Direct electrocatalytic and simultaneous determination of purine and pyrimidine DNA bases using novel mesoporous carbon fibers as electrocatalyst

Electroanalysis in Pharmacogenomic Studies: Mechanisms of Drug Interaction with DNA

The review discusses electrochemical methods for analysis of drug interactions with DNA. The electroanalysis method is based on the registration of interaction-induced changes in the electrochemical oxidation potential of heterocyclic nitrogenous bases in the DNA molecule and in the maximum oxidation current amplitude. The mechanisms of DNA-drug interactions can be identified based on the shift in the electrooxidation potential of heterocyclic nitrogenous bases toward more negative (cathodic) or positive (anodic) values. Drug intercalation into DNA shifts the electrochemical oxidation potential to positive values, indicating thermodynamically unfavorable process that hinders oxidation of nitrogenous bases in DNA. The potential shift toward the negative values indicates electrostatic interactions, e.g., drug binding in the DNA minor groove, since this process does not interfere with the electrochemical oxidation of bases. The concentration-dependent decrease in the intensity of electrochemical oxidation of DNA bases allows to quantify the type of interaction and calculate the binding constants.

Inquest for the interaction of canonical and non-canonical DNA/RNA bases with ternary based 2D Si2BN and doped Si2BN for biosensing applications

Density functional theory (DFT) is invoked to investigate the interaction between the canonical (CN) and non-canonical (NC) bases with pristine Si2BN (Si2BN) and Phosphorous-doped Si2BN (P-dop-Si2BN) sheets. Inquest for the better sensing substrate is decided through the adsorption energy calculation which reveals that doping of phosphorous atom enhances the adsorption strength of AT (-83.74 kcal/mol) AU (-82.77 kcal/mol) and GC (-96.36 kcal/mol) base pairs. The CN and NC bases have higher adsorption energy than the previous reported values which concludes that the P-dop-Si2BN sheet will be optimal substrate to sense the bases. Meanwhile, the selected CN and NC (except hypoxanthine) bases interact with sheet in parallel manner which infers the π-π interaction with Si2BN and P-dop-Si2BN sheets. The energy gap variation (ΔEg%) of the P-dop-Si2BN complexes has a noticeable change, ranging from -24.75 to -197.28% which thrust the sensitivity of the P-dop-Si2BN sheet over the detection of CN and NC bases. The natural population analysis (NPA) and electron density difference map (EDDM) confirms that charges are transferred from CN and NC bases to Si2BN and P-dop-Si2BN sheet. The optical property of the P-dop-Si2BN complexes reveals that the noticeable red and blue shift in the visible and near-infrared regions (778 nm to 1143 nm) has been observed. Therefore, the above results conclude that the P-dop-Si2BN sheet plays a potential candidate to detect the CN and NC bases which contribute to the development of biosensors and DNA/RNA sequencing devices.Communicated by Ramaswamy H. Sarma.

Simultaneous determination of guanine and adenine in human saliva with graphite sparked screen-printed electrodes

Saliva represents one of the most useful biological samples for non-invasive testing of health status and diseases prognosis and therefore, the development of advanced sensors enabling the determination of biomarkers in unspiked human whole saliva is of immense importance. Herein, we report on the development of a screen-printed graphite sensor modified with carbon nanomaterials generated by spark discharge for the determination of guanine and adenine in unspiked human whole saliva. The designed sensor was developed with a "green", extremely simple, fast (16 s), fully automated "linear mode" sparking process implemented with a 2D positioning device. Carbon nanomaterial-modified surfaces exhibit outstanding electrocatalytic properties enabling the determination of guanine and adenine over the concentration range 5 - 1000 nM and 25 - 1000 nM, while achieving limits of detection (S/N 3) as low as 2 nM and 8 nM, respectively. The sensor was successfully applied to the determination of purine bases in unspiked human whole saliva following a simple assay protocol based on ultrafiltration that effectively alleviates biofouling issues. Recovery was 96-108%.

