Hypermutagenesis of RNA using human immunodeficiency virus type 1 reverse transcriptase and biased dNTP concentrations

Proc Natl Acad Sci U S A. 1994 Dec 6;91(25):11787-91. doi: 10.1073/pnas.91.25.11787.

Abstract

The finding of G-->A hypermutated retroviral genomes in which up to 40% of guanines may be substituted by adenines was proposed to result from the depletion of the intracellular dCTP concentration and suggested a means to hypermutagenize nucleic acids. Using a RNA/reverse transcriptase ratio of approximately 1:30, comparable to that within the retroviral replication complex, G-->A hypermutants were produced in a simple in vitro reaction using highly biased dNTP concentrations--i.e., a low ratio of [dCTP]/[dTTP]. Up to 38% of G residues could be substituted, the proportion being inversely proportional to the concentration of dCTP. As G-->A hypermutation resulted from elongation beyond multiple rG.dT mismatches, U-->C hypermutants resulting from multiple rU.dG mismatches were sought, and found, during cDNA synthesis using low [dATP] and high [dGTP]. Mixed G-->A and U-->C hypermutants could also be produced under conditions of low [dCTP] plus low [dATP] and high [dTTP] plus high [dGTP]. Hypermutagenesis should allow jumping through, and subsequent exploration of, sequence space to a greater degree than heretofore and, in conjunction with genetic screening, might be of use in the search of proteins or ribozymes with novel or enhanced properties.

Publication types

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

MeSH terms

  • Adenine
  • Base Sequence
  • Cloning, Molecular
  • DNA Primers
  • Deoxyribonucleotides / metabolism*
  • Genes, env
  • Guanine
  • HIV Reverse Transcriptase
  • HIV-1 / enzymology*
  • HIV-1 / genetics
  • HIV-1 / physiology
  • Kinetics
  • Molecular Sequence Data
  • Mutagenesis
  • Point Mutation*
  • Polymerase Chain Reaction
  • RNA, Viral / genetics*
  • RNA, Viral / metabolism
  • RNA-Directed DNA Polymerase / metabolism*
  • Recombinant Proteins / metabolism
  • Substrate Specificity
  • Virus Replication

Substances

  • DNA Primers
  • Deoxyribonucleotides
  • RNA, Viral
  • Recombinant Proteins
  • Guanine
  • HIV Reverse Transcriptase
  • RNA-Directed DNA Polymerase
  • Adenine