Whole-genome characterization and resistance-associated substitutions in a new HCV genotype 1 subtype.

Autor:	von Massow G; Liver Unit, Liver Diseases - Viral Hepatitis, Vall d'Hebron Institut of Research (VHIR) - Hospital Universitari Vall d'Hebron (HUVH), Barcelona, Spain., Garcia-Cehic D; Liver Unit, Liver Diseases - Viral Hepatitis, Vall d'Hebron Institut of Research (VHIR) - Hospital Universitari Vall d'Hebron (HUVH), Barcelona, Spain.; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), Instituto de Salud Carlos III, Madrid, Spain., Gregori J; Liver Unit, Liver Diseases - Viral Hepatitis, Vall d'Hebron Institut of Research (VHIR) - Hospital Universitari Vall d'Hebron (HUVH), Barcelona, Spain.; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), Instituto de Salud Carlos III, Madrid, Spain.; Roche Diagnostics S.L., Sant Cugat del Vallès, Barcelona, Spain., Rodriguez-Frias F; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), Instituto de Salud Carlos III, Madrid, Spain.; Biochemistry and Microbiology Department, VHIR-HUVH, Barcelona, Spain., Macià MD; Unidad de Microbiología Molecular, Servicio de Microbiología, Instituto de Investigación Sanitaria de les Illes Balears (IdISBa), Hospital Universitario Son Espases, Mallorca, Spain., Escarda A; Digestive Department, Hospital Universitario Son Espases, Mallorca, Spain., Esteban JI; Liver Unit, Liver Diseases - Viral Hepatitis, Vall d'Hebron Institut of Research (VHIR) - Hospital Universitari Vall d'Hebron (HUVH), Barcelona, Spain.; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), Instituto de Salud Carlos III, Madrid, Spain.; Medicine Department, Universitat Autònoma de Barcelona, Barcelona, Spain., Quer J; Liver Unit, Liver Diseases - Viral Hepatitis, Vall d'Hebron Institut of Research (VHIR) - Hospital Universitari Vall d'Hebron (HUVH), Barcelona, Spain.; Centro de Investigación Biomédica en Red de Enfermedades Hepáticas y Digestivas (CIBERehd), Instituto de Salud Carlos III, Madrid, Spain.; Medicine Department, Universitat Autònoma de Barcelona, Barcelona, Spain.
Jazyk:	angličtina
Zdroj:	Infection and drug resistance [Infect Drug Resist] 2019 Apr 24; Vol. 12, pp. 947-955. Date of Electronic Publication: 2019 Apr 24 (Print Publication: 2019).
DOI:	10.2147/IDR.S195441
Abstrakt:	Hepatitis C virus (HCV) is a highly variable infectious agent, classified into 8 genotypes and 86 subtypes. Our laboratory has implemented an in-house developed high-resolution HCV subtyping method based on next-generation sequencing (NGS) for error-free classification of the virus using phylogenetic analysis and analysis of genetic distances in sequences from patient samples compared to reference sequences. During routine diagnostic, a sample from an Equatorial Guinea patient could not be classified into any of the existing subtypes. The whole genome was analyzed to confirm that the new isolate could be classified as a new HCV subtype. In addition, naturally occurring resistance-associated substitutions (RAS) were analyzed by NGS. Whole-genome analysis based on p-distances suggests that the sample belongs to a new HCV genotype 1 subtype. Several RAS in the NS3 (S122T, D168E and I170V) and NS5A protein (Q(1b)24K, R(1b)30Q and Y93L+Y93F) were found, which could limit the use of some inhibitors for treating this subtype. RAS studies of new subtypes are of great interest for tailoring treatment, as no data on treatment efficacy are reported. In our case, the patient has not yet been treated, and the RAS report will be used to design the most effective treatment. Competing Interests: The funder “Roche Diagnostics S.L.” provided support in the form of salaries for one author (Josep Gregori), but the company did not have any additional role in the study design, data collection and analysis, decision to publish or preparation of the manuscript. The other authors report no conflicts of interest in this work.
Databáze:	MEDLINE
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