Ana-Maria Chiorcea-Paquim

In situ electrochemical and AFM study of thalidomide-DNA interaction

The interaction of thalidomide (TD) with double-stranded DNA (dsDNA) was studied using atomic force microscopy (AFM) at highly oriented pyrolytic graphite (HOPG), differential pulse voltammetry (DPV) at glassy carbon electrodes (GCE), UV-Vis and electrophoresis. After incubation of dsDNA with different concentrations of TD, the AFM images show the formation of thin and incomplete TD-DNA network films with a number of embedded molecular aggregates and regions of uncovered HOPG. Both the TD-dsDNA aggregates and network thickness directly depended on the TD concentration and incubation time. The voltammetric data also showed that the modifications caused by TD to the DNA double helical structure are time-dependent. In agreement with AFM, DPV, UV-Vis and electrophoresis results, a model is proposed for the TD-DNA interaction, considering that TD intercalates into the dsDNA, causing defects in the dsDNA secondary structure and DNA double helix unwinding. Moreover, both AFM and DPV show that condensation is caused to DNA by TD and occurs until 24 h of incubation, as well as DNA oxidative damage, detected electrochemically by the appearance of the 8-oxoGua and/or 2,8 oxoAde oxidation peak.

DNA interaction with palladium chelates of biogenic polyamines using atomic force microscopy and voltammetric characterization.

The interaction of double-stranded DNA with two polynuclear Pd(II) chelates with the biogenic polyamines spermidine (Spd) and spermine (Spm), Pd(II)-Spd and Pd(II)-Spm, as well as with the free ligands Spd and Spm, was studied using atomic force microscopy (AFM) at a highly oriented pyrolytic graphite (HOPG) surface, voltammetry at a glassy carbon (GC) electrode, and gel electrophoresis. The AFM and voltammetric results showed that the interaction of Spd and Spm with DNA occurred even for a low concentration of polyamines and caused no oxidative damage to DNA. The Pd(II)-Spd and Pd(II)-Spm complexes were found to induce greater morphological changes in the dsDNA conformation, when compared with their ligands. The interaction was specific, inducing distortion and local denaturation of the B-DNA structure with release of some guanine bases. The DNA strands partially opened give rise to palladium intra- and interstrand cross-links, leading to the formation of DNA adducts and aggregates, particularly in the case of the Pd(II)-Spd complex.

AFM nanometer surface morphological study of in situ electropolymerized neutral red redox mediator oxysilane sol-gel encapsulated glucose oxidase electrochemical biosensors

Four different silica sol-gel films: methyltrimethoxysilane (MTMOS), tetraethoxysilane (TEOS), 3-aminopropyltriethoxysilane (APTOS) and 3-glycidoxypropyl-trimethoxysilane (GOPMOS) assembled onto highly oriented pyrolytic graphite (HOPG) were characterized using atomic force microscopy (AFM), due to their use in the development of glucose biosensors. The chemical structure of the oxysilane precursor and the composition of the sol-gel mixture both influenced the roughness, the size and the distribution of pores in the sol-gel films, which is relevant for enzyme encapsulation. The GOPMOS sol-gel film fulfils all the morphological characteristics required for good encapsulation of the enzyme, due to a smooth topography with very dense and uniform distribution of only small, 50 nm diameter, pores at the surface. APTOS and MTMOS sol-gel films developed small pores together with large ones of 300-400 nm that allow the leakage of enzymes, while the TEOS film formed a rough and incomplete network on the electrode, less suitable for enzyme immobilisation. GOPMOS sol-gel film with encapsulated glucose oxidase and poly(neutral red) redox mediator, prepared by in situ electropolymerization, were also morphologically characterized by AFM. The AFM results explain the variation of the stability in time, sensitivity and limit of detection obtained with different oxysilane sol-gel encapsulated glucose oxidase biosensors with redox mediator.

Quadruplex Nanostructures of d(TGGGGT): Influence of Sodium and Potassium Ions

The Tetrahymena telomeric repeat sequence d(TG4T) contains only guanine (G) and thymine (T) bases and has medical and nanotechnological applications because of its ability to self-assemble into stiff tetra-molecular parallel-stranded G-quadruplexes. The hexadeoxynucleotide d(TG4T) was studied using atomic force microscopy (AFM) on the highly oriented pyrolytic graphite surface and differential pulse (DP) voltammetry at a glassy carbon electrode. The d(TG4T) single-strands self-assembled into G-quadruplex structures, very fast in K(+) ions solution and slowly in Na(+) ions containing solution. The G-quadruplex structures were detected in AFM by the adsorption of small spherical aggregates and by DP voltammetry by the G oxidation peak decrease and G-quartets oxidation peak occurrence, in a time and K(+) ions concentration dependent manner. In the presence of Na(+) ions, the d(TG4T) single-strands also slowly self-assembled into higher-order nanostructures, detected by AFM as short nanowires and nanostructured films that were never observed in K(+) ions containing solution.

Lipoic acid–palladium complex interaction with DNA, voltammetric and AFM characterization

The mechanism of interaction of lipoic acid-palladium complex (LAPd) with double-stranded DNA (dsDNA), as well as the adsorption process and the redox behaviour of LAPd, of its ligand lipoic acid (LA), and of the LAPd-containing dietary supplement, Poly-MVA, were studied using atomic force microscopy (AFM) and voltammetry at highly oriented pyrolytic graphite (HOPG) and glassy carbon electrodes. In the presence of small concentrations of LAPd molecules, the dsDNA molecules appeared less knotted and bended, and more extended on the HOPG surface, when compared with the dsDNA molecules adsorbed from the same dsDNA solution concentration. The voltammetric results demonstrated the interaction of both LAPd and Poly-MVA with dsDNA, but no oxidative damage caused to dsDNA was detected. AFM images revealed different adsorption patterns and degree of surface coverage and correlation with the structure, the concentration of the solution, the applied potential, and the voltammetric behaviour of the LA, LAPd and Poly-MVA was observed. The application of a negative potential caused the dissociation of the LAPd complex and Pd(0) nanoparticle deposition, whereas the application of a positive potential induced the oxidation of the LAPd complex and the formation of a mixed layer of LA and palladium oxides.

