G-quadruplex DNAzyme-based chemiluminescence biosensing platform based on dual signal amplification for label-free and sensitive detection of protein

Layer Growth Inhibiting Strategy for Superior-Loading Atomic Metal Sites on Ultrathin Layered Double Hydroxides as the Efficient Chemiluminescence Probes

Owing to the remarkable catalytic attributes, single-atom catalysts (SACs) have exhibited promising application prospects as the substitutes of natural enzymes. However, the low loading amount of atomic sites on typical SACs (no more than 5 wt %) significantly restricts their increased capability. Hereby, a layer growth inhibitor protocol was attempted to optimize anchoring isolated Co atoms efficiently on ultrathin monolayer layered double hydroxides (LDHs). Superior to the conventional multiple-layer LDHs, the synthesized monolayer LDHs (7.29 nm-thick) served as the emerging support for dispersing substantial active sites and featured a dramatic loading content of 32.5 wt %. Through X-ray absorption spectroscopy, the atomically dispersed active centers on Co SACs were verified as Co-N4 moieties. The results of radical scavenger experiments and electron paramagnetic resonance spectroscopy showed that Co SACs were favorable to the high yield of reactive oxygen species originating from the decomposition of H2O2. Therefore, Co SACs functioned as a sensitive enhancer to drastically boost the luminol-H2O2 chemiluminescence intensity by ∼4713-fold, which excelled drastically over these previously reported SACs. Furthermore, Co SACs were adopted as chemiluminescent probes for the quantitation of chlorothalonil, wherein a low detection limit of 49 pg mL-1 (3σ) was achieved. Additionally, the successful application in recovery trials demonstrated the favorable feasibility of Co SACs. The facile layer growth inhibitor protocol affords SACs with improved loading properties and even superior catalytic performances for sensitive luminescent bioassays.

Anthracycline-Functionalized Dextran as a New Signal Multiplication Tagging Approach for Immunoassay

The most used kind of immunoassay is enzyme-linked immunosorbent assay (ELISA); however, enzymes suffer from steric effects, low stability, and high cost. Our research group has been developing quinone-linked immunosorbent assay (QuLISA) as a new promising approach for stable and cost-efficient immunoassay. However, the developed QuLISA suffered from low water-solubility of synthesized quinone labels and their moderate sensitivity. Herein, we developed a new approach for signal multiplication of QuLISA utilizing the water-soluble quinone anthracycline, doxorubicin, coupled with dextran for signal multiplication. A new compound, Biotin-DexDox, was prepared in which doxorubicin was assembled on oxidized dextran 40, and then it was biotinylated. The redox-cycle-based chemiluminescence and the colorimetric reaction of Biotin-DexDox were optimized and evaluated, and they showed very good sensitivity down to 0.25 and 0.23 nM, respectively. Then, Biotin-DexDox was employed for the detection of biotinylated antibodies utilizing avidin as a binder and a colorimetric assay of the formed complex through its contained doxorubicin redox reaction with NaBH₄ and imidazolium salt yielding strong absorbance at 510 nm. The method could detect the plate-fixed antibody down to 0.55 nM. Hence, the application of Biotin-DexDox in QuLISA was successfully demonstrated and showed a significant improvement in its sensitivity and applicability to aqueous assays.

Biosensors based on functional nucleic acids and isothermal amplification techniques

In the past few years, with the in-depth research of functional nucleic acids and isothermal amplification techniques, their applications in the field of biosensing have attracted great interest. Since functional nucleic acids have excellent flexibility and convenience in their structural design, they have significant advantages as recognition elements in biosensing. At the same time, isothermal amplification techniques have higher amplification efficiency, so the combination of functional nucleic acids and isothermal amplification techniques can greatly promote the widespread application of biosensors. For the purpose of further improving the performance of biosensors, this review introduces several widely used functional nucleic acids and isothermal amplification techniques, as well as their classification, basic principles, application characteristics, and summarizes their important applications in the field of biosensing. We hope to provide some references for the design and construction of new tactics to enhance the detection sensitivity and detection range of biosensing.

