DNA-mediated gold nanoparticle signal transducers for combinatorial logic operations and heavy metal ions sensing

Advancing Molecular-Scale Logic Devices through Multistage Switching in a Luminescent Bimetallic Ru(II)-Terpyridine Complex

Stimuli-responsive multistep switching phenomena of a luminescent bimetallic Ru(II) complex are employed herein to fabricate multiple configurable logic devices. The complex exhibits "off-on" and "on-off" emission switching upon alternative treatment with visible and UV light. Additionally, remarkable augmentation of the rate as well as quantum yield of photoisomerization was achieved via the use of a chemical oxidant (Ce4+) as well as a reductant (metallic sodium). Upon exploiting the emission spectral response of the complex, several advanced Boolean logic functions, including IMPLICATION as well as 2-input 2-output and 3-input 2-output complex combinational logic gates, are successfully implemented. Additionally, by utilizing the vast efficacy of Python, a novel "logic_circuit" model is devised that is capable of making accurate decisions under the influence of various input combinations. This model transcends traditional Boolean logic gates, offering flexibility and intuition to design logical functions tailored to specific chemical contexts. By integrating principles of logic circuits with chemical processes, this innovative approach enables structure determination of the chemical states based on input conditions, thereby unlocking avenues for exploring intricate interactions and reactions beyond conventional Boolean logic paradigms.

Nanozyme-based inulin@nanogold for adhesive and antibacterial agent with enhanced biosafety

Nanozymes with oxidase or peroxidase-mimicking activity have emerged as a promising alternative for disinfecting resistant pathogens. However, further research and clinical applications of nanozymes are hampered by their low in vivo biosafety and biocompatibility. In this study, inulin-confined gold nanoparticles (IN@AuNP) are synthesized as an antibacterial agent via a straightforward in situ reduction of Au3+ ions by the hydroxyl groups in inulin. The IN@AuNP exhibits both peroxidase-mimicking and oxidase-mimicking catalytic activities, of which the maximum reaction velocity (Vmax) for H2O2 is 2.66 times higher than that of horseradish peroxidase. IN@AuNP can catalyze the production of reactive oxygen species (ROS), resulting in effective antibacterial behavior against both Gram-negative (Escherichia coli) and Gram-positive (Staphylococcus aureus) bacteria. Abundant hydroxyl groups retained in inulin endow the nanozyme with high adhesion to bacteria, reducing the distance between the captured bacteria and ROS, achieving an antibacterial ratio of 100 % within 1 h. Importantly, due to the natural biosafety and non-absorption of the dietary fiber inulin, as well as the inability of inulin-trapped AuNP to diffuse, the IN@AuNP exhibits high biosafety and biocompatibility under physiological conditions. This work is expected to open a new avenue for nanozymes with great clinical application value.

A novel TMD-based peroxidase-mimicking nanozyme: From naked eye detection of leukocytosis-related diseases to sensing different bioanalytes

Being emerged as alternatives to natural enzymes, nanozymes have recently drawn much attention in sensing. Herein, the first multicomponent transition metal dicalchogenide (TMD)-based nanozyme (MCFS/rGO) was synthesized by a facile hydrothermal method and characterized. This peroxidase-mimic nanozyme follows the typical Michaelis-Menten kinetics, showing a higher affinity for H₂O₂ substrate (K_m = 9 μM) compared to that of natural peroxidase (K_m = 3700 μM). The remarkable potential of the MCFS/rGO nanozyme to detect H₂O₂ provided us with a great opportunity to design some simple and fast colorimetric sensing systems. Coupling the efficient peroxidase-mimicking activity of the nanozyme with the H₂O₂ production capacity of white blood cells (WBCs) leads to the development of a novel, simple, rapid, and efficient colorimetric method to distinguish leukocytosis-related patients from healthy people by the naked eye. This pioneering diagnostic technique can also be utilized to quantitatively measure the WBC count. Moreover, we coupled the mentioned nanozyme-based system with the activity of glucose oxidase enzyme available in different types of honey samples, an innovative mechanism proved to be an effective quality indicator of the samples. Last but not least, the MCFS/rGO nanozyme is also able to determine the quantity of some biologically significant analytes, including glutathione (GSH), ascorbic acid (AA), and mercury ions (Hg²⁺), of which the limit of detection (LOD) was 9.3 nM, 22.5 nM, and 0.32 μM, respectively. Our results, however, demonstrated the superior performance of the MCFS/rGO nanozyme to determine the first two mentioned bioanalytes compared with other TMDs. Overall, this novel nanozyme-based sensor system can be considered a suitable candidate for developing multipurpose biosensors for medical and biochemical applications.

