Focusing and stabilization of bis‐intercalating dye–DNA complexes for high‐sensitive CE‐LIF DNA analysis

Multiple labeling of nucleic acids by intercalative dyes is a promising method for ultrasensitive nucleic acid assays. The properties of the fast dissociation and instability of dye–DNA complexes may prevent from their wide applications in CE‐LIF nucleic acid analysis. Here, we describe an optimum CE focusing method by using appropriately paired sample and separation buffers, Tris‐glycine buffer and Tris‐glycine‐acetic acid buffer. The developed method was applied in both uncoated and polyacrylamide coated fused‐silica capillary‐based CE‐LIF analysis while the sample and separation buffers were conversely used. The complexes of intercalative dye benzoxazolium‐4‐pyridinium dimer and dsDNA were greatly focused (separation efficiency: 1.8 million theoretical plates per meter) by transient isotachophoresis mechanism in uncoated capillary, and moderately focused by transient isotachophoresis in combination of field amplified sample stacking and further stabilized by the paired buffer in polyacrylamide coated capillary. Based on the developed focusing strategy, an ultrasensitive DNA assay was developed for quantitation of calf thymus dsDNA (from 0.02 to 2.14 pM). By the use of an excitation laser power as low as 1 mW, the detection limits of calf thymus dsDNA (3.5 kb) are 7.9 fM in concentration and 2.4×10^?22 mol (150 molecules) in mass. We further demonstrate that the non‐gel sieving CE‐LIF analysis of DNA fragments can be enhanced by the same strategy. Since the presented strategy can be applied to uncoated and coated capillaries and does not require special device, it is also reasonable to extend to the applications in chip‐based CE DNA analysis.     

An Ionophore‐Based Anion‐Selective Optode Printed on Cellulose Paper

A general anion‐sensing platform is reported based on a portable and cost‐effective ion‐selective optode and a smartphone detector equipped with a color analysis app. In contrast to traditional anion‐selective optodes using a hydrophobic polymer and/or plasticizer to dissolve hydrophobic sensing elements, the new optode relies on hydrophilic cellulose paper. The anion ionophore and a lipophilic pH indicator are inkjet‐printed and adsorbed on paper and form a “dry” hydrophobic sensing layer. Porous cellulose sheets also allow the sensing site to be modified with dried buffer that prevents any sample pH dependence of the observed color change. A highly selective fluoride optode using an Al^III‐porphyrin ionophore is examined as an initial example of this new anion sensing platform for measurements of fluoride levels in drinking water samples. Apart from Lewis acid–base recognition, hydrogen bonding recognition is also compatible with this sensing platform.     

3D Multilayered paper‐ and thread/paper‐based microfluidic devices for bioassays

In this paper we describe the fabrication of novel 3D microfluidic paper‐based analytical devices (3D‐μPADs) and a 3D microfluidic thread/paper‐based analytical device (3D‐μTPAD) to detect glucose and BSA through colorimetric assays. The 3D‐μPAD and 3D‐μTPAD consisted of three (wax, heat pressed wax‐printed paper, single‐sided tape) and four (hole‐punched single‐sided tape, blank chromatography circles, heat‐pressed wax‐printed paper, hole‐punched single‐sided tape containing trifurcated thread) layers, respectively. The saturation curves for each assay were generated for all platforms. For the glucose assay, a solution of glucose oxidase (GOx), horseradish peroxidase, and potassium iodide was flowed through each platform and, upon contact with glucose, generated a yellow‐brown color indicative of the oxidation of iodide to iodine. For the protein assay, BSA was flowed through each device and, upon contact with citrate buffer and tetrabromophenol blue, resulted in a color change from yellow to blue. The devices were dried, scanned, and analyzed yielding a correlation between either yellow intensity and glucose concentration or cyan intensity and BSA concentration. A similar glucose assay, using unknown concentrations of glucose in artificial urine, was conducted and, when compared to the saturation curve, showed good correlation between the theoretical and actual concentrations (percent differences <10%). The development of 3D‐μPADs and 3D‐μTPADs can further facilitate the use of these platforms for colorimetric bioassays.     

