Optimization of allele-specific PCR using patient-specific HIV consensus sequences for primer design

J Virol Methods. 2010 Mar;164(1-2):122-6. doi: 10.1016/j.jviromet.2009.11.025. Epub 2009 Dec 3.

Abstract

Allele-specific PCR based on subtype consensus sequences is a powerful technique for detecting low frequency drug resistant mutants in HIV-1 infected patients. However, this approach can be limited by genetic variation in the region complementary to the primers, leading to variability in allele detection. The goals of this study were to quantify this effect and then to improve assay performance.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, N.I.H., Intramural
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Alleles
  • Consensus Sequence
  • DNA Primers / genetics*
  • Genotype
  • HIV Infections / virology*
  • HIV-1 / classification*
  • HIV-1 / genetics*
  • HIV-1 / isolation & purification
  • Humans
  • Polymerase Chain Reaction / methods*
  • Polymorphism, Genetic
  • RNA, Viral / genetics

Substances

  • DNA Primers
  • RNA, Viral