African origin of GB virus C determined by phylogenetic analysis of a complete genotype 5 genome from South Africa

Journal of General Virology

Volumn 86, Issue 6, 2005, Pages 1729-1735

  Muerhoff, A Scott ^a   Leary, Thomas P ^a   Sathar, Mahomed A ^b   Dawson, George J ^a   Desai, Suresh M ^a  

^a ABBOTT DIAGNOSTICS   (United States)

^b UNIVERSITY OF KWAZULU NATAL   (South Africa)

Author keywords

[No Author keywords available]

Indexed keywords

VIRUS PROTEIN;

5' UNTRANSLATED REGION; ANIMAL CELL; ARTICLE; CHIMPANZEE; CLASSIFICATION; CONTROLLED STUDY; CORRELATION ANALYSIS; GENE IDENTIFICATION; GENE SEQUENCE; GENETIC ANALYSIS; GENETIC VARIABILITY; GENOTYPE; GEOGRAPHIC ORIGIN; HEPATITIS G VIRUS; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PHYLOGENY; PRIORITY JOURNAL; RNA VIRUS; SEQUENCE ANALYSIS; SOUTH AFRICA; VIRUS GENOME; VIRUS ISOLATION;

FLAVIVIRIDAE INFECTIONS; GB VIRUS C; GENOME, VIRAL; GENOTYPE; HEPATITIS, VIRAL, HUMAN; HUMANS; MOLECULAR SEQUENCE DATA; PHYLOGENY; SOUTH AFRICA; VIRAL ENVELOPE PROTEINS;

GB VIRUS C\LHEPATITIS G VIRUS; PAN TROGLODYTES; RNA VIRUSES;

EID: 20044383016     PISSN: 00221317     EISSN: None     Source Type: Journal    
DOI: 10.1099/vir.0.80854-0     Document Type: Article

References (39)

