HIV Drug Resistance Mutations (DRMs) Detected by Deep Sequencing in Virologic Failure Subjects on Therapy from Hunan Province, China

PloS One
Xi ChenMichael J Kozal

Abstract

Determine HIV drug resistance mutations (DRMs) prevalence at low and high levels in ART-experienced patients experiencing virologic failure (VF). 29 subjects from 18 counties in Hunan Province that experienced VF were evaluated for the prevalence of DRMs (Stanford DRMs with an algorithm value ≥15, include low-, intermediate and high-level resistance) by both Sanger sequencing (SS) and deep sequencing (DS) to 1% frequency levels. DS was performed on samples from 29 ART-experienced subjects; the median viral load 4.95×10(4) c/ml; 82.76% subtype CRF01_AE. 58 DRMs were detected by DS. 18 DRMs were detected by SS. Of the 58 mutations detected by DS, 40 were at levels <20% frequency (26 NNRTI, 12 NRTI and 2 PI) and the majority of these 95.00% (38/40) were not detected by standard genotyping. Of these 40 low-level DRMs, 16 (40%) were detected at frequency levels of 1-4% and 24 (60%) at levels of 5-19%. SS detected 15 of 17 (88.24%) DRMs at levels ≥ 20% that were detected by DS. The only variable associated with the detection of DRMs by DS was ART adherence (missed doses in the prior 7 days); all patients that reported missing a dose in the last 7 days had DRMs detected by DS. DS of VF samples from treatment experienced subjects infec...Continue Reading

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Citations

Oct 13, 2018·Open Forum Infectious Diseases·Mary F KearneyJohn M Coffin
Aug 12, 2018·International Journal of Environmental Research and Public Health·Andrea AriasVanessa Rivera-Amill
Nov 23, 2019·Scientific Reports·Maja OrozSnježana Židovec Lepej

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Methods Mentioned

BETA
genotyping
PCR
Amplicon Sequencing

Software Mentioned

SPSS
Vector NTI Suite
Contig Express Project
GS Amplicon Variant Analyzer ( AVA )

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