Characterization of RNA structure by bis-pyrene-labeled 2'-O-methyloligonucleotides

Nucleic Acids Symp Ser. 2000:(44):199-200. doi: 10.1093/nass/44.1.199.

Abstract

Properties of 2'-O-methyloligoribonucleotides containing two consecutive 2'-O-(1-pyrenylmethyl)uridine were investigated as a fluorescent probe to search the single strand regions of RNA. The bis-pyrene-labeled 2'-O-methyloligoribonucleotide (OMUpy2) induced the formation of pyrene dimer upon hybridization with the complementary oligoribonucleotides and showed remarkable appearance of broad structureless fluorescence at 480 nm. Contrarily, when OMUpy2 was hybridized with the complementary oligodeoxyribonucleotides, such enhancement of fluorescence was scarcely observed. When various OMUpy2 were applied to E. coli 5S-rRNA, the fluorescence intensity at 480 nm was varied in a sequence specific manner.

MeSH terms

  • Base Sequence
  • Fluorescent Dyes
  • Molecular Structure
  • Nucleic Acid Hybridization
  • Oligonucleotide Probes / chemical synthesis
  • Oligonucleotide Probes / chemistry*
  • Oligoribonucleotides, Antisense / chemical synthesis
  • Oligoribonucleotides, Antisense / chemistry
  • Pyrenes / chemistry
  • RNA / chemistry*
  • Spectrometry, Fluorescence

Substances

  • Fluorescent Dyes
  • Oligonucleotide Probes
  • Oligoribonucleotides, Antisense
  • Pyrenes
  • RNA