Joanne E. Stubbs

Uranium redox transition pathways in acetate-amended sediments

Redox transitions of uranium [from U(VI) to U(IV)] in low-temperature sediments govern the mobility of uranium in the environment and the accumulation of uranium in ore bodies, and inform our understanding of Earth’s geochemical history. The molecular-scale mechanistic pathways of these transitions determine the U(IV) products formed, thus influencing uranium isotope fractionation, reoxidation, and transport in sediments. Studies that improve our understanding of these pathways have the potential to substantially advance process understanding across a number of earth sciences disciplines. Detailed mechanistic information regarding uranium redox transitions in field sediments is largely nonexistent, owing to the difficulty of directly observing molecular-scale processes in the subsurface and the compositional/physical complexity of subsurface systems. Here, we present results from an in situ study of uranium redox transitions occurring in aquifer sediments under sulfate-reducing conditions. Based on molecular-scale spectroscopic, pore-scale geochemical, and macroscale aqueous evidence, we propose a biotic–abiotic transition pathway in which biomass-hosted mackinawite (FeS) is an electron source to reduce U(VI) to U(IV), which subsequently reacts with biomass to produce monomeric U(IV) species. A species resembling nanoscale uraninite is also present, implying the operation of at least two redox transition pathways. The presence of multiple pathways in low-temperature sediments unifies apparently contrasting prior observations and helps to explain sustained uranium reduction under disparate biogeochemical conditions. These findings have direct implications for our understanding of uranium bioremediation, ore formation, and global geochemical processes.

Comprehensive characterization of skeletal tissue growth anomalies of the finger coral Porites compressa

The scleractinian finger coral Porites compressa has been documented to develop raised growth anomalies of unknown origin, commonly referred to as “tumors”. These skeletal tissue anomalies (STAs) are circumscribed nodule-like areas of enlarged skeleton and tissue with fewer polyps and zooxanthellae than adjacent tissue. A field survey of the STA prevalence in Oahu, Kaneohe Bay, Hawaii, was complemented by laboratory analysis to reveal biochemical, histological and skeletal differences between anomalous and reference tissue. MutY, Hsp90a1, GRP75 and metallothionein, proteins known to be up-regulated in hyperplastic tissues, were over expressed in the STAs compared to adjacent normal-appearing and reference tissues. Histological analysis was further accompanied by elemental and micro-structural analyses of skeleton. Anomalous skeleton was of similar aragonite composition to adjacent skeleton but more porous as evidenced by an increased rate of vertical extension without thickening. Polyp structure was retained throughout the lesion, but abnormal polyps were hypertrophied, with increased mass of aboral tissue lining the skeleton, and thickened areas of skeletogenic calicoblastic epithelium along the basal floor. The latter were highly metabolically active and infiltrated with chromophore cells. These observations qualify the STAs as hyperplasia and are the first report in poritid corals of chromophore infiltration processes in active calicoblastic epithelium areas.

Quantitative Separation of Monomeric U(IV) from UO2 in Products of U(VI) Reduction

The reduction of soluble hexavalent uranium to tetravalent uranium can be catalyzed by bacteria and minerals. The end-product of this reduction is often the mineral uraninite, which was long assumed to be the only product of U(VI) reduction. However, recent studies report the formation of other species including an adsorbed U(IV) species, operationally referred to as monomeric U(IV). The discovery of monomeric U(IV) is important because the species is likely to be more labile and more susceptible to reoxidation than uraninite. Because there is a need to distinguish between these two U(IV) species, we propose here a wet chemical method of differentiating monomeric U(IV) from uraninite in environmental samples. To calibrate the method, U(IV) was extracted from known mixtures of uraninite and monomeric U(IV) and tested using X-ray absorption spectroscopy (XAS). Monomeric U(IV) was efficiently removed from biomass and Fe(II)-bearing phases by bicarbonate extraction, without affecting uraninite stability. After confirming that the method effectively separates monomeric U(IV) and uraninite, it is further evaluated for a system containing those reduced U species and adsorbed U(VI). The method provides a rapid complement, and in some cases alternative, to XAS analyses for quantifying monomeric U(IV), uraninite, and adsorbed U(VI) species in environmental samples.

