Dynamically elongated associative toehold for tuning DNA circuit kinetics and thermodynamics. - OpacWWW

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Tytuł:: Dynamically elongated associative toehold for tuning DNA circuit kinetics and thermodynamics.
Autorzy:: Ang YS; Chemical & Biomolecular Engineering, National University of Singapore, 4 Engineering Drive 4,117585, Singapore.
Yung LL; Chemical & Biomolecular Engineering, National University of Singapore, 4 Engineering Drive 4,117585, Singapore.
Źródło:: Nucleic acids research [Nucleic Acids Res] 2021 May 07; Vol. 49 (8), pp. 4258-4265.
Typ publikacji:: Journal Article; Research Support, Non-U.S. Gov't
Język:: English
Imprint Name(s):: Publication: 1992- : Oxford : Oxford University Press
Original Publication: London, Information Retrieval ltd.
MeSH Terms:: Base Pairing*
DNA/*chemistry
Kinetics ; Thermodynamics
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Substance Nomenclature:: 9007-49-2 (DNA)
Entry Date(s):: Date Created: 20210413 Date Completed: 20210528 Latest Revision: 20210528
Update Code:: 20240104
PubMed Central ID:: PMC8096276
DOI:: 10.1093/nar/gkab212
PMID:: 33849054
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Associative toehold is a powerful concept enabling efficient combinatorial computation in DNA circuit. A longer association length boosts circuit kinetics and equilibrium signal but results in higher leak rate. We reconcile this trade-off by using a hairpin lock design to dynamically elongate the effective associative toehold length in response to the input target. Design guidelines were established to achieve robust elongation without incurring additional leakages. Three hairpin initiators with different combinations of elongated associative toehold (4 → 6 nt, 5 → 8 nt and 6 → 9 nt) were shortlisted from the design framework for further discussion. The circuit performance improved in terms of reaction kinetics, equilibrium signal generated and limit of detection. Overall, the elongated associative toehold served as a built-in function to stabilize and favour the forward, desired reaction when triggered.
(© The Author(s) 2021. Published by Oxford University Press on behalf of Nucleic Acids Research.)

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Dynamically elongated associative toehold for tuning DNA circuit kinetics and thermodynamics.