A new electrochemical biosensor based on telomeric G-quadruplex DNA: In silico and experimental study of dihydropyridine derivatives potential effect on telomerase inhibition

Genotoxic and genoprotective effects of 1,4-dihydropyridine derivatives: a brief review

This review summarises current knowledge about the genotoxic and genoprotective effects of 1,4-dihydropyridines (DHP) with the main focus on the water-soluble 1,4-DHPs. Most of these water-soluble compounds manifest very low calcium channel blocking activity, which is considered "unusual" for 1,4-DHPs. Glutapyrone, diludine, and AV-153 decrease spontaneous mutagenesis and frequency of mutations induced by chemical mutagens. AV-153, glutapyrone, and carbatones protect DNA against the damage produced by hydrogen peroxide, radiation, and peroxynitrite. The ability of these molecules to bind to the DNA may not be the only mechanism of DNA protection, as other mechanisms such as radical scavenging or binding to other genotoxic compounds may take place and enhance DNA repair. These uncertainties and reports of high 1,4-DHP concentrations damaging the DNA call for further in vitro and in vivo preclinical research, pharmacokinetic in particular, as it can help pinpoint the exact mechanism(s) of the genotoxic and/or genoprotective action of 1,4-DHPs.

DNA-binding activities of compounds acting as enzyme inhibitors, ion channel blockers and receptor binders

The DNA-binding activities of compounds used as remedies can display DNA-protection, but also damaging effects in biological systems. The current review compiles literature data on DNA-binding activities of drugs widely used as remedies with different therapeutic indications. The compounds are classified according their mechanism of action: enzyme inhibitors, ion channel inhibitors, inhibitors of viral RNA replication and HIV protease and receptor agonists. DNA binding was reported for such widely used drugs as paracetamol, aspirin, metformin, statins and many others. The capability of the drug to bind DNA is sometimes coupled to genotoxic effects, but in some cases - to genome protection. Data on atoms and chemical groups involved in the drug-DNA interactions are also presented. In many cases the same atoms are involved in both interactions of the compounds with proteins and DNA.

A novel label-free electrochemical immunesensor for ultrasensitive detection of LT toxin using prussian blue@gold nanoparticles composite as a signal amplification

In the current study, a novel electrochemical label-free immunosensor is proposed for sensitive detection of heat-labile enterotoxin (LT) from Escherichia coli. Firstly, a glassy carbon electrode (GCE) was modified by a mixture containing reduced graphene oxide/room temperature ionic liquid (rGO/RTIL) composite. Then, simultaneous electrodeposition of prussian blue and gold nanoparticles led to formation of prussian blue@gold nanoparticles (PB@GNPs) composite on the electrode surface. The modified electrode was characterized by field emission scanning electron microscopy (FE-SEM), energy dispersive spectroscopy (EDS), cyclic voltammetry (CV) and electrochemical impedance spectroscopy (EIS) techniques. After immobilization of anti-LT and blocking the unreacted sites with BSA (bovine serum albumin), the analytical performance of the proposed immunosensor was evaluated under optimal conditions (i.e. optimal pH, incubation time and temperature of incubation). Square wave voltammetry (SWV) was used to determine different concentrations of the LT antigen. The linear dynamic range of the proposed immunosensor was from 0.01 to 50 µg/mL and the detection limit of the immunosensor was found to be 0.0023 µg/mL. An acceptable selectivity in the real sample, long-term stability and goodreproducibility made the fabricated immunosensor a good candidate for detecting LT.

