Label-free colorimetric biosensing of copper(II) ions with unimolecular self-cleaving deoxyribozymes and unmodified gold nanoparticle probes

Surface Plasmon Resonance-Enhanced CdS/FTO Heterojunction for Cu2+ Detection

Copper ion (Cu2+) pollution poses a serious threat to marine ecology and fisheries. However, the complexity of seawater and its interference factors make the online detection of Cu2+ quite challenging. To address this issue, we introduce the concept of the photo-assisted adjustment barrier effect into electrochemical detection, using it as a driving force to generate electrochemical responses. The Schottky barrier demonstrates a remarkable regulatory influence on the electrochemical response under photoexcitation, facilitating the response through Cu2+ adsorption. We developed a 4-MBA-AuNPs/CdS/FTO composite that serves as a sensitive platform for Cu2+ detection, achieving a detection limit of 70 nM. Notably, the photo-assisted adjustment of the barrier effect effectively counters the interference posed by ions in seawater, ensuring accurate detection. Furthermore, the sensor exhibits a promising recovery rate (99.62-104.9%) in real seawater samples, highlighting its practical applications. This innovative approach utilizing the photo-assisted adjustment barrier effect offers a promising path for developing electrochemical sensors that can withstand interference.

Gold Nanoparticles as Exquisite Colorimetric Transducers for Water Pollutant Detection

Gold nanoparticles (AuNPs) are useful nanomaterials as transducers for colorimetric sensors because of their high extinction coefficient and ability to change color depending on aggregation status. Therefore, over the past few decades, AuNP-based colorimetric sensors have been widely applied in several environmental and biological applications, including the detection of water pollutants. According to various studies, water pollutants are classified into heavy metals or cationic metal ions, toxins, and pesticides. Notably, many researchers have been interested in AuNP that detect water pollutants with high sensitivity and selectivity, while offering no adverse environmental issues in terms of AuNP use. This review provides a representative overview of AuNP-based colorimetric sensors for detecting several water pollutants. In particular, we emphasize the advantages of AuNP as colorimetric transducers for water pollutant detection in terms of their low toxicity, high stability, facile processability, and unique optical properties. Next, we discuss the status quo and future prospects of AuNP-based colorimetric sensors for the detection of water pollutants. We believe that this review will promote research and development of AuNP as next-generation colorimetric transducers for water pollutant detection.

A Novel Cu2+ Quantitative Detection Nucleic Acid Biosensors Based on DNAzyme and “Blocker” Beacon

In this paper, a “turn-off” biosensor for detecting copper (II) ions based on Cu2+-dependent DNAzyme and a “blocker” beacon were developed. Upon the copper ion being added, the Cu2+-dependent DNAzyme substrate strand was irreversibly cleaved, thereby blocking the occurrence of the ligation reaction and PCR, which inhibited the G-rich sequence from forming the G-quadruplex structure, efficiently reducing the detection signal. This method had the characteristics of strong specificity and high sensitivity compared with the existing method due to the application of ligation-dependent probe signal recognition and amplification procedures. Under the optimized conditions, this method proved to be highly sensitive. The signal decreased as the concentration of copper ions increased, exhibiting a linear calibration from 0.03125 μM to 0.5 μM and a limit of detection of 18.25 nM. Subsequently, the selectivity of this biosensor was verified to be excellent by testing different relevant metal ions. Furthermore, this detection system of copper (II) ions was successfully applied to monitor Cu2+ contained in actual water samples, which demonstrated the feasibility of the biosensor.

Porphyrin Functionalized Carbon Quantum Dots for Enhanced Electrochemiluminescence and Sensitive Detection of Cu2

Porphyrin (TMPyP) functionalized carbon quantum dots (CQDs-TMPyP), a novel and efficient carbon nanocomposite material, were developed as a novel luminescent material, which could be very useful for the sensitive detection of copper ions in the Cu²⁺ quenching luminescence of functionalized carbon quantum dots. Therefore, we constructed a sensitive "signal off" ECL biosensor for the detection of Cu²⁺. This sensor can sensitively respond to copper ions in the range of 10 nM to 10 μM, and the detection limit is 2.78 nM. At the same time, it has good selectivity and stability and a benign response in complex systems. With excellent properties, this proposed ECL biosensor provides an efficient and ultrasensitive method for Cu²⁺ detection.