Oxidative Dissolution of Biogenic Uraninite in Groundwater at Old Rifle, CO

Reductive bioremediation is currently being explored as a possible strategy for uranium-contaminated aquifers such as the Old Rifle site (Colorado). The stability of U(IV) phases under oxidizing conditions is key to the performance of this procedure. An in situ method was developed to study oxidative dissolution of biogenic uraninite (UO₂), a desirable U(VI) bioreduction product, in the Old Rifle, CO, aquifer under different variable oxygen conditions. Overall uranium loss rates were 50-100 times slower than laboratory rates. After accounting for molecular diffusion through the sample holders, a reactive transport model using laboratory dissolution rates was able to predict overall uranium loss. The presence of biomass further retarded diffusion and oxidation rates. These results confirm the importance of diffusion in controlling in-aquifer U(IV) oxidation rates. Upon retrieval, uraninite was found to be free of U(VI), indicating dissolution occurred via oxidation and removal of surface atoms. Interaction of groundwater solutes such as Ca²⁺ or silicate with uraninite surfaces also may retard in-aquifer U loss rates. These results indicate that the prolonged stability of U(IV) species in aquifers is strongly influenced by permeability, the presence of bacterial cells and cell exudates, and groundwater geochemistry.

Uranyl phosphate sheet reconstruction during dehydration of metatorbernite [Cu(UO2)2(PO4)2·8H2O]

Abstract The metatorbernite [Cu(UO2)2(PO4)2·8H2O] structure comprises autunite-type sheets of cornersharing uranyl square bipyramids and phosphate tetrahedra, with the interlayer region occupied by Cu2+ ions and molecular water. Previous studies have shown that heating induces stepwise dehydration and reduction in basal spacing. Structures of the lower hydrates have not been determined previously because suitable single crystals of these phases have yet to be prepared. We have used synchrotron X-ray diffraction data collected during in situ, continuous heating of powdered metatorbernite to elucidate structures of its lower hydrates. Using Rietveld analysis, we have determined that autunite-type sheets remain intact through the first dehydration event above room temperature (onset 102 °C). We have discovered that the second dehydration event (onset 138 °C) triggers a major reconstruction to uranophane-type sheets, composed of chains of edge-sharing uranyl pentagonal bipyramids linked to one another by sharing edges and vertices with phosphate tetrahedra. This reconstruction enables the structure to overcome steric constraints on the minimum possible basal spacing, while maintaining Cu within the interlayer. Four distinct phases have been identified with increasing temperature: Cu(UO2)2(PO4)2·8H2O, space group P4/n, a = 6.96519(23), c = 17.3102(8) Å; Cu(UO2)2(PO4)2·6.1H2O, space group P4/n, a = 6.95510(29), c = 16.6604(9) Å; Cu(UO2)2(PO4)2·3H2O, space group P21, a = 14.4979(23), b = 7.0159(9), c = 6.6312(10) Å, β = 107.585(14)°; and a lower hydrate with monoclinic or triclinic symmetry, a ≈ 6.7, b ≈ 7, c ≈ 11 Å, β ≈ 100°. As shown here, in situ heating experiments and the Rietveld method provide fundamental insights into the crystal chemistry and structural behaviors of the important meta-autunite mineral group.