An off-on fluorescence aptasensor for trace thrombin detection based on FRET between CdS QDs and AuNPs

An off-on fluorescence aptasensor was developed for trace thrombin detection based on fluorescence resonance energy transfer (FRET) between CdS QDs and gold nanoparticles (AuNPs). Using DNA pairwise hybridization of the aptamer to the complementary DNA (cDNA), the CdS QDs (energy donor) were tightly coupled to the AuNPs (energy acceptor), resulting in the occurrence of FRET and there was a dramatic fluorescence quenching of CdS QDs (turn off). When the thrombin was added to the fluorescence aptasensor, the specific binding of the aptamer to the target formed a G-quadruplex that caused the AuNPs receptor to detach and the DNA duplex to be disassembled. The process would inhibit the FRET which contribute to the recovery of fluorescence (turn on) and an "off-on" fluorescence aptasensor for thrombin detection was constructed accordingly. Under optimal conditions, the fluorescence recovery showed good linearity with the concentration of thrombin in the range of 1.35-54.0 nmol L-1, and the detection limit was 0.38 nmol L-1 (S/N = 3, n = 9). Importantly, the fluorescence aptasensor presented excellent specificity for thrombin, and was successfully applied to the quantitative determination of thrombin in real serum with satisfactory recoveries of 98.60-102.2%.

Recent Progresses in Development of Biosensors for Thrombin Detection

Thrombin is a serine protease with an essential role in homeostasis and blood coagulation. During vascular injuries, thrombin is generated from prothrombin, a plasma protein, to polymerize fibrinogen molecules into fibrin filaments. Moreover, thrombin is a potent stimulant for platelet activation, which causes blood clots to prevent bleeding. The rapid and sensitive detection of thrombin is important in biological analysis and clinical diagnosis. Hence, various biosensors for thrombin measurement have been developed. Biosensors are devices that produce a quantifiable signal from biological interactions in proportion to the concentration of a target analyte. An aptasensor is a biosensor in which a DNA or RNA aptamer has been used as a biological recognition element and can identify target molecules with a high degree of sensitivity and affinity. Designed biosensors could provide effective methods for the highly selective and specific detection of thrombin. This review has attempted to provide an update of the various biosensors proposed in the literature, which have been designed for thrombin detection. According to their various transducers, the constructions and compositions, the performance, benefits, and restrictions of each are summarized and compared.

Advances in the DNA Nanotechnology for the Cancer Biomarkers Analysis: Attributes and Applications

The most commonly used clinical methods are enzyme-linked immunosorbent assay (ELISA) and quantitative PCR (qPCR) in which ELISA was applied for the detection of protein biomarkers and qPCR was especially applied for nucleic acid biomarker analysis. Although these constructed methods have been applied in wide range, they also showed some inherent shortcomings such as low sensitivity, large sample volume and complex operations. At present, many methods have been successfully constructed on the basis of DNA nanotechnology with the merits of high accuracy, rapid and simple operation for cancer biomarkers assay. In this review, we summarized the bioassay strategies based on DNA nanotechnology from the perspective of the analytical attributes for the first time and discussed and the feasibility of the reported strategies for clinical application in the future.

Sensitive and label-free chemiluminescence detection of malathion using exonuclease-assisted dual signal amplification and G-quadruplex/hemin DNAzyme

Malathion is one of the most commonly used organophosphorus pesticides that can cause serious harm to the ecological environment and human health. Herein, we demonstrated a label-free chemiluminescent aptasensor for the sensitive detection of malathion based on exonuclease-assisted dual signal amplification and G-quadruplex/hemin DNAzyme. Upon the addition of malathion, the aptamer probe specifically bound to the target to form a complex malathion-S3, leaving a duplex S1-S2. The complex malathion-S3 was digested by exonuclease I and the target was released. The released target was recycled to perform exonuclease I-assisted signal amplification. Furthermore, after treatment with exonuclease III, the duplex S1-S2 was converted into the secondary target ST. The secondary target ST interacted with the hairpin H1 to form a complex H1-ST, which was further digested by exonuclease III and released the secondary target. The released secondary target was recycled to perform exonuclease III-assisted signal amplification. After complete amplification, large numbers of G-quadruplex/hemin DNAzymes were generated. Under the optimal experimental conditions, the prepared aptasensor showed an excellent linear response to malathion with a detection limit of 0.47 pM. The relative standard deviations were in the range of 4.2-6.9%. Moreover, the aptasensor was successfully applied to detect malathion in spiked food and traditional Chinese medicine samples.

