Label-free, non-enzymatic and ultrasensitive electrochemical nucleic acid biosensing by tandem DNA-fueled target recycling and hybridization chain reaction

Li, Shufeng; Li, Fang; Tian, Yishen; Wei, Wenji; Wang, Li

doi:10.1016/j.snb.2017.01.017

Cited by 13 publications

(6 citation statements)

References 50 publications

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“…Inspired by these biological examples, the initial impetus for devising enzyme-free DNA reaction networks displaying catalytic behavior was to make artificial systems that behave like free-running motors rather then the stepped DNA motors briefly discussed above . Since catalytic systems can function as chemical amplifiers, the application of enzyme free DNA-based catalytic networks as sensor and detector systems later became a major driving force in the development of these systems. ,− …”

Section: Catalytic Processes Based On Strand Displacementmentioning

confidence: 99%

“…This involves toehold-mediated strand displacement combined with molecular beacons, dendritic assemblies from DNA and PNA, and various sensors based on fluorogenic G quadruplexes. , Strand displacement schemes were combined with surface enhanced Raman scattering (SERS), electrochemiluminescence, or enzymatic amplification by acetylcholinesterase, to name but a few. Depending on the specific scheme and the number of amplification steps, limits of detection in the picomolar, femtomolar, ,,, or even attomolar range ,, were reported.…”

Section: Applications In Sensing Diagnostics and Therapeuticsmentioning

confidence: 99%

“…A considerable amount of experimental and theoretical work has been devoted to finding means to eliminate or mitigate against these reactions. ,,− Dynamic DNA nanotechnology has seen the greatest amount of activity in research directed to the practical application in medical diagnostics , and therapeutics, − an area that appears especially attractive due to the biocompatibility and the ease with which nucleic acid based devices and systems can be interfaced with biological DNA and RNA. DNA hybridization networks, functioning as nucleic acid detectors, achieving attomolar − and even subattomolar DNA detection sensitivity − have recently been reported.…”

Section: Introductionmentioning

confidence: 99%

“…Here are listed a few of the other highlights of the field to convey a sense of what has been accomplished since the year 2000: (i) DNA walkers that walk on DNA substrates much as myosin motors walk on actin, , (ii) nanofactories, − (iii) oscillatory DNA reaction networks, (iv) a DNA polymerization motor that emulates the actin polymerization motor of Listeria bacteria, (v) polymerization reaction networks for biological labeling and analyte detection, (vi) strand-displacement systems operating in living cells, and also (vii) chemical reaction networks, consisting of hundreds of DNA strands that carry out computational tasks …”

Section: Introductionmentioning

confidence: 99%

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Principles and Applications of Nucleic Acid Strand Displacement Reactions

2019

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Dynamic DNA nanotechnology, a subfield of DNA nanotechnology, is concerned with the study and application of nucleic acid strand-displacement reactions. Strand-displacement reactions generally proceed by three-way or four-way branch migration and initially were investigated for their relevance to genetic recombination. Through the use of toeholds, which are single-stranded segments of DNA to which an invader strand can bind to initiate branch migration, the rate with which strand displacement reactions proceed can be varied by more than 6 orders of magnitude. In addition, the use of toeholds enables the construction of enzyme-free DNA reaction networks exhibiting complex dynamical behavior. A demonstration of this was provided in the year 2000, in which strand displacement reactions were employed to drive a DNAbased nanomachine et al. Nature 2000, 406, 605−608). Since then, toeholdmediated strand displacement reactions have been used with ever increasing sophistication and the field of dynamic DNA nanotechnology has grown exponentially. Besides molecular machines, the field has produced enzyme-free catalytic systems, all DNA chemical oscillators and the most complex molecular computers yet devised. Enzyme-free catalytic systems can function as chemical amplifiers and as such have received considerable attention for sensing and detection applications in chemistry and medical diagnostics. Strand-displacement reactions have been combined with other enzymatically driven processes and have also been employed within living cells (Groves, B.; et al. Nat. Nanotechnol. 2015, 11, 287−294). Strand-displacement principles have also been applied in synthetic biology to enable artificial gene regulation and computation in bacteria. Given the enormous progress of dynamic DNA nanotechnology over the past years, the field now seems poised for practical application.

