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[Hepatitis C virus genotyping: comparison of the Abbott RealTime HCV Genotype II assay and NS5B sequencing].
- Source :
-
Pathologie-biologie [Pathol Biol (Paris)] 2010 Apr; Vol. 58 (2), pp. 175-8. Date of Electronic Publication: 2009 Nov 25. - Publication Year :
- 2010
-
Abstract
- Purpose of the Study: Hepatitis C virus genotyping is needed for treatment decision and monitoring. The results of a genotyping assay based on real-time PCR and TaqMan chemistry were compared with the results of NS5B region sequencing.<br />Materials and Methods: One hundred and two sera (genotypes 1-6) were tested. Amplification and detection of viral RNA were performed with the Abbott RealTime HCV Genotype II assay targeting 5'non-coded region (5'NC) for the identification of genotypes 1 to 6 and NS5B, for 1a and 1b subtypes detection. Sequencing of 5'NC fragment was used to resolve discrepant results.<br />Results: No indeterminate results were obtained. Concordance with NS5B sequencing was 93% (95 on 102), 96% at the genotype level (98 on 102) and 93% for genotype 1 subtyping (40 on 43). Discordant genotyping results were a 2f subtype identified as 5, a 6a typed as 1, a 3a identified as a 1-3 co-infection and a 4r identified as a 1-4 co-infection. Discordant subtyping results were 2 1b subtypes only typed as 1 and a 1e identified as 1a.<br />Conclusion: Abbott RealTime HCV Genotype II assay is a rapid, automated and simple to interpret method for HCV genotyping. It allows the detection of possible mixed infections which might have a negative impact on therapeutic response. However, the discrepant results found in this small series underline the need for assay optimization.<br /> (Copyright 2009 Elsevier Masson SAS. All rights reserved.)
- Subjects :
- Hepacivirus classification
Hepacivirus isolation & purification
Hepatitis C, Chronic blood
Hepatitis C, Chronic virology
Humans
Prospective Studies
RNA, Viral blood
RNA, Viral isolation & purification
Taq Polymerase
Time Factors
Viremia virology
Computer Systems
Genotype
Hepacivirus genetics
Polymerase Chain Reaction methods
RNA, Viral genetics
Reagent Kits, Diagnostic
Sequence Analysis, RNA methods
Subjects
Details
- Language :
- French
- ISSN :
- 1768-3114
- Volume :
- 58
- Issue :
- 2
- Database :
- MEDLINE
- Journal :
- Pathologie-biologie
- Publication Type :
- Academic Journal
- Accession number :
- 19942365
- Full Text :
- https://doi.org/10.1016/j.patbio.2009.07.023