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HIV-1 low copy viral sequencing-a prototype assay

Journal article
Authors Tomas Mellberg
Jon Krabbe
Magnus Gisslén
Bo Svennerholm
Published in Infectious Diseases
Volume 48
Issue 6
Pages 472-478
ISSN 2374-4235
Publication year 2016
Published at Institute of Biomedicine, Department of Microbiology and Immunology
Institute of Biomedicine, Department of Infectious Medicine
Pages 472-478
Language en
Keywords HIV-1, Low level viremia, Sequencing
Subject categories Clinical Laboratory Medicine, Microbiology in the medical area, Infectious Medicine


In HIV-1 patients with low viral burden, sequencing is often problematic, yet important. This study presents a sensitive, sub-type independent system for sequencing of low level viremia. Sequencing data from 32 HIV-1 infected patients with low level viremia were collected longitudinally. A combination of ViroSeq HIV-1 Genotyping System and an in-house nesting protocol was used. Eight sub-types were represented. The success-rate of amplification of both PR and RT in the same sample was 100% in samples with viral loads above 100 copies/ml. Below 100 copies/ml, this study managed to amplify both regions in 7/13 (54%) samples. The assays were able to amplify either PR or RT in all sub-types included but one sub-type A specimen. In conclusion, this study presents a promising, simple assay to increase the ability to perform HIV-1 resistance testing at low level viremia. This is a prototype assay and the method needs further testing to evaluate clinical performance. © 2016 Society for Scandinavian Journal of Infectious Diseases.

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