What controls the unusual melting profiles of small AuNPs/DNA complexes.

The effect of the addition of low concentrations of an inner electrolyte on ds-DNA CT-DNA (calf thymus DNA) and ss-DNA conformational changes induced by small N-(2-mercaptopropionyl)glycine gold nanoparticles (AuNPs) is here studied in detail by using different spectroscopic and structural techniques. The high affinity of ss-DNA to AuNPs compared with ds-DNA is easily demonstrated by the results of competitive binding with SYBR Green I (SG). Additionally, it is proven that at 25.0 °C, AuNPs/ds-DNA and AuNPs/ss-DNA complexes undergo a transition from extended-coil to more compact structures when the AuNPs concentration (CAuNPs) is increased, which for the ds-DNA system is accompanied by partial denaturation. Particularly, for the AuNPs/ss-DNA system all of these techniques confirm that at a high CAuNPs, the compaction process is followed by a discrete transition to aggregation and an increase in structure size. A thorough analysis of the conformational changes described indicates that these processes are larger in low salt concentration and at high temperature. However, the most striking feature of this work is the abnormal melting temperature profiles (Tm) registered at high R = CAuNPs/CDNA ratios, which are remarkable and of interest for chemical sensing. At a suitable R ratio, which varies depending on CNaCl, a complex melting profile for the AuNPs/ds-DNA system was registered with two characteristic transitions: Tm,1 = 65.0 °C and Tm,2 = 95.0 °C. The highly sensitive atomic force microscopy technique performed at 25.0 °C and 65.0 °C also showed a different behaviour in both ss- and AuNPs/ds-DNA systems, which explains the characteristic melting curves. Specifically for the AuNPs/ss-DNA system, AFM at 25.0 °C revealed the formation of large-sized aggregates formed by AuNPs/ss-DNA compact structures linked by AuNPs. However, when both AuNPs/ds-DNA and AuNPs/ss-DNA complexes were incubated at 65.0 °C, the formation of highly stable ordered structures was always visualized at high R. Therefore, this shows that some key parameters for effective control of the formation of DNA/RNA-linked particles are: the selection of an optimal temperature below the ds-DNA melting point, an appropriate CAuNPs, and the addition of low CNaCl. The optimization of these parameters for each AuNPs/DNA system could improve biological sensing and DNA/RNA delivery.

Ethanol effect on gold nanoparticle aggregation state and its implication in the interaction mechanism with DNA.

The equilibria and kinetics aspects of the binding of small gold nanoparticles, AuNPs, stabilized with tiopronin to DNA in B and C conformation (B-DNA and C-DNA), has been investigated in ethanol/water mixtures using different techniques. Two modes of binding are displayed: groove binding and partial intercalation, depending on the ethanol content, [EtOH], and the molar ratio, R = CAuNPs/CDNA. Two reaction mechanisms are proposed for AuNPs/DNA interaction in each polymer conformation, and the reaction parameters are evaluated. For lower ethanol levels, ([EtOH] up to 30%), when DNA is in the B form, the simplest mechanism according to the kinetic and thermodynamic results proved to be a three-step series mechanism reaction scheme which evolves in the formation of the groove complex. In this context, solvent hydration as well as the solvent effective viscosity are the main factors that influence kinetics. In contrast, for high ethanol levels, when DNA is in a C-like conformation, the mechanism is more complex involving three parallel reactions, in which AuNPs self-aggregation plays a key role in the switch from partial intercalation to groove binding. On the whole, it is evident that AuNPs aggregation and the DNA conformation are two key factors that must be taken into account in order to control the mechanism of AuNPs/DNA interaction.

Quantification of nucleobases/gold nanoparticles interactions: energetics of the interactions through apparent binding constants determination.

We explore the possibilities of quantifying the interaction of both adenine and thymine with non-functionalized, anionic citrate gold nanoparticles (AuNPs). Following the plasmon absorbance band's red shifts, dependent of the AuNPs aggregation state, apparent binding free energies of the system are obtained for the sum of the two processes (nucleobase interaction plus nanoparticle aggregation). A deconvolution procedure confirms those results. Those apparent binding free energies are, in both cases, in good agreement with previous studies indicating an increased reactivity for adenine. Moreover, density functional theory (DFT) calculations were carried out both to model the structures and to theoretically support and help understand the observed experimental stability of adenine as compared to thymine over gold nanoparticles. Theoretical results indicate the N atom in the amino group of adenine adopts a pyramidal sp3 hybridization character, stabilizing the interaction with Au as compared to thymine.

Free energy of binding of cationic metal complexes to AuNPs through electron-transfer processes.

