Use of a commercially available line probe assay for genotyping of hepatitis C virus 5a strains.
To validate a commercially available line probe assay for samples containing the infrequently found hepatitis C virus (HCV) genotype 5a, we sequenced a 511-nucleotide fragment of the NS4b region of Belgian and South African HCV genotype 5a samples. Phylogenetic analysis of the sequence data was performed. For the 77 HCV genotype 5a samples collected, there was 100% concordance between the genotype assignment by the line probe assay and the genotyping based on nucleotide sequencing, despite sequence heterogeneity in the probe binding sites of some samples.
Verbeeck
Jannick
J
Laboratory of Clinical and Epidemiological Virology, Minderbroedersstraat 10, B-3000 Leuven, Belgium.
Maes
Piet
P
Wollants
Elke
E
Van der Merwe
Schalk
S
Song
Ernie
E
Nevens
Frederik
F
Van Ranst
Marc
M
D020121:5' Untranslated Regions / Q000235:genetics; D005838:Genotype; D016174:Hepacivirus / Q000145:classification* / Q000235:genetics*; D006526:Hepatitis C / Q000821:virology; D006801:Humans; D015336:Molecular Probe Techniques; D015345:Oligonucleotide Probes; D011933:Reagent Kits, Diagnostic; D020133:Reverse Transcriptase Polymerase Chain Reaction / Q000379:methods*; D017361:Viral Nonstructural Proteins / Q000235:genetics
D020121:5' Untranslated Regions; C093542:NS4 protein, hepatitis C virus; D015345:Oligonucleotide Probes; D011933:Reagent Kits, Diagnostic; D017361:Viral Nonstructural Proteins