A paper‐based gas sensor for simultaneous noninstrumental colorimetric detection of nitrite and sulfide in waters

The use of paper‐based devices in combination with noninstrumental detection systems is becoming increasingly important in the analytical field due to its simplicity, rapidity, and low cost. However, their use for determination of volatile analyte derivatives is still relatively scarce. The present work reports on the assessment of a paper‐based gas‐sensing approach for the simultaneous noninstrumental colorimetric detection of nitrite and sulfide. Colorimetric systems based on the Griess and methylene blue assays, formation of colored metallic sulfides, and interaction/reaction with in situ generated metallic nanoparticles were preliminary evaluated. Then, the effect of experimental variables affecting the analytical performance of the paper‐based gas sensor was studied with two digitization systems, namely a scanner and a smartphone. Under optimal conditions, the developed system yielded limits of detection of 0.055 and 0.005 mg/L for nitrite and sulfide, respectively. The repeatability, expressed as relative standard deviation, was found to be 5.9 and 6.7% for nitrite and sulfide, respectively. The proposed method was finally applied to the analysis of water samples, showing recoveries in the range of 95–105%.     

Sample preparation: a challenge in the development of point-of-care nucleic acid-based assays for resource-limited settings

Currently available nucleic acid testing (NAT)-based assays are complex and time-consuming, and they require expensive instrumentation and dedicated laboratory spaces for sample preparation as well as for amplification and detection of the nucleic acid target. Reagents required for these tests are also expensive and must be transported and stored refrigerated or frozen. These characteristics have limited the use of such assays for point-of-care (POC) testing, especially in resource-poor settings. Efforts to develop simple and rapid NAT-based assays have focused predominantly on the amplification and detection steps, with sample preparation and nucleic acid extraction remaining the bottleneck in the development of NAT systems suitable for POC applications or resource-limited settings. A review of NAT platforms and technologies currently under development and validation for rapid field testing revealed that, in addition to requiring expensive and complex instrumentation, many of these systems also require off-line sample preparation and reagent handling. In their current format, they are therefore not appropriate for POC testing in resource-limited settings. We evaluated several commercially available technologies and procedures for the isolation of nucleic acid with the extraction of HIV-1 RNA from human plasma as a model system. Our results indicate that solid-phase extraction with silica or glass in the presence of a chaotropic salt provides the highest extraction efficiency. However, none of the existing methods and technologies is readily adaptable to a POC system. The integration of sample preparation procedures well suited to NAT-based assays in resource-limited settings therefore remains a challenge.     

Thread/paper‐ and paper‐based microfluidic devices for glucose assays employing artificial neural networks

This paper describes the fabrication of and data collection from two microfluidic devices: a microfluidic thread/paper based analytical device (μTPAD) and 3D microfluidic paper‐based analytical device (μPAD). Flowing solutions of glucose oxidase (GOx), horseradish peroxidase (HRP), and potassium iodide (KI), through each device, on contact with glucose, generated a calibration curve for each platform. The resultant yellow‐brown color from the reaction indicates oxidation of iodide to iodine. The devices were dried, scanned, and analyzed yielding a correlation between yellow intensity and glucose concentration. A similar procedure, using an unknown concentration of glucose in artificial urine, is conducted and compared to the calibration curve to obtain the unknown value. Studies to quantify glucose in artificial urine showed good correlation between the theoretical and actual concentrations, as percent differences were ≤13.0%. An ANN was trained on the four‐channel CMYK color data from 54 μTPAD and 160 μPAD analysis sites and Pearson correlation coefficients of R = 0.96491 and 0.9739, respectively, were obtained. The ANN was able to correctly classify 94.4% (51 of 54 samples) and 91.2% (146 of 160 samples) of the μTPAD and μPAD analysis sites, respectively. The development of this technology combined with ANN should further facilitate the use of these platforms for colorimetric analysis of other analytes.     

Precise Polymer Synthesis by Autonomous Self‐Optimizing Flow Reactors

A novel continuous flow system for automated high‐throughput screening, autonomous optimization, and enhanced process control of polymerizations was developed. The computer‐controlled platform comprises a flow reactor coupled to size exclusion chromatography (SEC). Molecular weight distributions are measured online and used by a machine‐learning algorithm to self‐optimize reactions towards a programmed molecular weight by dynamically varying reaction parameters (i.e. residence time, monomer concentration, and control agent/initiator concentration). The autonomous platform allows targeting of molecular weights in a reproducible manner with unprecedented accuracy (<2.5 % deviation from pre‐selected goal) for both thermal and light‐induced reactions. For the first time, polymers with predefined molecular weights can be custom made under optimal reaction conditions in an automated, high‐throughput flow synthesis approach with outstanding reproducibility.     