Construction of molecular logic gates using heavy metal ions as inputs based on catalytic hairpin assembly and CRISPR-Cas12a

We successfully constructed several molecular logic gates using heavy metal ions as inputs based on catalytic hairpin assembly (CHA) and CRISPR-Cas12a. The corresponding DNAzymes were used to recognize heavy metal ions (Hg²⁺, Cd²⁺, Pb²⁺, and Mn²⁺). The specific cleavage between heavy metal ions and DNAzymes leads to the release of the trigger DNA, which can be used to activate CHA through logic computation. The CHA-generated DNA duplexes contain the protospacer adjacent motifs (PAM) sequence, which can be distinguished by CRISPR-Cas12a. The hybridization interactions between the duplexes and gRNA will activate the trans-cleavage capability of Cas12a, which can cleave the single-stranded DNA (ssDNA) reporter. The separation of the fluorescence group and quench group in ssDNA will generate a high fluorescence signal for readout. Using Hg²⁺ and Cd²⁺ as the two inputs, several basic logic gates were constructed, including OR, AND, and INHIBT. Using Hg²⁺, Cd²⁺, Pb²⁺, and Mn²⁺ as the four inputs, cascaded logic gates were further fabricated. With the advantages of scalability, versatility, and logic computing capability, our proposed molecular logic gates can provide an intelligent sensing system for heavy metal ions monitoring.

Analysis and prediction of anion- and temperature responsive behaviours of luminescent Ru(II)-terpyridine complexes by using Boolean, fuzzy logic, artificial neural network and adapted neuro fuzzy inference models

Anion- and temperature responsive behaviors of three luminescent Ru(II)-terpyridine complexes are utilized here to demonstrate multiple Boolean (BL) and fuzzy logic (FL) operations. Taking advantage of the imidazole NH protons, anion-promoted alteration of the photophysical characteristics of the complexes was thoroughly investigated via absorption, and emission spectral and lifetime measurements. In their free state, the complexes display luminescence representing the "on-state", whereas quenching of luminescence is observed with anions demonstrating the "off-state". Likewise, lowering of temperature induces a substantial increase of luminescence and lifetime demonstrating the "on-state", while the increase of temperature induces a significant decrease of emission intensity and lifetime indicating the "off-state" and the process is reversible in both cases. The complexes thus can act as anion- and temperature-responsive molecular switches. The spectral signatures of the complexes under the influence of anions and temperature were employed to mimic multiple BL and FL functions. Performing very detailed sensing studies by varying the analyte concentration within a wide domain is very tedious, time-consuming and expensive. In order to overcome the lacuna, we implemented machine learning and soft computing tools such as artificial neural networks (ANNs), fuzzy-logic and adaptive neuro-fuzzy inference system (ANFIS) to predict the experimental anion sensing data of the complexes.

A highly sensitive electrochemical biosensor for Hg2+ based on entropy-driven DNA walker-based amplification

Herein, a sensitive electrochemical biosensor based on an enzyme-free and entropy-driven DNA walker is presented for the determination of Hg²⁺. This biosensor uses Hg²⁺ as a key to induce a mismatch between thymine-rich oligonucleotides to start the DNA walker, and it utilizes the entropy change of the sensing system to continuously drive the hybridization of oligonucleotides as a driving force for its walking. As the DNA walker runs, the detection signal is amplified to improve the sensitivity of the biosensor. Square wave voltammetry (SWV) of this biosensor shows a linear response of the methylene blue (MB) oxidation signal with an increase of Hg²⁺ concentration in the range of 0 to 80 nM with a detection limit of 0.136 nM, which satisfactorily meets the sensitivity requirement of the U.S. Environmental Protection Agency (EPA). The biosensor also exhibits excellent selectivity over a spectrum of interfering ions and performs well in real water samples, suggesting that it is a promising candidate for Hg²⁺ detection.