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Section: Catalytic Processes Based On Strand Displacementmentioning

confidence: 99%

Section: Applications In Sensing Diagnostics and Therapeuticsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Principles and Applications of Nucleic Acid Strand Displacement Reactions

2019

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“…Analogously, an improved in-situ DNA HCR named quick HCR-FISH was tested for the rapid and sensitive identification of marine bacteria with low rRNA contents not only in seawater but also in sediment samples [ 136 ]. Recently, HCR acting in tandem with a DNA-fueled target recycling reaction was used for the isothermal, label-free, non-enzymatic amplification and ultra-sensitive electrochemical detection of nucleic acids [ 137 ]. Although it was only a proof-of-concept (depicted in Figure 5 ), the tandem could be exploited in environmental analysis of pathogens from aquatic ecosystems.…”

Section: Enhancing Performancementioning

confidence: 99%

Molecular Techniques for the Detection of Organisms in Aquatic Environments, with Emphasis on Harmful Algal Bloom Species

Medlin

Orozco

2017

Sensors

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Molecular techniques to detect organisms in aquatic ecosystems are being gradually considered as an attractive alternative to standard laboratory methods. They offer faster and more accurate means of detecting and monitoring species, with respect to their traditional homologues based on culture and microscopic counting. Molecular techniques are particularly attractive when multiple species need to be detected and/or are in very low abundance. This paper reviews molecular techniques based on whole cells, such as microscope-based enumeration and Fluorescence In-Situ Hybridization (FISH) and molecular cell-free formats, such as sandwich hybridization assay (SHA), biosensors, microarrays, quantitative polymerase chain reaction (qPCR) and real time PCR (RT-PCR). Those that combine one or several laboratory functions into a single integrated system (lab-on-a-chip) and techniques that generate a much higher throughput data, such as next-generation systems (NGS), were also reviewed. We also included some other approaches that enhance the performance of molecular techniques. For instance, nano-bioengineered probes and platforms, pre-concentration and magnetic separation systems, and solid-phase hybridization offer highly pre-concentration capabilities. Isothermal amplification and hybridization chain reaction (HCR) improve hybridization and amplification techniques. Finally, we presented a study case of field remote sensing of harmful algal blooms (HABs), the only example of real time monitoring, and close the discussion with future directions and concluding remarks.

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Electrochemical Biosensors Employing Hybridization Chain Reaction: From Structural Design to Applications

et al. 2022

Adv Materials Inter

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Electrochemical biosensors are one of the most emerging sensor technologies for many applications including disease diagnosis, environmental monitoring, and food safety, etc. They often rely on amplification strategies to achieve ultrasensitivity for the specific analytes of interest, as they feature extremely low abundance, such as ctDNA and other protein‐type cancer biomarkers. Among all the amplification strategies, hybridization chain reaction (HCR) is extremely cost‐effective, simple, enzyme‐free, and reacts under isothermal conditions, thus often employed in the electrochemical biosensors towards the goal of sensitivity enhancement. By coupling HCR and electrochemistry, it has proved to benefit a great variety of analytes, including ions, small molecules, nucleic acids, proteins, and cells, etc. Given the recent advance of HCR‐amplified electrochemical biosensors, here one aims to review the significant achievements of this platform over the past 10 years, covering their design in HCR constructs in response to the respective targets, and their challenges and opportunities.

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Label-free, non-enzymatic and ultrasensitive electrochemical nucleic acid biosensing by tandem DNA-fueled target recycling and hybridization chain reaction

Cited by 13 publications

References 50 publications

Principles and Applications of Nucleic Acid Strand Displacement Reactions

Principles and Applications of Nucleic Acid Strand Displacement Reactions

Molecular Techniques for the Detection of Organisms in Aquatic Environments, with Emphasis on Harmful Algal Bloom Species

Electrochemical Biosensors Employing Hybridization Chain Reaction: From Structural Design to Applications

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