A study of oligonucleotide reassociation using large arrays of oligonucleotides synthesised on a glass support

Nucleic Acids Res. 1993 Oct 11;21(20):4663-9. doi: 10.1093/nar/21.20.4663.

Abstract

An extensive analysis of oligonucleotide interactions was carried out by hybridising a synthetic pool of 256 10mers, A(C,T)8A, representing all oligopyrimidine octamer sequences to an array of four copies of all 256 different octapurine sequences. The resulting 256 duplexes were quantified by phosphorimaging and analysed to determine the dependence of duplex formation on base composition, sequence, and salt concentration. The results show that the base composition dependence of duplex formation can be reduced by high concentrations of tetramethylammonium chloride. This chaotropic solvent also increases duplex yield by up to fifty-fold.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Base Composition
  • Base Sequence
  • Chromatography, High Pressure Liquid
  • Glass
  • Molecular Sequence Data
  • Nucleic Acid Conformation
  • Nucleic Acid Hybridization*
  • Oligonucleotides / chemical synthesis
  • Oligonucleotides / chemistry*
  • Quaternary Ammonium Compounds
  • Salts

Substances

  • Oligonucleotides
  • Quaternary Ammonium Compounds
  • Salts
  • tetramethylammonium