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At least 1,657 records · Page 92

Rapid detection of mexX in Pseudomonas aeruginosa based on CRISPR-Cas13a coupled with recombinase polymerase amplification

The principal pathogen responsible for chronic urinary tract infections, immunocompromised hosts, and cystic fibrosis patients is Pseudomonas aeruginosa , which is difficult to eradicate. Due to the extensive use of antibiotics, multidrug-resistant P. aeruginosa has evolved, complicating clinical therapy. Therefore, a rapid and efficient approach for detecting P. aeruginosa strains and their resistance genes is necessary for early clinical diagnosis and appropriate treatment. This study combines recombinase polymerase amplification (RPA) and clustered regularly interspaced short palindromic repeats-association protein 13a (CRISPR-Cas13a) to establish a one-tube and two-step reaction systems for detecting the mexX gene in P. aeruginosa . The test times for one-tube and two-step RPA-Cas13a methods were 5 and 40 min (including a 30 min RPA amplification reaction), respectively. Both methods outperform Quantitative Real-time Polymerase Chain Reactions (qRT-PCR) and traditional PCR. The limit of detection (LoD) of P. aeruginosa genome in one-tube and two-step RPA-Cas13a is 10 aM and 1 aM, respectively. Meanwhile, the designed primers have a high specificity for P. aeruginosa mexX gene. These two methods were also verified with actual samples isolated from industrial settings and demonstrated great accuracy. Furthermore, the results of the two-step RPA-Cas13a assay could also be visualized using a commercial lateral flow dipstick with a LoD of 10 fM, which is a useful adjunt to the gold-standard qRT-PCR assay in field detection. Taken together, the procedure developed in this study using RPA and CRISPR-Cas13a provides a simple and fast way for detecting resistance genes.

Zhu, Xiao-Xuan↗

Time dependences of the 0.51 and 2.2 MeV lines in solar flares

The time dependence of the 0.51 MeV line in solar flares is determined by the following factors: variation with time of the rate of nuclear reactions which produce the positron emitters; mean lives of the positron emitters; slowing-down of the positrons which depends on the ambient density and magnetic field; and annihilation or positronium formation times of the positrons with free or bound electrons. The discussion is limited to the observed intensity-time profile of a 0.35-8 MeV gamma-ray emission and of a 0.51-MeV line calculated for three different ambient densities in the annihilation region. Major conclusions are that (1) MeV electrons and protons of at least 30 MeV/nuc have similar time dependences and hence a common origin in the flare region, which support a two-phase acceleration model in solar flares; and (2) the delayed character of the 0.51-MeV emission is clearly defined, where at a time when the rate of nuclear reactions is zero, there still is considerable 0.51-MeV emission.

Ramaty, R.↗

Kinetics and Mechanisms of ZnO to ZIF-8 Transformations in Supercritical CO2 Revealed by in situ X-ray Diffraction

ZIF-8 was synthesized in supercritical carbon dioxide (scCO2). In situ powder X-ray diffraction, ex situ microscopy and simulations, provides a encompassing view of the formation of ZIF-8 and intermediary ZnO@ZIF-8 composites in this nontraditional solvent. Time-resolved imaging exposed divergent physicochemical reaction pathways from previous studies of the growth of anisotropic ZIF-8 core@shell structures in traditional solvents. Synthetically relevant physio-chemical properties of scCO2 were integrated into classical nucleation theory, relating interfacial forces with 3D nu-cleation outcomes. The kinetics of crystallization were examined and displayed a characteristic signature of time- and temperature-dependent mechanisms over the extent of the reaction. Lastly, we show that subtle factors, such as the extent of reaction and the size/shape of sacrificial templates can tailor ZIF-8 composition and size, eliciting control over hierarchical porosity in a nonconventional green solvent.

