Get charged up: Nonlinear optical voltammetry for quantifying the thermodynamics and electrostatics of metal cations at aqueous/oxide interfaces

Second harmonic generation null angle polarization analysis for determining interfacial potential at charged interfaces

Methods of quantifying the electrostatics of charged interfaces are important in a range of research areas. The surface-selective nonlinear optical technique second harmonic generation (SHG) is a sensitive probe of interfacial electrostatics. Recent work has shown that detection of the SHG phase in addition to its amplitude enables direct quantification of the interfacial potential. However, the experimental challenge of directly detecting the phase interferometrically with sufficient precision and stability has led to the proposal and development of alternative techniques to recover the same information, notably through wavelength scanning or angle scanning, each of which has their own associated experimental challenges. Here, we propose a new polarization-based approach to recover the required phase information, building upon the previously established nonlinear optical null ellipsometry (NONE) technique. Although NONE directly returns only relative phase information between different tensor elements of the second-order susceptibility, it is shown that a symmetry relation that connects the tensor elements of the potential-dependent third-order susceptibility can be used to generate the absolute phase reference required to calculate the interfacial potential. The sensitivity of the technique to potential at varying surface charge densities and ionic strengths is explored by means of simulated data of the silica:water interface. The error associated with the use of the linearized Poisson-Boltzmann approximation is discussed and compared to the error associated with the precision of the measured NONE null angles. Overall, the results suggest that NONE is a promising approach for performing phase-resolved SHG based quantification of interfacial potentials that experimentally requires only the addition of standard polarization optics to the basic single-wavelength, fixed-angle SHG apparatus.

Size-dependent growth dynamics of silver-gold core-shell nanoparticles monitored by in situ second harmonic generation and extinction spectroscopy

The in situ growth dynamics of colloidal silver-gold core-shell (Ag@Au CS) nanoparticles (NPs) are studied using time-dependent second harmonic generation (SHG) and extinction spectroscopy. Four sequential additions of chloroauric acid, sodium citrate, and hydroquinone are added to a silver nanoparticle solution to form a gold shell around a 45 nm silver core under different reaction conditions, resulting in final sizes ranging from 80 to 125 nm in diameter. In the first addition, a bumpy, urchin-like surface morphology is produced, while the second, third, and fourth additions provide additional nanoparticle growth with the surface morphology becoming more smooth and uniform, as shown using transmission electron microscopy measurements. The in situ extinction spectra increase in intensity for each addition, where blue-shifting and spectral narrowing are observed as the Ag@Au CS NPs grow in size. The extinction spectra are compared to Mie theory simulations, showing general agreement at later stages of the reactions for smooth CS surfaces. The in situ SHG signal is dominated by surface-enhanced plasmonic hotspots at the early stages of the shell growth, followed by gradual decreases in signal as the surface becomes more smooth. Two-photon fluorescence is also monitored during the CS growth, showing complementary information for comparisons to the extinction and SHG results. The holistic study of the synthesis and characterization of Ag@Au CS nanoparticles using in situ SHG spectroscopy, extinction spectroscopy, and Mie theory simulations allows for a comprehensive analysis of the complex growth dynamics occurring at the nanoscale for developing optimized plasmonic nanomaterial properties.

"Nonlinear" pursuit of understanding pollutant accumulation and chemistry at environmental and biological interfaces

Over the past few decades, the public recognition of the prevalence of certain classes of pollutants, such as perfluoroalkyl substances and nanoplastics, within the environment, has sparked growing concerns over their potential impact on environmental and human health. Within both environmental and biological systems, the adsorption and structural organization of pollutants at aqueous interfaces can greatly impact the chemical reactivity and transformation. Experimentally probing chemical behavior at interfaces can often pose a problem due to bulk solvated molecules convoluting molecular signatures from interfacial molecules. To solve this problem, there exist interface-specific nonlinear spectroscopy techniques that can directly probe both macroscopic planar interfaces and nanoplastic interfaces in aqueous environments. These techniques can provide essential information such as chemical adsorption, structure, and reactivity at interfaces. In this perspective, these techniques are presented with obvious advantages for studying the chemical properties of pollutants adsorbed to environmental and biological interfaces.

