A signal-on electrogenerated chemiluminescent biosensor for lead ion based on DNAzyme

A highly reproducible and sensitive signal-on electrogenerated chemiluminescence (ECL) biosensor based on the DNAzyme for the determination of lead ion was developed. The ECL biosensor was fabricated by covalently coupling 5′-amino-DNAzyme-tagged with ruthenium bis (2,2′-bipyridine) (2,2′-bipyridine-4,4′-dicarboxylic acid)-ethylenediamine (Ru1-17E′) onto the surface of graphite electrode modified with 4-aminobenzoic acid, and then a DNA substrate with a ribonucleotide adenosine hybridized with Ru1-17E′ on the electrode. Upon binding of Pb²⁺ to the Ru1-17E′ to form a complex which catalyzed the cleavage of the DNA substrate, the double-stranded DNA was dissociated and thus led to a high ECL signal. The signal linearly increases with the concentration of Pb²⁺ in the range from 5.0 to 80 pM with a detection limit of 1.4 pM and a relative standard derivation of 2.3%. This work demonstrates that using DNAzyme tagged with ruthenium complex as an ECL probe and covalently coupling method for the fabrication of the ECL biosensor with high sensitivity, good stability and significant regeneration ability is promising approach.     

G-quadruplex-assisted enzyme strand recycling for amplified label-free fluorescent detection of UO22+

A G-quadruplex-assisted enzyme strand recycling strategy was developed for amplified label-free fluorescent detection of uranyl ion (UO₂²⁺).     

Target-responsive DNAzyme hydrogel for portable colorimetric detection of lanthanide(III) ions

Lanthanide elements (Ln) play an important role in industry and agriculture. As a result of the increasing consumption of lanthanides, environmental emission of Ln has become detrimental to the health of flora and fauna. Current methods for trace lanthanides detection mainly rely on sophisticated instruments. In this article, a Ln³⁺ dependent DNAzyme was incorporated into a hydrogel to generate Ln³⁺ sensitive DNAzyme hydrogel for portable colorimetric detection. The enzyme strand and its substrate strand act as crosslinker and functional unit of the hydrogel with polyacrylamide chains as the scaffold and gold nanoparticles (AuNPs) as the indicator of hydrogel stability. Any ions in the Ln³⁺ series can trigger the cleavage of substrate strand by activating the enzyme strand, thereby decreasing the crosslink ratio and leading to collapse of the hydrogel. The release of the encapsulated AuNPs turns the supernatant wine red. Using this colorimetric method, Ln³⁺ can be detected with high sensitivity, with a limit of detection (LOD) of 20 nM for Ce³⁺. The hydrogel responds specifically to any Ln³⁺ ion and works well with the spiked lake sample without the need of instruments and skilled operators. Our results suggest that the lanthanide responsive hydrogel can be used for portable and sensitive detection of Ln³⁺ contamination in the field.     

Dual Signal Amplification Electrochemical Biosensor for Lead Cation

Herein, a sensitive electrochemical Pb²⁺ sensor was developed which based on DNA‐functionalized Au nanoparticles(AuNPs) and nanocomposite modified electrode. The DNA‐functionalized AuNPs includes two types of DNA, namely a Pb²⁺‐mediated DNAzyme comprising a biotin labeled‐enzyme DNA and a substrate strand DNA with a typical stem‐loop structure, and a ferrocene‐labeled linear signal DNA. Without Pb²⁺, the hairpin loop impeded biotin binding to avidin on the electrode. However,when the goal Pb²⁺ exists, the substratum strand was divided into two fragments that lead to the enzyme strand was substratumed on the electrode and biotin was admited by avidin, bringing about DNA‐functionalized AuNP(AuNPs) deposition on the electrode surface.The differential pulse voltammetry (DPV) was used to measure electrochemical response signals connect to signal DNA.For the amplification characters of the DNA‐functionalized AuNPs and nanocomposite, the electrochemical detection signal of Pb²⁺ was greatly improved and revealed high specificity. Under optimum conditions, the resultant biosensor bringed out a high sensitivity and selectivity for the determination of Pb²⁺. The proposed method was able to detect as low as picomolar Pb²⁺ concentrations.     