Integrated Microfluidic Device with Carbon-Thread Microelectrodes for Electrochemical DNA Elemental Analysis

Evidently, any alternation in the concentration of the essential DNA elements, adenine (A), guanine (G), cytosine (C), and thymine (T), leads to several deformities in the physiological process causing various disorders. So, to realize a simple and precise technique for simultaneous determination of the DNA elements continue to remain a challenge. Microfluidic devices offer numerous advantage, such as low volume consumption, rapid response, highly sensitive and accurate real time analysis, for point of care testing (POCT). Herein, a microfluidic electrochemical device has been developed with three electrodes fabricated using a carbon-thread microelectrode (CTME) for DNA elemental detection. CTME, functionalized with graphitize mesoporous carbon (GMC), worked as a working electrode, bare CTME functioned as an auxiliary electrode while CTME coated with Ag/AgCl ink performed as a reference electrode. The developed device was used for evaluating individual DNA elemental base pairs simultaneously using various electrochemical techniques. The anodic peak current obtained for the DNA bases were 0.56 ± 0.04 V (G), 0.92 ± 0.02 V (A), 1.09 ± 0.05 V (T) and 1.24 ± 0.04 V (C) in a potential window of 0.2 V to 1.5 V. The device was corroborated for simultaneous sensing, and detection limits were found to be 36.73 μM (G), 20 μM (A), 22 μM (T) and 19.78 μM (C) in the linear range of 50 μM - 500 μM. Finally, the device was successfully used for instantaneous determination of DNA bases in the human blood serum sample. Overall, this work demonstrates the use of a simple microfluidic device with CTMEs for electrochemical determination of DNA bases amenable for POCT.

Simultaneous electrochemical determination of DNA nucleobases using AgNPs embedded covalent organic framework

An efficient electrochemical biosensor has been developed for the simultaneous evaluation of DNA bases using AgNPs-embedded covalent organic framework (COF). The COF (p-Phenylenediamine and terephthalaldehyde) was synthesized by reflux (DMF; 150 °C; 12 h) and the nanoparticles were embedded from the aqueous solutions of AgNO3 and NaBH4. The nanocomposite-modified COF was confirmed by spectral, microscopic, and electrochemical techniques. The nanocomposite material was deposited on a glassy carbon electrode (GCE) and the redox behavior of AgNPs was confirmed by cyclic voltammetry. The electrocatalytic activities of DNA bases were analyzed by differential pulse voltammetry (DPV) in a physiological environment (PBS; pH = 7.0) based on simple and easy-to-use electrocatalyst. The AgNPs-COF/GCE showed well-defined anodic peak currents for the bases guanine (+ 0.63 V vs. Ag/AgCl), adenine (+ 0.89 V vs. Ag/AgCl), thymine (+ 1.10 V vs. Ag/AgCl), and cytosine (+ 1.26 V vs. Ag/AgCl) in a mixture as well as individuals with respect to the conventional, COF, and AgNPs/GCEs. The AgNPs-COF/GCE showed linear concentration range of DNA bases from 0.2-1000 µM (guanine; (G)), 0.1-500 µM (adenine (A)), 0.25-250 µM (thymine (T)) and 0.15-500 µM (cytosine (C)) and LOD of 0.043, 0.056, 0.062, and 0.051 µM (S/N = 3), respectively. The developed sensor showed reasonable selectivity, reproducibility (RSD = 1.53 ± 0.04%-2.58 ± 0.02% (n = 3)), and stability (RSD = 1.22 ± 0.06%-2.15 ± 0.04%; n = 3) over 5 days of storage) for DNA bases. Finally, AgNPs-COF/GCE was used for the determination of DNA bases in human blood serum, urine and saliva samples with good recoveries (98.60-99.11%, 97.80-99.21%, and 98.69-99.74%, respectively).

Electroanalysis of Biomolecules: Rational Selection of Sensor Construction

Methods of electrochemical analysis of biological objects based on the reaction of electro-oxidation/electro-reduction of molecules are presented. Polymer nanocomposite materials that modify electrodes to increase sensitivity of electrochemical events on the surface of electrodes are described. Examples of applications electrochemical biosensors constructed with nanocomposite material for detection of biological molecules are presented, advantages and drawbacks of different applications are discussed.

Rational Design of Amphiphilic Diblock Copolymer/MWCNT Surface Modifiers and Their Application for Direct Electrochemical Sensing of DNA