Growth Dynamics of Colloidal Silver-Gold Core-Shell Nanoparticles Studied by In Situ Second Harmonic Generation and Extinction Spectroscopy

The in situ growth dynamics of colloidal silver-gold core-shell (Ag@Au CS) nanoparticles (NPs) in water are monitored in a stepwise synthesis approach using time-dependent second harmonic generation (SHG) and extinction spectroscopy. Three sequential additions of chloroauric acid, sodium citrate, and hydroquinone are added to the silver nanoparticle solution to grow a gold shell around a silver core. The first addition produces a stable urchin-like surface morphology, while the second and third additions continue to grow the gold shell thickness as the surface becomes more smooth and uniform, as determined using transmission electron microscopy. The extinction spectra after each addition are compared to finite-difference time-domain (FDTD) calculations, showing large deviations for the first and second additions due to the bumpy surface morphology and plasmonic hotspots while showing general agreement after the third addition reaches equilibrium. The in situ SHG signal is dominated by the NP surface, providing complementary information on the growth time scales due to changes to the surface morphology. This combined approach of synthesis and characterization of Ag@Au CS nanoparticles with in situ SHG spectroscopy, extinction spectroscopy, and FDTD calculations provides a detailed foundation for investigating complex colloidal nanoparticle growth mechanisms and dynamics in developing enhanced plasmonic nanomaterial technologies.

Strong Propensity of Ionic Liquids in Their Aqueous Solutions for an Organic-Modified Metal Surface

Understanding ionic structure and electrostatic environments near a surface has both fundamental and practical value. In electrochemistry, especially when room temperature ionic liquids (ILs) are involved, the complex ionic structure near the interface is expected to crucially influence reactions. Here we report evidence that even in dilute aqueous solutions of several ILs, the ions aggregate near the surface in ways that are qualitatively different from simple electrolytes. We have used a vibrational probe molecule, 4-mercaptobenzonitrile (MBN), tethered to a metal surface to monitor the behavior of the ionic layers. The characteristic nitrile vibrational frequency of this molecule has distinct values in the presence of pure water (∼2232 cm^-1) and pure IL (for example, ∼2226 cm^-1 for ethylmethylimidazolium tetrafluoroborate, [EMIM][BF₄]). This difference reflects the local electrostatic field and the hydrogen-bonding variations between these two limiting cases. We tracked this frequency shift as a function of IL concentration in water all the way from pure water to pure IL. We report two important findings. First, only one nitrile peak is observed for the entire concentration range, indicating that at least on the length scale of the probe molecule water and ILs do not phase separate within the interface, and no heterogeneously distinct electrostatic environments are formed. Second, and more importantly, we find that even up to a significant mole fraction of bulk water (x ∼ 0.95), the nitrile frequency does not change from that indicative of a pure IL for [EMIM][BF₄], indicating preferential aggregation of the ions near the surface. Because this behavior is very similar to surfactants, we chose an imidazolium cation with a longer side chain which resulted in behavior expected from a surfactant, with a preferential layer of the ions on the surface even in dilute water solutions (x ∼ 0.995). This observation indicates that even those ILs that are not nominally categorized as surfactants have a strong tendency to aggregate at the surface. Because ILs serve as electrolytes in a range of electrochemical reactions, including those requiring water, our results are likely useful for mechanistic understanding and tuning of such reactions.

