I08-Scanning X-ray Microscopy beamline (SXM)
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Diamond Proposal Number(s):
[26072]
Open Access
Abstract: Pseudanabaena dominates cyanobacterial blooms in the First-Generation Magnox Storage Pond (FGMSP) at a UK nuclear site. The fission product Cs is a radiologically significant radionuclide in the pond, and understanding the interactions between Cs and Pseudanabaena spp. is therefore important for determining facility management strategies, as well as improving understanding of microbiological responses to this non-essential chemical analogue of K. This study evaluated the fate of Cs following interactions with Pseudanabaena catenata, a laboratory strain most closely related to that dominating FGMSP blooms. Experiments showed that Cs (1 mM) exposure did not affect the growth of P. catenata, while a high concentration of K (5 mM) caused a significant reduction in cell yield. Scanning transmission X-ray microscopy elemental mapping identified Cs accumulation to discrete cytoplasmic locations within P. catenata cells, indicating a potential bioremediation option for Cs. Proteins related to stress responses and nutrient limitation (K, P) were stimulated by Cs treatment. Furthermore, selected K+ transport proteins were mis-regulated by Cs dosing, which indicates the importance of the K+ transport system for Cs accumulation. These findings enhance understanding of Cs fate and biological responses within Pseudanabaena blooms, and indicate that K exposure might provide a microbial bloom control strategy.
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Dec 2022
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B21-High Throughput SAXS
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Diamond Proposal Number(s):
[2357, 661]
Open Access
Abstract: Pathogenic species from the Mycobacterium genus are responsible for a number of adverse health conditions in humans and animals that threaten health security and the economy worldwide. Mycobacteria have up to five specialized secretion systems (ESX-1 to -5) that transport virulence factors across their complex cell envelope to facilitate manipulation of their environment. In pathogenic species, these virulence factors influence the immune system’s response and are responsible for membrane disruption and contributing to cell death. While structural details of these secretion systems have been recently described, gaps still remain in the structural understanding of the secretion mechanisms of most substrates. Here, we describe the crystal structure of M. tuberculosis ESX-1 secretion-associated substrate EspB bound to its chaperone EspK. We found that EspB interacts with the C-terminal domain of EspK through its helical tip. Furthermore, cryogenic electron microscopy, size exclusion chromatography analysis, and small angle X-ray scattering experiments show that EspK keeps EspB in its secretion-competent monomeric form and prevents its oligomerisation. The structure presented in this study suggests an additional secretion mechanism in ESX-1, analogous to the chaperoning of proline-glutamate (PE)–proline-proline-glutamate (PPE) proteins by EspG, where EspK facilitates the secretion of EspB in Mycobacterium species.
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Dec 2022
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B23-Circular Dichroism
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Diamond Proposal Number(s):
[30755, 31552]
Abstract: The correlation between size of nanoparticles and structure and shape of mesogenic ligands and the ensuing assembly behaviour is not really understood and closer inspection shows very surprising features. Here 2 and 4 nm gold nanoparticles (NP) were synthesized, grafted with a forked ligand containing two rod-like mesogens in its two branches: one with cholesterol and the other with azobenzene. The 4 nm NPs also contained n-hexylthiol as co-ligand. They were found to form an FCC cubic superlattice, while the 2 nm NPs form hexagonal HCP with weak birefringence, hence with partially oriented ligands. The structures were compared with those of related systems containing a range of different azobenzene-to-cholesterol ratios, all giving body-centered tetragonal superlattices with various degrees of anisotropy. Geometric analysis is presented in terms of asphericity of NP surrounding, requirement for space-filling and structural anisotropy. Some general rules are derived to help design the soft corona around the NPs in order to obtain superlattices with desired structure and anisotropy.
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Dec 2022
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I13-2-Diamond Manchester Imaging
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Diamond Proposal Number(s):
[28574]
Open Access
Abstract: We present a flyscan compatible acquisition scheme for three-modal X-Ray Computed Tomography (CT) with two-dimensional phase sensitivity. Our approach is demonstrated using a “beam tracking” setup, through which a sample’s attenuation, phase (refraction) and scattering properties can be measured from a single frame, providing three complementary contrast channels. Up to now, such setups required the sample to be stepped at each rotation angle to sample signals at an adequate rate, to prevent resolution losses, anisotropic resolution, and under-sampling artefacts. However, the need for stepping necessitated a step-and-shoot implementation, which is affected by motors’ overheads and increases the total scan time. By contrast, our proposed scheme, by which continuous horizontal and vertical translations of the sample are integrated with its rotation (leading to a “cycloidal-spiral” trajectory), is fully compatible with continuous scanning (flyscans). This leads to greatly reduced scan times while largely preserving image quality and isotropic resolution.
