–2503 [CrossRef]
    [Google Scholar]
20. Ronquist F., Huelsenbeck J. P. 2003; MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572–1574 [CrossRef]
    [Google Scholar]
21. Sandres-Saune K., Deny P., Pasquier C., Thibaut V., Duverlie G., Izopet J. 2003; Determining hepatitis C genotype by analyzing the sequence of the NS5b region. J Virol Methods 109:187–193 [CrossRef]
    [Google Scholar]
22. Schmidt H. A., Strimmer K., Vingron M., von Haeseler A. 2002; Tree-puzzle: maximum likelihood phylogenetic analysis using quartets and parallel computing. Bioinformatics 18:502–504 [CrossRef]
    [Google Scholar]
23. Shepard C. W., Finelli L., Alter M. J. 2005; Global epidemiology of hepatitis C virus infection. Lancet Infect Dis 5:558–567 [CrossRef]
    [Google Scholar]
24. Shinji T., Kyaw Y. Y., Gokan K., Tanaka Y., Ochi K., Kusano N., Mizushima T., Fujioka S., Shiraha H. other authors 2004; Analysis of HCV genotypes from blood donors shows three new HCV type 6 subgroups exist in Myanmar. Acta Med Okayama 58:135–142
    [Google Scholar]
25. Simmonds P. 2004; Genetic diversity and evolution of hepatitis C virus – 15 years on. J Gen Virol 85:3173–3188 [CrossRef]
    [Google Scholar]
26. Simmonds P., Holmes E. C., Cha T. A., Chan S. W., McOmish F., Irvine B., Beall E., Yap P. L., Kolberg J., Urdea M. S. 1993; Classification of hepatitis C virus into six major genotypes and a series of subtypes by phylogenetic analysis of the NS-5 region. J Gen Virol 74:2391–2399 [CrossRef]
    [Google Scholar]
27. Simmonds P., Smith D. B., McOmish F., Yap P. L., Kolberg J., Urdea M. S., Holmes E. C. 1994; Identification of genotypes of hepatitis C virus by sequence comparisons in the core, E1 and NS-5 regions. J Gen Virol 75:1053–1061 [CrossRef]
    [Google Scholar]
28. Simmonds P., Bukh J., Combet C., Deleage G., Enomoto N., Feinstone S., Halfon P., Inchauspe G., Kuiken C. other authors 2005; Consensus proposals for a unified system of nomenclature of hepatitis C virus genotypes. Hepatology 42:962–973 [CrossRef]
    [Google Scholar]
29. Thaikruea L., Thongsawat S., Maneekarn N., Netski D., Thomas D. L., Nelson K. E. 2004; Risk factors for hepatitis C virus infection among blood donors in northern Thailand. Transfusion 44:1433–1440 [CrossRef]
    [Google Scholar]
30. Tokita H., Okamoto H., Tsuda F., Song P., Nakata S., Chosa T., Iizuka H., Mishiro S., Miyakawa Y., Mayumi M. 1994; Hepatitis C virus variants from Vietnam are classifiable into the seventh, eighth, and ninth major genetic groups. Proc Natl Acad Sci U S A 91:11022–11026 [CrossRef]
    [Google Scholar]
31. Tokita H., Okamoto H., Iizuka H., Kishimoto J., Tsuda F., Lesmana L. A., Miyakawa Y., Mayumi M. 1996; Hepatitis C virus variants from Jakarta, Indonesia classifiable into novel genotypes in the second (2e and 2f), tenth (10a) and eleventh (11a) genetic groups. J Gen Virol 77:293–301 [CrossRef]
    [Google Scholar]
32. Tokita H., Okamoto H., Iizuka H., Kishimoto J., Tsuda F., Miyakawa Y., Mayumi M. 1998; The entire nucleotide sequences of three hepatitis C virus isolates in genetic groups 7–9 and comparison with those in the other eight genetic groups. J Gen Virol 79:1847–1857
    [Google Scholar]