Complete genome sequence and phylogenetic relatedness of hepatitis B virus isolates in Papua, Indonesia

Journal of Clinical Microbiology

Volumn 47, Issue 6, 2009, Pages 1842-1847

  Utsumi, Takako ^a,c   Lusida, Maria Inge ^a   Yano, Yoshihiko ^c   Nugrahaputra, Victor Eka ^b   Amin, Mochamad ^a   Juniastuti, ^a   Soetjipto, ^a   Hayashi, Yoshitake ^c   Hotta, Hak ^c  

^a AIRLANGGA UNIVERSITY   (Indonesia)

^b CENDERAWASIH UNIVERSITY   (Indonesia)

^c KOBE UNIVERSITY GRADUATE SCHOOL OF MEDICINE   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID;

ADULT; ARTICLE; CLINICAL ARTICLE; CONTROLLED STUDY; EVOLUTION; FEMALE; GENE SEQUENCE; GENETIC RECOMBINATION; GENETIC VARIABILITY; GEOGRAPHIC DISTRIBUTION; HEPATITIS B; HEPATITIS B VIRUS; HUMAN; INDONESIA; MALE; NUCLEOTIDE SEQUENCE; PACIFIC ISLANDS; PAPUA NEW GUINEA; PHYLOGENY; PREVALENCE; PRIORITY JOURNAL; PROMOTER REGION; SOUTHEAST ASIA; VIRUS ISOLATION; VIRUS STRAIN;

ADOLESCENT; ADULT; CLUSTER ANALYSIS; DNA, VIRAL; EVOLUTION, MOLECULAR; FEMALE; GENOME, VIRAL; HEPATITIS B; HEPATITIS B VIRUS; HUMANS; INDONESIA; MALE; MIDDLE AGED; MOLECULAR SEQUENCE DATA; PHYLOGENY; SEQUENCE ANALYSIS, DNA; SEQUENCE HOMOLOGY, AMINO ACID; SEQUENCE HOMOLOGY, NUCLEIC ACID; YOUNG ADULT;

HEPATITIS B VIRUS;

EID: 66749118349     PISSN: 00951137     EISSN: None     Source Type: Journal    
DOI: 10.1128/JCM.02328-08     Document Type: Article

References (32)

