Background: Genotyping of hepatitis C virus (HCV) has become an essential tool for prognosis and prediction of treatment duration. The aim of this study was to compare two HCV genotyping methods: reverse hybridization line probe assay (LiPA v.1) and partial sequencing of the NS5B region. Methods. Plasma of 171 patients with chronic hepatitis C were screened using both a commercial method (LiPA HCV Versant, Siemens, Tarrytown, NY, USA) and different primers targeting the NS5B region for PCR amplification and sequencing analysis. Results: Comparison of the HCV genotyping methods showed no difference in the classification at the genotype level. However, a total of 82/171 samples (47.9%) including misclassification, non-subtypable, discrepant and inconclusive results were not classified by LiPA at the subtype level but could be discriminated by NS5B sequencing. Of these samples, 34 samples of genotype 1a and 6 samples of genotype 1b were classified at the subtype level using sequencing of NS5B. Conclusions: Sequence analysis of NS5B for genotyping HCV provides precise genotype and subtype identification and an accurate epidemiological representation of circulating viral strains. © 2011 Nakatani et al; licensee BioMed Central Ltd.
CITATION STYLE
Nakatani, S. M., Santos, C. A., Riediger, I. N., Krieger, M. A., Duarte, C. A., Do Carmo Debur, M., … Ono, S. K. (2011). Comparative performance evaluation of hepatitis C virus genotyping based on the 5’ untranslated region versus partial sequencing of the NS5B region of brazilian patients with chronic hepatitis C. Virology Journal, 8. https://doi.org/10.1186/1743-422X-8-459
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