Investigating the interactions of corona-free SWCNTs and cell membrane models using sum-frequency generation

The understanding of the interactions between biomolecules and nanomaterials is of great importance in many areas of nanomedicine and bioapplications. Numerous studies in this area have been performed. However, toxicological aspects involving the interaction between phospholipids and carbon nanotubes (CNTs) remain undefined, especially for those cases in which a protein corona is not formed around the nanomaterial (corona-free nanomaterials). This study focuses on the interaction of Langmuir films of dipalmitoylphosphatidylglycerol (DPPG) and dipalmitoylphosphatidylcholine (DPPC) with corona-free, single-walled CNTs. Surface pressure-area isotherms and sum-frequency generation (SFG) vibrational spectroscopy, a non-linear optical technique used to study surfaces and interfaces, were used to investigate the lipid tail orientation and conformation, aiming to understand the interactions between phospholipids and single walled carbon nanotubes functionalized by carboxylic acid (SWCNTs-COOH) at the air-water interface under low ionic strength conditions. Data from isotherms and SFG spectra revealed that the SWCNT adsorption at the air-water interface is induced by the presence of both lipids, although at a lesser extent for DPPG due to its anionic head group, which could result in repulsion of SWCNTs-COOH that also bear a negative charge. Furthermore, lipid monolayers remained conformationally ordered, indicating insertion of SWCNTs into the lipid monolayer. Our results corroborate previous works and simulations in the literature, but made it possible to perform an in-depth investigation of the interaction of these nanomaterials with components of phospholipid membranes.

Molecular Adsorption and Transport at Liposome Surfaces Studied by Molecular Dynamics Simulations and Second Harmonic Generation Spectroscopy

A fundamental understanding of the factors that determine the interactions with and transport of small molecules through phospholipid membranes is crucial in developing liposome-based drug delivery systems. Here we combine time-dependent second harmonic generation (SHG) measurements with molecular dynamics simulations to elucidate the events associated with adsorption and transport of the small molecular cation, malachite green isothiocyanate (MGITC), in colloidal liposomes of different compositions. The molecular transport of MGITC through the liposome bilayer is found to be more rapid in 1,2-dioleoyl-sn-glycero-3-phospho-(1'-rac-glycerol) and 1,2-dioleoyl-sn-glycero-3-phospho-l-serine (DOPG and DOPS, respectively) liposomes, while the molecular transport is slower in 1,2-dioleoyl-sn-glycero-3-phosphocholine (DOPC) liposomes. Interestingly, MGITC is observed to neither adsorb nor transport in trimethyl quinone-1,2-dioleoyl-sn-glycero-3-phosphoethanolamine (QPADOPE) liposomes due to shielding by the quinone group. The modified Langmuir adsorption isotherm model is used to determine the free energy of adsorption for MGITC, which is found to be less negative in DOPC than in DOPG and DOPS, caused by lower electrostatic interactions between the positively charged dye and the zwitterionic DOPC liposome surface. The results are compared to our previous investigations, which showed that malachite green (MG) adsorbs and transports in DOPG and DOPS liposomes but not in DOPC and QPADOPE liposomes. Molecular dynamics simulations are used to investigate the adsorption and transport properties of MG and MGITC in DOPC and DOPG liposomes using umbrella sampling to determine the free energy profiles and interfacial molecular orientations. Together, these time-resolved SHG studies and corresponding molecular dynamics simulations characterize the complicated chemical interactions at different lipid membranes to provide key molecular-level insights for potential drug delivery applications. The results also point toward understanding the role of chemical functional groups, in this case isothiocyanate, in controlling molecular adsorption at and transport through lipid bilayers.

Beyond the Gouy-Chapman Model with Heterodyne-Detected Second Harmonic Generation

We report ionic strength-dependent phase shifts in second harmonic generation (SHG) signals from charged interfaces that verify a recent model in which dispersion between the fundamental and second harmonic beams modulates observed signal intensities. We show how phase information can be used to unambiguously separate the χ⁽²⁾ and interfacial potential-dependent χ⁽³⁾ terms that contribute to the total signal and provide a path to test primitive ion models and mean field theories for the electrical double layer with experiments to which theory must conform. Finally, we demonstrate the new method on supported lipid bilayers and comment on the ability of our new instrument to identify hyper-Rayleigh scattering contributions to common homodyne SHG measurements in reflection geometries.