Sinnwell, Michael A.↗

Importance of residence-time control of industrial screw-conveying reactors: Application to dilute-acid hydrolysis of biomass

Horizontal screw reactors are utilized in biorefineries for acid-catalyzed hydrolysis of xylan, which is a multi-step chemical reaction requiring accurate residence-time control. However, it is difficult to obtain online analytical measurement of reactant species. In this work, a residence-time distribution (RTD) is exhibited whose characteristics influence species yields. Sensitivity of product yield to RTD was investigated to understand the relative importance of operating control vs. inherent reactor dispersion. We find that reactor operation using a commonly used theoretical residence-time relationship can result in substantial yield losses. Instead, a model that accounts for the actual reactor RTD provides much improved results. The dispersion caused by reactor conditions only slightly hinders achieving theoretical optimal xylose yield (less than 3% yield loss for coefficient of variation less than 0.35), provided a validated RTD model is used to target the desired mean residence-time. In contrast, neglecting to account for the RTD by using the simplistic theoretical calculation results in xylose yields that are as much as 16% lower than the theoretical maximum.

09 BIOMASS FUELS↗

Fluid age-based analysis of a lifted turbulent DME jet flame DNS [Residence Time-Based Analysis of a Lifted Turbulent DME Jet Flame]

The link between the distribution of fluid residence time and the distribution of reactive scalars is analysed using Direct Numerical Simulation data. Information about the reactive scalar distribution is needed in order to model the reaction terms that appear in Large Eddy and Reynolds-Averaged simulations of turbulent reacting flows. The lifted flame is simulated taking account of multi-step chemistry for dimethyl-ether fuel and differential diffusion. Due to autoignition and flame propagation, the reaction progress increases with residence time. The variation of fluid residence time is evaluated by solving an Eulerian transport equation for the fluid age. The fluid age is a passive scalar with a spatially-uniform source term, meaning that its moments and dissipation rates in turbulent flows can be modelled using closures already established for conserved scalars such as mixture fraction. In combination with the mixture fraction, the fluid age serves as a useful mapping variable to distinguish younger less-reacted fluid near the inlet from older more-reacted fluid downstream. The local fluctuations of mixture fraction and fluid age have strong negative correlation and, building upon established presumed-pdf models for mixture fraction, this feature can be used to construct an accurate presumed-pdf model for the joint mixture fraction/fluid age pdf. It is demonstrated that the double-conditional first-order moment closure combined with the proposed presumed model for the joint pdf of mixture fraction and fluid age gives accurate predictions for unconditional reaction rates – both for pre-ignition radical species produced by low-temperature processes upstream of the flame base, and for major species that are produced at the flame front.

42 ENGINEERING↗

Advanced Precursor Reaction Processing for Cu(InGa)(SeS)2 Solar Cells

This project “Advanced Precursor Reaction Processing for Cu(InGa)(SeS)2 Solar Cells”, completed by the Institute of Energy Conversion (IEC) at the University of Delaware in collaboration with the Department of Chemical Engineering at the University of Florida, developed the fundamental understanding and technology to increase module efficiency and improve the manufacturability of Cu(InGa)(SeS)2 films using the precursor reaction approach currently being developed by a number of companies. Key results included: (1) development of a three-step H2Se/Ar/H2S reaction process to control Ga distribution through the film and minimizes back contact MoSe2 formation; (2) Ag-alloying to improve precursor homogeneity by avoiding In phase agglomeration, faster reaction and improved adhesion to allow wider reaction process window; (3) addition of Sb, Bi, and Te interlayers at the Mo/precursor junction to produce more uniform precursor morphology and improve adhesion with reduced void formation in reacted films; (4) a precursor structure containing Se and a reaction process to reduce processing time to 5 minutes and eliminate H2Se usage, thereby increasing throughput and reducing costs. All these results were supported by detailed characterization of the film growth, reaction pathways, thermodynamic assessment and device behavior.

25 ENERGY STORAGE↗

Kinematics reconstruction in solenoidal spectrometers operated in active target mode

Here, we discuss the reconstruction of low-energy nuclear reaction kinematics from charged-particle tracks in solenoidal spectrometers working in Active Target Time Projection Chamber mode. In this operation mode, reaction products are tracked within the active gas medium of the Active Target with a three dimensional space point cloud. We have inferred the reaction kinematics from the point cloud using an algorithm based on a linear quadratic estimator (Kalman filter). The performance of this algorithm has been evaluated using experimental data from nuclear reactions measured with the Active Target Time Projection Chamber (AT-TPC) detector.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Radiative thermal neutron-capture cross sections for the 180 W($n,\gamma$) reaction and determination of the neutron-separation energy

