Quantitative, competitive PCR assay for HIV-1 using a microplate-based detection system

Biotechniques. 1998 May;24(5):810-6. doi: 10.2144/98245dt01.

Abstract

We have developed a quantitative competitive PCR (QC-PCR) assay in a microplate format for quantifying human immunodeficiency virus Type 1 (HIV-1) DNA or RNA in a broad range of source materials. Our QC-PCR assay is a modification of technique originally described by Piatak et al. (1993), which is based on the presence of a competitive internal standard containing an internal 80-bp deletion of HIV-1 gag target sequence. For improved detection and quantification of the wild-type and internal-standard PCR products in a microplate format, we introduced a non-HIV, 31-bp insert into the internal standard as a probe hybridization site that does not cross-hybridize with wild-type HIV-1 products. By using a primer pair in which one primer is biotinylated, QC-PCRs can be bound to a streptavidin-coated microplate, denatured and probed with a digoxigenin (Dig)-labeled, wild-type or internal-standard probe. The hybridized Dig-labeled probes are detected with an anti-Dig antibody conjugated to detector molecules for luminometry (aequorin) or optical densitometry (peroxidase), yielding results that are quantifiable over the range of 100-10,000 copies of HIV gag. Tested source materials for HIV-1 DNA or RNA quantification include plasma, vaginal lavage and cultured cells. The application of the QC-PCR assay using the microplate format affords a convenient and cost-effective method for quantifying HIV-1 proviral and viral loads from a variety of body fluids, cells and tissues.

MeSH terms

  • Aequorin
  • DNA, Viral / analysis
  • DNA, Viral / blood
  • Digoxigenin
  • Female
  • HIV Infections / blood
  • HIV Infections / virology
  • HIV-1 / chemistry
  • HIV-1 / genetics*
  • HIV-1 / isolation & purification*
  • Humans
  • Oligonucleotide Probes
  • Peroxidase
  • Polymerase Chain Reaction / instrumentation
  • Polymerase Chain Reaction / methods*
  • Polymerase Chain Reaction / standards
  • RNA, Viral / analysis
  • RNA, Viral / blood
  • Therapeutic Irrigation
  • Vagina / chemistry

Substances

  • DNA, Viral
  • Oligonucleotide Probes
  • RNA, Viral
  • Aequorin
  • Peroxidase
  • Digoxigenin