Molecular epidemiology and putative origin of hepatitis C virus in random volunteers from Argentina

World Journal of Gastroenterology

Volumn 19, Issue 35, 2013, Pages 5813-5827

  del Pino, Noemí ^a   Oubiña, José Raúl ^b   Rodríguez Frías, Francisco ^c   Esteban, Juan Ignacio ^d   Buti, María ^d   Otero, Teresa ^e   Gregori, Josep ^f,g   García Cehic, Damir ^d   Camos, Silvia ^c   Cubero, María ^d   Casillas, Rosario ^h   Guàrdia, Jaume ^d   Esteban, Rafael ^d   Quer, Josep ^d  

^a Laboratorio APUNLAB   (Argentina)

^b UNIVERSIDAD DE BUENOS AIRES   (Argentina)

^c HOSPITAL UNIVERSITARI VALL D HEBRON   (Spain)

^d INSTITUTO DE SALUD CARLOS III   (Spain)

^e Unitat de Diagnostic i Terapia Molecular   (Spain)

^f HOSPITAL UNIVERSITARI VALL D HEBRON   (Spain)

^g Roche Diagnostics SL   (Spain)

^h HUVH   (Spain)

Author keywords

Argentina; Hepatitis C virus; Hepatitis C virus 5' untranslated region; Hepatitis C virus NS5B subtyping; Molecular epidemiology

Indexed keywords

VIRUS RNA;

5' UNTRANSLATED REGION; ADOLESCENT; ADULT; AGED; ARGENTINA; ARTICLE; CHILD; GENETIC VARIABILITY; GENOTYPE; HEPATITIS C VIRUS; HUMAN; IMMUNOBLOTTING; MOLECULAR EPIDEMIOLOGY; NONHUMAN; NORMAL HUMAN; NUCLEIC ACID AMPLIFICATION; NUCLEOTIDE SEQUENCE; PHYLOGENY; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA EXTRACTION; SEROLOGY; UNINDEXED SEQUENCE;

ARGENTINA; HEPATITIS C VIRUS; HEPATITIS C VIRUS 5' UNTRANSLATED REGION; HEPATITIS C VIRUS NS5B SUBTYPING; MOLECULAR EPIDEMIOLOGY;

5' UNTRANSLATED REGIONS; ADULT; ANALYSIS OF VARIANCE; ARGENTINA; CHI-SQUARE DISTRIBUTION; FEMALE; GENOTYPE; HEALTHY VOLUNTEERS; HEPACIVIRUS; HEPATITIS C; HEPATITIS C ANTIBODIES; HUMANS; MALE; MOLECULAR EPIDEMIOLOGY; PHYLOGENY; PREVALENCE; REVERSE TRANSCRIPTASE POLYMERASE CHAIN REACTION; RNA, VIRAL; VIRAL NONSTRUCTURAL PROTEINS;

EID: 84885584269     PISSN: 10079327     EISSN: 22192840     Source Type: Journal    
DOI: 10.3748/wjg.v19.i35.5813     Document Type: Article

References (41)