Optimization of o‐phtaldialdehyde/2‐mercaptoethanol postcolumn reaction for the hydrophilic interaction liquid chromatography determination of memantine utilizing a silica hydride stationary phase

A rapid procedure for the determination of memantine based on hydrophilic interaction chromatography with fluorescence detection was developed. Fluorescence detection after postcolumn derivatization with o‐phtaldialdehyde/2‐mercaptoethanol was performed at excitation and emission wavelengths of 345 and 450 nm, respectively. The postcolumn reaction conditions such as reaction temperature, derivatization reagent flow rate, and reagents concentration were studied due to steric hindrance of amino group of memantine. The derivatization reaction was applied for the hydrophilic interaction liquid chromatography method which was based on Cogent Silica‐C stationary phase with a mobile phase consisting of a mixture of 10 mmol/L citric acid and 10 mmol/L o‐phosphoric acid (pH 6.0) with acetonitrile using an isocratic composition of 2:8 v/v. The benefit of the reported approach consists in a simple sample pretreatment and a quick and sensitive hydrophilic interaction chromatography method. The developed method was validated in terms of linearity, accuracy, precision, and selectivity according to the International Conference on Harmonisation guidelines. The developed method was successfully applied for the analysis of commercial memantine tablets.     

Flow‐Based Enzymatic Ligation by Sortase A

Sortase‐mediated ligation (sortagging) is a versatile, powerful strategy for protein modification. Because the sortase reaction reaches equilibrium, a large excess of polyglycine nucleophile is often employed to drive the reaction forward and suppress sortase‐mediated side reactions. A flow‐based sortagging platform employing immobilized sortase A within a microreactor was developed that permits efficient sortagging at low nucleophile concentrations. The platform was tested with several reaction partners and used to generate a protein bioconjugate inaccessible by solution‐phase batch sortagging.     

A Carbon‐Dot‐Based Fluorescent Nanosensor for Simple Visualization of Bacterial Nucleic Acids

A simple and facile method for sensing of nucleic acids is in great need for disease biomarker detection and diagnosis. Herein, a fluorescent nanosensor utilizing carbon dot nanoparticles is introduced that form visible precipitates in the presence of target DNA. Carbon dot nanoparticles are fabricated by microwave pyrolysis of polyethylenimine, which emits strong photoluminescence and can form precipitates when added to target DNA oligonucleotides. The precipitates can be easily visualized by UV illumination, and data can be acquired as images using a smartphone, which are analyzed for quantification. This carbon‐dot‐based assay allowed fluorescent sensing of target oligonucleotides with various sizes and visualization even with minimal amount of DNA (≈100 pmol). Finally, the assay can be applied as a nanosensor platform for detecting bacterial DNA for the antibiotic‐resistance gene KPC‐2 from Klebsiella pneumoniae . This method provides a simple technique for detecting molecular targets, showing wide applicability for diagnostics on the bedside or point‐of‐care testing.     

Enzyme‐Regulated Activation of DNAzyme: A Novel Strategy for a Label‐Free Colorimetric DNA Ligase Assay and Ligase‐Based Biosensing

The DNA nick repair catalyzed by DNA ligase is significant for fundamental life processes, such as the replication, repair, and recombination of nucleic acids. Here, we have employed ligase to regulate DNAzyme activity and developed a homogeneous, colorimetric, label‐free and DNAzyme‐based strategy to detect DNA ligase activity. This novel strategy relies on the ligation‐trigged activation or production of horseradish peroxidase mimicking DNAzyme that catalyzes the generation of a color change signal; this results in a colorimetric assay of DNA ligase activity. Using T4 DNA ligase as a model, we have proposed two approaches to demonstrate the validity of the DNAzyme strategy. The first approach utilizes an allosteric hairpin‐DNAzyme probe specifically responsive to DNA ligation; this approach has a wide detection range from 0.2 to 40 U mL^?1 and a detection limit of 0.2 U mL^?1. Furthermore, the approach was adapted to probe nucleic acid phosphorylation and single nucleotide mismatch. The second approach employs a “split DNA machine” to produce numerous DNAzymes after being reassembled by DNA ligase; this greatly enhances the detection sensitivity by a signal amplification cascade to achieve a detection limit of 0.01 U mL^?1.     

High‐Resolution Crystal Structure of a Silver(I)–RNA Hybrid Duplex Containing Watson–Crick‐like CSilver(I)C Metallo‐Base Pairs

Metallo‐base pairs have been extensively studied for applications in nucleic acid‐based nanodevices and genetic code expansion. Metallo‐base pairs composed of natural nucleobases are attractive because nanodevices containing natural metallo‐base pairs can be easily prepared from commercially available sources. Previously, we have reported a crystal structure of a DNA duplex containing T? Hg^II? T base pairs. Herein, we have determined a high‐resolution crystal structure of the second natural metallo‐base pair between pyrimidine bases C? Ag^I? C formed in an RNA duplex. One Ag^I occupies the center between two cytosines and forms a C? Ag^I? C base pair through N3? Ag^I? N3 linear coordination. The C? Ag^I? C base pair formation does not disturb the standard A‐form conformation of RNA. Since the C? Ag^I? C base pair is structurally similar to the canonical Watson–Crick base pairs, it can be a useful building block for structure‐based design and fabrication of nucleic acid‐based nanodevices.     