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Dec 2022
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I05-ARPES
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Xian
Du
,
L.
Kang
,
Y. Y.
Lv
,
J. S.
Zhou
,
X.
Gu
,
R. Z.
Xu
,
Q. Q.
Zhang
,
Z. X.
Yin
,
W. X.
Zhao
,
Y. D.
Li
,
S. M.
He
,
D.
Pei
,
Y. B.
Chen
,
M. X.
Wang
,
Z. K.
Liu
,
Y. L.
Chen
,
L. X.
Yang
Diamond Proposal Number(s):
[22375]
Abstract: Although the concept of the Luttinger liquid (LL) describing a one-dimensional (1D) interacting fermion system1,2 collapses at higher dimensions, it has been proposed to be relevant to enigmatic problems in condensed matter physics including the normal state of cuprate superconductors3,4,5, unconventional metals6,7 and quantum criticality8,9. Here we investigate the electronic structure of quasi-2D η-Mo4O11, a charge-density wave material, using high-resolution angle-resolved photoemission spectroscopy and ab initio calculations. We show a prototypical LL behaviour originating from the crossed quasi-1D chain arrays hidden in the quasi-2D crystal structure. Our results suggest that η-Mo4O11 materializes the crossed LL phase10,11,12 in its normal state, where the orthogonal orbital components substantially reduce the coupling between intersecting quasi-1D chains and therefore maintain the essential properties of the LL. Our finding not only presents a realization of a 2D LL, but also provides a new angle to understand non-Fermi liquid behaviour in other 2D and 3D quantum materials.
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Dec 2022
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I09-Surface and Interface Structural Analysis
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Diamond Proposal Number(s):
[127494]
Abstract: Conventional cathodes for Li-ion batteries are layered transition-metal oxides that support Li+ intercalation charge-balanced by redox on the transition metals. Oxidation beyond one electron per transition metal can be achieved in Li-rich layered oxides by involving structural anions, which necessitates high voltages and complex charge compensation mechanisms convoluted by degradation reactions. We report a detailed structural and spectroscopic analysis of the multielectron material Li2Ru0.3Mn0.7O3, chosen due to its low Ru content. Ex situ and operando spectroscopic data over multiple cycles highlight the changing charge compensation mechanism. Notably, over half of the first-cycle capacity is attributed to O2 gas evolution and reversible O redox is minimal. Instead, reduced Ru and Mn species are detected in the bulk and on the surface, which then increasingly contribute to charge compensation as more metal reduction occurs with cycling. Permanent structural changes linked to metal migration are observed with EXAFS and Raman analysis.
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Dec 2022
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I15-1-X-ray Pair Distribution Function (XPDF)
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Alice M.
Bumstead
,
Celia
Castillo-Blas
,
Ignas
Pakamore
,
Michael F.
Thorne
,
Adam F.
Sapnik
,
Ashleigh M.
Chester
,
Georgina
Robertson
,
Daniel J. M.
Irving
,
Philip A.
Chater
,
David A.
Keen
,
Ross S.
Forgan
,
Thomas D.
Bennett
Diamond Proposal Number(s):
[20038]
Open Access
Abstract: The chemistries that can be incorporated within melt-quenched zeolitic imidazolate framework (ZIF) glasses are currently limited. Here we describe the preparation of a previously unknown purine-containing ZIF which we name ZIF-UC-7. We find that it melts and forms a glass at one of the lowest temperatures reported for 3D hybrid frameworks.