1. Simmonds P, Bukh J, Combet C, Deléage G, Enomoto N, Feinstone S, Halfon P, Inchauspé G, Kuiken C, Maertens G, Mizokami M, Murphy DG, Okamoto H, Pawlotsky JM, Penin F, Sablon E, Shin-I T, Stuyver LJ, Thiel HJ, Viazov S, Weiner AJ, Widell A. Consensus proposals for a unified system of nomenclature of hepatitis C virus genotypes. Hepatology 2005; 42: 962-973 [PMID: 16149085 DOI: 10.1002/ hep.20819]
2. Li G, Li K, Lea AS, Li NL, Abdulla NE, Eltorky MA, Ferguson MR. In situ hybridization for the detection of hepatitis C virus RNA in human liver tissue. J Viral Hepat 2013; 20: 183-192 [PMID: 23383657 DOI: 10.1111/j.1365-2893.2012.01642.x]
3. Martell M, Esteban JI, Quer J, Genescà J, Weiner A, Esteban R, Guardia J, Gómez J. Hepatitis C virus (HCV) circulates as a population of different but closely related genomes: quasispecies nature of HCV genome distribution. J Virol 1992; 66: 3225-3229 [PMID: 1313927]
4. Domingo E, Holland JJ. High error rates, population equilibrium, and evolution of RNA replication systems in RNA Genetics. Boca Raton (FL): CRC Press, 1988: 3-36
5. Vignuzzi M, Stone JK, Arnold JJ, Cameron CE, Andino R. Quasispecies diversity determines pathogenesis through cooperative interactions in a viral population. Nature 2006; 439: 344-348 [PMID: 16327776 DOI: 10.1038/nature04388]
6. Okamoto H, Kojima M, Okada S, Yoshizawa H, Iizuka H, Tanaka T, Muchmore EE, Peterson DA, Ito Y, Mishiro S. Genetic drift of hepatitis C virus during an 8.2-year infection in a chimpanzee: variability and stability. Virology 1992; 190: 894-899 [PMID: 1325713 DOI: 10.1016/0042-6822(92)90933-G]
7. Quer J, Esteban JI, Cos J, Sauleda S, Ocaña L, Martell M, Otero T, Cubero M, Palou E, Murillo P, Esteban R, Guàrdia J. Effect of bottlenecking on evolution of the nonstructural protein 3 gene of hepatitis C virus during sexually transmitted acute resolving infection. J Virol 2005; 79: 15131-15141 [PMID: 16306585 DOI: 10.1128/JVI.79.24.15131-15141.2005]
8. Hraber PT, Fischer W, Bruno WJ, Leitner T, Kuiken C. Comparative analysis of hepatitis C virus phylogenies from coding and non-coding regions: the 5' untranslated region (UTR) fails to classify subtypes. Virol J 2006; 3: 103 [PMID: 17169155 DOI: 10.1186/1743-422X-3-103]
9. Chinchai T, Labout J, Noppornpanth S, Theamboonlers A, Haagmans BL, Osterhaus AD, Poovorawan Y. Comparative study of different methods to genotype hepatitis C virus type 6 variants. J Virol Methods 2003; 109: 195-201 [PMID: 12711063 DOI: 10.1016/S0166-0934(03)00071-5]
10. Mellor J, Walsh EA, Prescott LE, Jarvis LM, Davidson F, Yap PL, Simmonds P. Survey of type 6 group variants of hepatitis C virus in Southeast Asia by using a core-based genotyping assay. J Clin Microbiol 1996; 34: 417-423 [PMID: 8789027]
11. Murphy DG, Willems B, Deschênes M, Hilzenrat N, Mousseau R, Sabbah S. Use of sequence analysis of the NS5B region for routine genotyping of hepatitis C virus with reference to C/E1 and 5' untranslated region sequences. J Clin Microbiol 2007; 45: 1102-1112 [PMID: 17287328 DOI: 10.1128/JCM.02366-06]
12. Kershenobich D, Razavi HA, Sánchez-Avila JF, Bessone F, Coelho HS, Dagher L, Gonçales FL, Quiroz JF, Rodriguez-Perez F, Rosado B, Wallace C, Negro F, Silva M. Trends and projections of hepatitis C virus epidemiology in Latin America. Liver Int 2011; 31 Suppl 2: 18-29 [PMID: 21651701 DOI: 10.1111/j.1478-3231.2011.02538.x]