Neuro-Fuzzification Architecture for Modeling of Electrochemical Ion-Sensing Data of Imidazole-Dicarboxylate-Based Ru(II)-Bipyridine Complex

Anion- and pH-sensing behaviors of an imidazole-dicarboxylate-based Ru(II)-bipyridine complex possessing a number of dissociable protons in its secondary coordination sphere are employed here for the creation of multiple Boolean and fuzzy logic systems. The absorption, emission, and electrochemical behaviors of the metalloreceptor were significantly modulated upon the influence of basic anions (such as F^-, AcO^-, and H₂PO₄^-) as well as by altering the pH of the solution. Interestingly, the deprotonation of the metalloreceptor by selected anions or by alkaline pH, followed by its restoration to its original form by acid or acidic pH is reversible and could be repeated many times. The metalloreceptor is capable to demonstrate several advanced Boolean functions, namely, three-input OR gate, set-reset flip-flop logic, and traffic signal, by employing its electrochemical responses through proper use of different inputs. Administering exhaustive sensing experiments by changing the analyte concentration within a wide range is usually tedious as well as exorbitantly costly. To get rid of these difficulties, we employed here several soft computing approaches such as artificial neural networks (ANN), fuzzy logic systems (FLS), or adaptive neuro-fuzzy inference system (ANFIS) to foresee the experimental sensing data and to appropriately model the protonation-deprotonation behaviors of the metalloreceptor. Reasonably good correlation between the experimental and model output data is also reflected in their tested root-mean-square error values (0.115961 and 0.118894 for the ANFIS model).

Optical and Electrochemical Aptasensors for Sensitive Detection of Aflatoxin B1 and Aflatoxin M1 in Blood Serum, Grape Juice, and Milk Samples

Aflatoxin food contamination with toxic and carcinogenic impacts on human health is a global concern. We have developed aptasensors for the detection of Aflatoxin M₁ (AFM₁) and B₁ (AFB₁) using electrochemical and optical methods. In the first method, an electrochemical aptasensor was designed for the detection of AFM₁ based on complementary strand of AFM₁ aptamer that was attached onto the gold nanoparticles and a hairpin-shaped AFM₁ aptamer. The designed electrochemical aptasensor showed high selectivity toward AFM₁ with a limit of detection (LOD) as low as 0.9 nM. Moreover, the developed aptasensor was successfully used to detect AFM₁ in milk and serum with LODs of 1.8 and 1.2 nM, respectively. In the second method, a novel electrochemical aptasensor was developed based on the π-shape structure of AFB₁ aptamer. The detection limit was found to be 2 pg/mL in buffer. Also, the developed aptasensor was used to analyze AFB₁ spiked human serum and grape juice samples, and the recoveries were 95.4-108.1%. In another method, a fluorescent sensing scheme was developed for AFB₁ detection based on a hairpin structure of G-quadruplex oligonucleotide-aptamer chimera, streptavidin-coated silica nanoparticles (SNP-streptavidin) and N-methyl mesoporphyrin IX (NMM). The LOD was reported as 8 pg/mL with a linear range of 30-900 pg/mL. Moreover, the developed sensor could detect AFB₁ in serum and grape juice with the LOD of 9.8 and 11.2 pg/mL, respectively.

On-site, rapid and visual method for nanomolar Hg2+ detection based on the thymine–Hg2+–thymine triggered “double” aggregation of Au nanoparticles enhancing the Tyndall effect

This work describes a new nanosensor for the simple, rapid, portable, colorimetric analysis of mercury(ii) (Hg²⁺) ions by combining the sensitive Tyndall effect (TE) of colloidal Au nanoparticles (AuNPs) with specific thymine–Hg²⁺–thymine (T–Hg²⁺–T) coordination chemistry for the first time. For the TE-inspired assay (TEA), in the presence of Hg²⁺ in a sample, the analyte can selectively mediate the hybridization of three types of flexible single-stranded DNAs (ssDNAs) to form stable rigid double-stranded DNAs (dsDNAs) via the T–Hg²⁺–T ligand interaction. Subsequent self-assembly of the dsDNAs with terminal thiol groups on the AuNPs' surfaces led to their “double” aggregation in addition to the lack of sufficient ssDNAs as the stabilizing molecules in a high-salt solution, resulting in a remarkably enhanced TE signal that positively relied on the Hg²⁺ level. The results demonstrated that such a TEA method enabled rapid naked-eye qualitative analysis of 625 nM Hg²⁺ within 10 min with an inexpensive laser pointer pen as an inexpensive handheld light source to generate the TE response. Making use of a smartphone for portable TE readout could further quantitatively detect the Hg²⁺ ions in a linear concentration range from 156 to 2500 nM with a limit of detection as low as 25 nM. Moreover, the developed equipment-free nanosensor was also used to analyze the Hg²⁺ ions in real samples including tap water, drinking water, and pond water, the obtained recoveries were within the range of 93.68 to 108.71%. To the best of our knowledge, this is the first report of using the AuNPs and functional nucleic acids to design a TE-based biosensor for the analysis of highly toxic heavy metal ions.

