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At least 757 records · Page 42

Towards the spatial resolution of metalloprotein charge states by detailed modeling of XFEL crystallographic diffraction

Oxidation states of individual metal atoms within a metalloprotein can be assigned by examining X-ray absorption edges, which shift to higher energy for progressively more positive valence numbers. Indeed, X-ray crystallography is well suited for such a measurement, owing to its ability to spatially resolve the scattering contributions of individual metal atoms that have distinct electronic environments contributing to protein function. However, as the magnitude of the shift is quite small, about +2 eV per valence state for iron, it has only been possible to measure the effect when performed with monochromated X-ray sources at synchrotron facilities with energy resolutions in the range 2–3 × 10 −4 (Δ E / E ). This paper tests whether X-ray free-electron laser (XFEL) pulses, which have a broader bandpass (Δ E / E = 3 × 10 −3 ) when used without a monochromator, might also be useful for such studies. The program nanoBragg is used to simulate serial femtosecond crystallography (SFX) diffraction images with sufficient granularity to model the XFEL spectrum, the crystal mosaicity and the wavelength-dependent anomalous scattering factors contributed by two differently charged iron centers in the 110-amino-acid protein, ferredoxin. Bayesian methods are then used to deduce, from the simulated data, the most likely X-ray absorption curves for each metal atom in the protein, which agree well with the curves chosen for the simulation. The data analysis relies critically on the ability to measure the incident spectrum for each pulse, and also on the nanoBragg simulator to predict the size, shape and intensity profile of Bragg spots based on an underlying physical model that includes the absorption curves, which are then modified to produce the best agreement with the simulated data. This inference methodology potentially enables the use of SFX diffraction for the study of metalloenzyme mechanisms and, in general, offers a more detailed approach to Bragg spot data reduction.

59 BASIC BIOLOGICAL SCIENCES↗

Simulation-based assessment of ASHRAE Guideline 36, considering energy performance, indoor air quality, and control stability

This study assesses American Society of Heating, Refrigerating and Air-Conditioning Engineers Guideline 36 (G36) with a typical medium office building. Specifically, this study employed a Modelica model of a variable air volume (VAV) system that serves this building, which includes components for representing indoor virus transmission and filtration. It then implemented the G36 control sequences for both water-side and air-side equipment in Python. After that, this study conducted the assessment by co-simulating G36 and the Modelica model using the Building Operations Testing Framework. Unlike existing works, this work has three unique features: (1) It considers the interactions between control sequences for water-side and air-side equipment of the studied VAV system. (2) It assesses the performance of G36 from the perspective of IAQ. (3) It examines the short-term behaviors of the studied building under G36 to understand the control stability. This assessment confirms significant energy savings from G36, largely because of the interaction between supply air temperature and hot water controls. It also reveals a trade-off between the ability to slow the spread of virus and the energy performance via demand controlled ventilation. Lastly, it emphasizes the necessity of tuning local feedback control when implementing G36.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Accurate prediction of mega-electron-volt electron beam properties from UED using machine learning

To harness the full potential of the ultrafast electron diffraction (UED) and microscopy (UEM), we must know accurately the electron beam properties, such as emittance, energy spread, spatial-pointing jitter, and shot-to-shot energy fluctuation. Owing to the inherent fluctuations in UED/UEM instruments, obtaining such detailed knowledge requires real-time characterization of the beam properties for each electron bunch. While diagnostics of these properties exist, they are often invasive, and many of them cannot operate at a high repetition rate. Here, we present a technique to overcome such limitations. Employing a machine learning (ML) strategy, we can accurately predict electron beam properties for every shot using only parameters that are easily recorded at high repetition rate by the detector while the experiments are ongoing, by training a model on a small set of fully diagnosed bunches. Applying ML as real-time noninvasive diagnostics could enable some new capabilities, e.g., online optimization of the long-term stability and fine single-shot quality of the electron beam, filtering the events and making online corrections of the data for time-resolved UED, otherwise impossible. This opens the possibility of fully realizing the potential of high repetition rate UED and UEM for life science and condensed matter physics applications.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