Detection of Metal Ions (Cu2+, Hg2+) and Cocaine by Using Ligation DNAzyme Machinery

The Cu²⁺‐dependent ligation DNAzyme is implemented as a biocatalyst for the colorimetric or chemiluminescence detection of Cu²⁺ ions, Hg²⁺ ions, or cocaine. These sensing platforms are based on the structural tailoring of the sequence of the Cu²⁺‐dependent ligation DNAzyme for specific analytes. The tethering of a subunit of the hemin/G‐quadruplex DNAzyme to the ligation DNAzyme sequence, and the incorporation of an imidazole‐functionalized nucleic‐acid sequence, which acts as a co‐substrate for the ligation DNAzyme that is tethered to the complementary hemin/G‐quadruplex subunit. In the presence of different analytes, Cu²⁺ ions, Hg²⁺ ions, or cocaine, the pretailored Cu²⁺‐dependent ligation DNAzyme sequence stimulates the respective ligation process by combining the imidazole‐functionalized co‐substrate with the ligation DNAzyme sequence. These reactions lead to the self‐assembly of stable hemin/G‐quadruplex DNAzyme nanostructures that enable the colorimetric analysis of the substrate through the DNAzyme‐catalyzed oxidation of 2,2′‐azinobis(3‐ethylbenzothiazoline‐6‐sulfonic acid), ABTS^2?, by H₂O₂ into the colored product ABTS^.?, or the chemiluminescence detection of the substrate through the DNAzyme‐catalyzed oxidation of luminol by H₂O₂. The detection limits for the sensing of Cu²⁺ ions, Hg²⁺ ions, and cocaine correspond to 1 nM , 10 nM and 2.5 μM , respectively. These different sensing platforms also reveal impressive selectivities.     

Homogeneous Chemiluminescent Determination of Mercury(II) Using a Peroxidase-Mimicking DNAzyme Assay

Environmental pollution in manufacturing sectors is often accompanied by the release of diverse forms of pollutants including heavy metals. Mercury is one of the most toxic heavy metals. Here, we describe a homogeneous chemiluminescent method for Hg²⁺ detection based on allosteric activation of peroxidase-mimicking DNAzyme and formation of Hg²⁺-thymine bonds in DNA duplex with T–T mismatches in the presence of mercury. The formation of such duplex increased the activity of peroxidase-mimicking DNAzyme. The analysis conditions and structures of probes were optimized. Under the favorable conditions, the limit of detection and a linear range of the assay were 12 and 12–600?nM, respectively. The values of coefficient of variation measured within the working range varied from 0.7 to 3.0%. The study of cross-reactivity of Hg²⁺, Ag⁺, Pb²⁺, Ca²⁺, Zn²⁺, Bi³⁺, Ni²⁺, Co²⁺, Ba²⁺, Mn²⁺, Cd²⁺, Mg²⁺, and Cr³⁺ showed that only mercury in concentration nanoscale activates peroxidase-mimicking DNAzyme that indicates high specificity of the developed Hg²⁺ assay. Thus, an easy-to-use, specific, rapid, and sensitive method for Hg²⁺ detection was developed.     

An Electrochemical Sensor for the Detection of Cu2+ Based on Gold Nanoflowers‐modifed Electrode and DNAzyme Functionalized Au@MIL‐101 (Fe)

In this study, we developed an electrochemical sensor for sensitive detection of Cu²⁺ based on gold nanoflowers (AuNFs)‐modified electrode and DNAzyme functionalized Au@MIL‐101(Fe) (MIL: Materials of Institute Lavoisier). The AuNFs‐modified indium tin oxide modified conductive glass electrode(AuNFs/ITO) prepared via electrodeposition showed improved electronic transport properties and provided more active sites to adsorb large amounts of oligonucleotide substrate (DNA1) via thiol‐gold bonds. The stable Au@MIL‐101(Fe) could guarantee the sensitivity because of its intrinsic peroxidase mimic property, while the Cu²⁺‐dependent DNA‐cleaving DNAzyme linked to Au@MIL‐101(Fe) achieved the selectivity toward Cu²⁺. After the DNAzyme substrate strand (DNA2) was cleaved into two parts due to the presence of Cu²⁺, the oligonucleotide fragment linked to MIL‐101(Fe) was able to hybridize with DNA1 adsorbed onto the surface of AuNFs/ITO. Due to the peroxidase‐like catalytic activity of MIL‐101(Fe) and the affinity recognition property of DNAzyme toward Cu²⁺, the electrochemical biosensor showed a sensitive detection range from 0.001 to 100 μM, a detection limit of 0.457 nM and a high selectivity, demonstrating its potential for Cu²⁺ detection in real environmental samples.     