13. Golemba MD, Di Lello FA, Bessone F, Fay F, Benetti S, Jones LR, Campos RH. High prevalence of hepatitis C virus genotype 1b infection in a small town of Argentina. Phylogenetic and Bayesian coalescent analysis. PLoS One 2010; 5: e8751 [PMID: 20090919 DOI: 10.1371/journal.pone.0008751]
14. Picchio GR, Baré PC, Descalzi VI, Bussy MV, Soria SM, Raffa MP, Mazzencio NE, Etchehun S, Cámera JA, Mosier DE, Villamil FG. High prevalence of infection with a single hepatitis C virus genotype in a small rural community of Argentina. Liver Int 2006; 26: 660-665 [PMID: 16842321 DOI: 10.1111/j.1478-3231.2006.01290.x]
15. Quarleri JF, Robertson BH, Mathet VL, Feld M, Espínola L, Requeijo MP, Mandó O, Carballal G, Oubiña JR. Genomic and phylogenetic analysis of hepatitis C virus isolates from Argentine patients: a six-year retrospective study. J Clin Microbiol 2000; 38: 4560-4568 [PMID: 11101596]
16. Picchio GR, Nakatsuno M, Boggiano C, Sabbe R, Corti M, Daruich J, Pérez-Bianco R, Tezanos-Pinto M, Kokka R, Wilber J, Mosier D. Hepatitis C (HCV) genotype and viral titer distribution among Argentinean hemophilic patients in the presence or absence of human immunodeficiency virus (HIV) co-infection. J Med Virol 1997; 52: 219-225 [PMID: 9179772]
17. Alfonso V, Flichman D, Sookoian S, Mbayed VA, Campos RH. Phylogenetic characterization of genotype 4 hepatitis C virus isolates from Argentina. J Clin Microbiol 2001; 39: 1989-1992 [PMID: 11326031 DOI: 10.1128/ JCM.39.5.1989-1992.2001]
18. Findor JA, Sordá JA, Daruich J, Bruch Igartua E, Manero E, Avagnina A, Benbassat D, Rey J, Nakatsuno M. [Distribution of the genotypes of hepatitis C virus in intravenous drug addicts in Argentina]. Medicina (B Aires) 1999; 59: 49-54 [PMID: 10349119]
19. Ruíz RD, Bísaro LB, German JC, Grutadauria S. [In Process Citation]. Rev Gastroenterol Mex 2010; 75: 287-292 [PMID: 20959178]
20. Ré V, Lampe E, Yoshida CF, de Oliveira JM, Lewis-Ximénez L, Spinsanti L, Elbarcha O, Contigiani M. Hepatitis C virus genotypes in Córdoba, Argentina. Unexpected high prevalence of genotype 2. Medicina (B Aires) 2003; 63: 205-210 [PMID: 12876903]
21. Kwok S, Higuchi R. Avoiding false positives with PCR. Nature 1989; 339: 237-238 [PMID: 2716852 DOI: 10.1038/339237a0]
22. Morice Y, Cantaloube JF, Beaucourt S, Barbotte L, De Gendt S, Goncales FL, Butterworth L, Cooksley G, Gish RG, Beaugrand M, Fay F, Fay O, Gonzalez JE, Martins RM, Dhumeaux D, Vanderborght B, Stuyver L, Sablon E, de Lamballerie X, Pawlotsky JM. Molecular epidemiology of hepatitis C virus subtype 3a in injecting drug users. J Med Virol 2006; 78: 1296-1303 [PMID: 16927280 DOI: 10.1002/ jmv.20692]
23. Gismondi MI, Becker PD, Valva P, Guzmán CA, Preciado MV. Phylogenetic analysis of previously nontypeable hepatitis C virus isolates from Argentina. J Clin Microbiol 2006; 44: 2229-2232 [PMID: 16757625 DOI: 10.1128/JCM.02569-05]
24. Nicholas KB, Nicholas HB Jr. GeneDoc: a tool for editing and annotating multiple sequence alignments. 1997. Available from: URL: http://www.psc.edu/biomed/genedoc
25. Genetic Computer Group. CLUSTALW (Program). Wisconsin package version 8.1. Madison (WI): Genetic Computer Group, 2002
26. Feltenstein J, PHYLIP, Distributed by the author. Department of Genetics, University of Washington, Seattle, United States. Available from: URL: http://evolution.genetics. washington.edu/phylip.html