We demonstrate the application of amphiphilic ionic poly(n-butylmethacrylate)-block- poly(2-(dimethylamino)ethyl methacrylate) diblock copolymers (PnBMA₄₀-b-PDMAEMA₄₀, PnBMA₄₀-b-PDMAEMA₁₂₀, PnBMA₇₀-b-PDMAEMA₁₂₀) for dispersing multiwalled carbon nanotubes (MWCNTs) in aqueous media, a subsequent efficient surface modification of screen-printed electrodes (SPEs), and the application of the modified SPEs for DNA electrochemistry. Stable and fine aqueous dispersions of MWCNTs were obtained with PnBMA_x-b-PDMAEMA_y diblock copolymers, regardless of the structure of the copolymer and the amount of MWCNTs in the dispersions. The effect of the diblock copolymer structure was important when the dispersions of MWCNTs were deposited as modifying layers on surfaces of SPEs, resulting in considerable increases of the electroactive surface areas and great acceleration of the electron transfer rate. The SPE/(PnBMA_x-b-PDMAEMA_y + MWCNT) constructs were further exploited for direct electrochemical oxidation of the guanine (G) and adenine (A) residues in a model salmon sperm double-stranded DNA (dsDNA). Two well-defined irreversible oxidation peaks were observed at about +600 and +900 mV, corresponding to the electrochemical oxidation of G and A residues, respectively. A multi-parametric optimization of dsDNA electrochemistry enables one to get the limits of detection (LOD) as low as 5 μg/mL (0.25 μM) and 1 μg/mL (0.05 μM) for G and A residues, respectively. The achieved sensitivity of DNA assay enables quantification of the A and G residues of dsDNA in the presence of human serum and DNA in isolated human leukocytes.

Fabrication of WO2/W@C core-shell nanospheres for voltammetric simultaneous determination of thymine and cytosine

Pomegranate-like multicore WO₂/W nanocrystals wrapped with layers of multiporous carbon were fabricated via carbonization of a copper(II)-organic framework host and a tungsten-based polyoxometalates guest, and subsequent etching off the metallic copper. The WO₂/W@C core-shell nanospheres were employed to modify an electrode for the analysis of the DNA bases thymine (T) and cytosine (C) by differential pulse voltammetry. The WO₂/W@C exhibited strongly increased oxidation signal of T and C. Under optimized conditions, the enhanced peak current represented excellent analytical performance for determination of T and C. This is attributed to the synergic effects of the porous multicore-shell microstructure and the use of tungsten-based materials with their excellent electrocatalytic activity for T and C, with typical peaks voltages near 1.26 V and 1.44 V. The calibration plots for T and C extend from 1 to 4000 μM and from 1 to 3000 μM, respectively, and both detection limits are 0.2 μM. The method was successfully applied to the determination of T and C in spiked blood and urine samples, and the recoveries are form 97.3 to 105.0%. Graphic abstractCore-shell nanospheres of type WO2/W-carbon were prepared for highly sensitive simultaneous voltammetric determination of thymine and cytosine.

Nanosized iron telluride for simultaneous nanomolar voltammetric determination of dopamine, uric acid, guanine and adenine

Herein, an efficient electrochemical sensor based on nano-sized iron telluride material (FeTe₂) have been developed for the first time for simultaneous nanomolar determination of dopamine, uric acid, guanine and adenine molecules.

Nitrogen doped chiral carbonaceous nanotube for ultrasensitive DNA direct electrochemistry, DNA hybridization and damage study

In the interest of developing novel electrocatalyst for high performance DNA biosensing, with distinctive chiral double helix nanostructure, nitrogen doped chiral carbonaceous nanotube (Chiral-CNT) was employed for ultrasensitive label-free DNA biosensing research. Chiral-CNT can quantitative detection of four DNA bases with high sensitivity and selectivity. Without any prehydrolysis and labeling process, direct electrochemistry of single-stranded DNA and double-stranded DNA, qualitative and quantitative detection of DNA hybridization (low detection limit: 0.0268 g L^-1) were realized. Moreover, sensitive detection of DNA damage induced by fenton reagent was also realized with low detection limit of 0.0350 mg mL^-1 and high sensitivity of 7.42 μA mg^-1 mL. The high biosensing performance attributes to the unique chiral structure of Chiral-CNT, leads to efficient interreaction between Chiral-CNT and DNA molecule.

Simultaneous voltammetric determination of guanine and adenine by using a glassy carbon electrode modified with a composite consisting of carbon quantum dots and overoxidized poly(2-aminopyridine)

A composite consisting of carbon quantum dots (CQDs) and overoxidized poly(2-aminopyridine) (PAPox) was deposited on a glassy carbon electrode (GCE) through electrochemical polymerization and electrochemical oxidation. The modified GCE was used for the simultaneous determination of guanine and adenine. Electrochemical responses to guanine and adenine were investigated by cyclic voltammetry and differential pulse voltammetry. Owing to the synergistic effect of CQDs and PAPox, two oxidation peaks can be observed, with peaks at 0.81 and 1.13 V (vs. SCE) for guanine and adenine, respectively. The current at the respective peaks has a linear dependence on the concentrations of guanine in the range from 1.0 to 65 μM, and of adenine in the range from 2.0 to 70 μM. The respective detection limits are 0.51 and 0.39 μM (at an S/N ratio of 3). The modified GCE is selective, reproducible and stable. Graphical abstract Schematic of the preparation of a glassy carbon electrode modified with carbon quantum dots and overoxidized poly(2-aminopyridine (CQD/PAPox/GCE), and its application for the simultaneous determination of guanine and adenine.