Multicolor colorimetric assay for copper ion detection based on the etching of gold nanorods

An effective, selective, and multicolor colorimetric assay for Cu²⁺ detection based on the regulation of peroxidase-like nanozyme-mediated etching of gold nanorods (Au NRs) is proposed. Cu²⁺-creatinine complex is selected as the nanozyme that exhibits excellent peroxidase-like activity even in the case of low concentration of Cu²⁺, which can catalyze 3,3,5,5-tetramethylbenzidine (TMB) to produce oxidized TMB (TMB⁺) in the presence of hydrogen peroxide, and TMB⁺ is oxidized to generate TMB²⁺ after adding H⁺, and the TMB²⁺ can etch Au NRs. The determination of Cu²⁺ is achieved based on the blue shift of the longitudinal localized surface plasmon resonance peak of Au NRs. Under the optimal conditions, the developed colorimetric assay exhibits high sensitivity for the detection of Cu²⁺ (limit of detection is 0.034 μM) with a wide linear range of 0.05-4.0 μM (R² = 0.987). The solution shows a rainbow-like color in response to the increase of Cu²⁺ concentration, which can realize the semi-quantitative detection of Cu²⁺ by naked eyes. In addition, the developed method exhibits excellent selectivity for Cu²⁺-detection. The established method was used for the determination of Cu²⁺ in lake water, soil, and normal human serum with satisfactory recovery of spiked samples.

Highly sensitive colorimetric sensing of copper(ii) ions based on "CLICK-17" DNAzyme-catalyzed azide modified gold nanoparticles and alkyne capped dsDNA cycloaddition

A click chemistry assay based on a newly discovered DNAzyme, CLICK-17, with azide modified gold nanoparticles (azide-AuNPs) and alkyne capped dsDNA (alkyne-linker DNA) was employed for novel and selective detection of Cu²⁺ visually. The strategy involved using CLICK-17 to mediate a catalytic reaction for triazole formation between azide-AuNPs and alkyne-linker DNA under the help of Cu²⁺ (without sodium ascorbate) or Cu⁺, which eventually led to the aggregation of AuNPs. The obvious color change from ruby red to bluish purple was then observed by the naked eye and the absorbance peak shifted from 525 to 570 nm. Interestingly, CLICK-17 and Cu⁺-catalyzed click reaction had the best performance compared to either Cu⁺ alone or CLICK-17 and Cu²⁺-mediated reaction in terms of the reaction time and sensitivity. This system has been demonstrated to allow quantitative measurement of Cu²⁺ with a detection limit as low as 26.8 nM and also has high specificity that can distinguish Cu²⁺ from other metal ions. Further, the method was tested with a real mineral water sample for Cu²⁺ concentration determination. Satisfactory recoveries of 90.8% and 99.8% were achieved.

We report selective and visual detection of Cu²⁺ based on aggregation of azide modified gold nanoparticles induced by CLICK-17 DNAzyme and Cu²⁺ or Cu⁺ catalyzed click reaction between azide-AuNPs and alkyne-dsDNA.

Insight into an Oxidative DNA-Cleaving DNAzyme: Multiple Cofactors, the Catalytic Core Map and a Highly Efficient Variant

An oxidative DNA-cleaving DNAzyme (PL) employs a double-cofactor model “X/Cu²⁺” for catalysis. Herein, we verified that reduced nicotinamide adenine dinucleotide (NADH), flavin mononucleotide, cysteine, dithiothreitol, catechol, resorcinol, hydroquinone, phloroglucinol, o-phenylenediamine, 3,3′,5,5'-tetramethylbenzidine, and hydroxylamine acted as cofactor X. According to their structural similarities or fluorescence property, we further confirmed that reduced nicotinamide adenine dinucleotide phosphate (NADPH), 2-mercaptoethanol, dopamine, chlorogenic acid, resveratrol, and 5-carboxyfluorescein also functioned as cofactor X. Superoxide anions might be the commonality behind these cofactors. We subsequently determined the conservative change of individual nucleotides in the catalytic core under four different cofactor X. The nucleotides A4 and C5 are highly conserved, whereas the conservative levels of other nucleotides are dependent on the types of cofactor X. Moreover, we observed that the minor change in the PL's secondary structure affects electrophoretic mobility. Finally, we characterized a highly efficient variant T3G and converted its double-cofactor NADH/Cu²⁺ to sole-cofactor NADH.

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An oxidative cleavage DNAzyme works with various cofactor X

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Catalytic nucleotide conservation fluctuates with different cofactor X

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The PL DNAzyme's minor secondary structure change affects electrophoretic mobility

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Double-cofactor model of the variant T3G can be converted to sole-cofactor model

Self-assembled gold nanoparticles and amphiphile peptides: a colorimetric probe for copper(ii) ion detection

We show that arginine/phenylalanine based peptides can be used to control the aggregation of gold nanoparticles in different ways. The arrangement provides a colorimetric approach to detect Cu²⁺ ions in water.