A new equipment-free colorimetric nanosensor was initially developed for quantitative point-of-need detection of nanomolar Hg²⁺ ions based on the enhancement in Tyndall effect of Au nanoparticles via their target-triggered “double” aggregation.

Detection of biological mercaptan by DNA functionalized room temperature phosphorescent quantum dot nanocomposites

In this study, green low-toxicity Mn-doped Zns (Mn-Zns) room-temperature phosphorescent (RTP) quantum dots (QDs) (PQDs) nanocomposites (DNA-PQDs) were prepared under the optimal conditions by using single-stranded DNA (PS-C-ssDNA) rich of cytosine C and Thioguanine G (PS) as the template. DNA-PQDs interact with Ag⁺ to form AgN bonds and further produce C-Ag⁺-C conjugates. As a result, DNA-PQDs cluster together and induce the phosphorescent exciton energy transfer (PEET), resulting in quenching of room-temperature phosphorescent of DNA-PQDs. Nevertheless, Ag⁺ tends to form AgS bonds with biological mercaptan when it is added in, so that Ag⁺ falls from C-Ag⁺-C. DNA-PQDs changed from aggregation to looseness and RTP is recovered accordingly. On this basis, RTP detection of biological mercaptan is realized. Since this sensor system has RTP properties based on DNA-PQDs, it is very applicable to detection of mercaptan compounds in biological fluids.

A low-cost paper-based aptasensor for simultaneous trace-level monitoring of mercury (II) and silver (I) ions

Mercury (Hg²⁺) and silver (Ag⁺) ions possess the harmful effects on public health and environment that makes it essential to develop the sensing techniques with great sensitivity for the ions. Metal ions commonly coexist in the different biological and environmental systems. Hence, it is an urgent demand to design a simple method for the simultaneous detection of metal ions, peculiarly in the case of coexisting Hg²⁺ and Ag⁺. This study introduces a low-cost paper-based aptasensor to monitor Hg²⁺ and Ag⁺, simultaneously. The strategy of the sensing array is according to the conformational changes of Hg²⁺- and Ag⁺-specific aptamers and their release from the GO surface after the injection of the target sample on the sensing platform. Through monitoring the fluorescence recovery changes against the concentrations of the ions, Hg²⁺ and Ag⁺ can be determined as low as 1.33 and 1.01 pM. The paper-based aptasensor can simultaneously detect the ions within about 10 min. The aptasensor is applied prosperously to monitor Hg²⁺ and Ag⁺ in human serum, water, and milk. The designed aptasensor with the main advantages of simplicity and feasibility holds the supreme potential to develop a cost-effective sensing method for environmental monitoring, food control, and human diagnostics.

Recent Advances in Nanomaterials for Analysis of Trace Heavy Metals

In an effort to achieve high sensitivity analysis methods for ultra-trace levels of heavy metals, numerous new nanomaterials are explored for the application in preconcentration processes and sensing systems. Nanomaterial-based methods have proven to be effective for selective analysis and speciation of heavy metals in combination with spectrometric techniques. This review outlined the different types of nanomaterials applied in the field of heavy metal analysis, and concentrated on the latest developments in various new materials. In particular, the functionalization of traditional materials and the exploitation of bio-functional materials could increase the specificity to target metals. The hybridization of multiple materials could improve material properties, to build novel sensor system or achieve detection-removal integration. Finally, we discussed the future perspectives of nanomaterials in the heavy metal preconcentration and sensor design, as well as their respective advantages and challenges. Despite impressive progress and widespread attention, the development of new nanomaterials and nanotechnology is still hampered by numerous challenges, particularly in the specificity to the target and the anti-interference performance in complex matrices.

