Molecular characterization of the Hepatitis B virus genotypes in Colombia: A Bayesian inference on the genotype F

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art_MORA_Molecular_characterization_of_the_Hepatitis_B_virus_genotypes_2011.PDF (288.58 KB)
Citações na Scopus
44
Tipo de produção
article
Data de publicação
2011
DOI
Scopus
Web of Science
PubMed
Título da Revista
ISSN da Revista
Título do Volume
Editora
ELSEVIER SCIENCE BV
Autores
GUTIERREZ, Maria Fernanda
BOTELHO, Livia
Citação
INFECTION GENETICS AND EVOLUTION, v.11, n.1, p.103-108, 2011
Projetos de Pesquisa
Unidades Organizacionais
Fascículo
Resumo
Hepatitis B is a worldwide health problem affecting about 2 billion people and more than 350 million are chronic carriers of the virus. Nine HBV genotypes (A to I) have been described. The geographical distribution of HBV genotypes is not completely understood due to the limited number of samples from some parts of the world. One such example is Colombia, in which few studies have described the HBV genotypes. In this study, we characterized HBV genotypes in 143 HBsAg-positive volunteer blood donors from Colombia. A fragment of 1306 bp partially comprising HBsAg and the DNA polymerase coding regions (S/POL) was amplified and sequenced. Bayesian phylogenetic analyses were conducted using the Markov Chain Monte Carlo (MCMC) approach to obtain the maximum clade credibility (MCC) tree using BEAST v.1.5.3. Of all samples, 68 were positive and 52 were successfully sequenced. Genotype F was the most prevalent in this population (77%) - subgenotypes F3 (75%) and Fib (2%). Genotype G (7.7%) and subgenotype A2 (15.3%) were also found. Genotype G sequence analysis suggests distinct introductions of this genotype in the country. Furthermore, we estimated the time of the most recent common ancestor (TMRCA) for each HBV/F subgenotype and also for Colombian F3 sequences using two different datasets: (i) 77 sequences comprising 1306 bp of S/POL region and (ii) 283 sequences comprising 681 bp of S/POL region. We also used two other previously estimated evolutionary rates: (i) 2.60 x 10(-4) s/s/y and (ii) 1.5 x 10(-5) s/s/y. Here we report the HBV genotypes circulating in Colombia and estimated the TMRCA for the four different subgenotypes of genotype F.
Palavras-chave
Hepatitis B virus, Genotype G, Genotype A2, Genotype F, Bayesian analysis, Colombia
URI
https://observatorio.fm.usp.br/handle/OPI/23036
Referências
  1. Alestig E, 2001, ARCH VIROL, V146, P2321, DOI 10.1007/s007050170005
  2. Alvarado-Esquivel C, 2006, WORLD J GASTROENTERO, V12, P6540
  3. Toan NL, 2006, HEPATOLOGY, V43, P1375, DOI 10.1002/hep.21188
  4. Chu CJ, 2003, GASTROENTEROLOGY, V125, P444, DOI 10.1016/S0016-5085(03)00895-3
  5. Magnius LO, 1995, INTERVIROLOGY, V38, P24
  6. Livingston SE, 2007, J INFECT DIS, V195, P5, DOI 10.1086/509894
  7. Thompson JD, 1997, NUCLEIC ACIDS RES, V25, P4876, DOI 10.1093/nar/25.24.4876
  8. NORDER H, 1994, VIROLOGY, V198, P489, DOI 10.1006/viro.1994.1060
  9. Kramvis A, 2007, HEPATOL RES, V37, pS9, DOI 10.1111/j.1872-034X.2007.00098.x
  10. Lacombe K, 2006, AIDS, V20, P419, DOI 10.1097/01.aids.0000200537.86984.0e
  11. Posada D, 1998, BIOINFORMATICS, V14, P817, DOI 10.1093/bioinformatics/14.9.817
  12. Bowyer SM, 1997, J GEN VIROL, V78, P1719
  13. Devesa M, 2008, J MED VIROL, V80, P20, DOI 10.1002/jmv.21024
  14. Vieth S, 2002, VIRUS GENES, V24, P153, DOI 10.1023/A:1014572600432
  15. Simmonds P, 2005, J VIROL, V79, P15467, DOI 10.1128/JVI.79.24.15467-15476.2005
  16. Suwannakarn K, 2005, J GEN VIROL, V86, P3027, DOI 10.1099/vir.0.81241-0
  17. Ewing B, 1998, GENOME RES, V8, P186
  18. Fung SK, 2004, HEPATOLOGY, V40, P790, DOI 10.1002/hep.20455