G-quadruplex-hemin DNAzyme-amplified colorimetric detection of Ag ion

A G-quadruplex-hemin DNAzyme-amplified Ag⁺-sensing method was developed based on the ability of Ag⁺ to stabilize C-C mismatches by forming C-Ag⁺-C base pairs. In this method, only one unlabelled oligonucleotide strand was used. In the absence of Ag⁺, the oligonucleotide strand formed an intramolecular duplex. The G-rich sequence in the oligonucleotide was partially caged in this duplex structure and cannot fold into the G-quadruplex structure. The addition of Ag⁺ promoted the formation of another intramolecular duplex in which C-C mismatches were stabilized by C-Ag⁺-C base pairs, leading to the release of the G-rich sequence which can fold into a G-quadruplex capable to bind hemin to form a catalytically active G-quadruplex-hemin DNAzyme. As a result, a UV-vis absorbance increasing was observed in the H₂O₂-ABTS (2,2′-azinobis(3-ethylbenzothiozoline)-6-sulfonic acid) reaction system. This “turn-on” process allowed the detection of aqueous Ag⁺ at concentrations as low as 6.3 nM using a simple colorimetric technique, showing a high selectivity over a range of other metal ions.     

Electrochemiluminescence of Supramolecular Nanorods and Their Application in the “On–Off–On” Detection of Copper Ions

In this work, an “on–off–on” switch system has been successfully applied through the construction of an electrochemiluminscent biosensor for copper ion (Cu²⁺) detection based on a new electrochemiluminescence (ECL) emitter of supramolecular nanorods, which was achieved through supramolecular interactions between 3,4,9,10‐perylenetetracarboxylic acid (PTCA) and aniline. The initial “signal‐on” state with strong and stable ECL emission was obtained by use of the supramolecular nanorods with a new signal amplification strategy involving a co‐reaction accelerator. In addition, ECL quencher probes (Fc‐NH₂/Cu‐Sub/nano‐Au) were fabricated by immobilizing aminoferrocene (Fc‐NH₂) on Cu‐substrate strand modified Au nanoparticles. The quencher probes were hybridized with the immobilized Cu‐enzyme strand to form Cu²⁺‐specific DNAzyme. Similarly, the “signal‐off” state was obtained by the high quenching effect of Fc‐NH₂ on the ECL of the excited‐state PTCA (¹PTCA*). As expected, the second “switch‐on” state could achieved by incubating with the target Cu²⁺, owing to the Cu²⁺‐specific DNAzyme, which was irreversibly cleaved, resulting in the release of the quencher probes from the sensor interface. Herein, on the basis of the ECL intensity changes (ΔI_ECL) before and after incubating with the target Cu²⁺, the prepared Cu²⁺‐specific DNAzyme‐based biosensor was used for the determination of Cu²⁺ concentrations with high sensitivity, excellent selectivity, and good regeneration.     

Simple imine linked colorimetric and fluorescent receptor for sensing Zn ions in aqueous medium based on inhibition of ESIPT mechanism

Herein, we report the highly selective binding of Zn²⁺ ion by the salicylaldimine based Schiff base chromogenic receptor 1 [(N,N′-bis (salicylidine)-o-phenylenediamine]. Receptor 1 senses Zn²⁺ ion in aqueous medium by colorimetric and fluorescent response in the presence of other metal ions like Pb²⁺, Hg²⁺, Sn²⁺, Cd²⁺. Receptor 1 on binding with Zn²⁺ ion exhibits fluorescence enhancement which is due to the inhibition of the (ESIPT) mechanism.     

