Catalytic Molecular Logic Devices by DNAzyme Displacement
- 1 April 2014
- journal article
- research article
- Published by Wiley in ChemBioChem
- Vol. 15 (7) , 950-954
Abstract
Chemical reactions catalyzed by DNAzymes offer a route to programmable modification of biomolecules for therapeutic purposes. To this end, we have developed a new type of catalytic DNA‐based logic gates in which DNAzyme catalysis is controlled via toehold‐mediated strand displacement reactions. We refer to these as DNAzyme displacement gates. The use of toeholds to guide input binding provides a favorable pathway for input recognition, and the innate catalytic activity of DNAzymes allows amplification of nanomolar input concentrations. We demonstrate detection of arbitrary input sequences by rational introduction of mismatched bases into inhibitor strands. Furthermore, we illustrate the applicability of DNAzyme displacement to compute logic functions involving multiple logic gates. This work will enable sophisticated logical control of a range of biochemical modifications, with applications in pathogen detection and autonomous theranostics.Keywords
This publication has 87 references indexed in Scilit:
- A library of programmable DNAzymes that operate in a cellular environmentScientific Reports, 2013
- Logic reversibility and thermodynamic irreversibility demonstrated by DNAzyme-based Toffoli and Fredkin logic gatesProceedings of the National Academy of Sciences, 2012
- Establishing broad generality of DNA catalysts for site-specific hydrolysis of single-stranded DNANucleic Acids Research, 2011
- DNA Nanotechnology for Nucleic Acid Analysis: DX Motif‐Based SensorChemBioChem, 2011
- Timing molecular motion and production with a synthetic transcriptional clockProceedings of the National Academy of Sciences, 2011
- Activation and Deactivation of DNAzyme and Antisense Function with Light for the Photochemical Regulation of Gene Expression in Mammalian CellsJournal of the American Chemical Society, 2010
- Robustness and modularity properties of a non-covalent DNA catalytic reactionNucleic Acids Research, 2010
- MNAzymes, a Versatile New Class of Nucleic Acid Enzymes That Can Function as Biosensors and Molecular SwitchesJournal of the American Chemical Society, 2009
- DNA-catalyzed sequence-specific hydrolysis of DNANature Chemical Biology, 2009
- An autonomous molecular computer for logical control of gene expressionNature, 2004