Phylogenetic analysis of hepatitis B virus genotype F complete genome sequences from Chilean patients with chronic infection

Journal of Medical Virology

Volumn 83, Issue 9, 2011, Pages 1530-1536

  Venegas, Mauricio ^a   Alvarado Mora, Mónica V ^b   Villanueva, Rodrigo A ^c   Rebello Pinho, João R ^b   Carrilho, Flair J ^b   Locarnini, Stephen ^d   Yuen, Lilly ^d   Brahm, Javier ^a  

^a HOSPITAL CLÍNICO UNIVERSIDAD DE CHILE   (Chile)

^b UNIVERSITY OF SÃO PAULO   (Brazil)

^c UNIVERSITY OF CHILE   (Chile)

^d VICTORIAN INFECTIOUS DISEASES REFERENCE LABORATORY   (Australia)

Author keywords

HBV subgenotype f1b; Resistance mutations; Santiago, chile

Indexed keywords

ADULT; AGED; ARTICLE; CLINICAL ARTICLE; FEMALE; GENOTYPE; HEPATITIS B; HEPATITIS B VIRUS; HUMAN; MALE; MONTE CARLO METHOD; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYMERASE CHAIN REACTION; UNINDEXED SEQUENCE; VIRUS MUTATION;

ADOLESCENT; ADULT; AGED; BASE SEQUENCE; CHILD; CHILE; CHROMOSOME MAPPING; DNA, VIRAL; DRUG RESISTANCE, MULTIPLE, VIRAL; GENOME, VIRAL; GENOTYPE; HEPATITIS B VIRUS; HEPATITIS B, CHRONIC; HUMANS; MALE; MIDDLE AGED; MUTATION; PHYLOGENY; POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS, DNA;

HEPATITIS B VIRUS;

EID: 79960137349     PISSN: 01466615     EISSN: 10969071     Source Type: Journal    
DOI: 10.1002/jmv.22129     Document Type: Article

References (33)