Imaging Endogenous Metal Ions in Living Cells Using a DNAzyme–Catalytic Hairpin Assembly Probe

DNAzymes are a promising platform for metal ion detection, and a few DNAzyme‐based sensors have been reported to detect metal ions inside cells. However, these methods required an influx of metal ions to increase their concentrations for detection. To address this major issue, the design of a catalytic hairpin assembly (CHA) reaction to amplify the signal from photocaged Na⁺‐specific DNAzyme to detect endogenous Na⁺ inside cells is reported. Upon light activation and in the presence of Na⁺, the NaA43 DNAzyme cleaves its substrate strand and releases a product strand, which becomes an initiator that trigger the subsequent CHA amplification reaction. This strategy allows detection of endogenous Na⁺ inside cells, which has been demonstrated by both fluorescent imaging of individual cells and flow cytometry of the whole cell population. This method can be generally applied to detect other endogenous metal ions and thus contribute to deeper understanding of the role of metal ions in biological systems.     

Imaging Endogenous Metal Ions in Living Cells Using a DNAzyme–Catalytic Hairpin Assembly Probe

DNAzymes are a promising platform for metal ion detection, and a few DNAzyme-based sensors have been reported to detect metal ions inside cells. However, these methods required an influx of metal ions to increase their concentrations for detection. To address this major issue, the design of a catalytic hairpin assembly (CHA) reaction to amplify the signal from photocaged Na⁺-specific DNAzyme to detect endogenous Na⁺ inside cells is reported. Upon light activation and in the presence of Na⁺, the NaA43 DNAzyme cleaves its substrate strand and releases a product strand, which becomes an initiator that trigger the subsequent CHA amplification reaction. This strategy allows detection of endogenous Na⁺ inside cells, which has been demonstrated by both fluorescent imaging of individual cells and flow cytometry of the whole cell population. This method can be generally applied to detect other endogenous metal ions and thus contribute to deeper understanding of the role of metal ions in biological systems.     

Metal-ion-dependent folding of a uranyl-specific DNAzyme: insight into function from fluorescence resonance energy transfer studies

Fluorescence resonance energy transfer (FRET) has been used to study the global folding of an uranyl (UO₂²⁺)‐specific 39E DNAzyme in the presence of Mg²⁺, Zn²⁺, Pb²⁺, or UO₂²⁺. At pH 5.5 and physiological ionic strength (100 mM Na⁺), two of the three stems in this DNAzyme folded into a compact structure in the presence of Mg²⁺ or Zn²⁺. However, no folding occurred in the presence of Pb²⁺ or UO₂²⁺; this is analogous to the “lock‐and‐key” catalysis mode first observed in the Pb²⁺‐specific 8–17 DNAzyme. However, Mg²⁺ and Zn²⁺ exert different effects on the 8–17 and 39E DNAzymes. Whereas Mg²⁺ or Zn²⁺‐dependent folding promoted 8–17 DNAzyme activity, the 39E DNAzyme folding induced by Mg²⁺ or Zn²⁺ inhibited UO₂²⁺‐specific activity. Group IIA series of metal ions (Mg²⁺, Ca²⁺, Sr²⁺) also caused global folding of the 39E DNAzyme, for which the apparent binding affinity between these metal ions and the DNAzyme decreases as the ionic radius of the metal ions increases. Because the ionic radius of Sr²⁺ (1.12 Å) is comparable to that of Pb²⁺ (1.20 Å), but contrary to Pb²⁺, Sr²⁺ induces the DNAzyme to fold under identical conditions, ionic size alone cannot account for the unique folding behaviors induced by Pb²⁺ and UO₂²⁺. Under low ionic strength (30 mM Na⁺), all four metal ions (Mg²⁺, Zn²⁺, Pb²⁺, and UO₂²⁺), caused 39E DNAzyme folding, suggesting that metal ions can neutralize the negative charge of DNA‐backbone phosphates in addition to playing specific catalytic roles. Mg²⁺ at low (<2 mM ) concentration promoted UO₂²⁺‐specific activity, whereas Mg²⁺ at high (>2 mM ) concentration inhibited the UO₂²⁺‐specific activity. Therefore, the lock‐and‐key mode of DNAzymes depends on ionic strength, and the 39E DNAzyme is in the lock‐and‐key mode only at ionic strengths of 100 mM or greater.     