Metal enhanced chemiluminescence nanosensor for ultrasensitive bioassay based on silver nanoparticles modified functional DNA dendrimer

A novel metal enhanced chemiluminescence (MEC) nanosensor was developed for ultrasensitive biosensing and imaging, based on functional DNA dendrimer (FDD), proximity-dependent DNAzyme and silver nanoparticles (AgNPs). The FDD containing two split G-quadruplex structures was prepared through an enzyme-free and step-by-step assembly strategy, and then reacted with AgNPs and hemin molecules to form the FDD/hemin/AgNPs facilely. Such a MEC nanosensor consisted of three modules: FDD (scaffold), the generated G-quadruplex/hemin DNAzyme (signal reporter) and AgNPs (chemiluminescence enhancer). The MEC effect was achieved by controlling the length of DNA sequences between AgNPs on the periphery of FDD and DNAzymes inside it. Such nanosensor exhibited 9-fold amplification and another 6.4-fold metal enhancement in chemiluminescence intensity, which can be easily applied into trace detection of multiple protein markers using a disposable protein immunoarray. The FDD/hemin/AgNPs-based multiplex MEC imaging assay showed wide linear ranges over 5 orders of magnitude and detection limits down to 5× 10^-5 ng L^-1 and 1.8 × 10^-4 U mL^-1 for cardiac troponin T and carcinoma antigen 125, demonstrating a promising potential in application to protein analysis and clinical diagnosis. Moreover, the MEC nanosensor can be effectively delivered into cells with excellent biocompatibility and outstanding stability, offering a new tool for detection of intracellular targets and suggesting wide applications in bioassay.

Diagnostic value of quantification of circulating free DNA for gall bladder cancer using a chemiluminescence DNA biosensor system based on DNA G-quadruplex/ hemin enzyme

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In this study, we designed a novel detection system to detect DNA based on DNA G-quadruplex/hemin enzyme. It consisted of DNA probes with hemin that can form a special structure via self-assembly after paring with target DNA. The special structure containing hemin showed enzyme activity catalyzing substrates for coloration or luminescence.

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Based on this chemiluminescence DNA biosensor system using DNA G-quadruplex/hemin enzyme, we designed a pair of DNA probes targeting β-actin DNA to detect circulating free DNA (cfDNA) in human serum from patients with gall bladder cancer (GBC), patients with cholecystitis, and healthy donors and calculated concentrations of cfDNA according to a standard curve.

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In the serum of patients with GBC, the level of cfDNA was higher than those in the serum of patients with cholecystitis and healthy donors.

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This is a convenient, economic, and promising approach to aid the diagnosis of patients with GBC via detecting serum cfDNA.

Gall bladder cancer (GBC) is an insidious but rapidly progressed disease with a poor prognosis and high mortality rate. To explore a novel method for GBC diagnosis, we quantified circulating free DNA (cfDNA) in serum samples from 228 participants, including 83 patients with GBC, 75 patients with cholecystitis, and 70 healthy donors, using a chemiluminescence DNA biosensor system based on DNA G-quadruplex/hemin enzyme. We measured β-actin gene expression to evaluate serum cfDNA levels representing as chemiluminescence intensity with the addition of sufficient probes. We analyzed associations of cfDNA quantities in serum samples and corresponding pathological stages and found that the concentration of cfDNA was significantly higher in GBC group than in the healthy control and cholecystitis groups. The levels of cfDNA were significantly associated with TNM stage, lymph node involvement, metastasis, and jaundice. The ROC curves showed that the diagnostic value of chemiluminescence DNA biosensor system was nearly equivalent to that of qPCR. Our method can distinguish patients with GBC from healthy donors and patients with cholecystitis clearly; however, this method was not available to distinguish patients with cholecystitis from the healthy controls. In summary, cfDNA maybe serve as a new diagnostic and noninvasive marker for the diagnosis of GBC using chemiluminescence DNA biosensor system based on DNA G-quadruplex/hemin enzyme.

