Selective dsDNA-templated formation of copper nanoparticles in solution

pH-Guided Self-Assembly of Copper Nanoclusters with Aggregation-Induced Emission

We here report a facile pH-guided strategy for the fabrication of water-soluble protein/copper nanoclusters (CuNCs) hybrid nanostructures with stable and bright luminescence resulted from aggregation-induced emission. Using l-cysteine as both the reducing and capping agents, the synthesized CuNCs showed a good reversible pH-responsive aggregation and dispersion in the solution. The CuNCs formed insoluble macroscopic aggregates with stable red-colored emission (620 nm) at pH 3.0 but became soluble with weak luminescence at pH <1.5 or pH >4.0. The highly reversible pH-responsive properties of the CuNCs made it feasible to achieve water-soluble protein/CuNCs hybrid nanostructures in the presence of protein without any external forces (e.g., sonication). The weak luminescent CuNCs were first mixed with protein under neutral condition (e.g., pH 7.0), followed by tuning of the pH to acidic conditions (e.g., pH 3.0) to form luminescent protein/CuNCs hybrid nanostructures, the sizes of which were much smaller than those of the protein-free macroscopic CuNC aggregates. This strategy was easily applicable to other dispersing agents (e.g., glucose oxidase), opening a new pathway for the construction of many other smart water-soluble luminescent biomolecule/nanocluster hybrid nanostructures with various applications.

Histone–DNA interaction: an effective approach to improve the fluorescence intensity and stability of DNA-templated Cu nanoclusters

The histone–DNA interaction is found to greatly improve the fluorescence intensity and stability of DNA-templated Cu nanoclusters (CuNCs).

Novel ultrasensitive homogeneous electrochemical aptasensor based on dsDNA-templated copper nanoparticles for the detection of ractopamine

Herein, we describe a novel homogenous electrochemical aptasensor for the ultrasensitive detection of ractopamine (RAC) based on the signal amplification of a hairpin DNA cascade amplifier (HDCA) and electrocatalysis of dsDNA-templated copper nanoparticles.

A novel label-free fluorescent molecular beacon for the detection of 3′–5′ exonuclease enzymatic activity using DNA-templated copper nanoclusters

A label-free biosensor was developed for highly sensitive and selective determination of Exo III based on poly(T) molecular beacon-templated CuNPs.

TTE DNA–Cu NPs: enhanced fluorescence and application in a target DNA triggered dual-cycle amplification biosensor

A crowded TTE DNA structure for the preparation of Cu NPs with enhanced fluorescence was prepared and applied for the ultrasensitive detection of target DNA.

Rapid and ultrasensitive detection of microRNA by target-assisted isothermal exponential amplification coupled with poly (thymine)-templated fluorescent copper nanoparticles

We devised a novel method for rapid and ultrasensitive detection of target microRNA (miRNA) by employing target-assisted isothermal exponential amplification (TAIEA) combined with poly (thymine)-templated fluorescent copper nanoparticles (CuNPs) as signaling probes. The target miRNA hybridizes to the unimolecular template DNA and works as a primer for the extension reaction to form double-stranded product, which consequently generates two nicking endonuclease recognition sites. By simultaneous nicking and displacement reactions, exponential amplification generates many poly (thymine) strands as final products, which are employed for the synthesis of fluorescent CuNPs. Based on the fluorescent signal from CuNPs, target miRNA is detected as low as 0.27 fM around 1 h of total analysis time. The diagnostic capability of this system has been successfully demonstrated by reliably detecting target miRNA from different cell lysates, showing its great potential towards real clinical applications.

A fluorescent ELISA based on the enzyme-triggered synthesis of poly(thymine)-templated copper nanoparticles

Inspired by the ALP-triggered hydrolysis of the substrate ascorbic acid 2-phosphate as well as the product ascorbate-controlled generation of polyT-CuNPs with bright red fluorescence, we have developed a novel, selective and sensitive fluorescence turn-on assay for ALP activity sensing. Based on the conventional ELISA platform and commercially available antibody-ALP conjugates, an unconventional fluorescent ELISA system has been rationally developed and successfully applied in the quantitative measurement of model antigen proteins using fluorescence spectroscopy and a naked-eye readout under ultraviolet light.