Spectroscopic and electrochemical study of interactions between DNA and different salts of 1,4-dihydropyridine AV-153

1,4-dihydropyridines (1,4-DHP) possess important biochemical and pharmacological properties, including antimutagenic and DNA-binding activity. The latter activity was first described for water-soluble 1,4-DHP with carboxylic group in position 4, the sodium salt of the 1,4-DHP derivative AV-153 among others. Some data show the modification of physicochemical properties and biological activities of organic compounds by metal ions that form the salts. We demonstrated the different affinity to DNA and DNA-protecting capacity of AV-153 salts, depending on the salt-forming ion (Na, K, Li, Rb, Ca, Mg). This study aimed to use different approaches to collate data on the DNA-binding mode of AV-153-Na and five other AV-153 salts. All the AV-153 salts in this study quenched the ethidium bromide and DNA complex fluorescence, which points to an intercalation binding mode. For some of them, the intercalation binding was confirmed using cyclic voltammetry and circular dichroism spectroscopy. It was shown that in vitro all AV-153 salts can interact with four DNA bases. The FTIR spectroscopy data showed the interaction of AV-153 salts with both DNA bases and phosphate groups. A preference for base interaction was observed as the AV-153 salts interacted mostly with G and C bases. However, the highest differences were detected in the spectral region assigned to phosphate groups, which might indicate either conformational changes of DNA molecule (B form to A or H form) or partial denaturation of the molecule. According to the UV/VIS spectroscopy data, the salts also interact with the human telomere repeat, both in guanine quadruplex (G4) and single-stranded form; Na and K salts manifested higher affinity to G4, Li and Rb -to single-stranded DNA.

Label-free and Non-destruction Determination of Single- and Double-Strand DNA based on Quantum Weak Measurement

The process of unwinding and renaturation of DNA has been widely used in studies of nucleotide sequence organization. Compared with traditional methods for DNA unwinding and renaturation, the label-free and non-destruction detection technology is significant and desiderated. We realized an optical system based on optical rotation via weak measurement for detection of single- and double-strand state of DNA. The optical rotation, which was induced by the status change of single and double DNA strands, was exploited to modulate the preselected polarization of a weak measurement system. With this modulation, the optical rotation caused by the separation of DNA strands can be determined through the center wavelength shift of the output spectrum. By monitoring the wavelength shift in real time, the separation processes of the DNAs with different base ratio (25% and 70%) and length (4nt and 40nt), and DNAs with three terminally modified cholesterol molecules were experimentally explored in varied pH and temperature conditions. In addition, the detection limit of the DNA concentration was obtained to be 5 × 10^-6 mol/L. Our work based on optical rotation detection of single- and double-strand DNA exhibits the unique advantages of real-time monitoring, label-free, non-destruction and simplicity.

Fabrication of an ultrasensitive and selective electrochemical aptasensor to detect carcinoembryonic antigen by using a new nanocomposite

A lable-free electrochemical aptasensor was successfully developed for the sensitive detection of carcinoembryonic antigen as a tumor biomarker. To do this, a ternary nanocomposite of hemin, graphene oxide and multi-walled carbon nanotubes was used. The aptamer can be attached to the surface of a hemin, graphene oxide and multi-walled carbon nanotubes glassy carbon electrode through -NHCO- covalent bonds to form a sensing surface. Through fourier transform infrared spectroscopy and scanning electron microscopy, it was indicated that hemin can be successfully incorporated into hemin, graphene oxide and multi-walled carbon nanotubes. Hemin, which protects graphene nanosheets, also serves as an in-situ probe owing to its well-defined redox properties. Multi-walled carbon nanotubes in the modifier enhance conductivity and facilitate the electron transfer between hemin and the glassy carbon electrode. In this study, carcinoembryonic antigen got specifically bound to the aptamer, and the current changes were used for selective and specific detection of that antigen. The devised aptasensor proved to have excellent performance with a wide linear range of 1.0 × 10^-15 - 1.0 × 10^-8 gmL^-1 and a detection limit of 0.82 fg mL^-1. The inter-day and intra-day values of RSD% were obtained in the range of 0.10-2.91 and 2.21-4.56 respectively. According to the experiments conducted on real samples, it may be claimed that the proposed label-free electrochemical aptasensor is capable enough of determining carcinoembryonic antigen in clinical diagnostics.