Prompt thermal neutron-capture partial $\gamma$-ray production cross sections were measured for the first time for the 180 W($n; \gamma$) reaction using a cold guided-neutron beam at the Budapest Research Reactor. Absolute 181 W $\gamma$-ray cross sections were internally standardized using well-known comparator $\gamma$-ray cross sections belonging to the other tungsten isotopes present in the 11.35%-enriched 180 W sample. Transitions were assigned to levels in 181 W based largely upon information available in the literature. The total radiative thermal neutron-capture cross section $\sigma$0 was determined from the sum of direct prompt $\gamma$-ray cross sections populating the ground state and a modeled contribution accounting for ground-state feeding from the quasi continuum. In this work, we find $\sigma$0 = 21.67(77) b. A new measurement of the cross section for the 5/2 - metastable isomer at 365.6 keV, $\sigma_{5/2-}(^{181}W^m; 14.6 \mu$s) = 19.96(55) b, is also determined. Additionally, primary $\gamma$ rays, observed for the first time in the 180 W($n,\gamma$) reaction, provide the most precise determination for the 181 W neutron-separation energy, $S_n$ = 6669.02(16) keV.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Method for production of an isotopically enriched compound

A method is presented for producing and isolating an isotopically enriched compound of a desired isotope from a parent radionuclide. The method includes forming, or placing, a precipitate containing a parent radionuclide of the desired daughter isotope in a first reaction zone and allowing sufficient time for the parent to decay into the desired gaseous daughter radioisotope. The method further contemplates collecting the desired daughter isotope as a solid in a second reaction zone through the application of temperatures below the freezing point of the desired isotope to a second reaction zone that is connected to the first reaction zone. Specifically, a method is presented for producing isotopically enriched compounds of xenon, including the radioactive isotope Xe-131m and the stable isotope Xe-131.

38 RADIATION CHEMISTRY, RADIOCHEMISTRY, AND NUCLEA↗

Theoretical kinetic computations in complex reacting systems

Nasa Lewis' studies of complex reacting systems at high temperature are discussed. The changes which occur are the result of many different chemical reactions occurring at the same time. Both an experimental and a theoretical approach are needed to fully understand what happens in these systems. The latter approach is discussed. The differential equations which describe the chemical and thermodynamic changes are given. Their solution by numerical techniques using a detailed chemical mechanism is described. Several different comparisons of computed results with experimental measurements are also given. These include the computation of (1) species concentration profiles in batch and flow reactions, (2) rocket performance in nozzle expansions, and (3) pressure versus time profiles in hydrocarbon ignition processes. The examples illustrate the use of detailed kinetic computations to elucidate a chemical mechanism and to compute practical quantities such as rocket performance, ignition delay times, and ignition lengths in flow processes.

Bittker, David A.↗

Novel 4{pi} Detection System for the Measurement of the {sup 6}Li(n,{alpha}){sup 3}H Reaction Cross Section

A dedicated one-dimensional Time Projection Chamber (1D-TPC) was designed and produced at IRMM to determine the {sup 6}Li(n,{alpha}){sup 3}H cross section in the 0.4-2.8 MeV energy range, aiming at 5% accuracy. The basic TPC components were a twin gridded ionisation chamber (GIC) with interwired electrodes and fast digitisation of the anode and cathode signals. The energy of both reaction products emitted from a thin {sup 6}LiF sample at the common TPC cathode was measured. A Kr(97%)CO{sub 2}(3%) mixture was used as the detector gas at a pressure up to 3.5 bar. A {sup 238}U sample mounted on the cathode of an ionisation chamber without grid was used as the neutron flux monitor. Special care was taken to reduce the experimental sources of uncertainty. The beam-monitor {sup 238}U sample was characterised at IRMM by low-geometry {alpha}-counting with an accuracy of 0.1%. A {sup 6}Li sample was produced at IRMM by vacuum evaporation of {sup 6}LiF onto transparent aluminium backing. The number of {sup 6}Li atoms will be measured via Thermal Neutron Depth Profiling with an expected accuracy of 2% with respect to an IRMM Standard Reference Material. First test measurements were performed using a monoenergetic neutron beam produced by the T(p,n){sup 3}He reaction at the IRMM 7 MV Van de Graaff accelerator. The experimental method and preliminary results are presented.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Should thermostatted ring polymer molecular dynamics be used to calculate thermal reaction rates?

