B18-Core EXAFS
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Abstract: Crystalline and glassy phases in the ‘leucite’ systems (K,Rb,Cs)Fe3 + Si2O6 and (K,Rb,Cs)2(Mg,Mn,Fe,Co,Ni,Cu,Zn)2 +– Si5O12 have been studied using K-edge X-ray Absorption Spectroscopy (XAS) for 3d transition elements and Mg. Crystalline samples of known structure are used as model compounds for deducing the local structures of the equivalent glasses. ‘Ideal’ tetrahedral framework X2 +–O distances are: Mn2+–O 2.02, Fe2+–O 1.98; Co2+–O 1.96, Ni2+–O 1.95, Cu2+–O 1.92, Zn2+–O 1.93 and Mg2+–O 1.93 Å. The quenched glasses have Extended X-ray Absorption Fine Structure (EXAFS) first-shell distances and coordination numbers consistent with Mg and 3d elements occurring in tetrahedral coordination in most cases. The X-ray Absorption Near Edge Structure (XANES) spectra of the glasses are basically the same as those for the crystalline samples showing that they have similar medium range order, consistent with most of the Mg and 3d elements acting as network formers along with the associated alkalis as X2Y2 + O2 complexes. Anhydrous glasses in the system CaO–MgO–Al2O3–SiO2 together with a basalt glass from Hawaii show examples of Mg in octahedral- (2.07 Å, basalt), tetrahedral- (~ 1.87 Å, siliceous glass) and 5-coordinated (2.01–2.04 Å) sites. Although most Earth scientists assume that Mg and Fe2 + act as network modifiers in natural magmas, ultra-potassic, peralkaline compositions ((Na + K)/(Al + Fe3 +) > 1) could have had some Fe2 + and Mg complexes with alkalis in the melt network as K2(Mg,Fe2 +)O2 and the implications of this to melt density and viscosity are considered.
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Dec 2016
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I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[7837]
Open Access
Abstract: Woodlice efficiently sequester copper (Cu) in ‘cuprosomes' within hepatopancreatic ‘S' cells. Binuclear ‘B’ cells in the hepatopancreas form iron (Fe) deposits; these cells apparently undergo an apocrine secretory diurnal cycle linked to nocturnal feeding. Synchrotron-based µ-focus X-ray spectroscopy undertaken on thin sections was used to characterize the ligands binding Cu and Fe in S and B cells of Oniscus asellus (Isopoda). Main findings were: (i) morphometry confirmed a diurnal B-cell apocrine cycle; (ii) X-ray fluorescence (XRF) mapping indicated that Cu was co-distributed with sulfur (mainly in S cells), and Fe was co-distributed with phosphate (mainly in B cells); (iii) XRF mapping revealed an intimate morphological relationship between the basal regions of adjacent S and B cells; (iv) molecular modelling and Fourier transform analyses indicated that Cu in the reduced Cu+ state is mainly coordinated to thiol-rich ligands (Cu–S bond length 2.3 Å) in both cell types, while Fe in the oxidized Fe3+ state is predominantly oxygen coordinated (estimated Fe–O bond length of approx. 2 Å), with an outer shell of Fe scatterers at approximately 3.05 Å; and (v) no significant differences occur in Cu or Fe speciation at key nodes in the apocrine cycle. Findings imply that S and B cells form integrated unit-pairs; a functional role for secretions from these cellular units in the digestion of recalcitrant dietary components is hypothesized.
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Mar 2016
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B18-Core EXAFS
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Diamond Proposal Number(s):
[7367, 7593, 8070]
Open Access
Abstract: Although there is consensus that microorganisms significantly influence uranium speciation and mobility in the subsurface under circumneutral conditions, microbiologically mediated U(VI) redox cycling under alkaline conditions relevant to the geological disposal of cementitious intermediate level radioactive waste, remains unexplored. Here, we describe microcosm experiments that investigate the biogeochemical fate of U(VI) at pH 1010.5, using sediments from a legacy lime working site, stimulated with an added electron donor, and incubated in the presence and absence of added Fe(III) as ferrihydrite. In systems without added Fe(III), partial U(VI) reduction occurred, forming a U(IV)-bearing non-uraninite phase which underwent reoxidation in the presence of air (O2) and to some extent nitrate. By contrast, in the presence of added Fe(III), U(VI) was first removed from solution by sorption to the Fe(III) mineral, followed by bioreduction and (bio)magnetite formation coupled to formation of a complex U(IV)-bearing phase with uraninite present, which also underwent air (O2) and partial nitrate reoxidation. 16S rRNA gene pyrosequencing showed that Gram-positive bacteria affiliated with the Firmicutes and Bacteroidetes dominated in the post-reduction sediments. These data provide the first insights into uranium biogeochemistry at high pH and have significant implications for the long-term fate of uranium in geological disposal in both engineered barrier systems and the alkaline, chemically disturbed geosphere.
