I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[7254]
Open Access
Abstract: In this work, the effects of the protozoan Neospora caninum on the bioenergetics, chemical composition, and elemental content of human brain microvascular endothelial cells (hBMECs) were investigated. We showed that N. caninum can impair cell mitochondrial (Mt) function and causes an arrest in host cell cycling at S and G2 phases. These adverse effects were also associated with altered expression of genes involved in Mt energy metabolism, suggesting Mt dysfunction caused by N. caninum infection. Fourier Transform Infrared (FTIR) spectroscopy analysis of hBMECs revealed alterations in the FTIR bands as a function of infection, where infected cells showed alterations in the absorption bands of lipid (2924 cm−1), amide I protein (1649 cm−1), amide II protein (1537 cm−1), nucleic acids and carbohydrates (1092 cm−1, 1047 cm−1, and 939 cm−1). By using quantitative synchrotron radiation X-ray fluorescence (μSR-XRF) imaging and quantification of the trace elements Zn, Cu and Fe, we detected an increase in the levels of Zn and Cu from 3 to 24 h post infection (hpi) in infected cells compared to control cells, but there were no changes in the level of Fe. We also used Affymetrix array technology to investigate the global alteration in gene expression of hBMECs and rat brain microvascular endothelial cells (rBMVECs) in response to N. caninum infection at 24 hpi. The result of transcriptome profiling identified differentially expressed genes involved mainly in immune response, lipid metabolism and apoptosis. These data further our understanding of the molecular events that shape the interaction between N. caninum and blood-brain-barrier endothelial cells.
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Aug 2020
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I02-Macromolecular Crystallography
I13-1-Coherence
I13-2-Diamond Manchester Imaging
I18-Microfocus Spectroscopy
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Abstract: Background: Skogsbergia lerneri (Kornicker, 1958) is a species of ostracod which, like all crustaceans, has a protective exoskeleton (or carapace). As well as being used for a protective function, the S. lerneri carapace is also transparent. Understanding how the carapace is transparent while retaining its protective function was the primary aim of this thesis.
Results: Ultrastructural analysis showed that the carapace consisted of an epicuticle, exocuticle and an endocuticle split into a calcified, crystalline endocuticle and a laminated endocuticle. Numerous structural adaptations were seen to minimise refractive index changes at the layer intersections. These layers developed along with growth of the ostracod, maintaining similar proportions throughout. Microstructural analysis identified a chitin based second harmonic generated signal from the carapace. Pixel analysis of this signal showed a consistent level of chitin expression (~60-80% of the total carapace) throughout all the developmental stages except instar 4, which showed a lower level of expression. Elemental analysis showed that the calcified, crystalline layer comprised mainly calcium, oxygen and magnesium, leading to the assumption that the structures were calcium carbonate. X-ray absorption near edge structure analysis revealed that the calcium carbonate consisted of entirely amorphous calcium carbonate in the early to middle stages of development and a mix of amorphous and aragonite in the later stages. Unlike most crustaceans, calcite was not seen in any carapaces. Optical testing showed a consistent refractive index across all stages (1.401-1.406) leading to a mean 99.94% transmission of light at the carapace surface in seawater. Spectrophotometric results showed that light transmission increased at longer wavelengths in the younger samples but maintained a consistent level by the adult stage.
Conclusions: Through the various structural adaptations of the carapace, in combination with the rare calcium carbonate polymorph distribution and its overall thinness, the S. lerneri is able to maintain its transparency without sacrificing many of its physical properties.