Ratiometric Fluorescent Biosensor for Visual Discrimination of Cancer Cells with Different Telomerase Expression Levels

Telomerase is inactive in normal somatic cells but highly activated in tumor cells to maintain their indefinite proliferation and immortal phenotype. As a specific marker for the generation and progress of almost all tumors, the detection of telomerase activity by classical PCR techniques has served in the biological research of tumors. However, the detection of in situ telomerase activity in cell extracts to evaluate the malignancy, progress, and metastasis of tumors remains a daunting challenge. Here, a precisely designed FRET-based ratiometric fluorescent oligonucleotide probe has achieved high-fidelity detection of telomerase activity for accurate discrimination of different cancer cells toward advanced diagnosis of tumors. Our method is superior to other methods in its capabilities to quantify telomerase activity in cell extracts and visualize various tumor cell extracts with different telomerase expression levels by the naked eye for clinical diagnosis. In particular, the ratiometric fluorescent probe used in the assay could exclude other experimental factors influence, and further avoid false positive signal generation. The method reported here could provide a reliable, accurate, and convenient way in medical diagnostics and therapeutic response assessment.

Electrochemical and AFM Characterization of G-Quadruplex Electrochemical Biosensors and Applications

Guanine-rich DNA sequences are able to form G-quadruplexes, being involved in important biological processes and representing smart self-assembling nanomaterials that are increasingly used in DNA nanotechnology and biosensor technology. G-quadruplex electrochemical biosensors have received particular attention, since the electrochemical response is particularly sensitive to the DNA structural changes from single-stranded, double-stranded, or hairpin into a G-quadruplex configuration. Furthermore, the development of an increased number of G-quadruplex aptamers that combine the G-quadruplex stiffness and self-assembling versatility with the aptamer high specificity of binding to a variety of molecular targets allowed the construction of biosensors with increased selectivity and sensitivity. This review discusses the recent advances on the electrochemical characterization, design, and applications of G-quadruplex electrochemical biosensors in the evaluation of metal ions, G-quadruplex ligands, and other small organic molecules, proteins, and cells. The electrochemical and atomic force microscopy characterization of G-quadruplexes is presented. The incubation time and cations concentration dependence in controlling the G-quadruplex folding, stability, and nanostructures formation at carbon electrodes are discussed. Different G-quadruplex electrochemical biosensors design strategies, based on the DNA folding into a G-quadruplex, the use of G-quadruplex aptamers, or the use of hemin/G-quadruplex DNAzymes, are revisited.

Nitration of tyrosine and its effect on DNA hybridization

One major marker of nitrosative stress is the formation of 3-Nitrotyrosine (3-NT) from Tyrosine (Tyr) by adding a nitro group (-NO₂) with nitrating agents. Nitration of Tyr often causes loss of protein activity and is linked with many diseases. In this article, we detect 3-NT and discriminate it from Tyr with Differential Pulse Voltammetry (DPV) as it is a very important biomarker. We first examined redox (oxidation/reduction) properties and stability of 3-NT in detail. Second, we provided the Tyr and 3-NT discrimination with DPV and compared with the chromatography. We then explored the interaction of 3-NT and DNA oligonucleotides. Our findings demonstrate that 3-NT can be used as a new electrochemical indicator, which is able to detect hybridization of probe (single stranded DNA-ssDNA) and hybrid (double stranded DNA-dsDNA) both via 3-NT reduction and guanine oxidation signal changes at the same time. The signal differences enabled us to distinguish ssDNA and dsDNA without using a label or a tag. Moreover, we achieved to detect hybridization of DNA by using the reduction signal of 3-NT obtained at -0.4V vs. Ag/AgCl. More importantly, we observed the changes of the reduction signals of 3-NT after the interaction of probe and hybrid sequences. We showed that 3-NT signal decreases more with hybrid than the probe. Our platform, for the first time, demonstrates the detection of hybridization both guanine oxidation and indicator reduction signal changes at the same time. Moreover, we, for the first time, demonstrated the interaction between 3-NT and DNA.