1. Birkenmeyer, L. G., Desai, S. M., Muerhoff, A. S., Leary, T. P., Simons, J. N., Montes, C. C. & Mushahwar, I. K. (1998). Isolation of a GB virus-related genome from a chimpanzee. J Med Virol 56, 44-51.
2. Charrel, R. N., De Micco, P. & de Lamballerie, X. (1999). Phylogenetic analysis of GB viruses A and C: evidence for cospeciation between virus isolates and their primate hosts. J Gen Virol 80, 2329-2335.
3. Erker, J. C., Simons, J. N., Muerhoff, A. S., Leary, T. P., Chalmers, M. L., Desai, S. M. & Mushahwar, I. K. (1996). Molecular cloning and characterization of a GB virus C isolates from a patient with non-A-E hepatitis. J Gen Virol 77, 2713-2720.
4. Honda, M., Beard, M. R., Ping, L. H. & Lemon, S. M. (1999). A phylogenetically conserved stem-loop structure at the 5′ border of the internal ribosome entry site of hepatitis C virus is required for cap-independent viral translation. J Virol 73, 1165-1174.
5. Hsieh, S. Y., Yang, P. Y., Chen, H. C. & Liaw, Y. F. (1997). Cloning and characterization of the extreme 5′-terminal sequences of the RNA genomes of GB virus C/hepatitis G virus. Proc Natl Acad Sci U S A 94, 3206-3210.
6. Jukes, T. H. & Cantor, C. R. (1969). Evolution of protein molecules. In Mammalian Protein Metabolism, pp. 21-132. Edited by H. N. Munro. New York: Academic Press.
7. Konomi, N., Miyoshi, C., La Fuente Zerain, C., Li, T. C., Arakawa, Y. & Abe, K. (1999). Epidemiology of hepatitis B, C, E, and G virus infections and molecular analysis of hepatitis G virus isolates in Bolivia. J Clin Microbiol 37, 3291-3295.
8. Kumar, S., Tamura, K., Jakobsen, I. B. & Nei, M. (2001). MEGA2: molecular evolutionary genetics analysis software. Bioinformatics 17, 1244-1245.
9. Leary, T. P., Muerhoff, A. S., Simons, J. N. & 7 other authors (1996). Sequence and genomic organization of GBV-C: a novel member of the Flaviviridae associated with human non-A-E hepatitis. J Med Virol 48, 60-67.
10. Linnen, J., Wages, J., Jr, Zhang-Keck, Z.-Y. & 26 other authors (1996). Molecular cloning and disease association of hepatitis G virus: a transfusion-transmissible agent. Science 271, 505-508.
11. Muerhoff, A. S., Leary, T. P., Simons, J. N. & 7 other authors (1995). Genomic organization of GB viruses A and B: two new members of the Flaviviridae associated with GB agent hepatitis. J Virol 69, 5621-5630.
12. Muerhoff, A. S., Simons, J. N., Erker, J. C., Desai, S. M. & Mushahwar, I. K. (1996a). Identification of conserved nucleotide sequences within the GB virus C 5′-untranslated region: design of PCR primers for detection of viral RNA. J Virol Methods 62, 55-62.
13. Muerhoff, A. S., Simons, J, N., Leary, T. P., Erker, J. C., Chalmers, M. L., Pilot-Matias, T. J., Dawson, G. J., Desai, S. M. & Mushahwar, I. K. (1996b). Sequence heterogeneity within the 5′-terminal region of the hepatitis GB virus C genome and evidence for genotypes. J Hepatol 25, 379-384.
14. Muerhoff, A. S., Smith, D. B., Leary, T. P., Erker, J. C., Desai, S. M. & Mushahwar, I. K. (1997). Identification of GB virus C variants by phylogenetic analysis of 5′-untranslated and coding region sequences. J Virol 71, 6501-6508.
15. Muerhoff, A. S., Desai, S. M. & Mushahwar, I. K. (1998). Structure and molecular virology of the GB viruses. In Viral Hepatitis, 2nd edn, pp. 443-456. Edited by A. J. Zuckerman & H. C. Thomas. London: Churchill Livingstone.
16. Muerhoff, A. S., Tillmann, H. L., Manns, M. P., Dawson, G. J. & Desai, S. M. (2003). GB virus C genotype determination in GB virus-C/HIV co-infected individuals. J Med Virol 70, 141-149.
17. Naito, H., Win, K. M. & Abe, K. (1999). Identification of a novel genotype of hepatitis G virus in Southeast Asia. J Clin Microbiol 37, 1217-1220.
18. Nei, M. & Gojobori, T. (1986). Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3, 418-426.
19. Nicholas, K., Nicholas, H. & Deerfield, D. (1997). GeneDoc: Analysis and Visualization of Genetic Variation, 2.6.02 edition.
20. Ohba, K., Mizokami, M., Lau, J. Y., Orito, E., Ikeo, K. & Gojobori, T. (1996). Evolutionary relationship of hepatitis C, pesti-, flavi-, plantviruses, and newly discovered GB hepatitis agents. FEBS Lett 378, 232-234.
21. Okamoto, H., Nakao, H., Inoue, T., Fukuda, M., Kishimoto, J., Lizuka, H., Tsuda, F., Miyakawa, Y. & Mayumi, M. (1997). The entire nucleotide sequences of two GB virus C/hepatitis G virus isolates of distinct genotypes from Japan. J Gen Virol 78, 737-745.
22. Pavesi, A. (2001). Origin and evolution of GBV-C/hepatitis G virus and relationships with ancient human migrations. J Mol Evol 53, 104-113.
23. Saito, T., Shiino, T., Arakawa, Y., Hayashi, S. & Abe, K. (1998). Geographical characterization of hepatitis G virus genome: evidence for HGV genotypes based on phylogenetic analysis. Hepatol Res 10, 121-130.
24. Saitou, N. & Nei, M. (1987). The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 4, 406-425.
25. Sathar, M. A. & York D. F. (2001). Group 5: GBV-C/HGV isolates from South Africa. J Med Virol 65, 121-122.
26. Sathar, M. A., Soni, P. N., Naicker, S., Conradie, J., Lockhat, F. & Gouws, E. (1999a). GB virus C/hepatitis G virus infection in KwaZulu Natal, South Africa. J Med Virol 59, 38-44.
27. Sathar, M. A., Soni, P. N., Pegoraro, R., Simmonds, P., Smith, D. B., Dhillon, A. P. & Dusheiko, G. M. (1999b). A new variant of GB virus C/hepatitis G virus (GBV-C/HGV) from South Africa. Virus Res 64, 151-160.
28. Simons, J. N., Leary, T. P., Dawson, G. J., Pilot-Matias, T. J., Muerhoff, A. S., Schlauder, G. G., Desai, S. M. & Mushahwar, I. K. (1995a). Isolation of novel virus-like sequences associated with human hepatitis. Nature Med 1, 564-569.
29. Simons, J. N., Pilot-Matias, T. J., Leary, T. P. & 9 other authors (1995b). Identification of two flavivirus-like genomes in the GB hepatitis agent. Proc Natl Acad Sci U S A 92, 3401-3405.
30. Simons, J. N., Desai, S. M., Schultz, D. E., Lemon, S. M. & Mushahwar, I. K. (1996). Translation initiation in GB viruses A and C: evidence for internal ribosome entry and implications on genome organization. J Virol 70, 6126-6135.
31. Smith, D. B., Cuceanu, N., Davidson, F., Jarvis, L. M., Mokill, J. L., Hamid, S., Ludlam, C. A. & Simmonds, P. (1997). Discrimination of hepatitis G virus/GBV-C geographical variants by analysis of the 5′ non-coding region. J Gen Virol 78, 1533-1542.
32. Smith, D. B., Basaras, M., Frost, S. & 7 other authors (2000). Phylogenetic analysis of GBV-C/hepatitis G virus. J Gen Virol 81, 769-780.
33. Takahashi, K., Hijikata, M., Hino, K. & Mishiro, S. (1997). Entire polyprotein-ORF sequences of Japanese GBV-C/HGV isolates: implication for new genotypes. Hepatol Res 8, 139-148.
34. Tanaka, Y., Mizokami, M., Orito, E. & 12 other authors (1998). African origin of GB virus C/hepatitis G virus. FEBS Lett 423, 143-148.
35. Thompson, J. D., Higgins, D. G. & Gibson, T. J. (1994). CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22, 4673-4680.
36. Tucker, T. J. & Smuts, H. E. (2000). GBV-C/HGV genotypes: proposed nomenclature for genotypes 1-5. J Med Virol 62, 82-83.
37. Tucker, T. J., Smuts, H., Eickhaus, P., Robson, S. C. & Kirsch, R. E. (1999). Molecular characterization of the 5′ non-coding region of South African GBV-C/HGV isolates: major deletion and evidence for a fourth genotype. J Med Virol 59, 52-59.
38. Worobey, M. & Holmes, E. C. (2001). Homologous recombination in GB virus C/hepatitis G virus. Mol Biol Evol 18, 254-261.
39. Zuckerman, A. J. (1995). The new GB hepatitis viruses. Lancet 345, 1453-1454.