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Nov 2014
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I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[6647]
Open Access
Abstract: A Serratia sp. bacterium manufactures amorphous calcium phosphate nanominerals (BHAP); this material has shown increased sorption capacity for divalent radionuclide capture. When heat-treated (≥450 °C) the cell biomass is removed and the biominerals are transformed to hydroxyapatite (HAP). Using a multimethod approach, we have elucidated both the site preferences and stability of analogue radionuclide incorporation for Sr, Co, Eu, and U. Strontium incorporates within the bulk amorphous inorganic phase of BHAP; however, once temperature modified to crystalline HAP, bonding was consistent with Sr substitution at the Ca(1) and/or Ca(2) sites. Cobalt incorporation occurs within the bulk inorganic amorphous phase of BHAP and within the amorphous grain boundaries of HAP. Europium (an analogue for trivalent actinides) substituted at the Ca(2) and/or the Ca(3) position of tricalcium phosphate, a known component of HAP grain boundaries. Uranium was surface complexed with no secondary minerals detected. With multiple sites for targeted radionuclide incorporation, high loadings, and good stability against remobilization, BHAP is shown to be a potential material for the remediation of aqueous radionuclide in groundwater.
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May 2014
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I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[585]
Abstract: Combined microfocus XAS and XRD analysis of alpha-particle radiation damage haloes around thorium-containing monazite in Fe-rich biotite reveals changes in both short- and long-range order. The total alpha-particles flux derived from the Th and U in the monazite over 1.8 Ga was 0.022 alpha particles per atomic component of the monazite and this caused increasing amounts of structural damage as the monazite emitter is approached. Short-range order disruption revealed by Fe K-edge EXAFS is manifest by a high variability in Fe-Fe bond lengths and a marked decrease in coordination number. XANES examination of the Fe K-edge shows a decrease in energy of the main absorption by up to 1 eV, revealing reduction of the Fe3+ components of the biotite by interaction with the He-4(2)2+, the result of low and thermal energy electrons produced by the cascade of electron collisions. Changes in d spacings in the XRD patterns reveal the development of polycrystallinity and new domains of damaged biotite structure with evidence of displaced atoms due to ionization interactions and nuclear collisions. The damage in biotite is considered to have been facilitated by destruction of OH groups by radiolysis and the development of Frenkel pairs causing an increase in the trioctahedral layer distances and contraction within the trioctahedral layers. The large amount of radiation damage close to the monazite can be explained by examining the electronic stopping flux.
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Aug 2013
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I18-Microfocus Spectroscopy
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Abstract: Luminescent quantum dots were synthesized using bacterially derived selenide (SeII-) as the precursor. Biogenic SeII- was produced by the reduction of Se-IV by Veillonella atypica and compared directly against borohydride-reduced Se-IV for the production of glutathione-stabilized CdSe and beta-mercaptoethanol-stabilized ZnSe nanoparticles by aqueous synthesis. Biological SeII- formed smaller, narrower size distributed QDs under the same conditions. The growth kinetics of biologically sourced CdSe phases were slower. The proteins isolated from filter sterilized biogenic SeII- included a methylmalonyl-CoA decarboxylase previously characterized in the closely related Veillonella parvula. XAS analysis of the glutathione-capped CdSe at the S K-edge suggested that sulfur from the glutathione was structurally incorporated within the CdSe. A novel synchrotron based XAS technique was also developed to follow the nucleation of biological and inorganic selenide phases, and showed that biogenic SeII- is more stable and more resistant to beam-induced oxidative damage than its inorganic counterpart. The bacterial production of quantum dot precursors offers an alternative, 'green' synthesis technique that negates the requirement of expensive, toxic chemicals and suggests a possible link to the exploitation of selenium contaminated waste streams.
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Apr 2013
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Abstract: Ordering of Fe3+ and Fe2+ cations between octahedral and tetrahedral sites in synthetic members of the magnetite-ulvospinel (Fe3O4-Fe2TiO4) solid-solution series was determined using Fe L-2,L-3-edge X-ray magnetic circular dichroism (XMCD) coupled with electron microprobe and chemical analysis, Ti L-2,L-3-edge and Fe K-edge X-ray absorption spectroscopy (XAS), and unit-cell parameters. Microprobe analyses, cell edges, and chemical FeO determinations showed that bulk compositions were stoichiometric magnetite-ulvospinel solid solutions. XMCD showed that the surface was sensitive to redox conditions, and samples required re-equilibration with solid-solid buffers. Detailed site-occupancy analysis gave Fe2+/Fe3+ XMCD-intensity ratios close to stoichiometric values. L-2,L-3-edge XAS confirmed that Ti4+ was restricted to octahedral sites. XMCD showed that significant Fe2+ only entered the tetrahedral sites when Ti content was >0.40 atoms per formula unit (apfu), whereas Fe2+ in octahedral sites increased from 1 apfu in magnetite to a maximum of similar to 1.4 apfu when Ti content was 0.45 apfu. As Ti content increased, a steady increase in Fe2+ in tetrahedral sites was observable in the XMCD spectra, concurrent with a slow decrease in Fe2+ in octahedral sites. Calculated magnetic moments decreased rapidly from magnetite (4.06 mu(B)) to USP45 (1.5 mu(B)), then more slowly toward ulvospinel (0 mu(B)). Two synthesized samples were maghemitized by re-equilibrating with an oxidizing buffer. XMCD showed that Fe2+ oxidation, with concomitant vacancy formation, was restricted to octahedral sites. Through the direct measurement of Fe oxidation states, XMCD results can be used to rationalize the magnetic properties of titanomagnetites, along with oxidized titanomaghemitized analogs, in Earth's crustal rocks.