Dynamic Stabilization of Metal Oxide–Water Interfaces

The interaction of water with metal oxide surfaces plays a crucial role in the catalytic and geochemical behavior of metal oxides. In a vast majority of studies, the interfacial structure is assumed to arise from a relatively static lowest energy configuration of atoms, even at room temperature. Using hematite (α-Fe2O3) as a model oxide, we show through a direct comparison of in situ synchrotron X-ray scattering with density functional theory-based molecular dynamics simulations that the structure of the (11̅02) termination is dynamically stabilized by picosecond water exchange. Simulations show frequent exchanges between terminal aquo groups and adsorbed water in locations and with partial residence times consistent with experimentally determined atomic sites and fractional occupancies. Frequent water exchange occurs even for an ultrathin adsorbed water film persisting on the surface under a dry atmosphere. The resulting time-averaged interfacial structure consists of a ridged lateral arrangement of adsorbed water molecules hydrogen bonded to terminal aquo groups. Surface pKa prediction based on bond valence analysis suggests that water exchange will influence the proton-transfer reactions underlying the acid/base reactivity at the interface. Our findings provide important new insights for understanding complex interfacial chemical processes at metal oxide-water interfaces.

High Pressure Single Crystal Diffraction at PX^2

In this report we describe detailed procedures for carrying out single crystal X-ray diffraction experiments with a diamond anvil cell (DAC) at the GSECARS 13-BM-C beamline at the Advanced Photon Source. The DAC program at 13-BM-C is part of the Partnership for Extreme Xtallography (PX^2) project. BX-90 type DACs with conical-type diamond anvils and backing plates are recommended for these experiments. The sample chamber should be loaded with noble gas to maintain a hydrostatic pressure environment. The sample is aligned to the rotation center of the diffraction goniometer. The MARCCD area detector is calibrated with a powder diffraction pattern from LaB6. The sample diffraction peaks are analyzed with the ATREX software program, and are then indexed with the RSV software program. RSV is used to refine the UB matrix of the single crystal, and with this information and the peak prediction function, more diffraction peaks can be located. Representative single crystal diffraction data from an omphacite (Ca0.51Na0.48)(Mg0.44Al0.44Fe2+0.14Fe3+0.02)Si2O6 sample were collected. Analysis of the data gave a monoclinic lattice with P2/n space group at 0.35 GPa, and the lattice parameters were found to be: a = 9.496 ±0.006 Å, b = 8.761 ±0.004 Å, c = 5.248 ±0.001 Å, β = 105.06 ±0.03º, α = γ = 90º.

Surface-mediated formation of Pu(IV) nanoparticles at the muscovite-electrolyte interface.

The formation of Pu(IV)-oxo-nanoparticles from Pu(III) solutions by a surface-enhanced redox/polymerization reaction at the muscovite (001) basal plane is reported, with a continuous increase in plutonium coverage observed in situ over several hours. The sorbed Pu extends >70 Å from the surface with a maximum concentration at 10.5 Å and a total coverage of >9 Pu atoms per unit cell area of muscovite (0.77 μg Pu/cm(2)) (determined independently by in situ resonant anomalous X-ray reflectivity and by ex-situ alpha-spectrometry). The presence of discrete nanoparticles is confirmed by high resolution atomic force microscopy. We propose that the formation of these Pu(IV) nanoparticles from an otherwise stable Pu(III) solution can be explained by the combination of a highly concentrated interfacial Pu-ion species, the Pu(III)-Pu(IV) redox equilibrium, and the strong proclivity of tetravalent Pu to hydrolyze and form polymeric species. These results are the first direct observation of such behavior of plutonium on a naturally occurring mineral, providing insights into understanding the environmental transport of plutonium and other contaminants capable of similar redox/polymerization reactions.

A new x-ray interface and surface scattering environmental cell design for in situ studies of radioactive and atmosphere-sensitive samples

We present a novel design of a purpose-built, portable sample cell for in situ x-ray scattering experiments of radioactive or atmosphere sensitive samples. The cell has a modular design that includes two independent layers of containment that are used simultaneously to isolate the sensitive samples. Both layers of containment can be flushed with an inert gas, thus serving a double purpose as containment of radiological material (either as a solid sample or as a liquid phase) and in separating reactive samples from the ambient atmosphere. A remote controlled solution flow system is integrated into the containment system that allows sorption experiments to be performed on the diffractometer. The cells design is discussed in detail and we demonstrate the cells performance by presenting first results of crystal truncation rod measurements. The results were obtained from muscovite mica single crystals reacted with 1 mM solutions of Th(IV) with 0.1 M NaCl background electrolyte. Data were obtained in specular as well as off-specular geometry.