Integrated optical and electrochemical detection of Cu2+ ions in water using a sandwich amino acid–gold nanoparticle-based nano-biosensor consisting of a transparent-conductive platform

In this paper, an optical-electrochemical nano-biosensor was introduced for measuring Cu²⁺ ion concentrations in water. A multi-step procedure was used to fabricate the transparent-conductive biosensor platform consisting of an l-cysteine–gold nanoparticle-based sandwich structure. First, colloidal gold nanoparticles (GNPs) were synthesized according to the Turkevich–Frens method with some modifications and then functionalized with l-cysteine molecules (GNP/l-cys). Then, cyclic voltammetry was preformed in buffered solutions containing HAuCl₄·3H₂O for gold nanoparticle electrodeposition on cleaned ITO glasses. The GNP-electrodeposited ITO glasses (ITO/GNPs) were thermally treated in air atmosphere for 1 hour at a temperature of 300 °C. Following the procedure, the gold nanoparticles on ITO/GNPs substrates were functionalized with l-cysteine to prepare ITO/GNPs/l-cys substrates. Finally, the sandwich-type substrates of ITO/GNPs/l-cys⋯Cu²⁺⋯l-cys/GNPs were fabricated by accumulation of Cu²⁺ ions using an open circuit technique performed in copper ion buffer solutions in the presence of previously produced colloidal GNP/l-cys nanoparticles. The effective parameters including GNP/l-cys solution volume, pre-concentration pH and pre-concentration time on the LSPR and SWV responses were investigated and optimized. The fabricated transparent-conductive platforms were successfully assessed as a nano-biosensor for detection of copper ions using two different methods of square wave voltammetry (SWV) and localized surface plasmon resonance (LSPR). As a result, the proposed biosensor showed a high sensitivity, selectivity and a wide detectable concentration range to copper ions. The total linear range and the limit of detection (LOD) of the nano-biosensor were 10–100 000 nM (0.6–6354.6 ppb) and below 5 nM (0.3 ppb), respectively. The results demonstrated the potential of combining two different optical and electrochemical methods for quantitation of the single analyte on the same biosensor platform and obtaining richer data. Also, these results indicated that the developed LSPR-SWV biosensor was superior to many other copper biosensors presented in the literature in terms of linear range and LOD. The developed nano-biosensor was successfully applied in the determination of trace Cu²⁺ concentration in actual tap water samples.

The transparent-conductive platforms of ITO/GNPs/l-cys⋯Cu²⁺⋯l-cys/GNPs were fabricated for quantitation of Cu²⁺ ions in water samples using combined LSPR and SWV methods.

Plasmon Coupling Effect-Enhanced Imaging of Metal Ions in Living Cells Using DNAzyme Assembled Core-Satellite Structures

We demonstrate a core-satellite plasmonic nanoprobe assembled via metal-ion-dependent DNA-cleaving DNAzyme linker for imaging intercellular metal ion based on plasmon coupling effect at a single-particle level. As metal ions are present in the system, the DNAzyme linker will be cleaved, and thus, disassembly of the core-satellite nanoprobes occurs, which results in distinct blue shift of the scattering spectra of Au core-satellite probes and naked color change of the scattering light. This change in scattering spectra has been supported by theoretical simulations. As a proof of concept, sensitive detection of Cu²⁺ with a limit of detection down to 67.2 pM has been demonstrated. The nanoprobes have been further utilized for intracellular Cu²⁺ imaging in living cells. The results demonstrate that the present strategy provides a promising platform for detection and imaging of metal ions in living cells and could be potentially applied to imaging other interesting target molecules simply by substituting the oligonucleotide sequence.

Novel and label-free colorimetric detection of radon using AuNPs and lead(II)-induced GR5 DNAzyme-based amplification strategy

Radioactive radon decays into a stable daughter product, ²¹⁰Pb, which was used as the detection target to determine the radon radiation dose in a new technique. Pb²⁺ triggers DNAzyme to cleave a molecular beacon (MB), resulting in the stem-loop structure opening and forming two single DNA strands (ssDNA). The ssDNA binds to unmodified gold nanoparticles and effectively prevents their aggregation in a salt solution. The detached enzyme strands continue to complement the remaining MB to amplify the response signal. The method proposed in this study exhibited a good linear relationship for Pb²⁺ and radon concentrations in the range of 6.22 × 10²-1.02 × 10⁵ Bq h/m³ with a detection limit of 186.48 Bq h/m³ using an ultraviolet-visible spectrometer. In practical applications, this sensitive method can avoid radioactive damage in field testing, and the detection limit meets the national standard in China. Importantly, this simple, highly sensitive strategy uses simple equipment and has a strong anti-interference ability. Graphical abstract.