A nuclease-assisted label-free aptasensor for fluorescence turn-on detection of ATP based on the in situ formation of copper nanoparticles

Owing to their promising advantages in biochemical analysis, aptamer-based sensing systems for the fluorescence detection of important biomolecules are being extensively investigated. Herein, we propose a turn-on fluorescent aptasensor for label-free detection of adenosine triphosphate (ATP) by utilizing the in situ formation of copper nanoparticles (CuNPs) and the specific digestion capability of exonuclease I (Exo I). In this assay, the addition of ATP can effectively hinder the digestion of aptamer-derived oligonucleotides due to the G-quadruplex structure. Accordingly, the remaining poly thymine at 5'-terminus of substrate DNA can serve as an efficient template for red-emitting fluorescent CuNPs with a Mega-Stokes shifting in buffered solution, which can be used to evaluate the concentration of ATP. This method is cost-effective and facile, because it avoids the use of traditional dye-labeled DNA strands and complex operation steps. Under optimized conditions, this method achieves a selective response for ATP with a detection limit of 93nM, and exhibits a good detection performance in biological samples.

Direct fluorescence detection of microRNA based on enzymatically engineered primer extension poly-thymine (EPEPT) reaction using copper nanoparticles as nano-dye

A new strategy based on enzymatically engineered primer extension poly-thymine (EPEPT) and nanomaterials in situ generation technology is reported for direct detection of microRNA (miRNA) in a fluorescence turn-on format using the sequential and complementary reactions catalyzed by Klenow Fragment exo^- (KFexo^-) and terminal deoxynucleotidyl transferase (TdTase). The short miRNA can be efficiently converted into long poly-thymine (polyT) sequences, which function as template for in situ formation of fluorescence copper nanoparticles (CuNPs) as nano-dye for detecting miRNA. The polyT-CuNPs can effectively form and emit intense red fluorescence under the 340nm excitation. For the proof of concept, microRNA-21 (miR-21) was selected as the model target to testify this strategy as a versatile assay platform. By directly using miR-21 as the primer, the simple, rapid and sensitive miRNA detection was successfully achieved with a good linearity between 1pM and 1nM and a detection limit of 100fM. Thus, the EPEPT strategy holds great potential in biochemical sensing research as an efficient and universal platform.

Biomedical Applications of DNA-Conjugated Gold Nanoparticles

Gold nanoparticles (AuNPs) are useful for diagnostic and biomedical applications, mainly because of their ease in preparation and conjugation, biocompatibility, and size-dependent optical properties. However, bare AuNPs do not possess specificity for targets. AuNPs conjugated with DNA aptamers offer specificity for various analytes, such as proteins and small molecules/ions. Although DNA aptamers themselves have therapeutic and target-recognizing properties, they are susceptible to degradation in vivo. When DNA aptamers are conjugated to AuNPs, their stability and cell uptake efficiency both increase, making aptamer-AuNPs suitable for biomedical applications. Additionally, drugs can be efficiently conjugated with DNA aptamer-AuNPs to further enhance their therapeutic efficiency. This review focuses on the applications of DNA aptamer-based AuNPs in several biomedical areas, including anticoagulation, anticancer, antibacterial, and antiviral applications.

Hybridization chain reaction engineered dsDNA for Cu metallization: an enzyme-free platform for amplified detection of cancer cells and microRNAs

A novel enzyme-free platform for amplified detection of cancer cells and miRNAs was constructed with high sensitivity by fluorescent Cu metallization on HCR engineered dsDNA templates.

Fluorescent copper nanoparticles: recent advances in synthesis and applications for sensing metal ions

Fluorescent copper nanoparticles (F-CuNPs) have received great attention due to their attractive features, such as water solubility, wide availability, ease of functionalization and good biocompatibility, and considerable efforts have been devoted to the preparation and applications of F-CuNPs. This review article comprises three main parts. In the first part, we briefly present the fluorescence properties of F-CuNPs. Then we cover the fabrication strategies of various F-CuNPs functionalized by different ligands. In the third part, we focus on the applications of F-CuNPs for sensing metal ions, including Hg(2+), Pb(2+), Cu(2+), Fe(3+) and other metal ions. Lastly, we further discuss the opportunities and challenges of F-CuNPs in the synthetic strategies and applications for sensing metal ions.