  19. Zhou Y, 2007, J MOL EVOL, V65, P197, DOI 10.1007/s00239-007-0054-1
  20. Kumar S, 2008, BRIEF BIOINFORM, V9, P299, DOI 10.1093/bib/bbn017
  21. Shibayama T, 2005, J MED VIROL, V76, P24, DOI 10.1002/jmv.20319
  22. Sloan RD, 2009, J CLIN VIROL, V44, P157, DOI 10.1016/j.jcv.2008.11.010
  23. Sitnik R, 2004, J CLIN MICROBIOL, V42, P2455, DOI 10.1128/JCM.42.6.2455-2460.2004
  24. Arauz-Ruiz P, 2002, J GEN VIROL, V83, P2059
  25. De Maddalena C, 2007, VIROLOGY, V365, P113, DOI 10.1016/j.virol.2007.03.015
  26. Nakano T, 2001, J GEN VIROL, V82, P359
  27. Hannoun C, 2005, J GEN VIROL, V86, P2163, DOI 10.1099/vir.0.80972-0
  28. SANGER F, 1977, P NATL ACAD SCI USA, V74, P5463, DOI 10.1073/pnas.74.12.5463
  29. Jardi R, 2008, J HEPATOL, V49, P695, DOI 10.1016/j.jhep.2008.03.030
  30. Olinger CM, 2006, J GEN VIROL, V87, P1163, DOI 10.1099/vir.0.81614-0
  31. ORITO E, 1989, P NATL ACAD SCI USA, V86, P7059, DOI 10.1073/pnas.86.18.7059
  32. OKAMOTO H, 1987, JPN J EXP MED, V57, P231
  33. Osiowy C, 2003, J CLIN MICROBIOL, V41, P5473, DOI 10.1128/JCM.41.12.5473-5477.2003
  34. Andernach IE, 2009, EMERG INFECT DIS, V15, P1222, DOI 10.3201/eid1508.081642
  35. Norder H, 2004, INTERVIROLOGY, V47, P289, DOI 10.1159/000080872
  36. Chudy M, 2006, HEPATOLOGY, V44, P99, DOI 10.1002/hep.21220
  37. McMahon BJ, 2009, HEPATOL INT, V3, P334, DOI 10.1007/s12072-008-9112-z
  38. BHAT RA, 1990, HEPATOLOGY, V11, P271, DOI 10.1002/hep.1840110218
  39. Bottecchia M, 2008, BMC MICROBIOL, V8, DOI 10.1186/1471-2180-8-11
  40. Campos Rodolfo H, 2005, J Clin Virol, V34 Suppl 2, pS8, DOI 10.1016/S1386-6532(05)80028-9
  41. CHOMCZYNSKI P, 1987, ANAL BIOCHEM, V162, P156, DOI 10.1006/abio.1987.9999
  42. Devesa M, 2004, J MED VIROL, V72, P377, DOI 10.1002/jmv.20015
  43. Di Lello FA, 2009, J MED VIROL, V81, P1887, DOI 10.1002/jmv.21607
  44. Drummond AJ, 2007, BMC EVOL BIOL, V7, DOI 10.1186/1471-2148-7-214
  45. Echevarria JM, 2005, J MED VIROL, V76, P176, DOI 10.1002/jmv.20341
  46. Flichman D, 2009, J CLIN MICROBIOL, V47, P4191, DOI 10.1128/JCM.01337-09
  47. HUBSCHEN JM, 2010, CLIN MICROBIOL INFEC, DOI 10.1111/J.1469-0691.2010.03205.X/ABSTRACT
  48. Huy TTT, 2006, J MED VIROL, V78, P178, DOI 10.1002/jmv.20525
  49. Kato H, 2005, WORLD J GASTROENTERO, V11, P6295
  50. Kato H, 2002, J VIROL, V76, P6131, DOI 10.1128/JVI.76.12.6131-6137.2002
  51. KWOK S, 1989, NATURE, V339, P237, DOI 10.1038/339237a0
  52. Langer BCA, 1997, J VIRAL HEPATITIS, V4, P339, DOI 10.1046/j.1365-2893.1997.00063.x
  53. Lindh M, 2005, J CLIN VIROL, V34, P315, DOI 10.1016/j.jcv.2005.10.002
  54. Mahtab MA, 2008, HEPATOB PANCREAT DIS, V7, P457
  55. Mora MVA, 2010, J GEN VIROL, V91, P501, DOI 10.1099/vir.0.015958-0
  56. NAUMANN H, 1993, J GEN VIROL, V74, P1627, DOI 10.1099/0022-1317-74-8-1627
  57. Norder H, 2003, J GEN VIROL, V84, P2083, DOI 10.1099/vir.0.19034-0
  58. Pas SD, 2008, J CLIN MICROBIOL, V46, P1268, DOI 10.1128/JCM.01519-07
  59. Perez-Olmeda M, 2003, AIDS RES HUM RETROV, V19, P657, DOI 10.1089/088922203322280874
  60. PINEIRO Y, 2003, VIRUS GENES, V27, P103
  61. Pourkarim MR, 2010, J CLIN VIROL, V47, P93, DOI 10.1016/j.jcv.2009.09.032
  62. Sanchez LV, 2007, INTERVIROLOGY, V50, P9, DOI 10.1159/000096307
  63. Singh J, 2009, INTERVIROLOGY, V52, P235, DOI 10.1159/000227279
  64. van Steenbergen JE, 2002, J MED VIROL, V66, P159, DOI 10.1002/jmv.2125
  65. von Meltzer M, 2008, VIRUS GENES, V37, P225, DOI 10.1007/s11262-008-0261-x
  66. Yu H, 2010, PLOS ONE, V5, DOI 10.1371/journal.pone.0009297

Coleções
Artigos e Materiais de Revistas Científicas - FM/MGT
Artigos e Materiais de Revistas Científicas - HC/ICHC
Artigos e Materiais de Revistas Científicas - LIM/07
Artigos e Materiais de Revistas Científicas - LIM/52