CC Bonding of Graphene Oxide on 4‐Aminophenyl Modified Gold Electrodes towards Simultaneous Detection of Heavy Metal Ions

This paper studied the electrochemical sensors based on C? C bonding of graphene oxide (GO) on π‐conjugated aromatic group modified gold electrodes for simultaneous detection of heavy metal ions. For comparison, another sensing interface Au‐Ph‐NH‐CO‐GO, in which GO was modified to Au‐Ph‐NH₂ interfaces by amide bonding. On the basis of the principle of heavy metal ions complexation with oxygenated species on GO, the fabricated sensing interfaces were used for the simultaneous determination of Pb²⁺, Cu²⁺ and Hg²⁺. The performance of two sensing interfaces for simultaneous detection of three metal ions was compared. Au‐Ph‐GO sensing interface demonstrated higher sensitivity and better repeatability than Au‐Ph‐NH‐CO‐GO sensing interface.     

Investigation of 3,3′,5,5′-tetramethylbenzidine as colorimetric substrate for a peroxidatic DNAzyme

In this work, the suitability of 3,3′,5,5′-tetramethylbenzidine sulfate (TMB) as the substrate of a DNAzyme catalytic system composed of a guanine-quadruplex DNA molecule and hemin was investigated. In the presence of H₂O₂, the hemin-DNA complex catalyzes the oxidation of TMB to produce two colored products, much like a peroxidase. The color-generating activity of this system could be influenced by several factors such as buffer type, pH value, DNA sequence, reaction time, and concentrations of both the hemin and H₂O₂. To illustrate the utility of this catalytic system, we designed a colorimetric assay, in which a synthetic oligonucleotide with a sequence complementary to the G-quadruplex DNA was used as the target. A detection limit of 1.86 nM was obtained. Our data have shown that TMB was an excellent colorimetric indicator that reported the peoxidase activities of the widely studied hemin-G-quadruplex DNAzyme system.     

Single‐gap Microelectrode Functionalized with Single‐walled Carbon Nanotubes and Pbzyme for the Determination of Pb2+

Lead is a highly toxic metal, which can persist in the natural environment and enrich in biological bodies. It can cause many severe diseases in the human body even at extremely low concentration. Here, we developed a new biosensor using single‐walled carbon nanotubes (SWNTs) modified with a specific Pbzyme (Pbzyme/SWNTs/FET) to detect lead ion (Pb²⁺), which can monitor the lead pollution. This biosensor used 3‐aminopropyltriethoxysilane to immobilize SWNTs on the area between the source and the drain of single‐gap microelectrode (FET), and the duplex DNA (Pbzyme) consisted of DNAzyme (GR‐5) and complementary DNA (CS‐DNA) was functionalized with the SWNTs’ surface through a peptide bond. The use of GR‐5 DANzyme and Pb²⁺ to form a stable complex structure to cleave the CS‐DNA can change radically the Pbzyme's structure on the SWNTs’ surface, which will further affect the number of carriers in SNWTs and the conductivity of the Pbzyme/SWNTs/FET. The change in conductivity can be used to evaluate the Pb²⁺ concentration. Under the optimal conditions, the relative resistances presented a positive correlation with the Pb²⁺ concentrations, showing a good linear relationship in the range of 10 pM to 50 nM, where the linear regression equation was y=10.104log [C_Pb]+5.8656, and the detection limit was 7.4 pM. Finally, the biosensor was applied to measure the Pb²⁺ contents in the soil collected from the forest grass green belt and paint, and the results were compared with the results of atomic fluorescence spectrometry.     