1. Banerjee, A., F. Kurbanov, D. Sibnarayan, P. K. Chandra, Y. Tanaka, M. Mizokami, and R. Chakravarty. 2006. Phylogenetic relatedness and genetic diversity of hepatitis B virus isolates in Eastern India. J. Med. Virol. 78:1164-1174.
2. Chauhan, R., S. N. Kazim, M. Kumar, J. Bhattacharjee, N. Krishnamoorthy, and S. K. Sarin. 2008. Identification and characterization of genotype A and D recombinant hepatitis B virus from Indian chronic HBV isolates. World J. Gastroenterol. 14:6228-6236.
3. Devesa, M., C. L. Loureiro, Y. Rivas, F. Monsalve, N. Cardona, M. C. Duarte, F. Poblete, M. F. Gutierrez, C. Botto, and F. H. Pujol. 2008. Subgenotype diversity of hepatitis B virus American genotype F in Amerindians from Venezuela and the general population of Colombia. J. Med. Virol. 80:20-26.
4. Furusyo, N., N. Kubo, H. Nakashima, K. Kashiwagi, and J. Hayashi. 2004. Relationship of genotype rather than race to hepatitis B virus pathogenicity: a study of Japanese and Solomon Islanders. Am. J. Trop. Med. Hyg. 70:571-575.
5. Huy, T. T. T., A. A. Sall, J. M. Reynes, and K. Abe. 2008. Complete genomic sequence and phylogenetic relatedness of hepatitis B virus isolates in Cambodia. Virus Genes 36:299-305.
6. Laoi, B. N., and B. Crowley. 2008. Molecular characterization of hepatitis B virus (HBV) isolates, including identification of a novel recombinant, in patients with acute HBV infection attending an Irish hospital. J. Med. Virol. 80:1554-1564.
7. Lee, W. M. 1997. Hepatitis B virus infection. N. Engl. J. Med. 337:1733-1745.
8. Lole, K. S., R. C. Bollinger, R. S. Paranjape, D. Gadkari, S. S. Kulkarni, N. G. Novak, R. Ingersoll, H. W. Sheppard, and S. C. Ray. 1999. Full-length human immunodeficiency virus type 1 genomes from subtype C-infected seroconverters in India, with evidence of intersubtype recombination. J. Virol. 73:152-160. (Pubitemid 28565356)
9. Lusida, M. I., V. E. Nugrahaputra, Soetjipto, R. Handajani, M. Nagano-Fujii, M. Sasayama, T. Utsumi, and H. Hotta. 2008. Novel subgenotypes of hepatitis B virus genotypes C and D in Papua, Indonesia. J. Clin. Microbiol. 46:2160-2166.
10. Merican, I., R. Guan, D. Amarapuka, M. J. Alexander, A. Chutaputti, R. N. Chien, S. S. Hasnian, N. Leung, L. Lesmana, P. H. Phiet, H. M. Sjalfoellah Noer, J. Sollano, H. S. Sun, and D. Z. Xu. 2000. Chronic hepatitis B virus infection in Asian countries. J. Gastroenterol. Hepatol. 15:1356-1361.
11. Mizokami, M., T. Nakano, E. Orito, Y. Tanaka, H. Sakugawa, M. Mukaide, and B. H. Robertson. 1999. Hepatitis B virus genotype assignment using restriction fragment length polymorphism patterns. FEBS Lett. 450:66-71. (Pubitemid 29206714)
12. Morozov, V., M. Pisareva, and M. Groudinin. 2000. Homologous recombination between different genotypes of hepatitis B virus. Gene 260:55-65. (Pubitemid 32008500)
13. Mulyanto, F. Tsuda, A. T. Karossi, S. Soewignjo, Roestamsjah, D. Sumarsidi, R. H. Trisnamurti, Sumardi, Surayah, L. Z. Udin, Melani-Wikanta, K. Kanai, and S. Mishiro. 1997. Distribution of the hepatitis B surface antigen subtypes in Indonesia: implications for ethnic heterogeneity and infection control measures. Arch. Virol. 142:2121-2129.
14. Nagasaki, F., H. Niitsuma, J. G. Cervantes, M. Chiba, S. Hong, T. Ojima, Y. Ueno, E. Bondoc, K. Kobayashi, M. Ishii, and T. Shimosegawa. 2006. Analysis of the entire nucleotide sequence of hepatitis B virus genotype B in the Philippines reveals a new subgenotype of genotype B. J. Gen. Virol. 87:1175-1180.
15. Norder, H., A. M. Couroucé, P. Coursaget, J. M. Echevarria, S. D. Lee, I. K. Mushahwar, B. H. Robertson, S. Locarnini, and L. O. Magnius. 2004. Genetic diversity of hepatitis B virus strains derived worldwide: genotypes, subgenotypes, and HBsAg subtypes. Intervirology 47:289-309. (Pubitemid 39541275)
16. Norder, H., A. M. Couroucé, and L. O. Magnius. 1994. Complete genomes, phylogenetic relatedness, and structural proteins of six strains of the hepatitis B virus, four of which represent two new genotypes. Virology 198:489-503. (Pubitemid 24164053)