Metal ion detection using functional nucleic acids and nanomaterials

Metal ion detection is critical in a variety of areas. The past decade has witnessed great progress in the development of metal ion sensors using functional nucleic acids (FNAs) and nanomaterials. The former has good recognition selectivity toward metal ions and the latter possesses unique properties for enhancing the performance of metal ion sensors. This review offers a summary of FNA- and nanomaterial-based metal ion detection methods. FNAs mainly include DNAzymes, G-quadruplexes, and mismatched base pairs and nanomaterials cover gold nanoparticles (GNPs), quantum dots (QDs), carbon nanotubes (CNTs), and graphene oxide (GO). The roles of FNAs and nanomaterials are introduced first. Then, various methods based on the combination of different FNAs and nanomaterials are discussed. Finally, the challenges and future directions of metal ion sensors are presented.

A rapid and visual turn-off sensor for detecting copper (II) ion based on DNAzyme coupled with HCR-based HRP concatemers

To solve the requirement of on-site, rapid, and visual detection of copper (II) (Cu2+) in aqueous solution, a turn-off sensor for detecting copper (II) ion was developed based on Cu2+-dependent DNAzyme as the recognition element and hybridization chain reaction (HCR)-based horseradish peroxidase (HRP) concatemers as the signal amplifier and the signal report element. The detection unit, which was composed of the immobilized Cu2+-dependent DNAzyme coupled with HCR-based HRP concatemers via Waston-Crick base pairing, could catalyze hydrogen peroxide (H2O2) via TMB, generating obvious green color and turning yellow after sulfuric acid termination with optical absorption at 450 nm. Upon Cu2+ addition, the substrate strand of the Cu2+-dependent DNAzyme concatenated with the HCR-based HRP complex was irreversibly cleaved, efficiently causing dramatic reduction of the detection signal. Under optimal conditions, the detection signal decreased with the concentration of Cu2+ in 5 min, exhibiting a linear calibration from 0.05 to 3 μM with a detection limit of 8 nM. The sensor also displayed a high selectivity for Cu2+ given the specificity and anti-interference of the detection unit, and this system was applicable for monitoring Cu2+ in real water samples. Generally speaking, the proposed sensor exhibits good potential in environment surveys.

Multipath colourimetric assay for copper(II) ions utilizing MarR functionalized gold nanoparticles

We use the multiple antibiotic resistance regulator (MarR), as a highly selective biorecognition elements in a multipath colourimetric sensing strategy for the fast detection of Cu²⁺ in water samples. The colourimetric assay is based on the aggregation of MarR-coated gold nanoparticles in the presence of Cu²⁺ ions, which induces a red-to-purple colour change of the solution. The colour variation in the gold nanoparticle aggregation process can be used for qualitative and quantitative detection of Cu²⁺ by the naked eye, and with UV–vis and smartphone-based approaches. The three analysis techniques used in the multipath colourimetric assay complement each other and provide greater flexibility for differing requirements and conditions, making the assay highly applicable for Cu²⁺ detection. Under optimal conditions, the Cu²⁺ concentration was quantified in less than 5 min with limits of detection for the naked eye, UV–vis and smartphone-based approaches of 1 μM, 405 nM and 61 nM, respectively. Moreover, the sensing system exhibited excellent selectivity and practical application for Cu²⁺ detection in real water samples. Thus, our strategy has great potential for application in on-site monitoring of Cu²⁺, and the unique response of MarR towards copper ions may provide a new approach to Cu²⁺ sensing.

Integrating Deoxyribozymes into Colorimetric Sensing Platforms

Biosensors are analytical devices that have found a variety of applications in medical diagnostics, food quality control, environmental monitoring and biodefense. In recent years, functional nucleic acids, such as aptamers and nucleic acid enzymes, have shown great potential in biosensor development due to their excellent ability in target recognition and catalysis. Deoxyribozymes (or DNAzymes) are single-stranded DNA molecules with catalytic activity and can be isolated to recognize a wide range of analytes through the process of in vitro selection. By using various signal transduction mechanisms, DNAzymes can be engineered into fluorescent, colorimetric, electrochemical and chemiluminescent biosensors. Among them, colorimetric sensors represent an attractive option as the signal can be easily detected by the naked eye. This reduces reliance on complex and expensive equipment. In this review, we will discuss the recent progress in the development of colorimetric biosensors that make use of DNAzymes and the prospect of employing these sensors in a range of chemical and biological applications.

Colorimetric determination of copper(ii) ions using gold nanoparticles as a probe

A colorimetric method for the fast, sensitive and selective detection of Cu²⁺ using gold nanoparticles was developed.