Assistant deoxyribonucleic acid recycling with Zn and molecular beacon for electrochemical detection of deoxyribonucleic acid via target-triggered assembly of mutated DNAzyme

A novel enzyme-free amplification strategy was designed for sensitive electrochemical detection of deoxyribonucleic acid (DNA) based on Zn²⁺ assistant DNA recycling via target-triggered assembly of mutated DNAzyme. A gold electrode was used to immobilize molecular beacon (MB) as the recognition probe and perform the amplification procedure. In the presence of target DNA, the hairpin probe 1 was opened, and the DNAzyme was liberated from the caged structure. The activated DNAzyme first hybridized and then cleaved the MB in the presence of cofactor Zn²⁺. After cleavage, the MB was cleaved into two pieces and the ferrocene (Fc) labeled piece dissociated from the gold electrode, thus obviously decreasing the Fc signal and forming a free DNAzyme strand. Finally, each target-induced activated DNAzyme underwent many cycles to trigger the cleavage of many MB substrates. Therefore, the peak current of Fc dramatically decreased to approximately zero. The strategy showed a detection limit at 35 fM levels, which was about 2 orders of magnitude lower than that of the conventional hybridization without Zn²⁺-based amplification. The Zn²⁺ assistant DNA recycling offers a versatile platform for DNA detection in a cost-effective manner, and has a promising application in clinical diagnosis.     

Toehold-mediated strand displacement reaction-propelled cascade DNAzyme amplifier for microRNA let-7a detection

DNAzyme amplifiers have been extensively explored as a useful sensing platform, but single DNAzyme amplifier is limited in biosensing applications by its low sensitivity. Herein, a cascade DNAzyme amplifier was designed by exploiting concurrent amplification cycle principles of toehold-mediated strand displacement reaction (TSDR) and Zn²⁺-assisted DNAzyme cycle with lower cost and simpler procedures. Compared with single DNAzyme amplifier, the proposed TSDR-propelled cascade DNAzyme amplifier exhibited higher sensitivity by releasing more DNAzyme through TSDR to cleave substrate strand during the DNAzyme cycle. Base on this, let-7a could be sensitively detected in the range of 5–50 nmol/L with a detection limit of 64 pmol/L. Furthermore, the dual signal amplification strategy of the cascade DNAzyme amplifier exhibited excellent selectivity to distinguish single-base mismatched DNA strands, which has been successfully applied to the determination of let-7a in blood serum, showing high promise in early cancer diagnosis.     

Probing trace Pb(2+) using electrodeposited N,N'-(o-phenylene)-bis-benzenesulfonamide polymer as a novel selective ion capturing film

A novel film modified electrode for the determination of trace lead was developed in this work. The modified electrode was prepared by the electropolymerization of N,N′-(o-phenylene)-bis-benzenesulfonamide (PBSA) as the ion capturing reagent to create the functional film. The modified electrode shows a high selectivity towards Pb²⁺ over interfering cations, e.g. Cu²⁺, Cd²⁺, Co²⁺, Ni²⁺, Zn²⁺, Cr²⁺, and the calibration curve was linear in the concentration range of 2.0 × 10⁻⁹ to 1.0 × 10⁻⁷ M with correlation coefficient of 0.999. For 20 min accumulation, detection limit of 1.0 × 10⁻⁹ M was obtained at the signal to noise ratio of 3. Analytical availability of the modified electrode was demonstrated by the application for samples from pond water.     

Paper-based scanometric assay for lead ion detection using DNAzyme

A facile and simple paper-based scanometric assay was developed to detect Pb²⁺ using GR5-DNAzyme. Magnetic beads (MBs) and gold nanoparticles (AuNPs) were used as a signal collector and a signal indicator, respectively. They were linked together by GR5-DNAzyme, comprising an enzyme and a substrate strand pairing up with each other. In the presence of Pb²⁺, the substrate strand is cut into two pieces, resulting in the disassembly of AuNPs from the MBs. These AuNPs were spotted on predefined areas on a chromatography paper, where signal is amplified through silver reduction. This sensing platform exhibits high sensitivity and selectivity toward Pb²⁺, giving a detection limit of 0.3 nM and a linear fitting range from 0.1 to 1000 nM. Testing of this biosensor in river water and synthetic urine samples also showed satisfying results. Besides offering simultaneous and multi-sample analysis, this paper-based sensing platform presented here could be potentially applied and served as a general platform for on-site, naked eyes, and low-cost monitoring of other heavy metal ions in environmental and body fluid samples.