Accelerating DNA-based computing on a supramolecular polymer

Wouter Engelen, Sjors P.W. Wijnands, Maarten Merkx

Research output: Contribution to journalArticleAcademicpeer-review

11 Citations (Scopus)
48 Downloads (Pure)

Abstract

Dynamic DNA-based circuits represent versatile systems to perform complex computing operations at the molecular level. However, the majority of DNA circuits relies on freely diffusing reactants, which slows down their rate of operation substantially. Here we introduce the use of DNA-functionalized benzene-1,3,5-tricarboxamide (BTA) supramolecular polymers as dynamic scaffolds to template DNA-based molecular computing. By selectively recruiting DNA circuit components to a supramolecular BTA polymer functionalized with 10-nucleotide handle strands, the kinetics of strand displacement and strand exchange reactions were accelerated 100-fold. In addition, strand exchange reactions were also favored thermodynamically by bivalent interactions between the reaction product and the supramolecular polymer. The noncovalent assembly of the supramolecular polymers enabled straightforward optimization of the polymer composition to best suit various applications. The ability of supramolecular BTA polymers to increase the efficiency of DNA-based computing was demonstrated for three well-known and practically important DNA-computing operations: multi-input AND gates, Catalytic Hairpin Assembly and Hybridization Chain Reactions. This work thus establishes supramolecular BTA polymers as an efficient platform for DNA-based molecular operations, paving the way for the construction of autonomous bionanomolecular systems that confine and combine molecular sensing, computation, and actuation.

Original languageEnglish
Pages (from-to)9758-9767
Number of pages10
JournalJournal of the American Chemical Society
Volume140
Issue number30
DOIs
Publication statusPublished - 1 Aug 2018

Fingerprint

Polymers
DNA
Benzene
Networks (circuits)
Molecular Computers
Nucleotides
Reaction products
Scaffolds
Kinetics
benzene-1,3,5-tricarboxamide
Chemical analysis

Cite this

Engelen, Wouter ; Wijnands, Sjors P.W. ; Merkx, Maarten. / Accelerating DNA-based computing on a supramolecular polymer. In: Journal of the American Chemical Society. 2018 ; Vol. 140, No. 30. pp. 9758-9767.
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Accelerating DNA-based computing on a supramolecular polymer. / Engelen, Wouter; Wijnands, Sjors P.W.; Merkx, Maarten.

In: Journal of the American Chemical Society, Vol. 140, No. 30, 01.08.2018, p. 9758-9767.

Research output: Contribution to journalArticleAcademicpeer-review

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