Features of DNA-Montmorillonite Binding Visualized by Atomic Force Microscopy.

In the present work, complexes of DNA with nano-clay montmorillonite (Mt) were investigated by means of atomic force microscopy (AFM) under various conditions. In contrast to the integral methods of analysis of the sorption of DNA on clay, AFM allowed us to study this process at the molecular level in detail. DNA molecules in the deionized water were shown to form a 2D fiber network weakly bound to both Mt and mica. The binding sites are mostly along Mt edges. The addition of Mg2+ cations led to the separation of DNA fibers into separate molecules, which bound mainly to the edge joints of the Mt particles according to our reactivity estimations. After the incubation of DNA with Mg2+, the DNA fibers were capable of wrapping around the Mt particles and were weakly bound to the Mt edge surfaces. The reversible sorption of nucleic acids onto the Mt surface allows it to be used for both RNA and DNA isolation for further reverse transcription and polymerase chain reaction (PCR). Our results show that the strongest binding sites for DNA are the edge joints of Mt particles.

Interdisciplinary Round-Robin Test on Molecular Spectroscopy of the U(VI) Acetate System.

A comprehensive molecular analysis of a simple aqueous complexing system-U(VI) acetate-selected to be independently investigated by various spectroscopic (vibrational, luminescence, X-ray absorption, and nuclear magnetic resonance spectroscopy) and quantum chemical methods was achieved by an international round-robin test (RRT). Twenty laboratories from six different countries with a focus on actinide or geochemical research participated and contributed to this scientific endeavor. The outcomes of this RRT were considered on two levels of complexity: first, within each technical discipline, conformities as well as discrepancies of the results and their sources were evaluated. The raw data from the different experimental approaches were found to be generally consistent. In particular, for complex setups such as accelerator-based X-ray absorption spectroscopy, the agreement between the raw data was high. By contrast, luminescence spectroscopic data turned out to be strongly related to the chosen acquisition parameters. Second, the potentials and limitations of coupling various spectroscopic and theoretical approaches for the comprehensive study of actinide molecular complexes were assessed. Previous spectroscopic data from the literature were revised and the benchmark data on the U(VI) acetate system provided an unambiguous molecular interpretation based on the correlation of spectroscopic and theoretical results. The multimethodologic approach and the conclusions drawn address not only important aspects of actinide spectroscopy but particularly general aspects of modern molecular analytical chemistry.

Combined EXAFS Spectroscopic and Quantum Chemical Study on the Complex Formation of Am(III) with Formate.

The complexation of Am(III) with formate in aqueous solution is studied as a function of the pH value using a combination of extended X-ray absorption fine structure (EXAFS) spectroscopy, iterative transformation factor analysis (ITFA), and quantum chemical calculations. The Am LIII-edge EXAFS spectra are analyzed to determine the molecular structure (coordination numbers; Am-O and Am-C distances) of the formed Am(III)-formate species and to track the shift of the Am(III) speciation with increasing pH. The experimental data are compared to predictions from density functional calculations. The results indicate that formate binds to Am(III) in a monodentate fashion, in agreement with crystal structures of lanthanide formates. Furthermore, the investigations are complemented by thermodynamic speciation calculations to verify further the results obtained.

Uranyl adsorption at solvated edge surfaces of 2 : 1 smectites. A density functional study.