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Sep 2020
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I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[9597]
Open Access
Abstract: The Fe–Mg exchange coefficient between olivine (ol) and melt (m), defined as KdFe𝑇−Mg
Kd
Fe
T
−
Mg
= (Feol/Fem)·(Mgm/Mgol), with all FeT expressed as Fe2+, is one of the most widely used parameters in petrology. We explore the effect of redox conditions on KdFe𝑇−Mg
Kd
Fe
T
−
Mg
using experimental, olivine-saturated basaltic glasses with variable H2O (≤ 7 wt%) over a wide range of fO2 (iron-wüstite buffer to air), pressure (≤ 1.7 GPa), temperature (1025–1425 °C) and melt composition. The ratio of Fe3+ to total Fe (Fe3+/∑Fe), as determined by Fe K-edge µXANES and/or Synchrotron Mössbauer Source (SMS) spectroscopy, lies in the range 0–0.84. Measured Fe3+/∑Fe is consistent (± 0.05) with published algorithms and appears insensitive to dissolved H2O. Combining our new data with published experimental data having measured glass Fe3+/∑Fe, we show that for Fo65–98 olivine in equilibrium with basaltic and basaltic andesite melts, KdFe𝑇−Mg
Kd
Fe
T
−
Mg
decreases linearly with Fe3+/∑Fe with a slope and intercept of 0.3135 ± 0.0011. After accounting for non-ideal mixing of forsterite and fayalite in olivine, using a symmetrical regular solution model, the slope and intercept become 0.3642 ± 0.0011. This is the value at Fo50 olivine; at higher and lower Fo the value will be reduced by an amount related to olivine non-ideality. Our approach provides a straightforward means to determine Fe3+/∑Fe in olivine-bearing experimental melts, from which fO2 can be calculated. In contrast to KdFe𝑇−Mg
Kd
Fe
T
−
Mg
, the Mn–Mg exchange coefficient, KdMn−Mg
Kd
Mn
−
Mg
, is relatively constant over a wide range of P–T–fO2 conditions. We present an expression for KdMn−Mg
Kd
Mn
−
Mg
that incorporates the effects of temperature and olivine composition using the lattice strain model. By applying our experimentally-calibrated expressions for KdFe𝑇−Mg
Kd
Fe
T
−
Mg
and KdMn−Mg
Kd
Mn
−
Mg
to olivine-hosted melt inclusions analysed by electron microprobe it is possible to correct simultaneously for post-entrapment crystallisation (or dissolution) and calculate melt Fe3+/∑Fe to a precision of ≤ 0.04.
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Oct 2020
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I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[21717]
Abstract: Corrosion research related to CO2-containing environments has focused over the past few decades on siderite formation (FeCO3) as a main corrosion product on carbon steel, yet the influence of Ca and other ions on its chemical and structural characteristics is not fully understood. Metal-localized corrosion is the biggest industrial challenge because of the unknown and unpredictable character of this phenomenon that frequently leads to failure. We report here the role of Ca and formation of iron-calcium carbonate (FexCayCO3) through a spiral growth model as in the calcite system and quantify the replacement of Fe2+ by Ca2+ ions in the structure of FeCO3 to form FexCayCO3. The incorporation of Ca2+ inhibits the completion of spiral segments on the growth of the rhombohedral crystals of FeCO3, promoting an enlargement of its structure along the c-axis. This leads to distortions in the chemical structure and morphology affecting the chemical and mechanical properties. Under flow conditions over time in an undersaturated environment, Ca is leached out from the expanded structure of FexCayCO3 increasing the solubility of the crystals, weakening the mechanical properties of the resulting corrosion films and stimulating localized corrosion.
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Oct 2020
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I18-Microfocus Spectroscopy
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Thomas
Christiansen
,
Marine
Cotte
,
Wout
De Nolf
,
Elouan
Mouro
,
Juan
Reyes-herrera
,
Steven
De Meyer
,
Frederik
Vanmeert
,
Nati
Salvado
,
Victor
Gonzalez
,
Poul Erik
Lindelof
,
Kell
Mortensen
,
Kim
Ryholt
,
Koen
Janssens
,
Sine
Larsen
Diamond Proposal Number(s):
[23348]
Open Access
Abstract: A hitherto unknown composition is highlighted in the red and black inks preserved on ancient Egyptian papyri from the Roman period (circa 100 to 200 CE). Synchrotron-based macro–X-ray fluorescence (XRF) mapping brings to light the presence of iron (Fe) and lead (Pb) compounds in the majority of the red inks inscribed on 12 papyrus fragments from the Tebtunis temple library. The iron-based compounds in the inks can be assigned to ocher, notably due to the colocalization of Fe with aluminum, and the detection of hematite (Fe2O3) by micro–X-ray diffraction. Using the same techniques together with micro-Fourier transform infrared spectroscopy, Pb is shown to be associated with fatty acid phosphate, sulfate, chloride, and carboxylate ions. Moreover, micro-XRF maps reveal a peculiar distribution and colocalization of Pb, phosphorus (P), and sulfur (S), which are present at the micrometric scale resembling diffused “coffee rings” surrounding the ocher particles imbedded in the red letters, and at the submicrometric scale concentrated in the papyrus cell walls. A similar Pb, P, and S composition was found in three black inks, suggesting that the same lead components were employed in the manufacture of carbon-based inks. Bearing in mind that pigments such as red lead (Pb3O4) and lead white (hydrocerussite [Pb3(CO3)2(OH)2] and/or cerussite [PbCO3]) were not detected, the results presented here suggest that the lead compound in the ink was used as a drier rather than as a pigment. Accordingly, the study calls for a reassessment of the composition of lead-based components in ancient Mediterranean pigments.