Concerted Metal Cation Desorption and Proton Transfer on Deprotonated Silica Surfaces

The adsorption equilibrium constants of monovalent and divalent cations to material surfaces in aqueous media are central to many technological, natural, and geochemical processes. Cation adsorption-desorption is often proposed to occur in concert with proton transfer on hydroxyl-covered mineral surfaces, but to date this cooperative effect has been inferred indirectly. This work applies density functional theory-based molecular dynamics simulations of explicit liquid water/mineral interfaces to calculate metal ion desorption free energies. Monodentate adsorption of Na⁺, Mg²⁺, and Cu²⁺ on partially deprotonated silica surfaces are considered. Na⁺ is predicted to be unbound, while Cu²⁺ exhibits binding free energies to surface SiO^- groups that are larger than those of Mg²⁺. The predicted trends agree with competitive adsorption measurements on fumed silica surfaces. As desorption proceeds, Cu²⁺ dissociates one of the H₂O molecules in its first solvation shell, turning into Cu²⁺(OH^-)(H₂O)₃, while Mg remains Mg²⁺(H₂O)₆. The protonation state of the SiO^- group at the initial binding site does not vary monotonically with cation desorption.

Near-Infrared Photothermal Release of siRNA from the Surface of Colloidal Gold-Silver-Gold Core-Shell-Shell Nanoparticles Studied with Second-Harmonic Generation

Photothermal release of oligonucleotides from the surface of plasmonic nanoparticles represents a promising platform for spatiotemporal controlled drug delivery. Here we demonstrate the use of novel gold-silver-gold core-shell-shell (CSS) nanoparticles to study the photothermal cleaving and release of micro-RNA (miRNA) mimics or small interfering RNA (siRNA) under nearinfrared (NIR) irradiation. The furan-maleimide-based Diels-Alder adduct cleaves thermally above 60 °C and is used to bind siRNA to the colloidal nanoparticle surface in water. We investigate the photothermal cleaving kinetics of siRNA under different NIR laser powers using surface-sensitive time-dependent second-harmonic generation (SHG) spectroscopy. The photothermal release of siRNA from the surface of CSS nanoparticles is significantly higher than that from the surface of gold nanoparticles (GNPs) under similar experimental conditions. These results demonstrate that plasmonic CSS nanoparticles with photothermal cleaving linkers have important potential applications for nanoparticle-based NIR-mediated drug-delivery systems.

Hydrogen-Bond Networks near Supported Lipid Bilayers from Vibrational Sum Frequency Generation Experiments and Atomistic Simulations

We report vibrational sum frequency generation (SFG) spectra in which the C-H stretches of lipid alkyl tails in fully hydrogenated single- and dual-component supported lipid bilayers are detected along with the O-H stretching continuum above the bilayer. As the salt concentration is increased from ∼10 μM to 0.1 M, the SFG intensities in the O-H stretching region decrease by a factor of 2, consistent with significant absorptive-dispersive mixing between χ⁽²⁾ and χ⁽³⁾ contributions to the SFG signal generation process from charged interfaces. A method for estimating the surface potential from the second-order spectral lineshapes (in the OH stretching region) is presented and discussed in the context of choosing truly zero-potential reference states. Aided by atomistic simulations, we find that the strength and orientation distribution of the hydrogen bonds over the purely zwitterionic bilayers are largely invariant between submicromolar and hundreds of millimolar concentrations. However, specific interactions between water molecules and lipid headgroups are observed upon replacing phosphocholine (PC) lipids with negatively charged phosphoglycerol (PG) lipids, which coincides with SFG signal intensity reductions in the 3100-3200 cm^-1 frequency region. The atomistic simulations show that this outcome is consistent with a small, albeit statistically significant, decrease in the number of water molecules adjacent to both the lipid phosphate and choline moieties per unit area, supporting the SFG observations. Ultimately, the ability to probe hydrogen-bond networks over lipid bilayers holds the promise of opening paths for understanding, controlling, and predicting specific and nonspecific interactions between membranes and ions, small molecules, peptides, polycations, proteins, and coated and uncoated nanomaterials.

