title: In Vitro Selection for Small-Molecule-Triggered Strand Displacement and Riboswitch Activity.
abstract: An in vitro selection method for ligand-responsive RNA sensors was developed that exploited strand displacement reactions. The RNA library was based on the thiamine pyrophosphate (TPP) riboswitch, and RNA sequences capable of hybridizing to a target duplex DNA in a TPP regulated manner were identified. After three rounds of selection, RNA molecules that mediated a strand exchange reaction upon TPP binding were enriched. The enriched sequences also showed riboswitch activity. Our results demonstrated that small-molecule-responsive nucleic acid sensors can be selected to control the activity of target nucleic acid circuitry.
authors.affiliation: CIBIO, University of Trento , Via Sommarive 9, 38123 Povo, Italy.
authors.forename: Laura
authors.initials: L
authors.lastname: Martini
authors.affiliation: Department of Chemistry and Biochemistry, Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, University of Texas at Austin , Austin, Texas 78712, United States.
authors.forename: Adam J
authors.initials: AJ
authors.lastname: Meyer
authors.affiliation: Department of Chemistry and Biochemistry, Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, University of Texas at Austin , Austin, Texas 78712, United States.
authors.forename: Jared W
authors.initials: JW
authors.lastname: Ellefson
authors.affiliation: Department of Chemistry and Biochemistry, Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, University of Texas at Austin , Austin, Texas 78712, United States.
authors.forename: John N
authors.initials: JN
authors.lastname: Milligan
authors.affiliation: CIBIO, University of Trento , Via Sommarive 9, 38123 Povo, Italy.
authors.forename: Michele
authors.initials: M
authors.lastname: Forlin
authors.affiliation: Department of Chemistry and Biochemistry, Institute for Cellular and Molecular Biology, Center for Systems and Synthetic Biology, University of Texas at Austin , Austin, Texas 78712, United States.
authors.forename: Andrew D
authors.initials: AD
authors.lastname: Ellington
authors.affiliation: CIBIO, University of Trento , Via Sommarive 9, 38123 Povo, Italy.
authors.forename: Sheref S
authors.initials: SS
authors.lastname: Mansy
mesh_terms: D052157:Aptamers, Nucleotide / Q000737:chemistry*; D015374:Biosensing Techniques; D009690:Nucleic Acid Conformation; D058928:Riboswitch / Q000235:genetics*
chemical_list: D052157:Aptamers, Nucleotide; D058928:Riboswitch
keywords: SELEX; aptamer; in vitro selection; riboswitch; strand displacement