I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[12303]
Open Access
Abstract: Microcalcifications are important diagnostic indicators of disease in breast tissue. Tissue microenvironments differ in many aspects between normal and cancerous cells, notably extracellular pH and glycolytic respiration. Hydroxyapatite microcalcification microstructure is also found to differ between tissue pathologies, including differential ion substitutions and the presence of additional crystallographic phases. Distinguishing between tissue pathologies at an early stage is essential to improve patient experience and diagnostic accuracy, leading to better disease outcome. This study explores the hypothesis that microenvironment features may become immortalised within calcification crystallite characteristics thus becoming indicators of tissue pathology. In total, 55 breast calcifications incorporating 3 tissue pathologies (benign – B2, ductal carcinoma in-situ - B5a and invasive malignancy - B5b) from archive formalin-fixed paraffin-embedded core needle breast biopsies were analysed using X-ray diffraction. Crystallite size and strain were determined from 548 diffractograms using Williamson-Hall analysis. There was an increased crystallinity of hydroxyapatite with tissue malignancy compared to benign tissue. Coherence length was significantly correlated with pathology grade in all basis crystallographic directions (P < 0.01), with a greater difference between benign and in situ disease compared to in-situ disease and invasive malignancy. Crystallite size and non-uniform strain contributed to peak broadening in all three pathologies. Furthermore, crystallite size and non-uniform strain normal to the basal planes increased significantly with malignancy (P < 0.05). Our findings support the view that tissue microenvironments can influence differing formation mechanisms of hydroxyapatite through acidic precursors, leading to differential substitution of carbonate into the hydroxide and phosphate sites, causing significant changes in crystallite size and non-uniform strain.
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Dec 2019
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I18-Microfocus Spectroscopy
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Azhaar
Ashraf
,
Christos
Michaelides
,
Thomas A.
Walker
,
Antigoni
Ekonomou
,
Maria
Suessmilch
,
Achvini
Sriskanthanathan
,
Semhar
Abraha
,
Adam
Parkes
,
Harold G.
Parkes
,
Kalotina
Geraki
,
Po-wah
So
Diamond Proposal Number(s):
[9304, 10615]
Open Access
Abstract: Microglia and astrocytes can quench metal toxicity to maintain tissue homeostasis, but with age, increasing glial dystrophy alongside metal dyshomeostasis may predispose the aged brain to acquire neurodegenerative diseases. The aim of the present study was to investigate age-related changes in brain metal deposition along with glial distribution in normal C57Bl/6J mice aged 2-, 6-, 19- and 27-months (n = 4/age). Using synchrotron-based X-ray fluorescence elemental mapping, we demonstrated age-related increases in iron, copper, and zinc in the basal ganglia (p < 0.05). Qualitative assessments revealed age-associated increases in iron, particularly in the basal ganglia and zinc in the white matter tracts, while copper showed overt enrichment in the choroid plexus/ventricles. Immunohistochemical staining showed augmented numbers of microglia and astrocytes, as a function of aging, in the basal ganglia (p < 0.05). Moreover, qualitative analysis of the glial immunostaining at the level of the fimbria and ventral commissure, revealed increments in the number of microglia but decrements in astroglia, in older aged mice. Upon morphological evaluation, aged microglia and astroglia displayed enlarged soma and thickened processes, reminiscent of dystrophy. Since glial cells have major roles in metal metabolism, we performed linear regression analysis and found a positive association between iron (R2 = 0.57, p = 0.0008), copper (R2 = 0.43, p = 0.0057), and zinc (R2 = 0.37, p = 0.0132) with microglia in the basal ganglia. Also, higher levels of iron (R2 = 0.49, p = 0.0025) and zinc (R2 = 0.27, p = 0.040) were correlated to higher astroglia numbers. Aging was accompanied by a dissociation between metal and glial levels, as we found through the formulation of metal to glia ratios, with regions of basal ganglia being differentially affected. For example, iron to astroglia ratio showed age-related increases in the substantia nigra and globus pallidus, while the ratio was decreased in the striatum. Meanwhile, copper and zinc to astroglia ratios showed a similar regional decline. Our findings suggest that inflammation at the choroid plexus, part of the blood-cerebrospinal-fluid barrier, prompts accumulation of, particularly, copper and iron in the ventricles, implying a compromised barrier system. Moreover, age-related glial dystrophy/senescence appears to disrupt metal homeostasis, likely due to induced oxidative stress, and hence increase the risk of neurodegenerative diseases.