Enzymatic polymerization of poly(thymine) for the synthesis of copper nanoparticles with tunable size and their application in enzyme sensing

A bottom-up strategy was developed for the enzyme mediated synthesis of Cu nanoparticles, which showed good sensing performance.

Cascade Signal Amplification Based on Copper Nanoparticle-Reported Rolling Circle Amplification for Ultrasensitive Electrochemical Detection of the Prostate Cancer Biomarker

An ultrasensitive and highly selective electrochemical assay was first attempted by combining the rolling circle amplification (RCA) reaction with poly(thymine)-templated copper nanoparticles (CuNPs) for cascade signal amplification. As proof of concept, prostate specific antigen (PSA) was selected as a model target. Using a gold nanoparticle (AuNP) as a carrier, we synthesized the primer-AuNP-aptamer bioconjugate for signal amplification by increasing the primer/aptamer ratio. The specific construction of primer-AuNP-aptamer/PSA/anti-PSA sandwich structure triggered the effective RCA reaction, in which thousands of tandem poly(thymine) repeats were generated and directly served as the specific templates for the subsequent CuNP formation. The signal readout was easily achieved by dissolving the RCA product-templated CuNPs and detecting the released copper ions with differential pulse stripping voltammetry. Because of the designed cascade signal amplification strategy, the newly developed method achieved a linear range of 0.05-500 fg/mL, with a remarkable detection limit of 0.020 ± 0.001 fg/mL PSA. Finally, the feasibility of the developed method for practical application was investigated by analyzing PSA in the real clinical human serum samples. The ultrasensitivity, specificity, convenience, and capability for analyzing the clinical samples demonstrate that this method has great potential for practical disease diagnosis applications.

Multifunctional Dumbbell-Shaped DNA-Templated Selective Formation of Fluorescent Silver Nanoclusters or Copper Nanoparticles for Sensitive Detection of Biomolecules

In this work, a multifunctional template for selective formation of fluorescent silver nanoclusters (AgNCs) or copper nanoparticles (CuNPs) is put forward. This dumbbell-shaped (DS) DNA template is made up of two cytosine hairpin loops and an adenine-thymine-rich double-helical stem which is closed by the loops. The cytosine loops act as specific regions for the growth of AgNCs, and the double-helical stem serves as template for the CuNPs formation. By carefully investigating the sequence and length of DS DNA, we present the optimal design of the template. Benefiting from the smart design and facile synthesis, a simple, label-free, and ultrasensitive fluorescence strategy for adenosine triphosphate (ATP) detection is proposed. Through the systematic comparison, it is found that the strategy based on CuNPs formation is more sensitive for ATP assay than that based on AgNCs synthesis, and the detection limitation was found to be 81 pM. What's more, the CuNPs formation-based method is successfully applied in the detection of ATP in human serum as well as the determination of cellular ATP. In addition to small target molecule, the sensing strategy was also extended to the detection of biomacromolecule (DNA), which illustrates the generality of this biosensor.

Switchable DNA wire: deposition-stripping of copper nanoclusters as an "ON-OFF" nanoswitch

Today, a consensus that DNA working as a molecular wire shows promise in nanoscale electronics is reached. Considering that the “ON-OFF” switch is the basis of a logic circuit, the switch of DNA-mediated charge transport (DNA CT) should be conquered. Here, on the basis of chemical or electrochemical deposition and stripping of DNA-templated copper nanoclusters (CuNCs), we develop an “ON-OFF” nanoswitch for DNA CT. While CuNCs are deposited, the DNA CT is blocked, which can be also recovered after stripping the CuNCs. A switch cycle can be completed in a few seconds and can be repeated for many times. Moreover, by regulating the amount of reagents, deposition/stripping time, applied potential, etc., the switch is adjustable to make the wire at either an “ON-OFF” state or an intermediate state. We believe that this concept and the successful implementation will promote the practical application of DNA wire one step further.

Additive and enhanced fluorescence effects of hairpin DNA template-based copper nanoparticles and their application for the detection of NAD(.)