We apply Thermostatted Ring Polymer Molecular Dynamics (TRPMD), a recently proposed approximate quantum dynamics method, to the computation of thermal reaction rates. Its short-time transition-state theory limit is identical to rigorous quantum transition-state theory, and we find that its long-time limit is independent of the location of the dividing surface. TRPMD rate theory is then applied to one-dimensional model systems, the atom-diatom bimolecular reactions H + H{sub 2}, D + MuH, and F + H{sub 2}, and the prototypical polyatomic reaction H + CH{sub 4}. Above the crossover temperature, the TRPMD rate is virtually invariant to the strength of the friction applied to the internal ring-polymer normal modes, and beneath the crossover temperature the TRPMD rate generally decreases with increasing friction, in agreement with the predictions of Kramers theory. We therefore find that TRPMD is approximately equal to, or less accurate than, ring polymer molecular dynamics for symmetric reactions, and for certain asymmetric systems and friction parameters closer to the quantum result, providing a basis for further assessment of the accuracy of this method.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Observations of Multiple Nuclear Reaction Histories and Fuel-Ion Species Dynamics in Shock-Driven Inertial Confinement Fusion Implosions

Fuel-ion species dynamics in DT 3 He-gas-filled Inertial Confinement Fusion implosion is quantitatively assessed for the first time using simultaneously measured D 3 He and DT reaction histories. Here, these reaction histories are measured with the Particle X-ray Temporal Diagnostic, which captures the relative timing between different nuclear burns with unprecedented precision (~10 ps). The observed 50±10 ps earlier D 3 He reaction history timing (relative to DT) cannot be explained by average-ion hydrodynamic simulations, and is attributed to fuel-ion species separation between the D, T, and 3 He ions during shock convergence and rebound. At the onset of the shock burn, inferred 3 He/T fuel ratio in the burn region using the measured reaction histories is much higher as compared to the initial gas-fill ratio. As T and 3 He have the same mass but different charge, these results indicate that the charge-to-mass ratio plays an important role in driving fuel-ion species separation during strong shock propagation.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Watching proteins function with time-resolved x-ray crystallography

Macromolecular crystallography was immensely successful in the last two decades. To a large degree this success resulted from use of powerful third generation synchrotron x-ray sources. An expansive database of more than 100 000 protein structures, of which many were determined at resolution better than 2 Å, is available today. With this achievement, the spotlight in structural biology is shifting from determination of static structures to elucidating dynamic aspects of protein function. A powerful tool for addressing these aspects is time-resolved crystallography, where a genuine biological function is triggered in the crystal with a goal of capturing molecules in action and determining protein kinetics and structures of intermediates (Schmidt et al 2005a Methods Mol. Biol. 305 115–54, Schmidt 2008 Ultrashort Laser Pulses in Biology and Medicine (Berlin: Springer) pp 201–41, Neutze and Moffat 2012 Curr. Opin. Struct. Biol. 22 651–9, Šrajer 2014 The Future of Dynamic Structural Science (Berlin: Springer) pp 237–51). In this approach, short and intense x-ray pulses are used to probe intermediates in real time and at room temperature, in an ongoing reaction that is initiated synchronously and rapidly in the crystal. Time-resolved macromolecular crystallography with 100 ps time resolution at synchrotron x-ray sources is in its mature phase today, particularly for studies of reversible, light-initiated reactions. The advent of the new free electron lasers for hard x-rays (XFELs; 5–20 keV), which provide exceptionally intense, femtosecond x-ray pulses, marks a new frontier for time-resolved crystallography. The exploration of ultra-fast events becomes possible in high-resolution structural detail, on sub-picosecond time scales (Tenboer et al 2014 Science 346 1242–6, Barends et al 2015 Science 350 445–50, Pande et al 2016 Science 352 725–9). We review here state-of-the-art time-resolved crystallographic experiments both at synchrotrons and XFELs. We also outline challenges and further developments necessary to broaden the application of these methods to many important proteins and enzymes of biomedical relevance.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

The SuperChip for microbial community structure, and function from all environments