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Dec 2019
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I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[13025]
Abstract: We present a simple two step process for the fabrication of single crystal germanium core optical fibers. The core material is deposited into a capillary in a highly polycrystalline state using the pressure assisted filling technique. The cores are then melted and recrystallized in single crystal form using a scanning CO2 laser process. This technique is far quicker than the high pressure chemical deposition technique and overcomes all of the oxygen in-diffusion issues associated with the molten core drawing technique. We produce small core fiber 1 lm radii and length in the cm regime. It is anticipated that this process can be be optimized so that sub-micron cores can be produced to create fibers that have single-mode operation.
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Dec 2019
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I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[17304]
Abstract: The ability to manipulate the composition of semiconductor alloys on-demand and at nanometer-scale resolutions is a powerful tool that could be exploited to tune key properties such as the electronic bandgap, mobility, and refractive index. However, existing methods to modify the composition involve altering the stoichiometry by temporal or spatial modulation of the process parameters during material growth, limiting the scalability and flexibility for device fabrication. Here, we report a laser processing method for localized tailoring of the composition in amorphous silicon-germanium (a-SiGe) nanoscale thin films on silicon substrates, post-deposition, by controlling phase segregation through the scan speed of the laser-induced molten zone. Laser-driven phase segregation at speeds adjustable from 0.1 to 100 mm s-1 allows access to previously unexplored solidification dynamics. The steady-state spatial distribution of the alloy constituents can be tuned directly by setting the constant laser scan speed to achieve indefinitely long Si1-xGex microstructures exhibiting the full range of compositions (0
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Feb 2020
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B18-Core EXAFS
I18-Microfocus Spectroscopy
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Christopher
Hardacre
,
Andrew M.
Beale
,
Emma K.
Gibson
,
Josephine B. M.
Goodall
,
Alex
Goguet
,
Simon A.
Kondrat
,
Grazia
Malta
,
Cristina
Stere
,
Peter P.
Wells
,
Graham J.
Hutchings
,
C. Richard A.
Catlow
Diamond Proposal Number(s):
[12986, 10306, 11398, 15214, 12601, 10242, 12064, 12499, 14440]
Abstract: Techniques employing synchrotron radiation (SR) have had a major
and growing impact on catalytic science. They have made key contributions
to our understanding of structural properties of catalytic systems
and of structural changes during the operation of a catalytic process.
They can also improve our understanding of electronic and vibrational
properties, which can contribute to the understanding of mechanisms.
SR techniques are now key components of the experimental tool box of
the catalytic scientist.
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Feb 2020
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I18-Microfocus Spectroscopy
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Diamond Proposal Number(s):
[17819]
Abstract: The use of solar energy to activate chemical pathways in a sustainable manner drives the development in photocatalysis. While catalyst optimisation is a major theme in this pursuit, the development of novel photocatalytic reactors to enhance productivity is also imperative. In this work we combine, for the first time, microstructured optical fibre technology with photocatalysis, creating a photocatalytic microreactor coated with titania decorated with palladium nanoparticles. By doing so, we can create a system capable of effectively combining photons, liquids and gases within a monolithic, highly confined, transparent silica geometry. We utilise a range of characterisation techniques to selectively focus on the photocatalyst that resides exclusively within the internal capillaries of this system. In doing so we validate our design approach, and demonstrate the ability to simultaneously control both nanoparticle size and metal content. Further, we justify our unique design, showing its activity in photocatalytic hydrogen generation from water. In doing so highlighting the importance in developing light propagation properties from optical fibres, and the significant potential of this technology in the expansive photocatalysis landscape.
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Feb 2020
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I18-Microfocus Spectroscopy
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Open Access
Abstract: Iron is an essential element, and cornflake-style cereals are typically fortified with iron to a level up to 14 mg iron per 100 g. Even single cornflakes exhibit magnetic behaviour. We extracted iron microparticles from samples of two own-brand supermarket cornflakes using a strong permanent magnet. Synchrotron iron K-edge X-ray absorption near-edge spectroscopic data were consistent with identification as metallic iron, and X-ray diffraction studies provided unequivocal identification of the extracted iron as body-centred cubic (BCC) α-iron. Magnetometry measurements were also consistent with ca. 14 mg per 100 g BCC iron. These findings emphasise that attention must be paid to the speciation of trace elements, in relation to their bioavailability. To mimic conditions in the stomach, we suspended the iron extract in dilute HCl (pH 1.0–2.0) at 310 K (body temperature) and found by ICP-MS that over a period of 5 hours, up to 13% of the iron dissolved. This implies that despite its metallic form in the cornflakes, the iron is potentially bioavailable for oxidation and absorption into the body.
