A resonance Rayleigh scattering sensor for detection of Pb2+ ions via cleavage-induced G-wire formation

Highly sensitive detection of Pb2+ in the environment with DNAzyme and rolling circle amplification reaction

Lead (Pb2+) is a toxic heavy metal that can severely pollute the environment and cause harm to public health. Therefore, the prompt and accurate monitoring of lead levels in the environment is vital. In this study, a novel DNAzyme-based cascade signal amplification biosensor that could detect Pb2+ with high sensitivity was designed through the combination of the strand displacement reaction (SDR) and rolling circle amplification (RCA). When Pb2+ is absent, RCA is triggered under the synergistic action of T4 DNA ligase and phi29 DNA polymerase with an artificially fluorophore-labeled S-chains being released to replace the upstream products generated by repeated RCA, thereby restoring the quenched fluorescence and emitting a strong fluorescent signal. After adding Pb2+, 8-17 DNAzyme binds specifically to Pb2+ and catalyzes the cleavage of the rA site on a single-stranded DNA with artificially modified rA site to restrict the RCA. The designed sensor provides a linear detection range for Pb2+ from 25 pM to 1 µM, with a low limit of detection 8.3 pM. Significantly, this sensor still demonstrates satisfactory performance when used for detecting Pb2+ in environment samples (e.g., river water). We consider that our study can provide reference values and ideas for the development of heavy metal ion detection methods.

A novel highly active AgMOF-based silver single-atom catalyst and its application to the aptamer SERS/RRS for the determination of aflatoxin B1

A novel highly active silver single-atom catalyst (AgSAC) was prepared by a microwave-assisted solvothermal method using silver covalent organic frameworks (AgMOF) as precursors. It was characterized by transmission electron microscopy (TEM), X-ray diffraction (XRD), X-ray photoelectron spectroscopy (XPS), infrared (IR), and surface-enhanced Raman scattering (SERS). The experiment found that AgSAC has excellent catalytic performance and can heavily catalyze the nano-reaction of chloroauric acid-malic acid (HAuCl4-H2Mi) to generate gold nanoparticles (AuNPs). The produced AuNPs have strong SERS, resonance Rayleigh scattering (RRS) and surface plasmon resonance absorption (Abs) signals. Aflatoxin B1 aptamer (AptAFB1) can be adsorbed to the surface of AgSAC through electrostatic interaction, to reduce the catalytic activity of AgSAC and the SERS/RRS/Abs signal of the system. When the target molecule (AFB1) was added, it will specifically bind to AptAFB1 and release AgSAC, restoring the catalytic activity of AgSAC, thereby restoring the SERS/RRS/Abs signal of the system. Based on this, a simple and sensitive aptamer sensing analysis platform for trace AFB1 was established, and a reasonable catalytic amplification mechanism of AgSAC was proposed. The SERS method exhibited the highest sensitivity, with a linear range of 0.005-0.225 μg/L and a detection limit of 0.002 μg/L.

High-resolution nucleic acid detection using online polyacrylamide gel electrophoresis platform

Polyacrylamide gel electrophoresis (PAGE) is one of the most popular techniques for the separation and detection of nucleic acids. However, it requires a complicated detection procedure and offline detection format, which inevitably leads to band broadening and thus compromises the separation resolution. To overcome this problem, we developed an online PAGE (OPAGE) platform by integrating the gel electrophoresis apparatus with the gel imaging system, so as to obviate the need for the complicated detection procedure. Notably, OPAGE enabled the real-time monitoring of the separation process and the immediate imaging of the separation results once the electrophoresis ended. Using a series of synthetic DNAs with different lengths as samples, we demonstrated that the OPAGE platform enhanced 32-64 % of the number of theoretical plates, showed a robust dynamic range of 0.1-12.5 ng/μL, and realized a limit of detection as low as 0.08 ng/μL DNA. Based on our results, we anticipate that the OPAGE platform is a promising alternative to traditional nucleic acid gel electrophoresis for simple and high-resolution detection and quantification and nucleic acid.

Recent advances in cascade isothermal amplification techniques for ultra-sensitive nucleic acid detection

Nucleic acid amplification techniques have always been one of the hot spots of research, especially in the outbreak of COVID-19. From the initial polymerase chain reaction (PCR) to the current popular isothermal amplification, each new amplification techniques provides new ideas and methods for nucleic acid detection. However, limited by thermostable DNA polymerase and expensive thermal cycler, PCR is difficult to achieve point of care testing (POCT). Although isothermal amplification techniques overcome the defects of temperature control, single isothermal amplification is also limited by false positives, nucleic acid sequence compatibility, and signal amplification capability to some extent. Fortunately, efforts to integrating different enzymes or amplification techniques that enable to achieve intercatalyst communication and cascaded biotransformations may overcome the corner of single isothermal amplification. In this review, we systematically summarized the design fundamentals, signal generation, evolution, and application of cascade amplification. More importantly, the challenges and trends of cascade amplification were discussed in depth.

