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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.
Virol J. 2011 Oct 03; 8:459.VJ

Abstract

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.

Authors+Show Affiliations

Laboratório Central do Estado do Paraná, LACEN-PR, São José dos Pinhais, Paraná, Brazil.No affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info availableNo affiliation info available

Pub Type(s)

Comparative Study
Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

21967749

Citation

Nakatani, Sueli M., et al. "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, vol. 8, 2011, p. 459.
Nakatani SM, Santos CA, Riediger IN, et al. 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. Virol J. 2011;8:459.
Nakatani, S. M., Santos, C. A., Riediger, I. N., Krieger, M. A., Duarte, C. A., do Carmo Debur, M., Carrilho, F. J., & 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, 459. https://doi.org/10.1186/1743-422X-8-459
Nakatani SM, et al. 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. Virol J. 2011 Oct 3;8:459. PubMed PMID: 21967749.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - 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. AU - Nakatani,Sueli M, AU - Santos,Carlos A, AU - Riediger,Irina N, AU - Krieger,Marco A, AU - Duarte,Cesar A B, AU - do Carmo Debur,Maria, AU - Carrilho,Flair J, AU - Ono,Suzane K, Y1 - 2011/10/03/ PY - 2011/05/11/received PY - 2011/10/03/accepted PY - 2011/10/5/entrez PY - 2011/10/5/pubmed PY - 2012/1/13/medline SP - 459 EP - 459 JF - Virology journal JO - Virol J VL - 8 N2 - 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. SN - 1743-422X UR - https://www.unboundmedicine.com/medline/citation/21967749/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_ L2 - https://virologyj.biomedcentral.com/articles/10.1186/1743-422X-8-459 DB - PRIME DP - Unbound Medicine ER -