Wireless Hazard Badges to Detect Nerve‐Agent Simulants

Human exposure to hazardous chemicals can have adverse short‐ and long‐term health effects. In this Communication, we have developed a single‐use wearable hazard badge that dosimetrically detects diethylchlorophosphate (DCP), a model organophosphorous cholinesterase inhibitor simulant. Improved chemically actuated resonant devices (CARDs) are fabricated in a single step and unambiguously relate changes in chemiresistance to a wireless readout. To provide selective and readily manufacturable sensor elements for this platform, we developed an ionic‐liquid‐mediated single walled carbon nanotube based chemidosimetric scheme with DCP limits of detection of 28 ppb. As a practical demonstration, an 8 h workday time weighted average equivalent exposure of 10 ppb DCP effects an irreversible change in smartphone readout.     

Isocyanide‐Based Three‐Component Synthesis of Highly Substituted 1,6‐Dihydro‐6,6‐dimethylpyrazine‐2,3‐dicarbonitrile, 3,4‐Dihydrobenzo[g]quinoxalin‐2‐amine,and 3,4‐Dihydro‐3,3‐dimethyl‐quinoxalin‐2‐amine Derivatives

A novel and efficient isocyanide‐based multicomponent reaction between alkyl or aryl isocyanides 1 , 2,3‐diaminomaleonitrile ( 2 ), naphthalene‐2,3‐diamines ( 6 ) or benzene‐1,2‐diamine ( 9 ), and 3‐oxopentanedioic acid ( 3 ) or Meldrum's acid ( 4 ) or ketones 7 was developed for the ecologic synthesis, at room temperature under mild conditions, of 1,6‐dihydropyrazine‐2,3‐dicarbonitriles 5a – 5f in H₂O without using any catalyst, and of 3,4‐dihydrobenzo[g]quinoxalin‐2‐amine and 3,4‐dihydro‐3,3‐dimethyl‐quinoxalin‐2‐amine derivatives 8a – 8g and 10a – 10e , respectively, in the presence of a catalytic amount of p‐toluenesulfonic acid (TsOH) in EtOH, in good to excellent yields (Scheme 1).     

Tetra(p‐tolyl)borate‐Functionalized Solvent Polymeric Membrane: A Facile and Sensitive Sensing Platform for Peroxidase and Peroxidase Mimetics

The determination of peroxidase activities is the basis for enzyme‐labeled bioaffinity assays, peroxidase‐mimicking DNAzymes‐ and nanoparticles‐based assays, and characterization of the catalytic functions of peroxidase mimetics. Here, a facile, sensitive, and cost‐effective solvent polymeric membrane‐based peroxidase detection platform is described that utilizes reaction intermediates with different pK_a values from those of substrates and final products. Several key but long‐debated intermediates in the peroxidative oxidation of o‐phenylenediamine (o‐PD) have been identified and their charge states have been estimated. By using a solvent polymeric membrane functionalized by an appropriate substituted tetraphenylborate as a receptor, those cationic intermediates could be transferred into the membrane from the aqueous phase to induce a large cationic potential response. Thus, the potentiometric indication of the o‐PD oxidation catalyzed by peroxidase or its mimetics can be fulfilled. Horseradish peroxidase has been detected with a detection limit at least two orders of magnitude lower than those obtained by spectrophotometric techniques and traditional membrane‐based methods. As an example of peroxidase mimetics, G‐quadruplex DNAzymes were probed by the intermediate‐sensitive membrane and a label‐free thrombin detection protocol was developed based on the catalytic activity of the thrombin‐binding G‐quadruplex aptamer.     