Nicking enzyme-assisted signal-amplifiable Hg2+ detection using upconversion nanoparticles

A highly specific and sensitive isothermal method for mercury detection using DNA-conjugated upconversion nanoparticles is reported. A single-stranded DNA containing thymine bases, used as the Hg²⁺-capturing element through the formation of thymine-Hg²⁺-thymine complex, is covalently attached to the NaYF₄: Yb^3+, Tm³⁺ nanoparticles. Luminescence resonance energy transfer takes place between the NaYF₄: Yb^3+, Tm³⁺ nanoparticles as donor and DNA-intercalating SYBR Green I as the acceptor upon excitation of 980 nm. The sensitivity and selectivity toward Hg²⁺ are enhanced using the nicking enzyme, Nt. Alwl, which leads to signal amplification. By monitoring the ratio of acceptor emission to a reference peak, the presence of Hg²⁺ ions are quantitatively determined with a lower detection limit of 0.14 nM, which is much lower than the US Environmental Protection Agency (EPA) limit of Hg²⁺ in drinking water.

Crystallization-Induced Emission Enhancement of Nanoclusters and One-Step Conversion of "Nanoclusters to Nanoparticles" as the Basis for Intracellular Logic Operations

Herein, we report the construction of intracellular logic operations using luminescent histidine stabilized gold nanoclusters (His Au NCs). The luminescence intensity of His Au NCs was found to be significantly enhanced following interaction with zinc ions, owing to "Crystallization induced emission enhancement". Further, the luminescence intensity of His Au NCs was found to be effectively quenched in presence of sulphide ions, owing to transformation of emissive His Au NCs to non-emissive gold nanoparticles. Thus, the collective and individual effects of zinc ions and sulphide ions causing significant variation in the luminescence intensity of His Au NCs, were used as input parameters for construction of intracellular logic operations such as Tri state buffer, "on-off" switch and INHIBIT gate within mammalian cells.

A multi-component Cu2O@FePO4 core-cage structure to jointly promote fast electron transfer toward the highly sensitive in situ detection of nitric oxide

Electrochemical sensors actually involve an electrocatalytic process in efficient and selective energy conversion. In this work, we use different components to innovatively produce a core@cage material, in which the outer cage, iron phosphate, offers a high electrocatalytic ability to electrochemically oxidize NO, while the inner material, cuprous oxide, could absorb the intermediary HO- ions to kinetically promote NO oxidation for fast electron transfer, resulting in a strong synergistic effect. The unique core@cage structure also increases the active surface area and provides plenty of channels via the porous cage for significantly enhanced mass transport. The as-prepared core@cage NO sensor shows a high sensitivity of 326.09 μA cm-2 μM-1, which is the highest among the reported non-noble metal-based NO biosensors based on the electrooxidation scheme. A free-standing flexible NO sensor was further fabricated with the material for the in situ detection of NO released from cancer cells, demonstrating a low detection limit (0.45 nM) and a fast response time (0.8 s). This work holds great promise for its practical applications in the diagnosis or research of complicated biological processes, especially in real-time in situ detection approaches.

Progress in rapid optical assays for heavy metal ions based on the use of nanoparticles and receptor molecules

This review (with 230 refs.) covers recent progress in rapid optical assays for heavy metals (primarily lead and mercury as the most relevant) based on the use of nanoparticles and receptor molecules. An introduction surveys the importance, regulatory demands (such as maximum permissible concentrations) and potential and limitations of various existing methods. This is followed by a general discussion on the use of nanoparticles in optical assays of heavy metals (including properties, basic mechanisms of signal generation). The next sections cover methods for the functionalization of nanoparticles with (a) sulfur-containing compounds (used for modification of nanoparticles or added to the reaction medium), (b) nitrogen-containing compounds (such as amino acids, polypeptides, and heterocyclic molecules), and (c) oxygen-containing species (such as hydroxy and carbonyl compounds). This is continued by a specific description of specific assays based on the use of aptamers as receptors, on the use of deoxyribozymes as synthetic reaction catalysts, of G-quadruplex aptamers, of aptamers in logic gate-type of assays of linear (unstructured) aptamers ("hairpins"), and on the use of aptamers in lateral flow assays. A next section covers assays based on the employment of antibodies as receptors (used in the immunoassay development). The properties of various nanoparticles and their applicability in optical assays are also discussed in some detail. Final sections discuss the selectivity of assays, potential interferences by other cations, methods for their elimination, and also matrix effects and approaches for sample pretreatment. A concluding section discusses current challenges and future trends. Analysis based on enzyme inhibition assay is not treated here but enzyme-like action of some receptor molecules such as DNAzymes is discussed. Graphical abstract Schematic presentation of main principles of application of various nanoparticles with receptor molecules (S-, N-, O-containing, heterocyclic compounds, proteins, antibody, aptamers) for heavy metals ions detection. The included methods cover optical assays with description of mechanisms of interactions and signal generation.