Ankerite grains with dolomite cores: A diffusion chronometer for low- to medium-grade regionally metamorphosed clastic sediments

Abstract Ankerite grains with dolomite cores occur in marls, pelites, and psammites from a Buchan terrain in Maine and a Barrovian terrain in Vermont (U.S.A.). Dolomite cores are typically ≤20 μm in diameter, have sharp but irregular contacts with ankerite, and have the same crystallographic orientation as ankerite rims. Ankerite grains with dolomite cores are common in the chlorite zone, less abundant in the biotite and garnet zones, and rare (Vermont) or absent (Maine) at higher grades. The texture and crystallographic orientation of dolomite and ankerite and the sharpness of the dolomite-ankerite contact are consistent with partial replacement of detrital dolomite by ankerite by solution-reprecipitation. Metamorphic biotite is in Fe-Mg exchange equilibrium with ankerite rims but not with dolomite cores, implying that ankerite did not form long after biotite (biotite has no phlogopite cores). Possible sources of iron for the formation of ankerite are reduction of ferric iron hydroxide or the smectite-to-illite reaction during diagenesis. The sharpness of the dolomite-ankerite contact is a diffusion chronometer that constrains timescales of metamorphic process. Relatively low spatial resolution analyses of Fe/Mg across the contact with a NanoSIMS instrument and a FEG TEM give upper bounds on the thickness of the transition from ankerite to dolomite of ~2 and ~0.5 μm, respectively. Higher resolution analysis of BSE grayscale contrast with a FEG SEM gives a thickness ~100 nm. Fit of the grayscale profile to a model of one-dimensional diffusion across an infinite plane gives Dt = 10-15 m2 (± a factor of 5), where D is the effective Fe-Mg interdiffusion coefficient and t is the duration of diffusion. Using the published experimental determination of D, upper bounds on the residence time of ankerite grains with dolomite cores at peak T = 400-500 °C, on the duration of linear cooling from peak T to 100 °C, and on the duration of linear heating from 100 °C to peak T followed by linear cooling to 100 °C are all <1 yr. For linear heating and cooling lasting 106 years, peak T could not have been >100 °C. The question is what explains the occurrence of ultrasteep composition gradients between dolomite and ankerite. Regional metamorphism on a timescale of a year or less is unrealistic. No barrier to diffusion at the dolomite-ankerite contact was observed in TEM images. Post-metamorphic formation of ankerite at very low temperature is ruled out by Fe-Mg exchange equilibrium between biotite and ankerite but not dolomite. It is unlikely that the steep composition gradients were preserved by intracrystalline pressure gradients. Alternatively, the steep composition gradients would be consistent with timescales of metamorphic process ~106 years or longer if D values during metamorphism were approximately six orders of magnitude or more smaller than those measured in the laboratory. The error of measurement is much less, approximately ± a factor of 2. A correction to D for the difference in P between measurements (0.1 MPa) and metamorphism (350-800 MPa) is likely an order of magnitude or less. Oxygen activity (aO₂), however, was 17-20 orders of magnitude larger during the laboratory measurements than during metamorphism. A correction to measured D for the difference in aO₂ between experiment and metamorphism appears to be the likeliest way to reconcile the steep composition gradients with realistic timescales of metamorphism. Before ankerite grains with dolomite cores are fully realized as a useful diffusion chronometer for low- and medium-grade metamorphic rocks, the rates of Fe-Mg interdiffusion in ankerite and dolomite need to be calibrated as a function of aO₂.