Hepatitis C virus complete genome sequences identified from China representing subtypes 6k and 6n and a novel, as yet unassigned subtype within genotype 6

Journal of General Virology

Volumn 87, Issue 3, 2006, Pages 629-634

  Lu, Ling ^a   Nakano, Tatsunori ^b   Li, Chunhua ^c,d   Fu, Yongshui ^e   Miller, Steve ^a   Kuiken, Carla ^f   Robertson, Betty H ^g   Hagedorn, Curt H ^a  

^a UNIVERSITY OF KANSAS SCHOOL OF MEDICINE   (United States)

^b Ichinomiya Nishi Hospital   (Japan)

^c KUNMING INSTITUTE OF ZOOLOGY   (China)

^d UNIVERSITY OF CHINESE ACADEMY OF SCIENCES   (China)

^e Guangzhou Blood Center   (China)

^f LOS ALAMOS NATIONAL LABORATORY   (United States)

^g NATL CENTER FOR INFECTIOUS DISEASES   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

COMPLEMENTARY DNA; VIRUS DNA;

ARTICLE; CHINA; CLUSTER ANALYSIS; GENE AMPLIFICATION; GENE SEQUENCE; GENETIC VARIABILITY; GENOTYPE; HEPATITIS C VIRUS; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PHYLOGENY; PRIORITY JOURNAL; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS; STRAIN IDENTIFICATION; VIRUS STRAIN;

CHINA; GENOME, VIRAL; HEPACIVIRUS; HEPATITIS C; HUMANS; MOLECULAR SEQUENCE DATA; SPECIES SPECIFICITY;

DNA VIRUSES; HEPATITIS C VIRUS;

EID: 33644588420     PISSN: 00221317     EISSN: None     Source Type: Journal    
DOI: 10.1099/vir.0.81400-0     Document Type: Article

References (22)

1. 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.
2. Bernier, L., Willems, B., Delage, G. & Murphy, D. G. (1996). Identification of numerous hepatitis C virus genotypes in Montreal, Canada. J Clin Microbiol 34, 2815-2818.
3. Doi, H., Apichartpiyakul, C., Ohba, K., Mizokami, M. & Hotta, H. (1996). Hepatitis C virus (HCV) subtype prevalence in Chiang Mai, Thailand, and identification of novel subtypes of HCV major type 6. J Clin Microbiol 34, 569-574.
4. Guindon, S. & Gascuel, O. (2003). A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52, 696-704.
5. Inoue, Y., Sulaiman, H. A., Matsubayashi, K., Julitasari, I. K., Ansari, A., Laras, K & Corwin, A. L. (2000). Genotypic analysis of hepatitis C virus in blood donors in Indonesia. Am J Trop Med Hyg 62, 92-98.
6. Kimura, M. (1980). A simple method for estimating evolutionary rates of base substitutions through comparative studies of nucleotide sequences. J Mol Evol 16, 111-120.
7. Kumar, S., Tamura, K. & Nei, M. (2004). MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150-163.
8. Lu, L., Nakano, T., He, Y., Fu, Y., Hagedorn, C. H. & Robertson, B. H. (2005a). 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.
9. Lu, L., Nakano, T., Smallwood, G. A., Heffron, T. G., Robertson, B. H. & Hagedorn, C. H. (2005b). A refined long RT-PCR technique to amplify complete viral RNA genome sequences from clinical samples: application to a novel hepatitis C virus variant of genotype 6. J Virol Methods 126, 139-148.
10. Mellor, J., Holmes, E. C., Jarvis, L. M., Yap, P. L. & Simmonds, P. (1995). Investigation of the pattern of hepatitis C virus sequence diversity in different geographical regions: implications for virus classification. The International HCV Collaborative Study Group. J Gen Virol 76, 2493-2507.
11. Mellor, J., Walsh, E. A., Prescott, L. E., Jarvis,, L. M., Davidson, F., Yap, P. L. & Simmonds, P. (1996). Survey of type 6 group variants of hepatitis C virus in Southeast Asia by using a core-based genotyping assay. J Clin Microbiol 34, 417-423.
12. Robertson, B., Myers, G., Howard, C. & 14 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.
13. Shinji, T., Kyaw, Y. Y., Gokan, K. & 13 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.
14. Simmonds, P., Alberti, A., Alter, H. J. & 43 other authors (1994). A proposed system for the nomenclature of hepatitis C viral genotypes. Hepatology 19, 1321-1324.
15. Simmonds, P., Mellor, J., Sakuldamrongpanich, T., Nuchaprayoon, C., Tanprasert, S., Holmes, E. C. & Smith, D. B. (1996). Evolutionary analysis of variants of hepatitis C virus found in South-East Asia: comparison with classifications based upon sequence similarity. J Gen Virol 77, 3013-3024.
16. Simmonds, P., Bukh, J., Combet, C. & 19 other authors (2005). Consensus proposals for a unified system of nomenclature of hepatitis C virus genotypes. Hepatology 42, 962-973.
17. Stuyver, L., Wyseur, A., van Arnhem, W. & 8 other authors (1995). Hepatitis C virus genotyping by means of 5′-UR/core line probe assays and molecular analysis of untypeable samples. Virus Res 38, 137-157.
18. 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.
19. Theamboonlers, A., Chinchai, T., Bedi, K., Jantarasamee, P., Sripontong, M. & Poovorawan, Y. (2002). Molecular characterization of hepatitis C virus (HCV) core region in HCV-infected Thai blood donors. Acta Virol 46, 169-173.
20. Tokita, H., Okamoto, H., Tsuda, F. & 7 other authors (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.
21. 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.
22. Zhang, L., Chen, Z., Cao, Y. & 14 other authors (2004). Molecular characterization of human immunodeficiency virus type 1 and hepatitis C virus in paid blood donors and injection drug users in china. J Virol 78, 13591-13599.