AuNP effects on the oxidation reaction of [Ru(NH3)5pz](2+) with S2O8(2-) were studied. Experimental results show the effects produced by gold nanoparticles of different sizes, which are then discussed by using an approach based on the two-state model. Changes in the observed reactivity are explained by a change in the degree of association of the reactants to the nanoclusters, which depends on the negative surface potential of the gold nanoparticles. TEM and zeta potential measurements show that this potential determines the binding strength of one of the reactants ([Ru(NH3)5pz](2+)) to the citrate gold surface. The number of binding sites on a citrate nanoparticle receptor has also been determined. The experimental results confirm that an electron transfer reaction can be used as a probe for the determination of the free energy of binding of cationic metal complexes to gold nanoparticles.

Use of gold nanoparticles as crosslink agent to form chitosan nanocapsules: study of the direct interaction in aqueous solutions.

A systematic study of the interaction between free anionic gold nanoparticles and chitosan in a solution is presented. A spectroscopic study of the interaction between 10nm gold nanoparticles and low molecular weight chitosan is reported as a function of the concentration and pH of the polymer in a solution. Zeta potential measurements and TEM images indicate the effective aggregation of the nanoparticles in the presence of chitosan. At the same time, anionic gold nanoparticles act as crosslink agents to form chitosan nanocapsules with an average molecular size of 260nm. The changes of the surface plasmon band due to the adsorption of the polymer on the nanoparticle surface allow using of the citrate gold nanoparticles as sensors of the polymer for analytical purposes. The limit of detection for chitosan biopolymer is 69nM. The optimum pH for the interaction between the biopolymer and the nanoparticles is found at a value of 6.4, obtained from spectrophotometric measurements and applying a deconvolution analysis of the experimental data. A simple model based on molecular surface electrostatic interactions is proposed to understand the pH dependence of the investigated system.

Noncovalent interactions of tiopronin-protected gold nanoparticles with DNA: two methods to quantify free energy of binding.

The binding of gold nanoparticles capped with N-(2-mercaptopropionyl)glycine (Au@tiopronin) with double-stranded DNA has been investigated and quantified in terms of free energies by using two different approaches. The first approach follows the DNA conformational changes induced by gold nanoparticles using the CD technique. The second methodology consists in the use of pyrene-1-carboxaldehyde as a fluorescent probe. This second procedure implies the determination of the "true" free energy of binding of the probe with DNA, after corrections through solubility measurements. Working at different salt concentrations, the nonelectrostatic and electrostatic components of the binding free energy have been separated. The results obtained revealed that the binding is of nonelectrostatic character, fundamentally. The procedure used in this work could be extended to quantify the binding affinity of other AuNPs/DNA systems.

Electrochemiluminescence of the [Ru(bpy)3]2+ complex: the coreactant effect of PAMAM dendrimers in an aqueous medium.

Electrogenerated chemiluminescence (ECL) from aqueous solutions of tris(2,2'-bipyridine)ruthenium(II), [Ru(bpy)(3)](2+), in the presence of PAMAM G1.5 and G4.5 dendrimers, was observed without the addition of coreactants. The ECL efficiency, Φ(ECL), was enhanced with the addition of increasing amounts of G1.5 dendrimer. Indeed, the ECL efficiency for the [Ru(bpy)(3)](2+)/G1.5 dendrimer became about 10 times higher than that for the [Ru(bpy)(3)](2+)/ oxalate anion system. However, the ECL efficiency in the presence of the G4.5 dendrimer was smaller than that for the G1.5 dendrimer at concentrations similar to those for G1.5 with identical medium conditions. Besides, the addition of NaCl at a given concentration of G1.5 dendrimer decreased the ECL efficiency. The results of Φ(ECL) were interpreted by taking into account the coreactant effect and the electrostatic (long-range and short-range) interactions between the ruthenium(II) complex and the electric field of the dendrimer surface. Standard formal potentials of the [Ru(bpy)(3)](3+/2+) couple in the presence of G1.5 and G4.5 dendrimers were also determined.

Thermodynamic and structural study of phenanthroline derivative ruthenium complex/DNA interactions: probing partial intercalation and binding properties.

The binding of [Ru(PDTA-H(2))(phen)]Cl (PDTA = propylene-1,2-diaminetetra-acetic acid; phen = 1,10 phenanthroline) with ctDNA (=calf thymus DNA) has been investigated through intrinsic and induced circular dichroism, UV-visible absorption and fluorescence spectroscopies, steady-state fluorescence, thermal denaturation technique, viscosity and electrochemical measurements. The latter indicate that the cathodic and anodic peak potentials of the ruthenium complex shift to more positive values on increasing the DNA concentration, this behavior being a direct consequence of the interaction of both the reduced and oxidized form with DNA binding. From spectrophotometric titration experiments, the equilibrium binding constant and the number of monomer units of the polymer involved in the binding of one ruthenium molecule (site size) have been quantified. The intrinsic circular dichroism (CD) spectra show an unwinding and a conformational change of the DNA helix upon interaction of the ruthenium complex. Quenching process, thermal denaturation experiments and induced circular dichroism (ICD) are consistent with a partial intercalative binding mode.