Comparison of thermally actuated retro-diels-alder release groups for nanoparticle based nucleic acid delivery

The present study explores alternate pericyclic chemistries for tethering amine-terminal biomolecules onto silver nanoparticles. Employing the versatile tool of the retro-Diels-Alder (rDA) reaction, three thermally-labile cycloadducts are constructed that cleave at variable temperature ranges. While the reaction between furan and maleimide has widely been reported, the current study also evaluates the reverse reaction kinetics between thiophene-maleimide, and pyrrole-maleimide cycloadducts. Density Functional Theorem (DFT) calculations used to model and plan the experiments, predict energy barriers for the thiophene-maleimide reverse reaction to be greatest, and the pyrrole-maleimide barriers the lowest. Based on the computational analyses, it is projected that the cycloreversion rate would occur slowest with the thiophene, followed by furan, and finally pyrrole would yield the promptest release. These thermally-responsive linkers, characterized by Electrospray Ionization Mass Spectrometry, ¹H and ¹³C NMR, are thiol-linked to silver nanoparticles and conjugate single stranded siRNA mimics with 5' fluorescein tag. Second harmonic generation spectroscopy (SHG) and fluorescence spectroscopy are used to measure release and rate of release. The SHG decay constants and fluorescence release profiles obtained for the three rDA reactions confirm the trends obtained from the DFT computations.

Counting charges on membrane-bound peptides

Quantifying the number of charges on peptides bound to interfaces requires reliable estimates of (i) surface coverage and (ii) surface charge, both of which are notoriously difficult parameters to obtain, especially at solid/water interfaces. Here, we report the thermodynamics and electrostatics governing the interactions of l-lysine and l-arginine octamers (Lys₈ and Arg₈) with supported lipid bilayers prepared.

Quantifying the number of charges on peptides bound to interfaces requires reliable estimates of (i) surface coverage and (ii) surface charge, both of which are notoriously difficult parameters to obtain, especially at solid/water interfaces. Here, we report the thermodynamics and electrostatics governing the interactions of l-lysine and l-arginine octamers (Lys₈ and Arg₈) with supported lipid bilayers prepared from a 9 : 1 mixture of 1,2-dimyristoyl-sn-glycero-3-phosphocholine (DMPC) and 1,2-dimyristoyl-sn-glycero-3-phospho-(1′-rac-glycerol) (sodium salt) (DMPG) from second harmonic generation (SHG) spectroscopy, quartz crystal microbalance with dissipation monitoring (QCM-D) and nanoplasmonic sensing (NPS) mass measurements, and atomistic simulations. The combined SHG/QCM-D/NPS approach provides interfacial charge density estimates from mean field theory for the attached peptides that are smaller by a factor of approximately two (0.12 ± 0.03 C m^–2 for Lys₈ and 0.10 ± 0.02 C m^–2 for Arg₈) relative to poly-l-lysine and poly-l-arginine. These results, along with atomistic simulations, indicate that the surface charge density of the supported lipid bilayer is neutralized by the attached cationic peptides. Moreover, the number of charges associated with each attached peptide is commensurate with those found in solution; that is, Lys₈ and Arg₈ are fully ionized when attached to the bilayer. Computer simulations indicate Lys₈ is more likely than Arg₈ to “stand-up” on the surface, interacting with lipid headgroups through one or two sidechains while Arg₈ is more likely to assume a “buried” conformation, interacting with the bilayer through up to six sidechains. Analysis of electrostatic potential and charge distribution from atomistic simulations suggests that the Gouy–Chapman model, which is widely used for mapping surface potential to surface charge, is semi-quantitatively valid; despite considerable orientational preference of interfacial water, the apparent dielectric constant for the interfacial solvent is about 30, due to the thermal fluctuation of the lipid–water interface.