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Oct 2020
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I18-Microfocus Spectroscopy
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Clarissa
Baldo
,
Paola
Formenti
,
Sophie
Nowak
,
Servanne
Chevaillier
,
Mathieu
Cazaunau
,
Edouard
Pangui
,
Claudia
Di Biagio
,
Jean-francois
Doussin
,
Konstantin
Ignatyev
,
Pavla
Dagsson-waldhauserova
,
Olafur
Arnalds
,
A. Robert
Mackenzie
,
Zongbo
Shi
Diamond Proposal Number(s):
[22244, 12760, 10327]
Open Access
Abstract: Iceland is a highly active source of natural dust. Icelandic dust has the potential to directly affect the climate via dust–radiation interaction and indirectly via dust–cloud interaction, the snow/ice albedo effect and impacts on biogeochemical cycles. The impacts of Icelandic dust depend on its mineralogical and chemical composition. However, a lack of data has prevented an accurate assessment of the role of Icelandic dust in the Earth system. Here, we collected surface sediment samples from five major Icelandic dust hotspots. Dust aerosols were generated and suspended in atmospheric chambers, and PM10 and PM20 fractions were collected for further analysis. We found that the dust samples primarily consist of amorphous basaltic materials ranging from 8 wt % (from the Hagavatn hotspot) to 60 wt %–90 wt % (other hotspots). Samples had relatively high total Fe content (10 wt %–13 wt %). Sequential extraction of Fe to determine its chemical form shows that dithionite Fe (Fe oxides such as hematite and goethite) and ascorbate Fe (amorphous Fe) contribute respectively 1 %–6 % and 0.3 %–1.4 % to the total Fe in Icelandic dust. The magnetite fraction is 7 %–15 % of total Fe and 1 %–2 wt % of PM10, which is orders of magnitude higher than in mineral dust from northern Africa. Nevertheless, about 80 %–90% of the Fe is contained in pyroxene and amorphous glass. The initial Fe solubility (ammonium acetate extraction at pH 4.7) is from 0.08 % to 0.6 %, which is comparable to low-latitude dust such as that from northern Africa. The Fe solubility at low pH (i.e. pH 2) is significantly higher than typical low-latitude dust (up to 30 % at pH 2 after 72 h). Our results revealed the fundamental differences in composition and mineralogy of Icelandic dust from low-latitude dust. We attribute these differences to the low degree of chemical weathering, the basaltic composition of the parent sediments and glacial processes. Icelandic dust contributes to the atmospheric deposition of soluble Fe and can impact primary productivity in the North Atlantic Ocean. The distinct chemical and mineralogical composition, particularly the high magnetite content (1 wt %–2 wt %), indicates a potentially significant impact of Icelandic dust on the radiation balance in the subpolar and polar regions.
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Nov 2020
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I18-Microfocus Spectroscopy
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Open Access
Abstract: Sulphur is the third most abundant volatile element in deep Earth systems. Analytical methods for accurately and efficiently determining the sulphur content and oxidation state in natural minerals are still lacking. Natural apatite is widely distributed in the Earth and incorporates a large amount of sulphur. Therefore, apatite is an ideal mineral for performing sulphur measurements. Here, we used spectroscopic, Raman, X-ray diffraction, laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS), electron microprobe (EMPA) and micro-X-ray fluorescence spectrometry (micro-XRF) analysis techniques and developed a new analytical approach (i.e., micro-X-ray absorption near-edge structure (micro-XANES) analysis of the sulphur K-edge) to investigate the chemical characteristics of natural apatite. These multiple methods were developed to measure in situ sulphur concentration and S oxidation states and to assess a potential natural apatite reference material. Apatite contains chemically homogeneous sulphur, with micro-XANES located at the peak energies corresponding to S6+ (sulphate; ~2482 eV), S4+ (sulfite; ~2478 eV), and S2− (sulphide; ~2467, 2470 and 2474 eV). The Durango apatite contains total S presented as SO3 at amount of 0.332 ± 0.012 wt.% (1σ), with a large amount of S6+ and a small contribution of S4+. The Kovdor apatite contains 44–100 ppm of S and is dominated by S6+. These results indicate that the Durango apatite crystallised under relative oxidising conditions, and the Kovdor apatite has a higher oxygen fugacity than Durango. In addition, this study indicates the potential use of the natural apatite reference material with its S composition and S oxidation state.