Sensitive and selective colorimetric detection of Cu(2+) in aqueous medium via aggregation of thiomalic acid functionalized Ag nanoparticles

A simple and effective colorimetric method for determination of Cu(2+) in real samples was developed. In this method, thiomalic acid functionalized silver nanoparticles (TMA-AgNPs) were prepared and changes in solution color, induced by the aggregation of TMA-AgNPs in the presence of Cu(2+), were employed for quantitative analysis. The surface plasmon resonance (SPR) band of our synthesized TMA-AgNPs was located at 392 nm and shifted to a longer wavelength after aggregation due to the interactions between carboxylate and Cu(2+). A band intensity ratio of A455/(A392-A455) was constructed and used to correlate with the concentration of Cu(2+). A linear relationship was found with a linear response up to 50 nM of Cu(2+). Due to the formation of a stable carboxylate Cu(2+) complex, highly sensitive detection of Cu(2+) was achieved with the estimated detection limit approaching 1 nM. Moreover, the formation of the stable complex leads to high selectivity in the detection of Cu(2+), which was verified by examination of 12 other metal ions. In the detection of Cu(2+) in real samples, results indicated that our proposed method is simple, sensitive and selective for application in such measurements.

Optical reading of contaminants in aqueous media based on gold nanoparticles

With increasing trends of global population growth, urbanization, pollution over-exploitation, and climate change, the safe water supply has become a global issue and is threatening our society in terms of sustainable development. Therefore, there is a growing need for a water-monitoring platform with the capability of rapidness, specificity, low-cost, and robustness. This review summarizes the recent developments in the design and application of gold nanoparticles (AuNPs) based optical assays to detect contaminants in aqueous media with a high performance. First, a brief discussion on the correlation between the optical reading strategy and the optical properties of AuNPs is presented. Then, we summarize the principle behind AuNP-based optical assays to detect different contaminants, such as toxic metal ion, anion, and pesticides, according to different optical reading strategies: colorimetry, scattering, and fluorescence. Finally, the comparison of these assays and the outlook of AuNP-based optical detection are discussed.

Functional nucleic-acid-based sensors for environmental monitoring

Efforts to replace conventional chromatographic methods for environmental monitoring with cheaper and easy to use biosensors for precise detection and estimation of hazardous environmental toxicants, water or air borne pathogens as well as various other chemicals and biologics are gaining momentum. Out of the various types of biosensors classified according to their bio-recognition principle, nucleic-acid-based sensors have shown high potential in terms of cost, sensitivity, and specificity. The discovery of catalytic activities of RNA (ribozymes) and DNA (DNAzymes) which could be triggered by divalent metallic ions paved the way for their extensive use in detection of heavy metal contaminants in environment. This was followed with the invention of small oligonucleotide sequences called aptamers which can fold into specific 3D conformation under suitable conditions after binding to target molecules. Due to their high affinity, specificity, reusability, stability, and non-immunogenicity to vast array of targets like small and macromolecules from organic, inorganic, and biological origin, they can often be exploited as sensors in industrial waste management, pollution control, and environmental toxicology. Further, rational combination of the catalytic activity of DNAzymes and RNAzymes along with the sequence-specific binding ability of aptamers have given rise to the most advanced form of functional nucleic-acid-based sensors called aptazymes. Functional nucleic-acid-based sensors (FNASs) can be conjugated with fluorescent molecules, metallic nanoparticles, or quantum dots to aid in rapid detection of a variety of target molecules by target-induced structure switch (TISS) mode. Although intensive research is being carried out for further improvements of FNAs as sensors, challenges remain in integrating such bio-recognition element with advanced transduction platform to enable its use as a networked analytical system for tailor made analysis of environmental monitoring.

Cu(II)-coordinated GpG-duplex DNA as peroxidase mimetics and its application for label-free detection of Cu2+ ions

Herein a facile method is proposed to construct DNA-based peroxidase mimetics simply assembled by polymorphic DNA and Cu(2+) ions. The Cu(II)-catalyzed oxidation of TMB in the presence of H2O2 can be significantly accelerated through Cu(II)-coordination with DNA scaffolds, of which a colorimetric change can be discerned by naked-eye. The reaction rates of DNA-Cu(II) complexes are directly associated with sequence composition as well as the secondary structure of DNA scaffold, e.g., the reaction rate decreases in the following order: GpG-duplex ≈ G-rich coil > G-quadruplex > C-rich coil > i-motif. It is the first report to explore a colorimetric Cu(2+) sensing system on the basis of peroxidase mimicking activities of polymorphic DNA-Cu(II) complexes. One of our most intriguing results is that the GpG-duplex DNA demonstrates the ability to sense Cu(2+) ions in aqueous solution without significant interference from other metal ions. The Cu(2+) detection limit of 1.2 nM is achieved with a linear response range of 1.2-100 nM, and the developed sensing system is potentially applicable for quantitative determination of Cu(2+) in drinking water samples.