Two-state model based on electron-transfer reactivity changes to quantify the noncovalent interaction between Co(NH3)5Cl2+ and 18-crown-6 ether: the effect of second-sphere coordination on electron-transfer processes.

The electron-transfer reaction between [Fe(CN)6]4- and [CoCl(NH3)5]2+ was studied in the presence of 18-crown-6 ether (18C6) in different reaction media constituted by water and acetonitrile as organic cosolvent at 298.2 K. The results corresponding to this reaction show a clear influence of 18C6 on the kinetics: a positive catalytic effect. Trends in the observed reactivity are explained by a change in the degree of association of one of the reactants (the cobalt complex) with the 18C6. This association is governed by an equilibrium constant that depends on the dielectric constant of the medium. The results show an increase of the rate constants for the electron-transfer process as the 18-crown-ether concentration increases and an increase of the binding free energy of the cobalt complex to the 18C6 when the electrostatic field of the medium becomes weaker. An analysis of the experimental data allows not only the reactivity changes associated with adducts formation processes for an electron-transfer reaction but also information on the binding free energy of the cobalt complex to the 18C6 to be obtained, which can be quantified by using a two-state model. We have found a good correlation between the energy of binding and the Kosower's Z-value. The influence of the 18C6 in the intramolecular electron transfer in the binuclear complex [Fe(CN)5pzCo(NH3)5] has been also investigated.

Salt and solvent effects on the kinetics of the oxidation of the excited state of the [Ru(bpy)3]2+ complex by S2O8(2-).

The title reaction was studied in different reaction media: aqueous salt solutions (NaNO3) and water-cosolvent (methanol) mixtures. The observed rate constants, k(obs), show normal behavior in the solutions containing the electrolyte, that is, a negative salt effect. However, the solvent effect is abnormal, because a decrease of the rate constant is observed when the dielectric constant of the reaction medium decreases. These effects (the normal and the abnormal) can be explained using the Marcus-Hush treatment for electron transfer reactions. To apply this treatment, the true, unimolecular, electron-transfer rate constants, k(et), have been obtained from k(obs) after calculation of the rate constants corresponding to the formation of the encounter complex from the separate reactants, k(D), and the dissociation of this complex, k(-D). This calculation has been carried out using an exponential mean spherical approach (EMSA).

"Abnormal" salt and solvent effects on anion/cation electron-transfer reactions: an interpretation based on Marcus-Hush treatment.

Salt and solvent effects on the kinetics of the reactions [Fe(CN)6]3- + [Ru(NH3)5pz](2+) right arrow over left arrow [Fe(CN)6]4- + [Ru(NH3)5pz]3+ (pz = pyrazine) have been studied through T-jump measurements. The forward and reverse reactions show different behaviors: "abnormal" salt and solvent effects in the first case and normal effects in the second one. These facts imply an asymmetric behavior of anion/cation reactions depending on the charge of the oxidant. The results can be rationalized by using the Marcus-Hush treatment for electron-transfer reactions.

Method for the evaluation of the reorganization energy of electron transfer reactions produced under restricted geometry conditions.

The kinetics of the electron transfer reactions between S(2)O(8)(2-) and the complexes (Ru(NH(3))(5)L)(2+) (L = pyridine, pyrazine, and 4-cyanopyridine) have been studied in micellar (SDS) solutions. A method for the evaluation of the reorganization energy of these reactions, based on the comparison of their rate constants, is proposed. From the results obtained, we concluded that the observed rate constants go through a minimum for the surfactant concentration in which the reorganization energy goes through a maximum. The method can be applied to any kind of restricted geometry conditions.

Strength and character of peptide/anion interactions.

The binding free energy of complex [Co(C(2)O(4))(3)](3-) to three peptides H-Lys-Gly-Lys-Gly-Lys-Gly-Lys-NH(2) (P-1), H-(Lys-Gly-Lys-Gly-Lys-Gly-Lys)(2)-NH(2) (P-2), H-(Lys-Gly-Lys-Gly-Lys-Gly-Lys)(3)-NH(2) (P-3) and to the monomers (amino acids) forming the peptides has been obtained using the kinetics of the electron-transfer reaction between [Ru(NH(3))(5)py](2+) and [Co(C(2)O(4))(3)](3-) as the probe. The polymerization of the monomers increases the negative free energy of binding and changes its character, noncooperative for the monomers and anticooperative for the peptides. This increase in the negative free energy represents a driving force for the polymerization process. The magnitude of the gain in negative free energy, as a consequence of the anticooperative character of the binding of the cobalt complex to the peptide, depends on the ratio of [complex]/[monomers].