We systematically studied the adsorption of uranyl(vi) on two common edge surfaces, (010) and (110), of 2 : 1 smectite clay minerals, using standard periodic DFT models. To describe various types of permanently charged clay minerals, we introduced charged defects into the initially neutral layer of pyrophyllite, cation substitutions in tetrahedral (beidellitic) and octahedral (montmorillonitic) sheets. Comparing uranyl(vi) species at various sites of these two types of surfaces, we found that structural parameters of such adsorption complexes are essentially determined by the surface chemical groups forming the adsorption site, not by the type of the clay mineral. Even for sites involving a substituted cation we noticed only a weak effect of the substitution on the geometric parameters. Geometry optimization resulted in adsorbed uranyl or uranyl hydroxide, with coordination numbers of 4 or 5. However, in most cases the same species was determined on the same type of site, independent of the substitutions. Optimization of adsorbed uranyl leads to hydrolysis at sites close to a AlOH(-1/2) surface group, resulting in uranyl monohydroxide as adsorbate and protonation of the AlOH(-1/2) group. While most species are equatorially five-coordinated, coordination 4 is preferred when uranyl adsorbs on mixed AlO(H)-SiO(H) sites. Calculated formation energies of surface complexes do not single out a preferred species or site, but point to an equilibrium of several species. Comparison to experiment and consideration of pH conditions suggests AlOHOH and AlOH-SiO sites of (010) surfaces and AlOmOH, SiOOm, and AlOH-SiO sites of (110) surfaces as most probable for uranyl adsorption.

Uranyl adsorption on solvated edge surfaces of pyrophyllite: a DFT model study.

In a computational study we addressed the adsorption of uranyl UO(2)(2+) on solvated (110) and (010) edge surfaces of pyrophyllite, applying a density functional approach to periodic slab models. We explored bidentate adsorption complexes on various partially deprotonated adsorption sites: octahedral Al(O,OH), tetrahedral Si(O,OH), and mixed AlO-SiO. Aluminol sites were determined to be most favorable on the (110) surface of pyrophyllite, while on the (010) surface mixed AlO-SiO sites are preferred. The structural parameters of all low-energy complexes on both surfaces agree rather well with EXAFS results for the structurally similar mineral montmorillonite. We calculate the average U-O distance to surface and aqua ligand oxygen atoms to increase with the increasing coordination number of uranyl whereas EXAFS results indicate the opposite trend. According to our results, several adsorption species, with different coordination numbers on different edge faces, may coexist on clay minerals. This computational finding rationalizes why earlier spectroscopic studies indicated the existence of more than one adsorption species, whereas a single type of adsorption complex was suggested from most EXAFS results.

Comparative density functional study of the complexes [UO2(CO3)3]4- and [(UO2)3(CO3)6]6- in aqueous solution.

With a relativistic all-electron density functional method, we studied two anionic uranium(VI) carbonate complexes that are important for uranium speciation and transport in aqueous medium, the mononuclear tris(carbonato) complex [UO(2)(CO(3))(3)](4-) and the trinuclear hexa(carbonato) complex [(UO(2))(3)(CO(3))(6)](6-). Focusing on the structures in solution, we applied for the first time a full solvation treatment to these complexes. We approximated short-range effects by explicit aqua ligands and described long-range electrostatic interactions via a polarizable continuum model. Structures and vibrational frequencies of "gas-phase" models with explicit aqua ligands agree best with experiment. This is accidental because the continuum model of the solvent to some extent overestimates the electrostatic interactions of these highly anionic systems with the bulk solvent. The calculated free energy change when three mono-nuclear complexes associate to the trinuclear complex, agrees well with experiment and supports the formation of the latter species upon acidification of a uranyl carbonate solution.

Density functional model studies of uranyl adsorption on (001) surfaces of kaolinite.

The adsorption of uranyl on two types of neutral (001) surfaces of kaolinite, tetrahedral Si(t) and octahedral Al(o), was studied by means of density functional periodic slab model calculations. Various types of model surface complexes, adsorbed at different sites, were optimized and adsorption energies were estimated. As expected, the Si(t) surface was found to be less reactive than the Al(o) surface. At the neutral Al(o) surface, only adsorption at protonated sites is calculated to be exothermic for inner- as well as outer-sphere adsorption complexes, with monodentate coordination being preferred. Adsorption energies as well as structural features of the adsorption complexes are mainly determined by the number of deprotonated surface hydroxyl groups involved. Outer-sphere complexes on both surfaces exhibit a shorter U-O bond to the aqua ligand of uranyl that is in direct contact with the surface than to the other aqua ligands. This splitting of the shell of equatorial U-O bonds is at variance with common expectations for outer-sphere surface complexes of uranyl.