Highly sensitive visual detection of copper (II) using water-soluble azide-functionalized gold nanoparticles and silver enhancement

A high-sensitive method for the visual detection of copper ions in aqueous solution is developed. The method is based on copper ion-catalyzed 'click' reaction between the water-soluble azide-functionalized gold nanoparticles (AuNPs) and alkyne-modified glass slide. The PEG linker was employed as a stabilizing component along with the terminal azide group to keep the AuNPs stably dispersed in water without the assistance of any organic solvent. In the presence of copper ions, the AuNPs are 'clicked' on the slide, and the darkness of the AuNPs in the sample spot is promoted by silver enhancement process. Only a tiny amount of sample (10 μl) is needed with the detectable concentration down to 62 pM by the commonly used flatbed scanner, which is 2-3 orders of magnitude lower than those in previous reports. The selectivity relative to other potentially interfering ions and the applicability in real samples, human serum and tap water, have also been evaluated. Our method has a good potential in point-of-use applications and environment surveys.

DNA as sensors and imaging agents for metal ions

Increasing interest in detecting metal ions in many chemical and biomedical fields has created demands for developing sensors and imaging agents for metal ions with high sensitivity and selectivity. This review covers recent progress in DNA-based sensors and imaging agents for metal ions. Through both combinatorial selection and rational design, a number of metal-ion-dependent DNAzymes and metal-ion-binding DNA structures that can selectively recognize specific metal ions have been obtained. By attachment of these DNA molecules with signal reporters such as fluorophores, chromophores, electrochemical tags, and Raman tags, a number of DNA-based sensors for both diamagnetic and paramagnetic metal ions have been developed for fluorescent, colorimetric, electrochemical, and surface Raman detection. These sensors are highly sensitive (with a detection limit down to 11 ppt) and selective (with selectivity up to millions-fold) toward specific metal ions. In addition, through further development to simplify the operation, such as the use of "dipstick tests", portable fluorometers, computer-readable disks, and widely available glucose meters, these sensors have been applied for on-site and real-time environmental monitoring and point-of-care medical diagnostics. The use of these sensors for in situ cellular imaging has also been reported. The generality of the combinatorial selection to obtain DNAzymes for almost any metal ion in any oxidation state and the ease of modification of the DNA with different signal reporters make DNA an emerging and promising class of molecules for metal-ion sensing and imaging in many fields of applications.

Label-free detection of Cu(2+) and Hg(2+) ions using reconstructed Cu(2+)-specific DNAzyme and G-quadruplex DNAzyme

Label-free metal ion detection methods were developed. To achieve these, a reconstructed Cu(2+)-specific DNA-cleaving DNAzyme (Cu(2+)-specific DNAzyme) with an intramolecular stem-loop structure was used. G-quadruplex-forming G-rich sequence(s), linked at the ends of double-helix stem of an intramolecular stem-loop structure, was partly caged in an intramolecular duplex or formed a split G-quadruplex. Cu(2+)-triggered DNA cleavage at a specific site decreased the stability of the double-helix stem, resulting in the formation or destruction of G-quadruplex DNAzyme that can effectively catalyze the 2,2'-azinobis(3-ethylbenzothiazoline)-6-sulfonic acid (ABTS)-H2O2 reaction. Based on these, two label-free, cost-effective and simple Cu(2+) sensors were designed. These two sensors followed different detection modes: 'turn-on' and 'turn-off'. As for the 'turn-on' sensor, the intramolecular stem-loop structure ensured a low background signal, and the co-amplification of detection signal by dual DNAzymes (Cu(2+)-specific DNAzyme and G-quadruplex DNAzyme) provided a high sensitivity. This sensor enabled the selective detection of aqueous Cu(2+) with a detection limit of 3.9 nM. Visual detection was possible. Although the 'turn-off' sensor gave lower detection sensitivity than the 'turn-on' one, the characteristics of cost-effectiveness and ease of operation made it an important implement to reduce the possibility of pseudo-positive or pseudo-negative results. Combining the ability of Hg(2+) ion to stabilize T-T base mismatch, above dual DNAzymes-based strategy was further used for Hg(2+) sensor design. The proposed sensor allowed the specific detection of Hg(2+) ion with a detection of 4.8 nM. Visual detection was also possible.

