title: Light-up properties of complexes between thiazole orange-small molecule conjugates and aptamers.
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.
authors.affiliation: Division of Experimental Therapeutics, Department of Medicine, Columbia University, New York, NY 10032, USA. rp2164@columbia.edu
authors.forename: Renjun
authors.initials: R
authors.lastname: Pei
authors.forename: Jeffrey
authors.initials: J
authors.lastname: Rothman
authors.forename: Yuli
authors.initials: Y
authors.lastname: Xie
authors.forename: Milan N
authors.initials: MN
authors.lastname: Stojanovic
mesh_terms: D000249:Adenosine Monophosphate / Q000031:analogs & derivatives* / Q000138:chemical synthesis / Q000737:chemistry; D052157:Aptamers, Nucleotide / Q000737:chemistry*; D005456:Fluorescent Dyes / Q000737:chemistry*; D006157:Guanosine Monophosphate / Q000031:analogs & derivatives* / Q000138:chemical synthesis / Q000737:chemistry; D009711:Nucleotides / Q000737:chemistry; D013050:Spectrometry, Fluorescence; D013844:Thiazoles / Q000138:chemical synthesis / Q000737:chemistry*
chemical_list: D052157:Aptamers, Nucleotide; D005456:Fluorescent Dyes; D009711:Nucleotides; D013844:Thiazoles; D000249:Adenosine Monophosphate; D006157:Guanosine Monophosphate