Sensitive HIV-1 DNA Pol Next-Generation Sequencing for the Characterisation of Archived Antiretroviral Drug Resistance.
Johannes C BothaMatthew ByottMoira J SpyerPaul R GrantKathleen GärtnerWilson X ChenJames BurtonAlasdair BamfordLaura J WatersCarlo GiaquintoAnna TurkovaCindy L VavroEleni NastouliPublished in: Viruses (2023)
Modern HIV-1 treatment effectively suppresses viral amplification in people living with HIV. However, the persistence of HIV-1 DNA as proviruses integrated into the human genome remains the main barrier to achieving a cure. Next-generation sequencing (NGS) offers increased sensitivity for characterising archived drug resistance mutations (DRMs) in HIV-1 DNA for improved treatment options. In this study, we present an ultra-sensitive targeted PCR assay coupled with NGS and a robust pipeline to characterise HIV-1 DNA DRMs from buffy coat samples. Our evaluation supports the use of this assay for Pan-HIV-1 analyses with reliable detection of DRMs across the HIV-1 Pol region. We propose this assay as a new valuable tool for monitoring archived HIV-1 drug resistance in virologically suppressed individuals, especially in clinical trials investigating novel therapeutic approaches.
Keyphrases
- antiretroviral therapy
- hiv infected
- hiv positive
- human immunodeficiency virus
- hiv testing
- hiv aids
- hepatitis c virus
- men who have sex with men
- hiv infected patients
- circulating tumor
- clinical trial
- south africa
- single molecule
- high throughput
- cell free
- drug delivery
- copy number
- endothelial cells
- signaling pathway
- mass spectrometry
- dna methylation
- sars cov
- label free
- real time pcr
- phase ii