27. Roderic DM. TREEVIEW v1.6.5. Distributed by the authors. Available from: URL: http://taxonomy.zoology.gla.ac.uk/ rod/treeview.html
28. Rozas J, Rozas R. DnaSP version 3: an integrated program for molecular population genetics and molecular evolution analysis. Bioinformatics 1999; 15: 174-175 [PMID: 10089204 DOI: 10.1093/bioinformatics/15.2.174]
29. Forbi JC, Purdy MA, Campo DS, Vaughan G, Dimitrova ZE, Ganova-Raeva LM, Xia GL, Khudyakov YE. Epidemic history of hepatitis C virus infection in two remote communities in Nigeria, West Africa. J Gen Virol 2012; 93: 1410-1421 [PMID: 22456613]
30. Ndjomou J, Pybus OG, Matz B. Phylogenetic analysis of hepatitis C virus isolates indicates a unique pattern of endemic infection in Cameroon. J Gen Virol 2003; 84: 2333-2341 [PMID: 12917453 DOI: 10.1099/vir.0.19240-0]
31. Simmonds P. The origin and evolution of hepatitis viruses in humans. J Gen Virol 2001; 82: 693-712 [PMID: 11257174]
32. Cristina J. Genetic diversity and evolution of hepatitis C virus in the Latin American region. J Clin Virol 2005; 34 Suppl 2: S1-S7 [PMID: 16461234 DOI: 10.1016/S1386-6532(05)00393-8]
33. Jeannel D, Fretz C, Traore Y, Kohdjo N, Bigot A, Pê Gamy E, Jourdan G, Kourouma K, Maertens G, Fumoux F, Fournel JJ, Stuyver L. Evidence for high genetic diversity and longterm endemicity of hepatitis C virus genotypes 1 and 2 in West Africa. J Med Virol 1998; 55: 92-97 [PMID: 9598927]
34. Pybus OG, Charleston MA, Gupta S, Rambaut A, Holmes EC, Harvey PH. The epidemic behavior of the hepatitis C virus. Science 2001; 292: 2323-2325 [PMID: 11423661]
35. Ansaldi F, Bruzzone B, Salmaso S, Rota MC, Durando P, Gasparini R, Icardi G. Different seroprevalence and molecular epidemiology patterns of hepatitis C virus infection in Italy. J Med Virol 2005; 76: 327-332 [PMID: 15902713 DOI: 10.1002/jmv.20376]
36. Ndjomou J, Kupfer B, Kochan B, Zekeng L, Kaptue L, Matz B. Hepatitis C virus infection and genotypes among human immunodeficiency virus high-risk groups in Cameroon. J Med Virol 2002; 66: 179-186 [PMID: 11782926 DOI: 10.1002/ jmv.2128]
37. Cammarota G, Maggi F, Vatteroni ML, Da Prato L, Barsanti L, Bendinelli M, Pistello M. Partial nucleotide sequencing of six subtype 2c hepatitis C viruses detected in Italy. J Clin Microbiol 1995; 33: 2781-2784 [PMID: 8567927]
38. Guadagnino V, Stroffolini T, Rapicetta M, Costantino A, Kondili LA, Menniti-Ippolito F, Caroleo B, Costa C, Griffo G, Loiacono L, Pisani V, Focà A, Piazza M. Prevalence, risk factors, and genotype distribution of hepatitis C virus infection in the general population: a community-based survey in southern Italy. Hepatology 1997; 26: 1006-1011 [PMID: 9328327 DOI: 10.1002/hep.510260431]
39. Maggi F, Vatteroni ML, Fornai C, Morrica A, Giorgi M, Bendinelli M, Pistello M. Subtype 2c of hepatitis C virus is highly prevalent in Italy and is heterogeneous in the NS5A region. J Clin Microbiol 1997; 35: 161-164 [PMID: 8968899]
40. Spada E, Ciccaglione AR, Dettori S, Chionne P, Kondili LA, Amoroso P, Guadagnino V, Greco M, Rapicetta M. Genotyping HCV isolates from Italy by type-specific PCR assay in the core region. Res Virol 1998; 149: 209-218 [PMID: 9783336 DOI: 10.1016/S0923-2516(98)80002-2]
41. Nakao H, Okamoto H, Tokita H, Inoue T, Iizuka H, Pozzato G, Mishiro S. Full-length genomic sequence of a hepatitis C virus genotype 2c isolate (BEBE1) and the 2c-specific PCR primers. Arch Virol 1996; 141: 701-704 [PMID: 8645105 DOI: 10.1007/BF01718327]