title: A novel hepatitis C virus genotyping method based on liquid microarray.
abstract: The strategy used to treat HCV infection depends on the genotype involved. An accurate and reliable genotyping method is therefore of paramount importance. We describe here, for the first time, the use of a liquid microarray for HCV genotyping. This liquid microarray is based on the 5'UTR - the most highly conserved region of HCV - and the variable region NS5B sequence. The simultaneous genotyping of two regions can be used to confirm findings and should detect inter-genotypic recombination. Plasma samples from 78 patients infected with viruses with genotypes and subtypes determined in the Versant™ HCV Genotype Assay LiPA (version I; Siemens Medical Solutions, Diagnostics Division, Fernwald, Germany) were tested with our new liquid microarray method. This method successfully determined the genotypes of 74 of the 78 samples previously genotyped in the Versant™ HCV Genotype Assay LiPA (74/78, 95%). The concordance between the two methods was 100% for genotype determination (74/74). At the subtype level, all 3a and 2b samples gave identical results with both methods (17/17 and 7/7, respectively). Two 2c samples were correctly identified by microarray, but could only be determined to the genotype level with the Versant™ HCV assay. Genotype "1" subtypes (1a and 1b) were correctly identified by the Versant™ HCV assay and the microarray in 68% and 40% of cases, respectively. No genotype discordance was found for any sample. HCV was successfully genotyped with both methods, and this is of prime importance for treatment planning. Liquid microarray assays may therefore be added to the list of methods suitable for HCV genotyping. It provides comparable results and may readily be adapted for the detection of other viruses frequently co-infecting HCV patients. Liquid array technology is thus a reliable and promising platform for HCV genotyping.
authors.affiliation: Instituto Carlos Chagas-Fundação Oswaldo Cruz, Curitiba, Brazil.
authors.forename: Cesar A B
authors.initials: CA
authors.lastname: Duarte
authors.forename: Leonardo
authors.initials: L
authors.lastname: Foti
authors.forename: Sueli M
authors.initials: SM
authors.lastname: Nakatani
authors.forename: Irina N
authors.initials: IN
authors.lastname: Riediger
authors.forename: Celina O
authors.initials: CO
authors.lastname: Poersch
authors.forename: Daniela P
authors.initials: DP
authors.lastname: Pavoni
authors.forename: Marco A
authors.initials: MA
authors.lastname: Krieger
mesh_terms: D020121:5' Untranslated Regions; D005838:Genotype; D016174:Hepacivirus / Q000235:genetics* / Q000302:isolation & purification; D006526:Hepatitis C / Q000821:virology*; D006801:Humans; D046228:Microarray Analysis / Q000379:methods*; D008969:Molecular Sequence Data; D012680:Sensitivity and Specificity; D017361:Viral Nonstructural Proteins / Q000235:genetics; D012324:RNA-Dependent RNA Polymerase
chemical_list: D020121:5' Untranslated Regions; D017361:Viral Nonstructural Proteins; C087036:NS-5 protein, hepatitis C virus; D012324:RNA-Dependent RNA Polymerase