Journal ArticleDOI
A G-quadruplex based platform for label-free monitoring of DNA reaction kinetics.
TLDR
The kinetics of isothermal linear strand displacement amplification reactions with different DNA lengths and isothermal exponential amplification reactions were successfully elucidated via the G-quadruplex based monitoring platform.Abstract:
Research on the kinetic characteristics and mechanisms of DNA reactions is crucial for bioengineering and biosensing. A G-quadruplex, which can form a peroxidase-mimicking DNAzyme with hemin, was for the first time used to establish a versatile platform for kinetic investigations on DNA reactions. G-quadruplex sequence EAD2 was incorporated into the corresponding nucleic acid reaction as product. The kinetic curves can be obtained rapidly and simply via the quantification of created DNAzyme. In this paper, the kinetics of isothermal linear strand displacement amplification reactions with different DNA lengths and isothermal exponential amplification reactions were successfully elucidated via the G-quadruplex based monitoring platform. As a safe and accessible alternative to the traditional methods, this robust, label-free, time-saving and high-throughput platform shows great potential for the exploration of more novel DNA reactions or circuits in an ingenious manner.read more
Citations
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Posted ContentDOI
Rapidemic, a versatile and label-free DNAzyme-based platform for visual nucleic acid detection
van den Brink M,Tandar St,van den Akker Tap,Jovikj S,Defourt,Langelaar Tgb,Delzenne To,van Strien K,Schonk Aw,Beers Ajam,Golov E,Chong Lj,Bergman Gö,Meijdam Jjwd,Marjolein E. Crooijmans,Dennis Claessen,de Winde Jh +16 more
TL;DR: These findings demonstrate for the first time that a label-free DNAzyme-based detection method can be coupled to RPA and LSDA for nucleic acid detection.
References
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Journal ArticleDOI
Mutation detection and single-molecule counting using isothermal rolling-circle amplification
Paul M. Lizardi,Xiaohua Huang,Zhengrong Zhu,Patricia Bray-Ward,David C. Thomas,David C. Ward +5 more
TL;DR: Rolling-circle amplification (RCA) driven by DNA polymerase can replicate circularized oligonucleotide probes with either linear or geometric kinetics under isothermal conditions, making it particularly amenable for the analysis of rare somatic mutations.
Journal ArticleDOI
Scaling Up Digital Circuit Computation with DNA Strand Displacement Cascades
Lulu Qian,Erik Winfree +1 more
TL;DR: This work experimentally demonstrated several digital logic circuits, culminating in a four-bit square-root circuit that comprises 130 DNA strands, which enables fast and reliable function in large circuits with roughly constant switching time and linear signal propagation delays.
Journal ArticleDOI
Engineering entropy-driven reactions and networks catalyzed by DNA.
TL;DR: A design strategy is introduced that allows a specified input oligonucleotide to catalyze the release of a specified output oligon nucleotide, which in turn can serve as a catalyst for other reactions, which provides an amplifying circuit element that is simple, fast, modular, composable, and robust.
Journal ArticleDOI
Helicase-dependent isothermal DNA amplification
TL;DR: A new in vitro isothermal DNA amplification method by mimicking this in vivo mechanism, Helicase‐dependent amplification (HDA), which offers several advantages over other isothermalDNA amplification methods by having a simple reaction scheme and being a true isothermal reaction that can be performed at one temperature for the entire process.