Portable Colorimetric Detection of Mercury(II) Based on a Non-Noble Metal Nanozyme with Tunable Activity

The nanozyme-based strategy is currently one of the frontiers in the detection of toxic heavy metal ions. However, the utilization of noble metal free nanozymes to construct an economically and environmentally sustainable methodology remains largely unknown. Here, chitosan-functionalized molybdenum(IV) selenide nanosheets (CS-MoSe₂ NS), greenly synthesized by an ionic liquid-assisted grinding method, were exploited for the colorimetric sensing of mercury ions (Hg²⁺). The sensing principle was based on the activating effect of Hg²⁺ on CS-MoSe₂ NS nanozyme activities, triggered by the in situ reduction of chitosan-captured Hg²⁺ ions on a MoSe₂ NS surface. Using 3,3',5,5'-tetramethylbenzidine (TMB) as a colorimetric indicator, the concentrations of activator-like Hg²⁺ ions could be quantitatively and selectively monitored, reaching a limit of detection of 3.5 nM with the ultraviolet-visible spectrophotometer. In addition, the integration system of CS-MoSe₂ NS with a smartphone achieved a portable detection limit as low as 8.4 nM Hg²⁺ within 15 min and showed high specificity and anti-interfering ability over other ions and great practicability in real water and serum samples. The eco-friendly properties of such sensing system were also confirmed. This work emphasizes the rational portable assembly of biocompatible nanozymes like CS-MoSe₂ NS for the field detection of Hg²⁺ in food, biological, and environmental samples.

A novel colorimetric aptasensor for ultrasensitive detection of cocaine based on the formation of three-way junction pockets on the surfaces of gold nanoparticles

Herein, a novel colorimetric aptasensor was introduced for detection of cocaine based on the formation of three-way junction pockets on the surfaces of gold nanoparticles (AuNPs) and the catalytic activity of the surfaces of AuNPs. Simplicity and detection of cocaine in a short time (only 35 min) are some of the unique features of the proposed sensing strategy. In the presence of cocaine, triple-fragment aptamer (TFA) forms on the surfaces of AuNPs, leading to a significant decrease of the catalytic activity of AuNPs and the color of samples remains yellow. In the absence of target, TFA does not form on the surfaces of AuNPs and 4-Nitrophenol, as a colorimetric agent, has more access to the surfaces of AuNPs, resulting in the reduction of 4-Nitrophenol and the color of sample changes from yellow to colorless. The sensing strategy showed good specificity, a limit of detection (LOD) of 440 pM and a dynamic range over 2-100 nM. The sensing method was also successfully applied to detect cocaine in spiked human serum samples with recovery of 94.71-98.63%.

Bubble-Mediated Ultrasensitive Multiplex Detection of Metal Ions in Three-Dimensional DNA Nanostructure-Encoded Microchannels

The development of rapid and sensitive point-of-test devices for on-site monitoring of heavy-metal contamination has great scientific and technological importance. However, developing fast, inexpensive, and sensitive microarray sensors to achieve such a goal remains challenging. In this work, we present a DNA-nanostructured microarray (DNM) with a tubular three-dimensional sensing surface and an ordered nanotopography. This microarray enables enhanced molecular interaction toward the rapid and sensitive multiplex detection of heavy-metal ions. In our design, the use of DNA tetrahedral-structured probes engineers the sensing interface with spatially resolved and density-tunable sensing spots that improve the microconfined molecular recognition. A bubble-mediated shuttle reaction was used inside the DNM-functionalized microchannel to improve the target-capturing efficiency. Using this novel DNM biosensor, the sensitive and selective detection of multiple heavy-metal ions (i.e., Hg²⁺, Ag⁺, and Pb²⁺) was achieved within 5 min, the detection limit was down to 10, 10, and 20 nM for Hg²⁺, Ag⁺, and Pb²⁺, respectively. The feasibility of our DNM sensor was further demonstrated by probing heavy-metal ions in real water samples with a direct optical readout. Beyond metal ions, this unique DNM sensor can easily be extended to in vitro bioassays and clinical diagnostics.