DNA is an excellent molecular scaffold for the preparation of copper nanoparticles (CuNPs). However, screening and designing an efficient template for the formation of fluorescent CuNPs remains a challenge. Herein, we synthesized CuNPs using a novel hairpin DNA template with a poly T loop and a random double strand stem which performs efficient in the formation of fluorescent CuNPs. Besides, the additive and enhanced effects between the loop and stem sequences on the fluorescence of induced CuNPs was first proposed and investigated. On comparing different sequences, we found that both the circular poly T sequence on the loop region and the stem sequence play important roles in this fluorescence enhancement effect. A label-free analytical system for the quantitative detection of NAD(+) was designed, demonstrating excellent sensitivity. Based on our design concept proposed herein, any random double-stranded DNA can be used for the design of efficient templates for the formation of fluorescent CuNPs in biochemical sensing.

A novel label-free fluorescence strategy for methyltransferase activity assay based on dsDNA-templated copper nanoparticles coupled with an endonuclease-assisted signal transduction system

A novel label-free fluorescence method by coupling dsDNA-templated CuNPs with endonuclease-assisted signal transduction has been developed for methyltransferase activity assay.

Functionalization of metal nanoclusters for biomedical applications

Metal nanoclusters (NCs) are emerging as a new class of functional nanomaterials in the area of biological sensing, labelling, imaging and therapy due to their unique physical and chemical properties, such as ultrasmall size, HOMO–LUMO transition, strong luminescence together with good photostability and biocompatibility.

DNA assembled metal nanoclusters: synthesis to novel applications

In this review, we have discussed the emergence of promising environmental-benign DNA assembled fluorescent metal nanoclusters and their unique electronic structures, unusual physical and chemical properties.

Label-free biosensor based on dsDNA-templated copper nanoparticles for highly sensitive and selective detection of NAD+

A novel label-free biosensor for high sensing of NAD⁺ based on dsDNA-templated CuNPs and DNA ligation reaction.

Dual-modal light scattering and fluorometric detection of lead ion by stimuli-responsive aggregation of BSA-stabilized copper nanoclusters

A new and facilely prepared light scattering (LS) and fluorometric dual-mode sensor is developed for lead ion (Pb²⁺) detection with high sensitivity and selectivity by use of bovine serum albumin stabilized copper nanoclusters (BSA–Cu NCs).

Papain-templated Cu nanoclusters: assaying and exhibiting dramatic antibacterial activity cooperating with H₂O₂

Herein, papain-functionalized Cu nanoclusters (CuNCs@Papain) were originally synthesized in aqueous solution together with a quantum yield of 14.3%, and showed obviously red fluorescence at 620 nm. Meanwhile, their corresponding fluorescence mechanism was fully elucidated by fluorescence spectroscopy, HR-TEM, FTIR spectroscopy, and XPS. Subsequently, the as-prepared CuNCs were employed as probes for detecting H2O2. Using CuNCs as probes, H2O2 was determined in the range from 1 μM to 50 μM based on a linear decrease of fluorescence intensity as well as a detection limit of 0.2 μM with a signal-to-noise ratio of 3. More significantly, it has been proved that CuNCs could convert H2O2 to ˙OH, which exhibited dramatic antibacterial activity. Both in vitro and in vivo experiments were performed to validate their antibacterial activity against Gram-positive/negative bacteria and actual wound infection, suggesting their potential for serving as one type of promising antibacterial material.

Poly(thymine)-Templated Copper Nanoparticles as a Fluorescent Indicator for Hydrogen Peroxide and Oxidase-Based Biosensing

Biomineralized fluorescent metal nanoparticles have attracted considerable interest in many fields by virtue of their excellent properties in synthesis and application. Poly(thymine)-templated fluorescent copper nanoparticles (T-CuNPs) as a promising nanomaterial has been exploited by us recently and displays great potential for signal transducing in biochemical analysis. However, the application of T-CuNPs is rare and still at an early stage. Here, a new fluorescent analytical strategy has been developed for H2O2 and oxidase-based biosensing by exploiting T-CuNPs as an effective signal indicator. The mechanism is mainly based on the poly(thymine) length-dependent formation of T-CuNPs and the probe's oxidative cleavage. In this assay, the probe T40 can effectively template the formation of T-CuNPs by a fast in situ manner in the absence of H2O2, with high fluorescent signal, while the probe is cleaved into short-oligonucleotide fragments by hydroxyl radical (·OH) which is formed from the Fenton reaction in the presence of H2O2, leading to the decline of fluorescence intensity. By taking advantage of H2O2 as a mediator, this strategy is further exploited for oxidase-based biosensing. As the proof-of-concept, glucose in human serum has been chosen as the model system and has been detected, and its practical applicability has been investigated by assay of real clinical blood samples. Results demonstrate that the proposed strategy has not only good detection capability but also eminent detection performance, such as simplicity and low-cost, holding great potential for constructing effective sensors for biochemical and clinical applications.