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Nov 2020
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B18-Core EXAFS
I18-Microfocus Spectroscopy
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Eitaro
Kurihara
,
Masato
Takehara
,
Mizuki
Suetake
,
Ryohei
Ikehara
,
Tatsuki
Komiya
,
Kazuya
Morooka
,
Ryu
Takami
,
Shinya
Yamasaki
,
Toshihiko
Ohnuki
,
Kenji
Horie
,
Mami
Takehara
,
Gareth T. W.
Law
,
William
Bower
,
J. Frederick W.
Mosselmans
,
Peter
Warnicke
,
Bernd
Grambow
,
Rodney C.
Ewing
,
Satoshi
Utsunomiya
Diamond Proposal Number(s):
[21211]
Abstract: Traces of Pu have been detected in material released from the Fukushima Daiichi Nuclear Power Plant (FDNPP) in March of 2011; however, to date the physical and chemical form of the Pu have remained unknown. Here we report the discovery of particulate Pu associated with cesium-rich microparticles (CsMPs) that formed in and were released from the reactors during the FDNPP meltdowns. The Cs-pollucite-based CsMP contained discrete U(IV)O2 nanoparticles, <~10 nm, one of which is enriched in Pu adjacent to fragments of Zr-cladding. The isotope ratios, 235U/238U, 240Pu/239Pu, and 242Pu/239Pu, of the CsMPs were determined to be ~0.0193, ~0.347, and ~0.065, respectively, which are consistent with the calculated isotopic ratios of irradiated-fuel fragments. Thus, considering the regional distribution of CsMPs, the long-distance dispersion of Pu from FNDPP is attributed to the transport by CsMPs that have incorporated nanoscale fuel fragments prior to their dispersion up to 230 km away from the Fukushima Daiichi reactor site.
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Nov 2020
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I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[20316]
Abstract: Auriferous sulphide ores often incorporate micro-fine (or invisible) gold and silver particles in a manner making their extraction difficult. Nobel metals are lost in the tailings due to the refractory nature of these ores. Bioleaching is an environment-friendly alternative to the commonly used and toxic cyanidation protocols for gold extraction from refractory ores. In this paper, we investigate gold and silver bioleaching from porphyry and epithermal mineralisation systems, using iron-oxidizing bacteria Acidithiobacillus ferrooxidans. The invisible Au, sequestered in refractory ores, was characterised in situ by synchrotron micro X-Ray Fluorescence (SR-μ-XRF) and X-ray Absorption Spectroscopy (XAS), offering information on Au unaltered speciation at the atomistic level within the ore matrices and at a micro-scale spatial resolution. The SR-μ-XRF and XAS results showed that 10-20μm sized elemental Au(0) nuggets are sequestered in pyrite, chalcopyrite, arsenopyrite matrices and at the interface of a mixture of pyrite and chalcopyrite. Moreover, the preliminary bioleaching experiments of the two types of ores, showed that Acidithiobacillus ferrooxidans can catalyse the dissolution of natural heterogeneous Fe-rich geo-matrices, sequestering Au and Ag and releasing particulate phases or partially solubilising them within 60 days. These results provide an understanding of noble metal sequestration and speciation within natural ores and a demonstration of the application of synchrotron-based micro-analysis in characterizing economic trace metals in major mineral structures. This work is a contribution to the ongoing efforts towards finding feasible and greener solutions of noble metal extraction protocols.
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Dec 2020
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I13-1-Coherence
I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[18762, 19399]
Open Access
Abstract: Aims: We sought to develop a novel experimental system which enabled application of iodinated contrast media to in vivo plant roots intact in soil and was compatible with time-resolved synchrotron X-ray computed tomography imaging. The system was developed to overcome issues of low contrast to noise within X-ray computed tomography images of plant roots and soil environments, the latter of which can complicate image processing and result in the loss of anatomical information. Methods: To demonstrate the efficacy of the system we employ the novel use of both synchrotron X-ray computed tomography and synchrotron X-ray fluorescence mapping to capture the translocation of the contrast media through root vasculature into the leaves. Results: With the application of contrast media we identify fluid flow in root vasculature and visualise anatomical features, which are otherwise often only observable in ex vivo microscopy, including: the xylem, metaxylem, pith, fibres in aerenchyma and leaf venation. We are also able to observe interactions between aerenchyma cross sectional area and solute transport in the root vasculature with depth. Conclusions: Our novel system was capable of successfully delivering sufficient contrast media into root and leaf tissues such that anatomical features could be visualised and internal fluid transport observed. We propose that our system could be used in future to study internal plant transport mechanisms and parameterise models for fluid flow in plants.
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Dec 2020
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