The HPLC Resolution of Nucleic‐Acid Bases and An a Log Hypoxanthine on R,S‐2‐Hydroxypropyl Derivatized β‐Cyclodextrin Bonded Chiral Stationary Phase Using a Water‐Based Mobile Phase

A HPLC approach using R,S‐2‐hydroxypropyl derivatized β‐cyclodextrin packed column as the stationary phase was developed to resolve five nucleic‐acid bases and an a log hypoxanthine in the reversed‐phase mode. These bases are not only similar in structure but also very close in basicity. However, the resolution can be completed in less than ten minutes and is considered to be better carried out on the R,S‐2‐hydroxypropyl derivatized β‐cyclodextrin phase than that obtained on the native β‐cyclodextrin phase under the same chromatographic conditions. The mechanism involved in the resolution is believed to be inclusion complexation between the analyte and the cavity of cyclodextrin in the reversed‐phase mode. The retention time was found relevant to the size of the analyte. The number of groups on analyte that is available to form hydrogen bonding with hydroxyl groups on CDs also affects the retention scale. Factors of introducing organic acid and base or organic modifier such as methanol to the water‐based mobile phase or increasing their percent ages in the mobile phase decreases the retention time without de grading the resolution significantly.     

Development of a microfluidic‐based assay on a novel nitrocellulose platform

A novel microfluidic paper‐based analytical device (μPAD) utilizing a nitrocellulose (NC) membrane to detect IgG antibodies through a colorimetric analysis is described. The μPAD was constructed using layered polyethylene terephthalate (PET) and pressure‐sensitive adhesives (PSA). The biotin labeled Goat Anti‐Mouse IgG antibody was spotted and dried on the NC channel prior to subjecting it to a series of wash solutions (Tris‐tween), increasing concentrations of alkaline phosphatase conjugated to streptavidin (Strep‐ALP), and para‐nitrophenyl phosphate (p‐NPP) realizing a vibrant yellow color. The reaction proceeds for 10 min before applying the p‐NPP stop solution. The device was then dried, scanned, and analyzed yielding a linear range of inverse yellow color intensities versus Strep‐ALP concentrations. The development of this simple μPAD should further facilitate the use of NC in colorimetric assays to detect and quantitate antibodies.     

Colorimetric sensor array–smartphone–remote server coupling system for rapid detection of saccharides in beverages

A kind of “colorimetric sensor array–smartphone–remote server” coupling system was constructed for rapid on-site testing of saccharides. First, the binding capacity between saccharides and boric acid compounds (boric acid, phenylboronic acid and 3-nitrophenylboronic acid) was studied. The binding capacity of 3-nitrophenylboronic acid was found to be the highest, followed by phenylboronic acid and boric acid. Then a small-scale colorimetric sensor array (2 × 2) of pH indicator based on affinity interaction between 3-nitrophenylboronic acid and saccharides was developed to detect 19 kinds of saccharides. A camera phone was used to acquire the array images before and after reaction, then the self-developed color discrimination software in smartphone was applied to process pictures in order to obtain the color difference image and data of analytes. The color difference data were analyzed by several methods, including principal component analysis, hierarchical cluster analysis and linear discriminant analysis. The analysis results showed that the sensor array (2 × 2) established in this paper has great discriminative capability for 19 kinds of saccharides, and the classification accuracy is as high as 100%. Nineteen different quantitative models of saccharides that showed high accuracy and precision were established based on partial least-square method. Finally, the smartphone was connected to a remote server on which the qualitative analysis and quantitative analysis models for analytes had been established. The color difference data obtained by the smartphone were uploaded to the remote server for the qualitative analysis and quantitative analysis of saccharides. The effectiveness of the “colorimetric sensor array–smartphone–remote server” coupling system in rapid on-site detection of saccharides was further verified by the spike and recovery experiments. The qualitative analysis results showed that this coupling system could distinguish all of the analytes without a mistake, and the quantitative analysis results showed that the predicted values for saccharides were close to the real values.     

On‐plate enzyme and inhibition assay of glucose‐6‐phosphate dehydrogenase using thin‐layer chromatography

We performed on‐plate enzyme and inhibition assays of glucose 6‐phosphate dehydrogenase using thin‐layer chromatography. The assays were accomplished based on different retardation factors of the substrates, enzyme, and products. All the necessary steps were integrated on‐plate in one developing process, including substrate/enzyme mixing, reaction starting, and quenching as well as product separation. In order to quantitatively measure the enzyme reaction, the developed plate was then densitometrically evaluated to determine the peak area of the product. Rapid and high‐throughput assays were achieved by loading different substrate spots and/or enzyme (and inhibition) spots in different tracks on the plate. The on‐plate enzyme assay could be finished in a developing time of only 4 min, with good track‐to‐track and plate‐to‐plate repeatability. Moreover, we determined the K_m values of the enzyme reaction and K_i values of the inhibition (Pb²⁺ Cd²⁺ and Cu²⁺ as inhibitors), as well as the corresponding kinetics using the on‐plate assay. Taken together, our method expanded the application of thin‐layer chromatography in enzyme assays, and it could be potentially used in research fields for rapid and quantitative measurement of enzyme activity and inhibition.