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Mar 2020
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I18-Microfocus Spectroscopy
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Abstract: The hallmark of neurodegenerative disease in humans, including Alzheimer’s, Amyotrophic Lateral Sclerosis and Parkinson’s, lies in our inability to efficiently restore damaged neurons. Contrary to widespread belief, humans can regenerate neurons within the Peripheral Nervous System (PNS) and some areas of the Central Nervous System (CNS), however the underlying mechanisms which drive or repress complete functional and structural neuronal regeneration remain elusive. To develop our understanding of this natural phenomenon one should focus on species which are capable of efficient neuronal regeneration following neurotrauma. The earthworm species Eisenia fetida can regenerate their Cerebral Ganglion (CG) - loosely defined as the brain, within a few weeks following surgical removal. The characterization of fundamental aspects of neuronal regeneration in the earthworm promises to provide an insight as to why humans have largely lost that capability. Here we present a detailed micro-dissection protocol that has been developed to excise the CG and study the progression of its regeneration. The Ventral Nerve Cord (VNC) of the worm is a tissue which connects the CG to the rest of the nervous system via the Circumpharyngeal Connectives (CC). Exploration of molecular dynamics through changes in the transcriptome were determined in the VNC and CC at 1 week and 5-week post-decerebration using an RNAseq approach (90 million reads/condition, 100bp Paired End). RNAseq established that specific groups of genes are up- or downregulated in the regenerating VNC. More than 500 significantly enriched biological processes were identified throughout the regeneration process, including vascular development, neurogenesis and extracellular matrix organization, as well as more than 100 significantly enriched molecular functions, including calcium ion binding, metal ion binding and metalloendopeptidase activity. Differential expression of transcripts was confirmed via qPCR. Examples of transcripts which have been validated at 1w post-decerebration, include catalase (~34-fold), superoxide dismutase 1 (sod-1) (~12-fold) and transcription factor jun-B (junb) (~3-fold). On the other hand, examples of transcripts which have been validated at 5w post-decerebration, include Glial Fibrillary Acidic Protein (GFAP) (~101-fold), adam19 (~17-fold) and Bone Morphogenetic Protein 1 (BMP1) (~3-fold). Moreover, the large number of differentially expressed metalloproteins (ADAMs, BMPs, MMPs, metallothionein) identified in the transcriptome, led to the hypothesis that metal trafficking could play a role in the course of regeneration. This was confirmed using a synchrotron-based approach, namely X-Ray Fluorescence (XRF) spectroscopy, where Zinc (Zn) and Iron (Fe) show a differential distribution pattern across different stages (at 1 week to 10-weeks post-decerebration) of regeneration. Lastly, various histological techniques were implemented to characterize/describe neuronal structures during the regenerating process, including immunohistochemistry and Terminal deoxynucleotidyl transferase dUTP Nick End Labeling (TUNEL). Furthermore, numerous novel markers and biological processes have been identified which, to date, have not been linked to neuronal regeneration. In summary, the results suggest that the increase of axon growth promoting factors as well the decrease of growth inhibitory factors act in conjunction to ensure efficient neuronal regeneration in the earthworm.
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Mar 2020
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B18-Core EXAFS
I18-Microfocus Spectroscopy
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Adam J.
Fuller
,
Peter
Leary
,
Neil D.
Gray
,
Helena S.
Davies
,
J. Frederick W.
Mosselmans
,
Filipa
Cox
,
Clare H.
Robinson
,
Jon K.
Pittman
,
Clare M.
Mccann
,
Michael
Muir
,
Margaret C.
Graham
,
Satoshi
Utsunomiya
,
William R.
Bower
,
Katherine
Morris
,
Samuel
Shaw
,
Pieter
Bots
,
Francis R.
Livens
,
Gareth T. W.
