Accurate quantification of CXCR4-using HIV-1 variants by Illumina deep-sequencing

AIDS. 2018 Oct 23;32(16):2429-2431. doi: 10.1097/QAD.0000000000001976.

Abstract

: Next-generation sequencing is a sensitive method for determining HIV-1 tropism but there is a lack of data on the quantification of X4 variants. We evaluated MiSeq and 454 GS-Junior platforms for determining HIV-1 tropism and for quantifying X4 variants. Both platforms were 93% concordant for determining HIV-1 tropism and correlated well for determining the proportion of X4 variants (Spearman correlation, ρ = 0.748; P < 0.0001). MiSeq Illumina sequencing seems to be well adapted for characterizing X4-containing samples.

Publication types

  • Comparative Study
  • Evaluation Study
  • Letter
  • Research Support, Non-U.S. Gov't

MeSH terms

  • HIV Infections / virology*
  • HIV-1 / classification*
  • HIV-1 / genetics*
  • HIV-1 / isolation & purification
  • HIV-1 / physiology
  • High-Throughput Nucleotide Sequencing / methods*
  • Humans
  • Receptors, CXCR4 / metabolism*
  • Receptors, HIV / metabolism*
  • Viral Tropism*

Substances

  • CXCR4 protein, human
  • Receptors, CXCR4
  • Receptors, HIV