1. Alvarado-Mora MV, Romano CM, Gomes-Gouvea MS, Gutierrez MF, Botelho L, Carrilho FJ, Pinho JR. 2011. Molecular characterization of the Hepatitis B virus genotypes in Colombia: A Bayesian inference on the genotype F. Infect Genet Evol 11: 103-108.
2. Arauz-Ruiz P, Norder H, Robertson B, Magnius L. 2002. Genotype H: A new Amerindian genotype of hepatitis B virus revealed in Central America. J Gen Virol 83: 2059-2073.
3. Baumert T, Marrone A, Vergalla J, Liang T. 1998. Naturally occurring mutations define a novel function of the hepatitis B virus core promoter in core protein expression. J Virol 72: 6785-6795.
4. Blitz L, Pujol F, Swenson P, Porto L, Atencio R, Araujo M, Costa L, Monsalve D, Torres J, Fields H, Lambert S, Geyt CV, Norder H, Magnius L, Echevarría J, Stuyver L. 1998. Antigenic diversity of hepatitis B virus strains of genotype F in Amerindians and other population groups from Venezuela. J Clin Microbiol 36: 648-651.
5. Delaney W, Yang H, Westland C, Das K, Arnold E, Gibbs C, Miller M, Xiong S. 2003. The hepatitis B virus polymerase mutation rtV173L is selected during lamivudine therapy and enhances viral replication in vitro. J Virol 77: 11833-11841.
6. Devesa M, Loureiro C, Rivas Y, Monsalve F, Cardona N, Duarte M, Poblete F, Gutierrez M, Botto C, Pujol F. 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.
7. DiLello F, Piñeiro Y, Leone F, Muñoz G, Campos R. 2009. Diversity of hepatitis B and C viruses in Chile. J Med Virol 81: 1887-1894.
8. Drummond A, Rambaut A. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol Biol 7: 214.
9. Günther S, Li B, Miska S, Krüger D, Meisel H, Will H. 1995. A novel method for efficient amplification of whole hepatitis B virus genomes permits rapid functional analysis and reveals deletion mutants in immunosuppressed patients. J Virol 69: 5437-5444.
10. Huy T, Ishikawa K, Ampofo W, Izumi T, Nakajima A, Ansah J, Tetteh J, Nii-Trebi N, Aidoo S, Ofori-Adjei D, Sata T, Ushijima H, Abe K. 2006. Characteristics of hepatitis B virus in Ghana: Full length genome sequences indicate the endemicity of genotype E in West Africa. J Med Virol 78: 178-184.
11. Mahtab M, Rahman S, Khan M, Karim F. 2008. Hepatitis B virus genotypes: An overview. Hepatobiliary Pancreat Dis Int 7: 457-464.
12. Mcmahon B. 2009. The influence of hepatitis B virus genotype and subgenotype on the natural history of chronic hepatitis B. Hepatol Int 3: 334-342.
13. Norder H, Couroucé A, Magnius L. 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.
14. Okamoto H, Tsuda F, Sakugawa H, Sastrosoewignjo R, Imai M, Miyakawa Y, Mayumi M. 1988. Typing hepatitis B virus by homology in nucleotide sequence: Comparison of surface antigen subtypes. J Gen Virol 69: 2575-2583.
15. Parekh S, Zoulim F, Ahn S, Tsai A, Li J, Kawai S, Khan N, Trépo C, Wands J, Tong S. 2003. Genome replication, virion secretion, and e antigen expression of naturally occurring hepatitis B virus core promoter mutants. J Virol 77: 6601-6612.
16. Pereira S, Valenzuela B, Mora J, Vera L. 2008. Present situation of hepatitis B virus in Chile. Rev Med Chil 136: 725-732.
17. Poordad F, Chee G. 2010. Viral resistance in hepatitis B: Prevalence and management. Curr Gastroenterol Rep 12: 62-69.
18. Posada D, Crandall KA. 1998. MODELTEST: Testing the model of DNA substitution. Bioinformatics 14: 817-818.
19. Santos AO, Alvarado-Mora MV, Botelho L, Vieira DS, Pinho JR, Carrilho FJ, Honda ER, Salcedo JM. 2010. Characterization of hepatitis B virus (HBV) genotypes in patients from Rondonia, Brazil. Virol J 7: 315.
20. Shaw T, Bartholomeusz A, Locarnini S. 2006. HBV drug resistance: Mechanisms, detection and interpretation. J Hepatol 44: 593-606.
21. Sheldon J, Camino N, Rodés B, Bartholomeusz A, Kuiper M, Tacke F, Núñez M, Mauss S, Lutz T, Klausen G, Locarnini S, Soriano V. 2005. Selection of hepatitis B virus polymerase mutations in HIV-coinfected patients treated with tenofovir. Antivir Ther 10: 727-734.
22. Shepard CW, Simard EP, Finelli L, Fiore AE, Bell BP. 2006. Hepatitis B virus infection: Epidemiology and vaccination. Epidemiol Rev 28: 112-125.
23. Sitnik R, Pinho J, Bertolini D, Bernardini A, Silva LD, Carrilho F. 2004. Hepatitis B virus genotypes and precore and core mutants in Brazilian patients. J Clin Microbiol 42: 2455-2460.
24. Sloan R, Ijaz S, Moore P, Harrison T, Teo C, Tedder R. 2008. Antiviral resistance mutations potentiate hepatitis B virus immune evasion through disruption of its surface antigen a determinant. Antivir Ther 13: 439-447.
25. Stuyver L, Gendt SD, Geyt CV, Zoulim F, Fried M, Schinazi R, Rossau R. 2000. A new genotype of hepatitis B virus: Complete genome and phylogenetic relatedness. J Gen Virol 81: 67-74.
26. Thompson J, Gibson T, Plewniak F, Jeanmougin F, Higgins D. 1997. The CLUSTAL-X windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25: 4876-4882.
27. Tiollais P, Charnay P, Vyas G. 1981. Biology of hepatitis B virus. Science 213: 406-411.
28. Torresi J, Earnest-Silveira L, Deliyannis G, Edgtton K, Zhuang H, Locarnini S, Fyfe J, Sozzi T, Jackson D. 2002. Reduced antigenicity of the hepatitis B virus HBsAg protein arising as a consequence of sequence changes in the overlapping polymerase gene that are selected by lamivudine therapy. Virology 293: 305-313.
29. vanBömmel F, Man Rd, Wedemeyer H, Deterding K, Petersen J, Buggisch P, Erhardt A, Hüppe D, Stein K, Trojan J, Sarrazin C, Böcher W, Spengler U, Wasmuth H, Reinders J, Möller B, Rhode P, Feucht H, Wiedenmann B, Berg T. 2010. Long-term efficacy of tenofovir monotherapy for hepatitis B virus-monoinfected patients after failure of nucleoside/nucleotide analogues. Hepatology 51: 73-80.
30. Venegas M, Muñoz G, Hurtado C, Alvarez L, Velasco M, Villanueva R, Brahm J. 2008. Prevalence of hepatitis B virus genotypes in chronic carriers in Santiago, Chile. Arch Virol 153: 2129-2132.
31. Yu H, Yuan Q, Ge SX, Wang HY, Zhang YL, Chen QR, Zhang J, Chen PJ, Xia NS. 2010. Molecular and phylogenetic analyses suggest an additional hepatitis B virus genotype "I". PLoS ONE 5: e9297.
32. Yuen L, Ayres A, Littlejohn M, Colledge D, Edgely A, Maskill W, Locarnini S, Bartholomeusz A. 2007. SeqHepB: A sequence analysis program and relational database system for chronic hepatitis B. Antiviral Res 75: 64-74.
33. Zoulim F, Locarnini S. 2009. Hepatitis B virus resistance to nucleos(t)ide analogues. Gastroenterology 137: 1593-1608.