Recent Trends on Electrochemical Sensors Based on Ordered Mesoporous Carbon

The past decade has seen an increasing number of extensive studies devoted to the exploitation of ordered mesoporous carbon (OMC) materials in electrochemistry, notably in the fields of energy and sensing. The present review summarizes the recent achievements made in field of electroanalysis using electrodes modified with such nanomaterials. On the basis of comprehensive tables, the interest in OMC for designing electrochemical sensors is illustrated through the various applications developed to date. They include voltammetric detection after preconcentration, electrocatalysis (intrinsically due to OMC or based on suitable catalysts deposited onto OMC), electrochemical biosensors, as well as electrochemiluminescence and potentiometric sensors.

Boron-Enhanced Growth of Micron-Scale Carbon-Based Nanowalls: A Route toward High Rates of Electrochemical Biosensing

In this study, we have demonstrated the fabrication of novel materials called boron-doped carbon nanowalls (B:CNWs), which are characterized by remarkable electrochemical properties such as high standard rate constant (k°), low peak-to-peak separation value (ΔE) for the oxidation and reduction processes of the [Fe(CN)₆]^3-/4- redox system, and low surface resistivity. The B:CNW samples were deposited by the microwave plasma-assisted chemical vapor deposition (CVD) using a gas mixture of H₂/CH₄/B₂H₆ and N₂. Growth results in sharp-edged, flat, and long CNWs rich in sp² as well as sp³ hybridized phases. The achieved high values of k° (1.1 × 10^-2 cm s^-1) and ΔE (85 mV) are much lower compared to those of the glassy carbon or undoped CNWs. The enhanced electrochemical performance of the B:CNW electrode facilitates the simultaneous detection of DNA purine bases: adenine and guanine. Both separated oxidation peaks for the independent determination of guanine and adenine were observed by means of cyclic voltammetry or differential pulse voltammetry. It is worth noting that the determined sensitivities and the current densities were about 1 order of magnitude higher than those registered by other electrodes.

Novel fluorescent CdTe quantum dot-thymine conjugate-synthesis, properties and possible application

Novel, highly fluorescent cadmium telluride quantum dots conjugated with thymine and stabilized with thioglycolic acid were obtained and characterized. Successful formation of the conjugate was confirmed by elemental analysis, and UV-vis, fluorescence and Fourier transform infrared spectroscopies. Crystal structure and composition of the conjugates were characterized with xray diffraction and x-ray photoelectron spectroscopy. The size of the conjugates was 4-6 nm as demonstrated using atomic force microscopy and high resolution transmission electron microscopy imaging. The plasmon resonance fluorescence band at 540 nm on excitation at 351 nm was observed for these nanoparticles. The intensity of this band increased with the increase in the amount of conjugated thymine with no shift in its position. Based on the fluorescence measurements it was found that the CdTe-thymine conjugate interacted efficiently and selectively not only with adenine, a nucleobase complementary to thymine, but also with adenine-containing modified nucleosides, i.e., 5'-deoxy-5'-(methylthio)adenosine and 2'-O-methyladenosine, the urinary tumor markers which allow monitoring of the disease progression. To the best of our knowledge, as yet, there have been no studies presented in literature on that type of the interaction with CdTe-thymine conjugates. Therefore, the system presented can be considered as a working component of a selective adenine/adenosine biosensor with potential application in cancer diagnosis.

Synthesis and characterization of highly defective mesoporous carbon and its potential use in electrochemical sensors

A highly defective mesoporous carbon (DMC) was synthesized via a facile mass producible method for the fabrication of electrochemical sensing devices.

Electrochemical sensing of guanine, adenine and 8-hydroxy-2′-deoxyguanosine at glassy carbon modified with single-walled carbon nanotubes covalently functionalized with lysine

Synthesis and characterization of l-lysine covalently functionalized SWCNT and analytical application for the highly sensitive quantification of guanine, adenine and 8-hydroxy-2′-deoxyguanosine.