Thrombin-Binding Aptamer Quadruplex Formation: AFM and Voltammetric Characterization

The adsorption and the redox behaviour of thrombin-binding aptamer (TBA) and extended TBA (eTBA) were studied using atomic force microscopy and voltammetry at highly oriented pyrolytic graphite and glassy carbon. The different adsorption patterns and degree of surface coverage were correlated with the sequence base composition, presence/absence of K+, and voltammetric behaviour of TBA and eTBA. In the presence of K+, only a few single-stranded sequences present adsorption, while the majority of the molecules forms stable and rigid quadruplexes with no adsorption. Both TBA and eTBA are oxidized and the only anodic peak corresponds to guanine oxidation. Upon addition of K+ ions, TBA and eTBA fold into a quadruplex, causing the decrease of guanine oxidation peak and occurrence of a new peak at a higher potential due to the oxidation of G-quartets. The higher oxidation potential of G-quartets is due to the greater difficulty of electron transfer from the inside of the quadruplex to the electrode surface than electron transfer from the more flexible single strands.

Atomic Force Microscopy and Voltammetric Investigation of Quadruplex Formation between a Triazole-Acridine Conjugate and Guanine-Containing Repeat DNA Sequences.

The interactions of the Tetrahymena telomeric repeat sequence d(TG4T) and the polyguanylic acid (poly(G)) sequence with the quadruplex-targeting triazole-linked acridine ligand GL15 were investigated using atomic force microscopy (AFM) at a highly oriented pyrolytic graphite and voltammetry at a glassy carbon electrode. GL15 interacted with both sequences, in a time dependent manner, and G-quadruplex formation was detected. AFM showed the adsorption of quadruplexes as small d(TG4T) and poly(G) spherical aggregates and large quadruplex-based poly(G) assemblies, and voltammetry showed the decrease and disappearance of GL15 and guanine oxidation peak currents and appearance of the G-quadruplex oxidation peak. The GL15 molecule strongly stabilized and accelerated G-quadruplex formation in both Na(+) and K(+) ion-containing solution, although only K(+) promoted the formation of perfectly aligned tetra-molecular G-quadruplexes. The small-molecule complex with the d(TG4T) quadruplex is discrete and approximately globular, whereas the G-quadruplex complex with poly(G) is formed at a number of points along the length of the polynucleotide, analogous to beads on a string.

Polynuclear palladium complexes with biogenic polyamines: AFM and voltammetric characterization

Polynuclear Pd(II) complexes with biogenic polyamines present great potential clinical importance, due to their antiproliferative and cytotoxic activity coupled to less severe side-effects. The adsorption process and the redox behaviour of two polynuclear palladium chelates with spermine (Spm) and spermidine (Spd), Pd(II)-Spm and Pd(II)-Spd, as well as of their ligands Spm and Spd, were studied using atomic force microscopy (AFM) and voltammetry at highly oriented pyrolytic graphite and glassy carbon electrodes. AFM revealed different adsorption patterns and degree of surface coverage, correlated with the chelate structure, concentration of the solution, applied potential and voltammetric behaviour of the Spm, Spd, Pd(II)-Spm and Pd(II)-Spd systems. The voltammetric study of Spm and Spd showed that these biogenic polyamines undergo an irreversible and pH-dependent oxidation. In acid medium the polyamines are fully protonated, rendering their oxidation more difficult. With increasing pH the oxidation potential for both Spm and Spd is shifted to less positive values, indicating a greater ease of oxidation in alkaline medium. The Pd(II)-Spm and Pd(II)-Spd complexes dissociate at high negative or high positive potentials. The application of a positive potential induced the oxidation of these Pd complexes and the formation of mixed layers of palladium oxides, Spm/Spd and Pd(II)-Spm/Pd(II)-Spd.

Interaction of imatinib with liposomes: Voltammetric and AFM characterization

The interaction of imatinib with 1,2-dipalmitoyl-sn-glycero-3-phosphocholine (DPPC) and 2-oleoyl-1-stearoyl-sn-glycero-3-phosphocholine (OSPC) liposomes and the adsorption of DPPC and OSPC were studied using atomic force microscopy (AFM) at highly oriented pyrolytic graphite (HOPG) and differential pulse voltammetry at glassy carbon electrode (GCE). The HOPG induces the rupture of the liposomes and allows the lipids to adsorb along one of the three axes of symmetry of the HOPG basal planes, forming well-ordered lamellar structures. After interaction, both DPPC monolayers and DPPC-imatinib complexes are adsorbed onto HOPG. The OSPC-imatinib complexes self-organize only into ordered but larger domains of parallel stripes that maintain the threefold symmetry of the HOPG, due to an easier imatinib penetration into the unsaturated OSPC liposome bilayers. The voltammetric results show that upon interaction, the electrochemical active moiety of imatinib is incorporated into the lipid bilayer becoming unavailable to the GCE surface for oxidation, leading to local structural modifications of the lipid bilayer which were also electrochemically detected. A model is proposed for the liposome-imatinib interaction considering that imatinib interacts primarily by van der Waals and hydrogen bonds with the phosphatidylcholine headgroups, leading to defects in the liposome bilayer and allowing further incorporation of imatinib into the liposome lamellae.

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.