Signal-on fluorescent sensing strategy for Pb2+ detection based on 8-17 DNAzyme-mediated molecular beacon-type catalytic hairpin assembly circuit

Based on a Pb²⁺-specific 8-17 DNAzyme-induced catalytic hairpin assembly (CHA), a simple signal-on fluorescence strategy for lead ion detection was established. 8-17 DNAzyme was used as the recognition element of Pb²⁺, which catalyzed the cleavage of the RNA base embedded in the DNA substrate strand, while releasing part of the substrate strand (S') as CHA initiator. And two hairpin probes (H1 and H2-FQ) were designed according to the sequence of S' for CHA, in which H2-FQ was labeled with the fluorophore FAM and quencher BHQ-1 as fluorescent "molecular switch" based on fluorescence resonance energy transfer (FRET). In the presence of Pb²⁺, the CHA reaction was triggered to form a large number of H1-H2 complexes, enabling enzyme-free isothermal amplification and a signal-on fluorescence strategy. In the concentration range of 0.5-1000 nM, the fluorescence signal increases with the increase of Pb²⁺ concentration. The quantitative detection limit of Pb²⁺ by this method is 0.5 nM, which has better detection performance compared with the FQ-labeled 8-17 DNAzyme method. The established biosensor exhibits good specificity and can be effectively used for the detection of Pb²⁺ in real samples of river water and grass carp. Through ingenious nucleic acid sequence design, DNAzyme and CHA reactions are integrated to realize the enzyme-free isothermal amplifications and sensitive detection of Pb²⁺, which holds potential versatility in food supervision and environmental monitoring.

The unique physical shading pattern of Rayleigh scattering for the generally improved detection of scattering particles

A facile physical shading method, based on the Rayleigh scattering pattern, exhibited excellent performance detection because of its reduced background noise.

A Simple and Sensitive Nanogold RRS/Abs Dimode Sensor for Trace As3+ Based on Aptamer Controlled Nitrogen Doped Carbon Dot Catalytic Amplification

Using citric acid (CA) and ethylenediamine (EDA) as precursors, stable nitrogen-doped carbon dots (CD) nanosols were prepared by microwave procedure and characterized in detail. It was found that CD_Ns catalyze ethanol (Et)-HAuCl₄ to generate gold nanoparticles (AuNPs), which have strong surface plasmon resonance, Rayleigh scattering, (RRS) and a surface plasmon resonance (SPR) absorption (Abs) effect at 370 nm and 575 nm, respectively. Compled the new catalytic amplification indicator reaction with the specific As³⁺ aptamer reaction, a new RRS/Abs dual-mode aptamer sensor for the assay of trace As³⁺ was developed, based on the RRS/Abs signals increasing linearly with As³⁺ increasing in the ranges of 5-250 nmol/L and 50-250 nmol/L, whose detection limits were 0.8 nmol/L and 3.4 nmol/L As³⁺, respectively. This analytical method has the advantages of high selectivity, simplicity, and rapidity, and it has been successfully applied to the detection of practical samples.

Biosensing with DNAzymes

This article provides a comprehensive review of biosensing with DNAzymes, providing an overview of different sensing applications while highlighting major progress and seminal contributions to the field of portable biosensor devices and point-of-care diagnostics. Specifically, the field of functional nucleic acids is introduced, with a specific focus on DNAzymes. The incorporation of DNAzymes into bioassays is then described, followed by a detailed overview of recent advances in the development of in vivo sensing platforms and portable sensors incorporating DNAzymes for molecular recognition. Finally, a critical perspective on the field, and a summary of where DNAzyme-based devices may make the biggest impact are provided.

A resonance Rayleigh scattering and fluorescence quenching dual-channel sensor for sensitive detection of chitosan based on Eosin Y

The sensitive chitosan (CTS) detection methods based on the resonance Rayleigh scattering (RRS) quenching method and fluorescence quenching of Eosin Y were put forward. In the HAC-NaAC buffer solution, Eosin Y interacted with Triton X-100 to generate the binary complex which served as the RRS spectral probe. When CTS was interacted with the binary complex, the RRS intensity decreased with the increase of CTS. At the same time, the fluorescence intensity of Eosin Y decreased in the presence of Triton X-100, and the fluorescence intensity of "Eosin Y+Triton X-100" system further decreased when CTS was added. So it was further proved that there was a forming complex in "Eosin Y+Triton X100+CTS" system. The interaction was characterized by zeta potential, RRS, fluorescence spectrum, and UV-Vis spectroscopy. Under optimal conditions, there was a good linear relationship between the RRS decreased intensity (ΔI) and the concentration of CTS in the range of 0.05-1.30 μg/mL, with a regression equation of ΔI = 1325c + 73.66 and correlation coefficient (R²) of 0.9907. The detection limit was 0.0777 μg/mL. Likewise, the linear range of the fluorescence quenching was 0.03-1.30 μg/mL; the regression equation was ΔF = 1926c + 294.0 with R² = 0.9800 under fluorescence quenching. The detection limit was 0.0601 μg/mL. Therefore, the dual-channel sensor for the determination of CTS was applied to the health products, and the results were satisfactory. The t test result showed that there was no statistical difference between the two methods.