We have the technology and capability to develop an all-in-one microarray that can provide complete information on a microbial community, including algae, protozoa, bacteria, archaea, fungi, viruses, antimicrobial resistance, biotoxins and functional activity. With lab-on-a-chip, nanotechnology integrating a variety of the latest methods for a large number of sample types (water, sediment, waste water, food, blood, etc.) it is possible to make a desktop instrument that would have universal applications. There are two major thrusts to this grand challenge that will allow us to take advantage of the latest biotechnological breakthroughs in real time. The first is a bioengineering thrust that will take advantage of the large multidisciplinary laboratories in developing key technologies. Miniaturization will reduce reagent costs and increase sensitivity and reaction kinetics for rapid turnaround time. New and evolving technologies will allow us to port the designs for state-of-the-art microarrays today to completely new nanotechnology inspired platforms as they mature. The second thrust is in bioinformatics to use our existing expertise to take advantage of the rapidly evolving landscape of bioinformatics data. This increasing capacity of the data set will allow us to resolve microbial species to greatly improved levels and identify functional genes beyond the hypothetical protein level. A cheap and portable assay would impact countless areas, including clean water technologies, emerging diseases, bioenergy, infectious disease diagnosis, climate change, food safety, environmental clean-up and bioterrorism. In my opinion it is possible but it will require a very large group of multidiscplenary scientists from multiple institutions crossing many international boundaries and funding over a 5-year period of more than $100 million. Given the impact that this SuperChip could have it is well worth the price!!!

59 BASIC BIOLOGICAL SCIENCES↗

Using X-ray free-electron lasers for spectroscopy of molecular catalysts and metalloenzymes

The metal centers in metalloenzymes and molecular catalysts are responsible for the rearrangement of atoms and electrons during complex chemical reactions, and they enable selective pathways of charge and spin transfer, bond breaking/making and the formation of new molecules. Mapping the electronic structural changes at the metal sites during the reactions gives a unique mechanistic insight that has been difficult to obtain to date. The development of X-ray free-electron lasers (XFELs) enables powerful new probes of electronic structure dynamics to advance our understanding of metalloenzymes. The ultrashort, intense and tunable XFEL pulses enable X-ray spectroscopic studies of metalloenzymes, molecular catalysts and chemical reactions, under functional conditions and in real time. In this Technical Review, we describe the current state of the art of X-ray spectroscopy studies at XFELs and highlight some new techniques currently under development. With more XFEL facilities starting operation and more in the planning or construction phase, new capabilities are expected, including high repetition rate, better XFEL pulse control and advanced instrumentation. For the first time, it will be possible to make real-time molecular movies of metalloenzymes and catalysts in solution, while chemical reactions are taking place.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Interplay of intercalation dynamics and lithium plating in monolithic and architectured graphite anodes during fast charging

Fast charging of high-capacity anodes is challenging due to lithium plating reactions, which lead to poor cycling performance and safety concerns. Thus, accurate predictions of plating onset and an understanding of this electrochemical process are crucial for robust battery design. However, the most commonly used models, based on porous electrode theory (e.g., the pseudo-2D model), are notoriously difficult to calibrate due to their complexity, limiting their predictive power. This work studies the process of lithium plating during fast charging of (small-particle) graphite half-cells by measuring local reaction progression and plating behavior using optical operando techniques. These experiments employ a realistic 1D graphite electrode geometry with commercially-relevant mass loading charged at fast charge rates. It is demonstrated that the local reaction progression and plating onset can not only be predicted accurately with a p2D numerical model, but that these processes follow a simple scaling law. Remarkably, the entire reaction histories of different electrodes charged at different rates (e.g., 160 μm thickness at 0.5C, 111 μm at 1C or 66 μm at 4C) were observed to have self-similar intercalation profiles. It is demonstrated that plating onset is in turn governed by the reaction profile which explains why both processes exhibit the same scaling behavior. Finally, operando measurements of local reaction dynamics are conducted for the first time in electrodes with channeled architectures, quantitatively determining how channels affect reaction uniformity and plating onset. Together, these results reveal underlying simplicity in the complex electrochemical environment of fast charging and lithium plating, improving understanding of this process. These fundamental insights are broadly applicable for design processes, modeling and experimental evaluation of lithium ion batteries.

25 ENERGY STORAGE↗