Law
Diamond Proposal Number(s):
[10163, 12767, 12477]
Open Access
Abstract: Understanding the long-term fate, stability, and bioavailability of uranium (U) in the environment is important for the management of nuclear legacy sites and radioactive wastes. Analysis of U behavior at natural analogue sites permits evaluation of U biogeochemistry under conditions more representative of long-term equilibrium. Here, we have used bulk geochemical and microbial community analysis of soils, coupled with X-ray absorption spectroscopy and μ-focus X-ray fluorescence mapping, to gain a mechanistic understanding of the fate of U transported into an organic-rich soil from a pitchblende vein at the UK Needle's Eye Natural Analogue site. U is highly enriched in the Needle's Eye soils (∼1600 mg kg−1). We show that this enrichment is largely controlled by U(VI) complexation with soil organic matter and not U(VI) bioreduction. Instead, organic-associated U(VI) seems to remain stable under microbially-mediated Fe(III)-reducing conditions. U(IV) (as non-crystalline U(IV)) was only observed at greater depths at the site (>25 cm); the soil here was comparatively mineral-rich, organic-poor, and sulfate-reducing/methanogenic. Furthermore, nanocrystalline UO2, an alternative product of U(VI) reduction in soils, was not observed at the site, and U did not appear to be associated with Fe-bearing minerals. Organic-rich soils appear to have the potential to impede U groundwater transport, irrespective of ambient redox conditions.
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Apr 2020
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I18-Microfocus Spectroscopy
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Abstract: We report on the alteration history of the olivine-phyric, highly depleted (HD) shergottite, Northwest Africa (NWA) 10416, paying particular attention to the origin of the aqueous alteration seen affecting the meteorite’s olivine megacrysts. The rock’s interior displays 1 mm, zoned, altered olivine megacrysts set in a groundmass of clinopyroxene, unzoned olivine, and interstitial plagioclase and maskelynite. Synchrotron micro X-ray diffraction (µ-XRD) and transmission electron microscopy (TEM) show that plagioclase and maskelynite have been partially replaced by kaolinite. The relict olivine megacryst cores display a unique concentric colouration for Martian meteorites, having central amber-coloured zones surrounded by a brown mantle zone, with the rims remaining clear and unaltered. This colouration is a result of fluid alteration and partial replacement, with hydration. TEM analysis revealed the ∼200 nm scale banded and largely amorphous nature of the alteration, but with some (∼ 20%) relict crystalline olivine patches. Although the coloured olivine zones show cation and anion site vacancies compared to stoichiometric olivine, a relict igneous compositional trend is preserved in the megacrysts, from Mg-rich altered cores (Mg# = 76) to unaltered stoichiometric rims (Fo53). Synchrotron Fe-K X-ray absorption near-edge structure (XANES) analysis revealed that the coloured zones of the megacryst have different Fe oxidation values. High ferric contents are present in the brown mantle zones (Fe3+/ΣFe ≤ 0.92) and the amber zones (Fe3+/ΣFe ≤ 0.30), whereas the clear rims are ferrous. This suggests alteration occurred in an oxidising environment and that the sharp contrast in colour of the megacryst (brown to clear) is a record of a relict fluid reaction front.
In order to test the terrestrial or extraterrestrial origin of the alteration, olivine material from a shock-melt vein was analysed by TEM. The analysis revealed 0.952 nm curved d-spacing’s from clay alteration undisturbed by any shock effects, strongly suggesting a terrestrial origin. The d-spacing values most likely represent a collapsed saponite or vermiculite, showing that in some places olivine has been replaced by crystalline clay.
Oxygen isotope analysis of bulk (Δ17O = 0.309 ± 0.009 (2σ) ‰) and amber-coloured megacryst material (= 0.271 ± 0.002 (2σ) ‰), are also consistent with terrestrial alteration. We propose a model in which, during the meteorite’s time in Northwest Africa, low-temperature, likely acidic, groundwater exploited fractures. The fluid altered the olivine megacrysts in a way that was controlled by the pre-existing, igneous compositional zonation, with Mg-rich olivine being more susceptible to alteration in this fluid environment. The plagioclase and maskelynite were also altered to a high degree. After the alteration event it is likely that NWA 10416 had a significant residence time in Northwest Africa, accounting for terrestrial calcite and the dehydration of some clay phases.
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Apr 2020
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