Electronic structure engineering and biomedical applications of low energy-excited persistent luminescence nanoparticles

Persistent luminescence nanoparticles (PLNPs) are new luminescent materials that can store the excitation energy quickly and persistently emit it after ceasing excitation sources. Due to the advantages of long-lasting luminescence without constant excitation, PLNPs have been widely used in biomedical applications. Visible light excitable PLNPs (VPLNPs) and near-infrared excitable PLNPs (NPLNPs) are two kinds of novel and promising PLNPs. Compared to conventional PLNPs, VPLNPs and NPLNPs have the characteristics of low tissue damage, deep tissue penetration, and high signal-to-noise ratio. With these special features, they have great potential in applications such as long-term tracing, deep-tissue bioimaging, and precise treatment. In this review, we introduce the common strategy of constructing VPLNPs and NPLNPs based on electronic structure engineering and the applications of VPLNPs and NPLNPs in biomedicine. This review article aims to offer valuable information about the progress and development direction of VPLNPs and NPLNPs, promoting more applications in biomedicine, materials science, energy engineering, and environmental technologies in the future.

A graphene oxide-based fluorescence assay for the sensitive detection of DNA exonuclease enzymatic activity

The 3'-5' exonuclease enzyme plays a dominant role in multiple pivotal physiological activities, such as DNA replication and repair processes. In this study, we designed a sensitive graphene oxide (GO)-based probe for the detection of exonuclease enzymatic activity. In the absence of Exo III, the strong π-π interaction between the fluorophore-tagged DNA and GO causes the efficient fluorescence quenching via a fluorescence resonance energy transfer (FRET). In contrast, in the presence of Exo III, the fluorophore-tagged 3'-hydroxyl termini of the DNA probe was digested by Exo III to set the fluorophore free from adsorption when GO was introduced, causing an inefficient fluorescence quenching. As a result, the fluorescence intensity of the sensor was found to be proportional to the concentration of Exo III; towards the detection of Exo III, this simple GO-based probe demonstrated a highly sensitive and selective linear response in the low detection range from 0.01 U mL-1 to 0.5 U mL-1 and with the limit of detection (LOD) of 0.001 U mL-1. Compared with other fluorescent probes, this assay exhibited superior sensitivity and selectivity in both buffer and fetal bovine serum samples, in addition to being cost effective and having a simple setup.

Applications of Catalytic Hairpin Assembly Reaction in Biosensing

Nucleic acids are considered as perfect programmable materials for cascade signal amplification and not merely as genetic information carriers. Among them, catalytic hairpin assembly (CHA), an enzyme-free, high-efficiency, and isothermal amplification method, is a typical example. A typical CHA reaction is initiated by single-stranded analytes, and substrate hairpins are successively opened, resulting in thermodynamically stable duplexes. CHA circuits, which were first proposed in 2008, present dozens of systems today. Through in-depth research on mechanisms, the CHA circuits have been continuously enriched with diverse reaction systems and improved analytical performance. After a short time, the CHA reaction can realize exponential amplification under isothermal conditions. Under certain conditions, the CHA reaction can even achieve 600 000-fold signal amplification. Owing to its promising versatility, CHA is able to be applied for analysis of various markers in vitro and in living cells. Also, CHA is integrated with nanomaterials and other molecular biotechnologies to produce diverse readouts. Herein, the varied CHA mechanisms, hairpin designs, and reaction conditions are introduced in detail. Additionally, biosensors based on CHA are presented. Finally, challenges and the outlook of CHA development are considered.

One-step sensitive thrombin detection based on a nanofibrous sensing platform

Convenient and time-saving one-step strategies for detecting ultralow concentrations of protein biomarkers play key roles in rapid disease diagnosis. In this study, we report a one-step detection method based on a nanofibrous sensing platform via the combination of proximity-induced DNA strand displacement (PiDSD), catalytic hairpin assembly (CHA) amplification and thioflavin T (ThT) binding. The interface behaviors on the nanofibrous membrane were studied to promote interface reaction kinetics and thermodynamics. Thrombin was used as a model biomarker, and the nanofibrous sensing platform achieved a limit of detection as low as 1.0 pM, a wide linear range of 50 pM to 5 nM, excellent specificity and good long-term stability. Compared with previous one-step thrombin detection methods, our one-step detection method is label-free, convenient and much more sensitive; it has potential applications for protein detection in point-to-care testing (POCT) and early diagnosis.