A molecular beacon and graphene oxide-based fluorescent biosensor for Cu(2+) detection

In this work, we report a "turn-on" fluorescent strategy for the direct detection of Cu(2+) in solutions using molecular beacons (MBs) and graphene oxide (GO). MBs are special single-stranded DNA and carry fluorescence sources. GO is a new nanomaterial having remarkable physical properties. In the sensing system, GO was used as an efficient fluorescence quencher upon the adsorption of MBs, which reduced the background signal and made the detection method highly sensitive. In the presence of Cu(2+), the MBs were cut into short pieces and released by the GO, leading to fluorescence restoration. The detection limit of the sensing strategy was ∼50nM, which is sufficiently sensitive for practical applications. The sensing method also exhibited high selectivity in testing samples containing other metal ions. The application of the method for drinking water is demonstrated.

DNAzyme-functionalized gold nanoparticles for biosensing

Recent progress in using DNAzyme-functionalized gold nanoparticles (AuNPs) for biosensing is summarized in this chapter. A variety of methods, including those for attaching DNA on AuNPs, detecting metal ions and small molecules by DNAzyme-functionalized AuNPs, and intracellular applications of DNAzyme-functionalized AuNPs are discussed. DNAzyme-functionalized AuNPs will increasingly play more important roles in biosensing and many other multidisciplinary applications. This chapter covers the recent advancement in biosensing applications of DNAzyme-functionalized gold nanoparticles, including the detection of metal ions, small molecules, and intracellular imaging.

GOLD NANOPARTICLES-BASED BIOSENSORS FOR BIOMEDICAL APPLICATION

Gold nanoparticles are the most extensively studied nanomaterials for biomedical application due to their unique properties, such as rapid and simple synthesis, large surface area, strong adsorption ability and facile conjugation to various biomolecules. The remarkable photophysical properties of gold nanoparticles have provided plenty of opportunities for the preparation of gold nanoparticles-based optical biosensors, while the excellent biocompatibility, conductivity, catalytic properties and large surface-to-volume ratio have facilitated the application of gold nanoparticles in the construction of electrochemical biosensors. In this review, we mainly detail the gold nanoparticles-based optical and electrochemical biosensors for biomedical application in the recent two years, which have exhibited greatly enhanced analytical performances in the detection of DNA, proteins and some important small molecules.

Ultrasensitive, high temperature and ionic strength variation-tolerant Cu²⁺ fluorescent sensor based on reconstructed Cu²⁺-dependent DNAzyme/substrate complex

A previously reported Cu²⁺-dependent DNAzyme/substrate complex was reconstructed in this work, which makes possible the use of an intramolecular stem-loop structure and is, therefore, a good choice for the design of Cu²⁺ sensors. To demonstrate this, a fluorescent sensor was designed on the basis of the reconstructed complex. In this sensor, the fluorophore/quencher pair was caged tightly in an intramolecular double-helix structure; thus, the background signal was greatly suppressed. Cu²⁺-dependent cleavage of the complex could cause the release of the fluorophore, leading to restoration of the fluorescence signal. High quenching efficiency provides the sensor with three important characteristics: high sensitivity, high temperature variation tolerance and high ionic strength tolerance. The proposed sensor allows specific detection of aqueous Cu²⁺ down to a limit of 0.6 nM, and the performance is independent of temperature and ionic strength in the range of 4-40 °C and 0.8-3.0 M NaCl, respectively. This work identifies a good choice for sensor design on the basis of DNAzymes containing triple-helix structures.

Sensitive dual DNAzymes-based sensors designed by grafting self-blocked G-quadruplex DNAzymes to the substrates of metal ion-triggered DNA/RNA-cleaving DNAzymes

A universal label-free metal ion sensor design strategy was developed on the basis of a metal ion-specific DNA/RNA-cleaving DNAzyme and a G-quadruplex DNAzyme. In this strategy, the substrate strand of the DNA/RNA-cleaving DNAzyme was designed as an intramolecular stem-loop structure, and a G-rich sequence was caged in the double-stranded stem and could not form catalytically active G-quadruplex DNAzyme. The metal ion-triggered cleavage of the substrate strand could result in the release of the G-rich sequence and subsequent formation of a catalytic G-quadruplex DNAzyme. The self-blocking mechanism of the G-quadruplex DNAzyme provided the sensing system with a low background signal. The signal amplifications of both the DNA/RNA-cleaving DNAzyme and the G-quadruplex DNAzyme provided the sensing system with a high level of sensitivity. This sensor design strategy can be used for metal ions with reported specific DNA/RNA-cleaving DNAzymes and extended for metal ions with unique properties. As examples, dual DNAzymes-based Cu(2+), Pb(2+) and Hg(2+) sensors were designed. These "turn-on" colorimetric sensors can simply detect Cu(2+), Pb(2+) and Hg(2+) with high levels of sensitivity and selectivity, with detection limits of 4 nM, 14 nM and 4 nM, respectively.