A super-resolution technique to analyze single-crystal inelastic neutron scattering measurements using direct-geometry chopper spectrometers

Direct-geometry time-of-flight chopper neutron spectroscopy is instrumental in studying dynamics in liquid, powder, and single crystal systems. We report here that real-space techniques in optical imagery can be adapted to obtain reciprocal-space super resolution dispersion for phonon or magnetic excitations from single-crystal neutron spectroscopy measurements. The procedure to reconstruct super-resolution energy dispersion of excitations relies on an accurate determination of the momentum and energy-dependent point spread function and a dispersion correction technique inspired by an image disparity calculation technique commonly used in stereo imaging. Here by, applying these methods to spinwave dispersion data from a virtual neutron experiment demonstrates ~5-fold improvement over nominal energy resolution.

47 OTHER INSTRUMENTATION↗

The SPAN512 mid-latitude pulsar survey at the Nançay Radio Telescope

The large number of ongoing surveys for pulsars and transients at various radio observatories is motivated by the science obtained from these sources. Timing and polarisation analysis of relativistic binaries can place strong constraints on theories of gravity. The observation of a growing number of millisecond pulsars (MSPs) spread over the celestial sphere may allow the detection of a stochastic gravitational wave background arising from supermassive black hole binaries. A more complete sample of young pulsars improves our knowledge of neutron star birth and evolution. Transients such as fast radio bursts can serve to probe the intergalactic medium. The SPAN512 pulsar survey covers intermediate Galactic latitudes using the L-band receiver of the Nançay Radio Telescope (NRT). The survey covers 224 sq. deg. of the sky for a total exposure time of 2200 h. Population syntheses predict the discovery of 3 to 19 new normal pulsars and a few MSPs. We present detailed modelling of the NRT beam with its L-band receiver and its sensitivity which we used to precisely assess the expected survey yield. We used the flexible Pulsar Arecibo L-band Feed Array data processing pipeline to search the 47 TB of SPAN512 data for pulsars and transients. The SPAN512 survey discovered two new MSPs and one new middle-aged pulsar. We focus on the analysis of the 2.4-ms spin period pulsar J2205+6012 for which we also report the detection of gamma-ray pulsations. Its narrow pulse width (35µs at an observing frequency of 2.55 GHz) allows for sub-microsecond timing precision over 8 yr, with exciting prospects for pulsar timing array programs.

79 ASTRONOMY AND ASTROPHYSICS↗

Transient heat transfer of superfluid He 4 in nonhomogeneous geometries: Second sound, rarefaction, and thermal layer

Transient heat transfer in superfluid 4 He (He II) is a complex process that involves the interplay of the unique counterflow heat-transfer mode, the emission of second-sound waves, and the creation of quantized vortices. Many past researches focused on homogeneous heat transfer of He II in a uniform channel driven by a planar heater. Here, we report our systematic study of He II transient heat transfer in nonhomogeneous geometries that are pertinent to emergent applications. By solving the He II two-fluid equations of motion coupled with Vinen's equation for vortex-line density, we examine and compare the characteristics of transient heat transfer from planar, cylindrical, and spherical heaters in He II. Our results show that as the heater turns on, an outgoing second-sound pulse emerges, within which the vortex-line density grows rapidly. These vortices attenuate the second sound and result in a heated He II layer in front of the heater, i.e., the thermal layer. In the planar case where the vortices are created throughout the space, the second-sound pulse is continuously attenuated, leading to a thick thermal layer that diffusely spreads following the heat pulse. On the contrary, in the cylindrical and the spherical heater cases, vortices are created mainly in a thin thermal layer near the heater surface. As the heat pulse ends, a rarefaction tail develops following the second-sound pulse, in which the temperature drops. This rarefaction tail can promptly suppress the thermal layer and take away the deposited thermal energy. The effects of the heater size, heat flux, pulse duration, and temperature on the thermal-layer dynamics are discussed. We also show how the peak heat flux for the onset of boiling in He II can be studied in our model.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Determination of asymptotic normalization coefficients for the channel 16 O→ α+ 12 C: excited state 16 O(0 + ; 6.05 MeV)