A chemiluminescence biosensor for lysozyme detection based on aptamers and hemin/G-quadruplex DNAzyme modified sandwich-rod carbon fiber composite

In our work, aptamers and hemin/G-quadruplex DNAzyme modified sandwich-rod graphene quantum dots @ graphene oxide @ carbon fiber composite (DNAzyme/L-Apt/GQDs@GO@CF) was successfully prepared for sensitive and selective chemiluminescence (CL) detection of lysozyme (LZM). Initially, GQDs@GO@CF was successfully prepared and characterized. Lysozyme aptamers (L-Apt) as a recognition element and hemin/G-quadruplex DNAzyme (DNAzyme) as a catalyst of luminal - H₂O₂ were modified on the surface of GQDs@GO@CF, sequentially. The immobilization properties of GQDs@GO@CF to L-Apt and the adsorption properties of L-Apt/GQDs@GO@CF to DNAzyme were also researched, respectively. Then, the modified sandwich-rod carbon fiber composite was applied to the construction of CL biosensor for LZM detection. When LZM existed, DNAzyme would be released from the surface of L-Apt/GQDs@GO@CF and catalyzed the reaction of luminal - H₂O₂. Under optimized conditions, the CL biosensor for LZM detection showed wide linear range of 2.64 × 10^-10 to 6.6 × 10^-8 g/L and low detection limit of 1.25 × 10^-11 g/L (3δ). Finally, the CL biosensor was successfully used for LZM detection in human urine samples and illustrated the potential application in pratical samples.

Graphitic C3N4 nanosheet and hemin/G-quadruplex DNAzyme-based label-free chemiluminescence aptasensing for biomarkers

Here we first reported that graphitic carbon nitride nanosheet (g-C₃N₄ NS) could effectively quench the chemiluminescence (CL) of luminol-hydrogen peroxide (H₂O₂) system. According to the new discovery, a label-free and homogeneous CL aptasensing platform was designed for sensitive detecting of biomarkers. In the absence of target, DNA probe containing hemin/G-quadruplex DNAzyme structure was adsorbed on the surface of g-C₃N₄ NS, causing the CL quenching of luminol through an electron transfer process. However, in the presence of the target, a DNA-DNA duplex was formed due to DNA hybridization reaction and target recognition effect, which could not be adsorbed onto the g-C₃N₄ NS surface because of its weak affinity. Thus, the electron transfer was blocked and the CL emission of luminol could be enhanced. The proposed CL aptasensor could detect carcinoembryonic antigen (CEA) with a detection limit of 63.0 pg/mL and it can also be used as a general detecting strategy for adenosinetriphosphate (ATP) detection. This aptasensing platform exhibited high sensitivity toward biomarkers and the probe need not be labeled, showing great promise for disease diagnosis.

A chemiluminescence biosensor for the detection of thrombin based on the aptamer composites

An efficient, rapid, simple and ultrasensitive chemiluminescence (CL) approach was proposed for thrombin detection based on the aptamer-thrombin recognition. The aptamer composites were synthesized in this work using graphene oxide (GO) as the backing material. The thrombin was adsorbed on the aptamer composites based on the aptamer-thrombin recognition. Thus, thrombin could be quantified by the difference value of the CL intensity between supernate of the sample and the mixture which composed of thrombin and coexisted substances. The CL intensity exhibits a stable response to thrombin over a concentration range from 2.5×10^-10 to 1×10^-9mol·L^-1 with a detection limit as low as 8.3×10^-11mol·L^-1, the relative standard deviation (RSD) was found to be 4.9% for 11 determinations of 1.25×10^-9mol·L^-1 thrombin. Finally, the applicability of the method was verified by applying to serum samples. The recoveries were in the range of 90.3-101.0% with RSD of 2.6-3.2%.

Allosterically regulated DNA-based switches: From design to bioanalytical applications

DNA-based switches are structure-switching biomolecules widely employed in different bioanalytical applications. Of particular interest are DNA-based switches whose activity is regulated through the use of allostery. Allostery is a naturally occurring mechanism in which ligand binding induces the modulation and fine control of a connected biomolecule function as a consequence of changes in concentration of the effector. Through this general mechanism, many different allosteric DNA-based switches able to respond in a highly controlled way at the presence of a specific molecular effector have been engineered. Here, we discuss how to design allosterically regulated DNA-based switches and their applications in the field of molecular sensing, diagnostic and drug release.