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Apr 2010
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Victoria S.
Coker
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James A.
Bennett
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Neil
Telling
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Torsten
Henkel
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John
Charnock
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Gerrit
Van Der Laan
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Richard
Pattrick
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Carolyn
Pearce
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Richard S.
Cutting
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Ian J.
Shannon
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Joe
Wood
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Elke
Arenholz
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Ian C.
Lyon
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Jon
Lloyd
Abstract: Precious metals supported on ferrimagnetic particles have a diverse range of uses in catalysis. However, fabrication using synthetic methods results in potentially high environmental and economic costs. Here we show a novel biotechnological route for the synthesis of a heterogeneous catalyst consisting of reactive palladium nanoparticles arrayed on a nanoscale biomagnetite support. The magnetic support was synthesized at ambient temperature by the Fe(III)-reducing bacterium, Geobacter sulfurreducens, and facilitated ease of recovery of the catalyst with superior performance due to reduced agglomeration (versus conventional colloidal Pd nanoparticles). Surface arrays of palladium nanoparticles were deposited on the nanomagnetite using a simple one-step method without the need to modify the biomineral surface, most likely due to an organic coating priming the surface for Pd adsorption, which was produced by the bacterial culture during the formation of the nanoparticles. A combination of EXAFS and XPS showed the Pd nanoparticles on the magnetite to be predominantly metallic in nature. The Pd biomagnetite was tested for catalytic activity in the Heck reaction coupling iodobenzene to ethyl acrylate or styrene. Rates of reaction were equal to or superior to those obtained with an equimolar amount of a commercial colloidal palladium catalyst, and near complete conversion to ethyl cinnamate or stilbene was achieved within 90 and 180 min, respectively.
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Apr 2010
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NONE-No attached Diamond beamline
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Abstract: Ferrimagnetic nanoparticles have many uses in industry including in magnetic recording media and transformers, however these particles are often expensive to synthesize. In this study, the Fe3+-reducing bacteria Geobacter sulfurreducens and Shewanella oneidensis were used to synthesize spinel ferrite nanoparticles of the general chemical formula MxFe3–xO4, where M is either Co, Ni, Mn, Zn, or a combination of Mn and Zn. This was done at ambient temperatures through the dissimilatory reduction of Fe3+-oxyhydroxides containing the appropriate substitutional cations. A combination of L-edge and K-edge X-ray absorption spectroscopy (XAS) and L-edge X-ray magnetic circular dichroism (XMCD) was used to determine the site occupancies, valence, and local structure of the Fe and substitutional cations within the spinels. The Ni and Co ferrites produced using each bacterium were very similar and therefore this study concludes that, despite the difference in reduction mechanism of the bacteria used, the end-product is remarkably unaltered. Nickel ferrites contained only Ni2+, with at least 80% in Oh coordination. Cobalt ferrites contained only Co2+ but with a significant proportion (up to 45%) in Td coordination, showing a slight preference for Td sites. The Mn-ferrites contained Mn2+ only on the Oh sites but a mixture of Mn2+ and Mn3+ on Td sites when the amount of Mn exceeded 3% (compared to the amount of Fe) or some Zn was also present. This study successfully produced a range of nanoparticulate ferrites that could be produced industrially using relatively environmentally benign methodologies.
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Jul 2008
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NONE-No attached Diamond beamline
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Abstract: The ability of metal-reducing bacteria to produce nanoparticles, and their precursors, can be harnessed for the biological manufacture of fluorescent, semiconducting nanomaterials. The anaerobic bacterium Veillonella atypica can reduce selenium oxyanions to form nanospheres of elemental selenium. These selenium nanospheres are then further reduced by the bacterium to form reactive selenide which could be precipitated with a suitable metal cation to produce nanoscale chalcogenide precipitates, such as zinc selenide, with optical and semiconducting properties. The whole cells used hydrogen as the electron donor for selenite reduction and an enhancement of the reduction rate was observed with the addition of a redox mediator (anthraquinone disulfonic acid). A novel synchrotron-based in situ time-resolved x-ray absorption spectroscopy technique was used, in conjunction with ion chromatography and inductively coupled plasma–atomic emission spectroscopy, to study the mechanisms and kinetics of the microbial reduction of selenite to selenide. The products of this biotransformation were also assessed using electron microscopy, energy-dispersive spectroscopy, x-ray diffraction and fluorescence spectroscopy. This process offers the potential to prepare chalcogenide-based nanocrystals, for application in optoelectronic devices and biological labelling, from more environmentally benign precursors than those used in conventional organometallic synthesis.
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Apr 2008
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