Interfacial electrostatics of poly(vinylamine hydrochloride), poly(diallyldimethylammonium chloride), poly-l-lysine, and poly-l-arginine interacting with lipid bilayers

Charge densities of cationic polymers adsorbed to lipid bilayers are estimated from SHG spectroscopy and QCM-D measurements.

Phase-referenced nonlinear spectroscopy of the α-quartz/water interface

Probing the polarization of water molecules at charged interfaces by second harmonic generation spectroscopy has been heretofore limited to isotropic materials. Here we report non-resonant nonlinear optical measurements at the interface of anisotropic z-cut α-quartz and water under conditions of dynamically changing ionic strength and bulk solution pH. We find that the product of the third-order susceptibility and the interfacial potential, χ⁽³⁾ × Φ(0), is given by (χ₁⁽³⁾-iχ₂⁽³⁾) × Φ(0), and that the interference between this product and the second-order susceptibility of bulk quartz depends on the rotation angle of α-quartz around the z axis. Our experiments show that this newly identified term, iχ⁽³⁾ × Φ(0), which is out of phase from the surface terms, is of bulk origin. The possibility of internally phase referencing the interfacial response for the interfacial orientation analysis of species or materials in contact with α-quartz is discussed along with the implications for conditions of resonance enhancement.

Phosphate Ions Affect the Water Structure at Functionalized Membrane Surfaces

Antifouling surfaces improve function, efficiency, and safety in products such as water filtration membranes, marine vehicle coatings, and medical implants by resisting protein and biofilm adhesion. Understanding the role of water structure at these materials in preventing protein adhesion and biofilm formation is critical to designing more effective coatings. Such fouling experiments are typically performed under biological conditions using isotonic aqueous buffers. Previous studies have explored the structure of pure water at a few different antifouling surfaces, but the effect of electrolytes and ionic strength (I) on the water structure at antifouling surfaces is not well studied. Here sum frequency generation (SFG) spectroscopy is used to characterize the interfacial water structure at poly(ether sulfone) (PES) and two surface-modified PES films in contact with 0.01 M phosphate buffer with high and low salt (Ionic strength, I= 0.166 and 0.025 M, respectively). Unmodified PES, commonly used as a filtration membrane, and modified PES with a hydrophobic alkane (C18) and with a poly(ethylene glycol) (PEG) were used. In the low ionic strength phosphate buffer, water was strongly ordered near the surface of the PEG-modified PES film due to exclusion of phosphate ions and the creation of a surface potential resulting from charge separation between phosphate anions and sodium cations. However, in the high ionic strength phosphate buffer, the sodium and potassium chloride (138 and 3 mM, respectively) in the phosphate buffered saline screened this charge and substantially reduced water ordering. A much smaller water ordering and subsequent reduction upon salt addition was observed for the C18-modified PES, and little water structure change was seen for the unmodified PES. The large difference in water structuring with increasing ionic strength between widely used phosphate buffer and phosphate buffered saline at the PEG interface demonstrates the importance of studying antifouling coatings in the same aqueous environment for which they are designed. These results further suggest that strong long-range water structuring is limited in high ionic strength environments, such as within cells, facilitating chemical and biological reactions and processes.

