Light-up properties of complexes between thiazole orange-small molecule conjugates and aptamers

Nucleic Acids Res. 2009 May;37(8):e59. doi: 10.1093/nar/gkp154. Epub 2009 Mar 17.

Abstract

The full understanding of dynamics of cellular processes hinges on the development of efficient and non-invasive labels for intracellular RNA species. Light-up aptamers binding fluorogenic ligands show promise as specific labels for RNA species containing those aptamers. Herein, we took advantage of existing, non-light-up aptamers against small molecules and demonstrated a new class of light-up probes in vitro. We synthesized two conjugates of thiazole orange dye to small molecules (GMP and AMP) and characterized in vitro their interactions with corresponding RNA aptamers. The conjugates preserved specific binding to aptamers while showing several 100-fold increase in fluorescence of the dye (the 'light-up' property). In the presence of free small molecules, conjugates can be displaced from aptamers serving also as fluorescent sensors. Our in vitro results provide the proof-of-concept that the small-molecule conjugates with light-up properties can serve as a general approach to label RNA sequences containing aptamers.

Publication types

  • Research Support, Non-U.S. Gov't
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Adenosine Monophosphate / analogs & derivatives*
  • Adenosine Monophosphate / chemical synthesis
  • Adenosine Monophosphate / chemistry
  • Aptamers, Nucleotide / chemistry*
  • Fluorescent Dyes / chemistry*
  • Guanosine Monophosphate / analogs & derivatives*
  • Guanosine Monophosphate / chemical synthesis
  • Guanosine Monophosphate / chemistry
  • Nucleotides / chemistry
  • Spectrometry, Fluorescence
  • Thiazoles / chemical synthesis
  • Thiazoles / chemistry*

Substances

  • Aptamers, Nucleotide
  • Fluorescent Dyes
  • Nucleotides
  • Thiazoles
  • Adenosine Monophosphate
  • Guanosine Monophosphate