DNA Modified Fe3O4@Au Magnetic Nanoparticles as Selective Probes for Simultaneous Detection of Heavy Metal Ions

Driven by the urgent need to detect trace heavy metal ions in various real water samples, this article demonstrates for the first time an electrochemical biosensor based on DNA modified Fe₃O₄@Au magnetic nanoparticles (NPs). Three DNA probes are designed to contain certain mismatched base pairs. One is thiolated and modified on the surface of Fe₃O₄@Au NPs (DNA 1). The other two probes (DNA 2 and 3) are labeled with two independent electrochemical species. Stable structures of cytosine-Ag⁺-cytosine and thymine-Hg²⁺-thymine formed in the presence of Ag⁺ and Hg²⁺ can assist the hybridization of DNA 1/DNA 2 and DNA 1/DNA 3, which locate corresponding electrochemical species onto the surface of the magnetic NPs. The achieved nanocomposites are then used as selective electrochemical probes for the detection of heavy metal ions by recording the square wave voltammetry signals. Simultaneous detection of Ag⁺ and Hg²⁺ is demonstrated without significant interference, and their individual high sensitivities are fundamentally preserved, which meet the requirements of U.S. Environmental Protection Agency (USEPA). Furthermore, the proposed method has been challenged by various real water samples. The results confirm the DNA modified magnetic NPs based sensing method may have potential applications for the monitoring of heavy metal ions in real sample analysis.

A plasmonic multi-logic gate platform based on sequence-specific binding of estrogen receptors and gold nanorods

A hybrid system made of gold nanorods (AuNRs) and double-stranded DNA (dsDNA) is used to build a versatile multi-logic gate platform, capable of performing six different logic operations. The sequence-specific binding of transcription factors to the DNA drives the optical response of the design.

Repressor logic modules assembled by rolling circle amplification platform to construct a set of logic gates

Small molecule metabolites and their allosterically regulated repressors play an important role in many gene expression and metabolic disorder processes. These natural sensors, though valuable as good logic switches, have rarely been employed without transcription machinery in cells. Here, two pairs of repressors, which function in opposite ways, were cloned, purified and used to control DNA replication in rolling circle amplification (RCA) in vitro. By using metabolites and repressors as inputs, RCA signals as outputs, four basic logic modules were constructed successfully. To achieve various logic computations based on these basic modules, we designed series and parallel strategies of circular templates, which can further assemble these repressor modules in an RCA platform to realize twelve two-input Boolean logic gates and a three-input logic gate. The RCA-output and RCA-assembled platform was proved to be easy and flexible for complex logic processes and might have application potential in molecular computing and synthetic biology.

Accurate and visual discrimination of single-base mismatch by utilization of binary DNA probes in gold nanoparticles-based biosensing strategy

Herein we report a colorimetric biosensing strategy to discriminate single-nucleotide mutation in DNA with high selectivity using unmodified gold nanoparticles (AuNPs) as indicators. In the AuNPs-based colorimetric strategy, binary DNA probes were produced by splitting a long DNA probe in the middle for sensitive differentiation of single-base mismatch. The detection limit of this method toward target DNA was 5nM. The developed system has superior advantages of utilization of inexpensive materials, simplicity and visualization. Moreover, binary DNA probes not only can distinguish single-base mutation in the target DNA very well, as compared to long DNA probe, but also can construct "AND" logic gate using two distinct target DNAs as inputs, which holds great potential for increasing the accuracy of disease diagnosis in clinical applications.

Label-free colorimetric logic gates based on free gold nanoparticles and the coordination strategy between cytosine and silver ions

A colorimetric sensing strategy combined with logic gates was demonstrated by taking advantage of the dispersion and aggregation of gold nanoparticles.