Bio-inspired synthesis of metal nanomaterials and applications

This critical review focuses on recent advances in the bio-inspired synthesis of metal nanomaterials (MNMs) using microorganisms, viruses, plants, proteins and DNA molecules as well as their applications in various fields. Prospects in the design of bio-inspired MNMs for novel applications are also discussed.

Nanomaterials-Based Fluorimetric Methods for MicroRNAs Detection

MicroRNAs (miRNAs) are small endogenous non-coding RNAs of ~22 nucleotides that play important functions in the regulation of many biological processes, including cell proliferation, differentiation, and death. Since their expression has been in close association with the development of many diseases, recently, miRNAs have been regarded as clinically important biomarkers and drug discovery targets. However, because of the short length, high sequence similarity and low abundance of miRNAs in vivo, it is difficult to realize the sensitive and selective detection of miRNAs with conventional methods. In line with the rapid development of nanotechnology, nanomaterials have attracted great attention and have been intensively studied in biological analysis due to their unique chemical, physical and size properties. In particular, fluorimetric methodologies in combination with nanotechnology are especially rapid, sensitive and efficient. The aim of this review is to provide insight into nanomaterials-based fluorimetric methods for the detection of miRNAs, including metal nanomaterials, quantum dots (QDs), graphene oxide (GO) and silicon nanoparticles.

Intramolecular long-distance nucleophilic reactions as a rapid fluorogenic switch applicable to the detection of enzymatic activity

Long-distance intramolecular nucleophilic reactions are promising strategies for the design of fluorogenic probes to detect enzymatic activity involved in lysine modifications. However, such reactions have been challenging and hence have not been established. In this study, we have prepared fluorogenic peptides that induce intramolecular reactions between lysine nucleophiles and electrophiles in distal positions. These peptides contain a lysine and fluorescence-quenched fluorophore with a carbonate ester, which triggers nucleophilic transesterification resulting in fluorogenic response. Transesterification occurred under mild aqueous conditions despite the presence of a long nine-amino-acid spacer between the lysine and fluorophore. In addition, one of the peptides showed the fastest reaction kinetics with a half-life time of 3.7 min. Furthermore, the incorporation of this fluorogenic switch into the probes allowed rapid fluorogenic detection of histone deacetylase (HDAC) activity. These results indicate that the transesterification reaction has great potential for use as a general fluorogenic switch to monitor the activity of lysine-targeting enzymes.

Protein-DNA interactions: a novel approach to improve the fluorescence stability of DNA/Ag nanoclusters

Protein-DNA interactions are known to play an important role in a variety of biological processes. We have shown here that protein-DNA binding events can also be used to greatly improve the fluorescence stability of DNA-templated Ag nanoclusters (Ag NCs), which would be highly beneficial for Ag NCs in applications of biosensing/imaging.

A rapid, sensitive and label-free sensor for Hg(ii) ion detection based on blocking of cysteine-quenching of fluorescent poly(thymine)-templated copper nanoparticles

A rapid fluorescence sensor was developed for Hg²⁺ detection based on blocking of cysteine-quenching of poly T templated Cu NPs.

Formation of copper nanoparticles on poly(thymine) through surface-initiated enzymatic polymerization and its application for DNA detection

A DNA biosensor using polyT-templated CuNPs as the fluorescent probe and SIEP as the signal amplification strategy is proposed.

A reusable microRNA sensor based on the electrocatalytic property of heteroduplex-templated copper nanoclusters

Repeat detection of miRNA is accomplished by reconstruction of DNA–RNA heteroduplexes-templated copper nanoclusters on an electrode surface.