Precipitates of Al(III), Sc(III), and La(III) at the muscovite-water interface

The interaction of Al(III), Sc(III), and La(III) with muscovite-water interfaces was studied at pH 4 and 10 mM NaCl using second harmonic generation (SHG) and X-ray photoelectron spectroscopy (XPS). SHG data for Sc(III) and La(III) suggest complete and/or partial irreversible adsorption that is attributed by XPS to the growth of Sc(III) and La(III) hydroxides/oxides on the muscovite surface. Al(III) adsorption appears to coincide with the growth of gibbsite (Al(OH)3) deposits on the muscovite surface, as indicated by the magnitude of the interfacial potential computed from the SHG data. This interpretation of the data is consistent with previous studies reporting the epitaxial growth of gibbsite on the muscovite surface under similar conditions. The implication of our findings is that the surface charge density of mica may change (and in the case of Al(III), even flip sign from negative (mica) to positive (gibbsite)) when Al(III), Sc(III), or La(III) is present in aqueous phases in contact with heterogeneous geochemical media rich in mica-class minerals, even at subsaturation conditions.

The influence of concentration on specific ion effects at the silica/water interface

Second harmonic generation spectroscopy is a useful tool for monitoring changes in interfacial potential at buried insulator/liquid interfaces. Here we apply this technique to the silica/aqueous interface and monitor the changes in interfacial potential while varying the pH in the presence of different alkali halides at 0.1M concentration. Within the pH range explored, the bimodal distribution of acidic sites on planar silica is clearly observed, corresponding to two types of acidic SiOH groups. Comparing these data with previous work at 0.5M sheds light on whether the presence of the ions stabilizes the charged or neutral state of the surface sites. For the alkali chlorides, with the exception of NaCl, we observe that the presence of the alkali chlorides stabilize the less acidic site in the protonated (SiOH) rather than deprotonated (SiO(-)) form. This unusual influence of the cation is attributed to the combination of interactions at the interface between water, surface sites and the electrolyte. Overall, we observe that the influence of the alkali ion on the ratio of the two types of sites and their effective acid dissociation constants is minor at 0.1M, unlike that observed at 0.5M. In contrast, the influence of the anion on the cooperative dissociation of surface sites and their relative distribution is little affected upon decreasing the concentration, which indicates that these specific anion effects are prevalent in nature.

Counting the number of magnesium ions bound to the surface-immobilized thymine oligonucleotides that comprise spherical nucleic acids

Label-free studies carried out under aqueous phase conditions quantify the number of Mg(2+) ions binding to surface-immobilized T40 sequences, the subsequent reordering of DNA on the surface, and the consequences of Mg(2+) binding for DNA-DNA interactions. Second harmonic generation measurements indicate that, within error, 18-20 Mg(2+) ions are bound to the T40 strand at saturation and that the metal-DNA interaction is associated with a near 30% length contraction of the strand. Structural reordering, evaluated using vibrational sum frequency generation, atomic force microscopy, and dynamic light scattering, is attributed to increased charge screening as the Mg(2+) ions bind to the negatively charged DNA, reducing repulsive Coulomb forces between nucleotides and allowing the DNA single strands to collapse or coil upon themselves. The impact of Mg(2+) binding on DNA hybridization and duplex stability is assessed with spherical nucleic acid (SNA) gold nanoparticle conjugates in order to determine an optimal working range of Mg(2+) concentrations for DNA-DNA interactions in the absence of NaCl. The findings are consistent with a charge titration effect in which, in the absence of NaCl, (1) hybridization does not occur at room temperature if an average of 17.5 or less Mg(2+) ions are bound per T40 strand, which is not reached until the bulk Mg(2+) concentration approaches 0.5 mM; (2) hybridization proceeds, albeit with low duplex stability having an average Tm of 31(3)°C, if an average of 17.5-18.0 Mg(2+) ions are bound; and (3) highly stable duplexes having a Tm of 64(2)°C form if 18.5-19.0 Mg(2+) ions are bound, corresponding to saturation of the T40 strand.