Chemiluminescence assay for detection of 2-hydroxyfluorene using the G-quadruplex DNAzyme-H2O2-luminol system

A chemiluminescence (CL) based assay is described for the determination of the environmental pollutant 2-hydroxyfluorene (2-HOFlu) which is found to inhibit the CL of a system composed of the G-quadruplex/hemin complex (a DNAzyme), H₂O₂, and luminol. The G-rich aptamer PW17 is transformed to a potassium(I)-stabilized G-quadruplex-hemin complex which displays peroxidase-like activity to catalyze the oxidation of luminol by H₂O₂ which is accompanied by strong blue CL emission. On addition of 2-HOFlu, it will participate in the G-quadruplex DNAzyme-mediated oxidation by H₂O₂. As a result, CL intensity is decreased. The difference in CL intensity (ΔI) before and after addition of 2-HOFlu serves as the signal for its quantitation. In water of pH 9.0, a linear relationship is found for the 1 nM to 1 μM concentration range, with a 0.2 nM detection limit. The assay is highly selective over other fluorene derivatives. It was successfully applied to the determination of 2-HOFlu in spiked lake water samples. The method is rapid, cost-effective and convenient. Conceivably, it has a wide scope in that it may be applied to other target pollutants for which G-quadruplexes are available. Graphical abstract A chemiluminescence (CL) assay is described for the determination of the environmental pollutant 2-hydroxyfluorene (2-HOFlu) based on the inhibition of the CL system composed of the G-quadruplex/hemin complex (a DNAzyme), H₂O₂, and luminol.

From Interface to Solution: Integrating Immunoassay with Netlike Rolling Circle Amplification for Ultrasensitive Detection of Tumor Biomarker

Both the 3D solution and the 2D interface play important roles in bioanalysis. For the former, reactions can be carried out adequately; while for the latter, interfering substance can be eliminated simply through wash. It is a challenge to integrate the advantages of solution-based assays and the interface-based assays. Here, we report an immuno-NRCA (netlike rolling circle amplification) strategy, which integrates immunoassay with NRCA for the ultrasensitive detection of tumor biomarker, by taking the assay of a tumour marker as an example. In this strategy, immunoreactions occur on interface, while the target-induced signal amplification can be completed totally in solution. As a result, this system has the merits of both solution- and interface-based assays. The whole procedure of this novel strategy is similar to the conventional ELISA, inheriting the usability. But in comparison with ELISA, the performance is greatly improved. The detection limit can be lowered to 5.5 fg/L, making it possible to detect the target tumour marker in one drop of blood. Also, in comparison with established immuno-PCR method, which integrates immunoassay with the commonly used nucleic acid amplification approach, this system has no requirement for thermal cycler owing to the isothermal amplification, and it has the ability to retain the immunoreactivities. So, the new immunoassay method proposed in this study may have more feasible applications in the future.

Highly sensitive chemiluminescence biosensor for protein detection based on the functionalized magnetic microparticles and the hybridization chain reaction

An ultrasensitive chemiluminescence (CL) biosensor for the detection of protein is developed in this study based on the functionalized magnetic microparticles (MMPs) and the hybridization chain reaction (HCR). First, the primer hybridized with the thrombin aptamer conjugated on the surface of MMPs. Then the HCR was triggered by part of the primer and its products were assembled on the surface of the MMPs. Through the interaction between streptavidin and biotin, the streptavidin-horseradish peroxidase (SA-HRP) was coupled with the HCR products. In the presence of thrombin, the HCR products conjugating with SA-HRP were released from the surface of MMPs after the aptamer recognized and bound to its target molecule. So the released SA-HRP in the supernatant produced a significant chemiluminescence imaging signal after the addition of H₂O₂-luminol. The detection limit of thrombin with this method could be as low as 9.7fM. Besides, the sensing strategy was modified by changing the adding order of reagents that was then successfully applied in the detection of thrombin in complex sample. What's more, the DNA detection also could be carried out with this method, which demonstrated the universality of the proposed sensing strategy.

A split G-quadruplex DNAzyme based magnetic graphene oxide platform for sensitive authentication of Pseudostellaria heterophylla

Based on the different affinities of graphene oxide (GO) toward ssDNA and dsDNA, a sensitive fluorescence assay utilizing a split G-rich probe and magnetic GO (Fe₃O₄/GO) was developed for authentication of Pseudostellaria heterophylla based on the ITS sequences.