Review of recent progress on DNA-based biosensors for Pb2+ detection

Lead (Pb) is a highly toxic heavy metal of great environmental and health concerns, and interestingly Pb²⁺ has played important roles in nucleic acids chemistry. Since 2000, using DNA for selective detection of Pb²⁺ has become a rapidly growing topic in the analytical community. Pb²⁺ can serve as the most active cofactor for RNA-cleaving DNAzymes including the GR5, 17E and 8-17 DNAzymes. Recently, Pb²⁺ was found to promote a porphyrin metalation DNAzyme named T30695. In addition, Pb²⁺ can tightly bind to various G-quadruplex sequences inducing their unique folding and binding to other molecules such as dyes and hemin. The peroxidase-like activity of G-quadruplex/hemin complexes was also used for Pb²⁺ sensing. In this article, these Pb²⁺ recognition mechanisms are reviewed from fundamental chemistry to the design of fluorescent, colorimetric, and electrochemical biosensors. In addition, various signal amplification mechanisms such as rolling circle amplification, hairpin hybridization chain reaction and nuclease-assisted methods are coupled to these sensing methods to drive up sensitivity. We mainly cover recent examples published since 2015. In the end, some practical aspects of these sensors and future research opportunities are discussed.

A Highly Sensitive SERS and RRS Coupled Di-Mode Method for CO Detection Using Nanogolds as Catalysts and Bifunctional Probes

Carbon monoxide (CO) is a commonly poisonous gas. It is important to detect CO in daily life. Herein, a new and sensitive surface enhanced Raman scattering (SERS) and resonance Rayleigh scattering (RRS) coupled di-mode method was developed for CO, based on gold nano-enzyme catalysis and gold nanoprobes. CO can react with HAuCl4 to generate gold nanoparticles (AuNPs) in pH 5.2 HAc-NaAc buffer. The generated AuNPs exhibited SERS activity at 1620 cm-1 in the presence of Vitoria blue B (VBB) molecular probes, and an RRS peak at 290 nm. Based on the AuNP bifunctional probes, the increased SERS and RRS intensities respond linearly with the concentration of CO in the range of 100-1500 ng/mL and 30-5230 ng/mL, respectively. To improve the sensitivity, the produced AuNPs were used as nano-enzyme catalysts for the new indicator reaction of HAuCl4-ethanol (En) to amplify the signal. The sensitive SERS method was coupled with the accurate RRS method to develop a sensitive and accurate SERS/RRS di-mode method for determination of 3.0-413 ng/mL CO, based on the AuNP-HAuCl4-En nanocatalytic reaction and its product of AuNPs as SERS and RRS bifunctional probes.

Application of Gelatin Decorated with Allura Red as Resonance Rayleigh Scattering Sensor to Detect Chito-Oligosaccharides

A convenient and sensitive triple-wavelength overlapping resonance Rayleigh scattering (TWO-RRS) method for the detection of chito-oligosaccharides (COS) was proposed based on enhancing the rigid surface of porous reticular spatial structure of gelatin and COS by introducing allura red AC (AR). The interaction and resultant porous reticular spatial structure were characterized with transmission electron microscopy (TEM), RRS, and UV-Vis spectroscopy. The results indicated that gelatin and COS formed porous reticular spatial structure with an average diameter of 1.5-2.0 μm, and the RRS value of COS-AR-gelatin ternary system with gelatin participation was significantly higher than that of COS-AR binary system. Under the optimal conditions, the enhanced TWO-RRS intensity of the system was linearly proportional to COS concentration in the range of 0.30-2.50 μg/mL, and the regression equation was ΔI = 4933.2c-446.21 with R2 = 0.9980. The limit of detection was 0.0478 μg/mL. So, a new method for the detection of COS was established and verified in the health products with satisfactory results.

The triple-wavelength overlapping resonance Rayleigh scattering method and the fluorescence quenching method for the determination of chitooligosaccharides using trisodium-8-hydroxypyrene-1,3,6-trisulfonate as a probe

In this assay, the triple-wavelength overlapping resonance Rayleigh scattering (TWO-RRS) method and the fluorescence quenching method for the quantitative detection of chitooligosaccharides (COS) were developed. In the weakly Britton-Robinson buffer solution, COS interacted with Trisodium-8-hydroxypyrene-1,3,6-trisulfonate (HPTS) to form an ion-association complex of HPTS-COS, which increased the RRS intensities at 321 nm, 430 nm and 511 nm and decreased the fluorescence intensities of the system at 512 nm. And the changes in the intensities of both methods were related to the changes in the concentration of COS. Moreover, for the TWO-RRS method, OP-10 made the RRS intensities increased stronger, finally, the three peaks' total was linear to the concentration of COS in the range of 1.00-8.00 μg/mL and the limit of detection (LOD) was 0.247 μg/mL, and for the fluorescence quenching method, the linear range was 0.50-3.50 μg/mL with the LOD of 0.108 μg/mL. Based on these, two new and fast spectral methods with high sensitivity and simplicity for the determination of trace COS had been established. The generation mechanism of the TWO-RRS and the fluorescence quenching was studied. At the same time, the two methods were applied to the determination of COS in health products with satisfactory results.