Y(III) interactions with guanine oligonucleotides covalently attached to aqueous/solid interfaces

The binding of Y(III) ions to surface-immobilized single-stranded 20-mers of guanine was studied using the Eisenthal χ((3)) technique and AFM. The free energy of binding for Y(III) to the G(20) sequence was found to be -39.5(8) kJ/mol. Furthermore, yttrium binds much more strongly to surface-immobilized oligonucleotides than the divalent metals previously reported. At maximum surface coverage, Y(III) ion densities range between one to three ions bound per strand. Comparatively, Mg(II) binds to the G(20)-functionalized interface in much higher ion densities. This result may be explained, in part, by the larger hydration sphere radius of Y(III) compared to that of Mg(II). The ion loading and binding free energy results, in conjunction with other surface and bulk aqueous phase studies, suggest that a fully hydrated +2 or +3 yttrium ion binds to the oligonucleotides through an outer-sphere mechanism. Tapping mode AFM results indicate that oligonucleotide height does not appreciably decrease following Y(III) binding. These results, together with the low ion densities for Y(III) ions, indicate that Y(III) strand loading may not significantly decrease the intrastrand Coulombic repulsions in order to cause a significant decrease in oligomer height.

Importance of length and sequence order on magnesium binding to surface-bound oligonucleotides studied by second harmonic generation and atomic force microscopy

The binding of magnesium ions to surface-bound single-stranded oligonucleotides was studied under aqueous conditions using second harmonic generation (SHG) and atomic force microscopy (AFM). The effect of strand length on the number of Mg(II) ions bound and their free binding energy was examined for 5-, 10-, 15-, and 20-mers of adenine and guanine at pH 7, 298 K, and 10 mM NaCl. The binding free energies for adenine and guanine sequences were calculated to be -32.1(4) and -35.6(2) kJ/mol, respectively, and invariant with strand length. Furthermore, the ion density for adenine oligonucleotides did not change as strand length increased, with an average value of 2(1) ions/strand. In sharp contrast, guanine oligonucleotides displayed a linear relationship between strand length and ion density, suggesting that cooperativity is important. This data gives predictive capabilities for mixed strands of various lengths, which we exploit for 20-mers of adenines and guanines. In addition, the role sequence order plays in strands of hetero-oligonucleotides was examined for 5'-A(10)G(10)-3', 5'-(AG)(10)-3', and 5'-G(10)A(10)-3' (here the -3' end is chemically modified to bind to the surface). Although the free energy of binding is the same for these three strands (averaged to be -33.3(4) kJ/mol), the total ion density increases when several guanine residues are close to the 3' end (and thus close to the solid support substrate). To further understand these results, we analyzed the height profiles of the functionalized surfaces with tapping-mode atomic force microscopy (AFM). When comparing the average surface height profiles of the oligonucleotide surfaces pre- and post- Mg(II) binding, a positive correlation was found between ion density and the subsequent height decrease following Mg(II) binding, which we attribute to reductions in Coulomb repulsion and strand collapse once a critical number of Mg(II) ions are bound to the strand.

Divalent metal cation speciation and binding to surface-bound oligonucleotide single strands studied by second harmonic generation

The binding of Sr(II), Ca(II), Mg(II), Ba(II), Mn(II), Zn(II), and Cd(II) to silica/water interfaces functionalized with A(15)T(6) oligonucleotides was quantified at pH 7 and 10 mM NaCl using the Eisenthal χ((3)) technique. The binding free energies range from -31.1(6) kJ/mol for Ba(II) to -33.8(4) kJ/mol for Ca(II). The ion densities were found to range from 2(1) ions/strand for Zn(II) to 11(1) ions/strand for Cd(II). Additionally, we quantified Mg(II) binding in the presence of varying background electrolyte concentrations which showed that the binding free energies changed in a linear fashion from -39.3(8) to -27(1) kJ/mol over the electrolyte concentration range of 1-80 mM, respectively. An adsorption free energy versus interfacial potential analysis allowed us to elucidate the speciation of the bound Mg(II) ions and to identify three possible binding pathways. Our findings suggest that Mg(II) binds as a fully hydrated divalent cation, most likely displacing DNA-bound Na ions. These measurements will serve as a benchmark for computer simulations of divalent metal cation/DNA interactions for geochemical and biosensing applications.