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Dec 2022
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I04-Macromolecular Crystallography
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Zhen
Zhang
,
Mochen
Dong
,
Rémi
Zallot
,
George Michael
Blackburn
,
Nini
Wang
,
Chengjian
Wang
,
Long
Chen
,
Patrick
Baumann
,
Zuyan
Wu
,
Zhongfu
Wang
,
Haiming
Fan
,
Christian
Roth
,
Yi
Jin
,
Yuan
He
Diamond Proposal Number(s):
[18812]
Abstract: Glycan sulfation is an important modification supporting the functionalities of many proteins in biology. Exo-acting 6S-GlcNAcases from human microbiota are glycosidases that participate in the removal of 6-sulfo-GlcNAc from host glycans and thereby play an important role in human health and disease. Nonetheless, mechanisms underlying their ability to recognize the sulfate group remain poorly understood. Using structural and kinetic analyses, we here reveal the catalytically important amino acids directly involved in the recognition and cleavage of 6S-GlcNAc, but not of 6-phospho-GlcNAc, in BbhII from Bifidobacterium bifidum, Bt4394 from Bacteroides thetaiotaomicron, and SGL from Prevotella spp. The defining features of their sulfate recognition motifs underpin a genomic enzymological exploration of 6S-GlcNAcases to identify a wider range of human health-associated bacterial species having 6S-GlcNAcase activity. Our data provide significant insights into distinct molecular mechanisms of sulfated sugar recognition employed by 6S-GlcNAcases from both Gram-positive and Gram-negative bacteria along with valuable information for the exploration of extensive interactions between microbiota and their host glycans.
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Dec 2022
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I22-Small angle scattering & Diffraction
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Abstract: This doctoral thesis reports an extensive biophysical study concerning the two major categories of molecules that compose a biological surfactant called rhamnolipid, which are mono- and di-rhamnolipids. Understanding the differences in chemical and physical properties of mono-rhamnolipids and di-rhamnolipids is important in view of their potential applications as emulsifying and dispersing agents in bioremediation processes and in other biotechnological sectors, such as in the cosmetics industry. Also, although there are a few studies concerning the molecular properties of mono- and di-rhamnolipids, information is scarce regarding the mechanisms by which each of the two components interacts with cell membranes.
In order to be able to study the chemical and physical properties of the two components, my thesis work started from the chemical separation of the mono and the di-rhamnolipids from the commercial mixture (RLs), performed by using a silica gel column chromatography. After separation and purification, electrospray mass spectroscopy was used to confirm the quality of the process. Then, I performed surface tension measurements to determinate the CMC (Critical Micelle Concentration) of each of them. The physical chemical characterization started using X-ray diffraction (XRD) techniques, conducted in our biophysics laboratory on samples of mono and di-RLs dissolved in concentrated water solutions ranging from 10 to 45 w/w %. This technique allows to determine the characteristic lyotropic polymorphism, as well as the molecular packing and properties at a few Angstrom resolutions. To derive the structural properties in dilute solutions, mono or di-RL samples dissolved at concentration from 10 to 100 mM in water were then analysed by performing Synchrotron Small Angle X-ray Scattering (SAXS) experiments at the Diamond Light Source synchrotron (Didcot, UK). Results allowed to characterize the different micellar structures formed by mono-RL and di-RL in water. Finally, I extensively studied the interactions between model membranes with mono- and di-RLs, showing how it is possible, by assuming a kinetic model, to derive relevant physical parameters from optical microscopy images. I performed phase contrast and fluorescence microscopy experiments on plasma membrane models represented by Giant Unilamellar Vesicles (GUVs), composed of single lipid POPC and ternary GUVs containing DOPC:SM:CHOL in three molar ratios, 1:1:1, 3:5:2 and 5:3:2. The experiments were performed with GUVs in the presence of either mono-RL or di-RL in 0.06, 0.12 and 0.25 mM concentrations. Novel methods have been developed and applied to microscopy images allowing the determination the area and the volume of GUVs with asymmetrical shape and the description of the GUV-RL interaction in terms of two kinetic mechanisms, RL-insertion and pore formation.
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Dec 2022
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I03-Macromolecular Crystallography
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Diamond Proposal Number(s):
[20147]
Open Access
Abstract: Tpp80Aa1 from Bacillus thuringiensis is a Toxin_10 family protein (Tpp) with reported action against Culex mosquitoes. Here, we demonstrate an expanded target range, showing Tpp80Aa1 is also active against the larvae of Anopheles gambiae and Aedes aegypti mosquitoes. We report the first crystal structure of Tpp80Aa1 at a resolution of 1.8 Å, which shows Tpp80Aa1 consists of two domains: an N-terminal β-trefoil domain resembling a ricin B lectin and a C-terminal putative pore-forming domain sharing structural similarity with the aerolysin family. Similar to other Tpp family members, we observe Tpp80Aa1 binds to the mosquito midgut, specifically the posterior midgut and the gastric caecum. We also identify that Tpp80Aa1 can interact with galactose-containing glycolipids and galactose, and this interaction is critical for exerting full insecticidal action against mosquito target cell lines.
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Dec 2022
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