Enzyme-free colorimetric detection systems based on the DNA strand displacement competition reaction

Zhao Zhang; Victoria Birkedal; Kurt Vesterager Gothelf

doi:10.1088/1367-2630/18/5/055002

Enzyme-free colorimetric detection systems based on the DNA strand displacement competition reaction

Zhao Zhang, Victoria Birkedal, Kurt Vesterager Gothelf

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

2 Citations (Scopus)

Abstract

The strand displacement competition assay is based on the dynamic equilibrium of the competitive hybridization of two oligonucleotides (A and B) to a third oligonucleotide (S). In the presence of an analyte that binds to a specific affinity-moiety conjugated to strand B, the equilibrium shifts, which can be detected by a shift in the fluorescence resonance energy transfer signal between dyes attached to the DNA strands. In the present study we have integrated an ATP aptamer in the strand B and demonstrated the optical detection of ATP. Furthermore we explore a new readout method using a split G-quadruplex DNAzyme for colorimetric readout of the detection of streptavidin by the naked eye. Finally, we integrate the whole G-quadruplex DNAzyme system in a single DNA strand and show that it is applicable to colorimetric detection.

Original language	English
Article number	055002
Journal	New Journal of Physics
Volume	18
Issue	5
ISSN	1367-2630
DOIs	https://doi.org/10.1088/1367-2630/18/5/055002
Publication status	Published - 6 May 2016

Keywords

Aptamer
DNA
G-quadruplex
Sensor
Strand displacement

Access to Document

10.1088/1367-2630/18/5/055002Licence: CC BY

Cite this

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title = "Enzyme-free colorimetric detection systems based on the DNA strand displacement competition reaction",

abstract = "The strand displacement competition assay is based on the dynamic equilibrium of the competitive hybridization of two oligonucleotides (A and B) to a third oligonucleotide (S). In the presence of an analyte that binds to a specific affinity-moiety conjugated to strand B, the equilibrium shifts, which can be detected by a shift in the fluorescence resonance energy transfer signal between dyes attached to the DNA strands. In the present study we have integrated an ATP aptamer in the strand B and demonstrated the optical detection of ATP. Furthermore we explore a new readout method using a split G-quadruplex DNAzyme for colorimetric readout of the detection of streptavidin by the naked eye. Finally, we integrate the whole G-quadruplex DNAzyme system in a single DNA strand and show that it is applicable to colorimetric detection.",

keywords = "Aptamer, DNA, G-quadruplex, Sensor, Strand displacement",

author = "Zhao Zhang and Victoria Birkedal and Gothelf, {Kurt Vesterager}",

year = "2016",

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Enzyme-free colorimetric detection systems based on the DNA strand displacement competition reaction. / Zhang, Zhao; Birkedal, Victoria ; Gothelf, Kurt Vesterager.
In: New Journal of Physics, Vol. 18, No. 5, 055002, 06.05.2016.

Research output: Contribution to journal/Conference contribution in journal/Contribution to newspaper › Journal article › Research › peer-review

TY - JOUR

T1 - Enzyme-free colorimetric detection systems based on the DNA strand displacement competition reaction

AU - Zhang, Zhao

AU - Birkedal, Victoria

AU - Gothelf, Kurt Vesterager

PY - 2016/5/6

Y1 - 2016/5/6

N2 - The strand displacement competition assay is based on the dynamic equilibrium of the competitive hybridization of two oligonucleotides (A and B) to a third oligonucleotide (S). In the presence of an analyte that binds to a specific affinity-moiety conjugated to strand B, the equilibrium shifts, which can be detected by a shift in the fluorescence resonance energy transfer signal between dyes attached to the DNA strands. In the present study we have integrated an ATP aptamer in the strand B and demonstrated the optical detection of ATP. Furthermore we explore a new readout method using a split G-quadruplex DNAzyme for colorimetric readout of the detection of streptavidin by the naked eye. Finally, we integrate the whole G-quadruplex DNAzyme system in a single DNA strand and show that it is applicable to colorimetric detection.

AB - The strand displacement competition assay is based on the dynamic equilibrium of the competitive hybridization of two oligonucleotides (A and B) to a third oligonucleotide (S). In the presence of an analyte that binds to a specific affinity-moiety conjugated to strand B, the equilibrium shifts, which can be detected by a shift in the fluorescence resonance energy transfer signal between dyes attached to the DNA strands. In the present study we have integrated an ATP aptamer in the strand B and demonstrated the optical detection of ATP. Furthermore we explore a new readout method using a split G-quadruplex DNAzyme for colorimetric readout of the detection of streptavidin by the naked eye. Finally, we integrate the whole G-quadruplex DNAzyme system in a single DNA strand and show that it is applicable to colorimetric detection.

KW - Aptamer

KW - DNA

KW - G-quadruplex

KW - Sensor

KW - Strand displacement

U2 - 10.1088/1367-2630/18/5/055002

DO - 10.1088/1367-2630/18/5/055002

M3 - Journal article

SN - 1367-2630

VL - 18

JO - New Journal of Physics

JF - New Journal of Physics

IS - 5

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