17. Norder, H., and L. O. Magnius. 1993. Complete nucleotide sequences of six hepatitis B viral genomes encoding the surface antigen subtypes ayw4, adw4q-, and adrq- and their phylogenetic classification. Arch. Virol. Suppl. 8:189-199.
18. Nurainy, N., D. H. Muljono, H. Sudoyo, and S. Marzuki. 2008. Genetic study of hepatitis B virus in Indonesia reveals a new subgenotype of genotype B in east Nusa Tenggara. Arch. Virol. 153:1057-1065.
19. Okamoto, H., F. Tsuda, H. Sakugawa, R. I. Sastrosoewignjo, M. Imai, Y. Miyakawa, and M. Mayumi. 1988. Typing hepatitis B virus by homology in nucleotide sequence: comparison of surface antigen subtypes. J. Gen. Virol. 69:2575-2583.
20. Orito, E., T. Ichida, H. Sakugawa, M. Sata, N. Horiike, K. Hino, K. Okita, T. Okanoue, S. Iino, E. Tanaka, K. Suzuki, H. Watanabe, S. Hige, and M. Mizokami. 2001. Geographic distribution of hepatitis B virus (HBV) genotype in patients with chronic HBV infection in Japan. Hepatology 34:590-594. (Pubitemid 32786652)
21. Robertson, D. L., B. H. Hahn, and P. M. Sharp. 1995. Recombination in AIDS viruses. J. Mol. Evol. 40:249-259.
22. Saitou, N., and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol. Biol. Evol. 4:406-425.
23. Sakamoto, T., Y. Tanaka, J. Simonetti, C. Osiowy, M. L. Borresen, A. Koch, F. Kurbanov, M. Sugiyama, G. Y. Minuk, B. J. McMahon, T. Joh, and M. Mizokami. 2007. Classification of hepatitis B virus genotype B into 2 major types based on characterization of a novel subgenotype in Arctic indigenous populations. J. Infect. Dis. 196:1487-1492.
24. Sakamoto, T., Y. Tanaka, E. Orito, J. Co, J. Clavio, F. Sugauchi, K. Ito, A. Ozasa, A. Quino, R. Ueda, J. Sollano, and M. Mizokami. 2006. Novel subtypes (subgenotypes) of hepatitis B virus genotypes B and C among chronic liver disease patients in the Philippines. J. Gen. Virol. 87:1873-1882.
25. Simmonds, P., and S. Midgley. 2005. Recombination in the genesis and evolution of hepatitis B virus genotypes. J. Virol. 79:15467-15476. (Pubitemid 43032329)
26. Sugauchi, F., H. Kumada, S. A. Acharya, S. M. Shrestha, M. T. Gamutan, M. Khan, R. G. Gish, Y. Tanaka, T. Kato, E. Orito, R. Ueda, T. Miyakawa, and M. Mizokami. 2004. Epidemiological and sequence differences between two subtypes (Ae and Aa) of hepatitis B virus genotype A. J. Gen. Virol. 85:811-820.
27. Sugauchi, F., E. Orito, T. Ichida, H. Kato, H. Sakugawa, S. Kakumu, T. Ishida, A. Chutaputti, C. L. Lai, R. Ueda, Y. Miyakawa, and M. Mizokami. 2002. Hepatitis B virus of genotype B with or without recombination with genotype C over the precore region plus the core gene. J. Virol. 76:5985-5992. (Pubitemid 34556293)
28. Sugauchi, F., M. Mizokami, E. Orito, T. Ohno, H. Kato, S. Suzuki, Y. Kimura, R. Ueda, L. A. Butterworth, and W. G. E. Cooksley. 2001. A novel variant genotype C of hepatitis B virus identified in isolates from Australian Aborigines: complete genome sequence and phylogenetic relatedness. J. Gen. Virol. 82:883-892.
29. Tanaka, Y., E. Orito, M. F. Yuen, M. Mukaide, F. Sugauchi, K. Ito, A. Ozasa, T. Sakamoto, F. Kurbanov, C. L. Lai, and M. Mizokami. 2005. Two subtypes (subgenotypes) of hepatitis B virus genotype C: a novel subtyping assay based on restriction fragment length polymorphism. Hepatol. Res. 33:216-224.
30. Tran, T. T., T. N. Trinh, and K. Abe. 2008. New complex recombinant genotype of hepatitis B virus identified in Vietnam. J. Virol. 82:5657-5663.
31. Utsumi, T., Y. Yano, B. X. Truong, Y. Tanaka, M. Mizokami, Y. Seo, M. Kasuga, M. Kawabata, and Y. Hayashi. 2007. Molecular epidemiological study of hepatitis B virus infection in two different ethnic populations from the Solomon Islands. J. Med. Virol. 79:229-235.
32. Wang, Z., Z. Liu, G. Zeng, S. Wen, Y. Qi, S. Ma, N. V. Naoumov, and J. Hou. 2005. A new intertype recombinant between genotypes C and D of hepatitis B virus identified in China. J. Gen. Virol. 86:985-990.