Colorimetric detection of trace copper ions based on catalytic leaching of silver-coated gold nanoparticles

A colorimetric, label-free, and nonaggregation-based silver coated gold nanoparticles (Ag/Au NPs) probe has been developed for detection of trace Cu(2+) in aqueous solution, based on the fact that Cu(2+) can accelerate the leaching rate of Ag/Au NPs by thiosulfate (S(2)O(3)(2-)). The leaching of Ag/Au NPs would lead to dramatic decrease in the surface plasmon resonance (SPR) absorption as the size of Ag/Au NPs decreased. This colorimetric strategy based on size-dependence of nanoparticles during their leaching process provided a highly sensitive (1.0 nM) and selective detection toward Cu(2+), with a wide linear detection range (5-800 nM) over nearly 3 orders of magnitude. The cost-effective probe allows rapid and sensitive detection of trace Cu(2+) ions in water samples, indicating its potential applicability for the determination of copper in real samples.

Aptamer enzymatic cleavage protection assay for the gold nanoparticle-based colorimetric sensing of small molecules

A label-free, homogeneous aptamer-based sensor strategy was designed for the facile colorimetric detection of small target molecules. The format relied on the target-induced protection of DNA aptamer from the enzymatic digestion and its transduction into a detectable signal through the length-dependent adsorption of single-stranded DNA onto unmodified gold nanoparticles (AuNPs). The proof-of-principle of the approach was established by employing the anti-tyrosinamide aptamer as a model functional nucleic acid. In the absence of target, the aptamer was cleaved by the phosphodiesterase I enzymatic probe, leading to the release of mononucleotides and short DNA fragments. These governed effective electrostatic stabilization of AuNPs so that the nanoparticles remained dispersed and red-colored upon salt addition. Upon tyrosinamide binding, the enzymatic cleavage was impeded, resulting in the protection of the aptamer structure. As this long DNA molecule was unable to electrostatically stabilize AuNPs, the resulting colloidal solution turned blue after salt addition due to the formation of nanoparticle aggregates. The quantitative determination of the target can be achieved by monitoring the ratio of absorbance at 650 and 520 nm of the gold colloidal solution. A limit of detection of ~5 μM and a linear range up to 100 μM were obtained. The sensing platform was further applied, through the same experimental protocol, to the adenosine detection by using its DNA aptamer as recognition tool. This strategy could extend the potentialities, in terms of both simplicity and general applicability, of the aptamer-based sensing approaches.

Colorimetric assay of lead ions in biological samples using a nanogold-based membrane

We have developed a simple paper-based colorimetric membrane for sensing lead ions (Pb(2+)) in aqueous solutions. The nitrocellulose membrane (NCM) was used to trap bovine serum albumin (BSA) modified 13.3-nm Au nanoparticles (BSA-Au NPs), leading to the preparation of a nanocomposite film of a BSA-Au NP-decorated membrane (BSA-Au NPs/NCM). The BSA-Au NPs/NCM operates on the principle that Pb(2+) ions accelerate the rate of leaching of Au NPs induced by thiosulfate (S(2)O(3)(2-)) and 2-mercaptoethanol (2-ME). The BSA-Au NPs/NCM allowed for the detection of Pb(2+) by the naked eye in nanomolar aqueous solutions in the presence of leaching agents such as S(2)O(3)(2-) and 2-ME. We employed the assistance of microwave irradiation to shorten the reaction time (<10 min) for leaching the Au NPs. Under optimal solution conditions (5 mM glycine-NaOH (pH 10), S(2)O(3)(2-) (100 mM), and 2-ME (250 mM), microwaves (450 W)), the BSA-Au NPs/NCM allowed the detection of Pb(2+) at concentrations as low as 50 pM with high selectivity (at least 100-fold over other metal ions). This cost-effective sensing system allowed for the rapid and simple determination of the concentrations of Pb(2+) ions in real samples (in this case, sea water, urine, and blood samples).

Gold nanoparticles for the colorimetric and fluorescent detection of ions and small organic molecules

In recent years, gold nanoparticles (AuNPs) have drawn considerable research attention in the fields of catalysis, drug delivery, imaging, diagnostics, therapy and biosensors due to their unique optical and electronic properties. In this review, we summarized recent advances in the development of AuNP-based colorimetric and fluorescent assays for ions including cations (such as Hg(2+), Cu(2+), Pb(2+), As(3+), Ca(2+), Al(3+), etc) and anions (such as NO(2)(-), CN(-), PF(6)(-), F(-), I(-), oxoanions), and small organic molecules (such as cysteine, homocysteine, trinitrotoluene, melamine and cocaine, ATP, glucose, dopamine and so forth). Many of these species adversely affect human health and the environment. Moreover, we paid particular attention to AuNP-based colorimetric and fluorescent assays in practical applications.