Asymptotic normalization coefficients (ANC) determine the overall normalization of cross sections of peripheral radiative capture reactions. In the present paper, we treat the ANC C for the virtual decay 16 O(0 + ; 6.05 MeV)→ α+ 12 C(g.s.), the known values of which are characterized by a large spread (0.29 - 1.65) × 10 3 fm -1/2 . The ANC C is found by analytic continuation in energy of the α 12 C s-wave scattering amplitude, known from the phase-shift analysis of experimental data, to the pole corresponding to the 16O bound state and lying in the unphysical region of negative energies. To determine C, two different methods of analytic continuation are used. In the first method, the scattering data are approximated by the sum of polynomials in energy in the physical region and then extrapolated to the pole. The best way of extrapolation is chosen on the basis of the exactly solvable model. Within the second approach, the ANC C is found by solving the Schrödinger equation for the two-body α 12 C potential, the parameters of which are selected from the requirement of the best description of the phase-shift analysis data at a fixed experimental binding energy of 16 O(0 + ; 6.05 MeV) in the α+ 12 C channel. The values of the ANC C obtained within these two methods lie in the interval (886–1139) fm -1/2 .

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Inactivation of Human Coronavirus by FATHHOME’s Dry Sanitizer Device: Rapid and Eco-Friendly Ozone-Based Disinfection of SARS-CoV-2

The pandemic of SARS-CoV-2/COVID-19 was reported in December 2019 in Wuhan, China. Pertaining to its high transmissibility and wide host adaptability, this unique human coronavirus spread across the planet inflicting 115 million people and causing 2.5 million deaths (as of March 3rd, 2021). Limited or negligible pre-existing immunity to multiple SARS-CoV-2 variants has resulted in severe morbidity and mortality worldwide, as well as a record-breaking surge in the use of medical-surgical supplies and personal protective equipment. In response to the global need for effective sterilization techniques, this study evaluated the virucidal efficacy of FATHHOME’s self-contained, ozone-based dry-sanitizing device, by dose and time response assessment. We tested inactivation of human coronavirus, HCoV-OC43, a close genetic model of SARS-CoV-2, on porous (N95 filtering facepiece respirator/FFR) and nonporous (glass) surfaces. We started our assays with 20 ppm-10 min ozone exposure, and effectively reduced 99.8% and 99.9% of virus from glass and N95 FFR surfaces, respectively. Importantly, the virus was completely inactivated, below the detection limit (over 6-log10 reduction) with 25 ppm-15 min ozone exposure on both tested surfaces. As expected, a higher ozone exposure (50 ppm-10 min) resulted in faster inactivation of HCoV-OC43 with 100% inactivation from both the surfaces, with no residual ozone present after completion of the 5-min post exposure recapture cycle and no measurable increase in ambient ozone levels. These results confirmed that FATHHOME’s device is suitable for rapid decontamination of SARS-CoV-2- from worn items, frequently touched items, and PPE including N95 FFRs, face shields, and other personal items. View Full-Text

59 BASIC BIOLOGICAL SCIENCES↗

Methodology for Generating Covariance Data of Thermal Neutron Scattering Cross Sections

This paper details and implements a framework for evaluating thermal neutron scattering cross sections that provide S(α,β) data and covariance data for hydrogen in light water. This methodology involves perturbing model parameters of molecular dynamics potentials and fitting the simulation results to experimental data. The framework is general and can be applied to any material or simulation method. The fit is made using the Unified Monte Carlo method to experimentally measure double-differential scattering cross sections of light water at the Spallation Neutron Source at Oak Ridge National Laboratory. Mean values and covariance data were generated for model parameters, phonon density of states, double-differential cross sections, and total scattering cross sections. These posterior parameter values were very similar to their prior values with a maximum relative error of 0.54%. This falls within in the Unified Monte Carlo–calculated uncertainties on the order of 2.7%. Additionally, posterior double-differential cross sections agree favorably with ENDF/B-VIII.0 cross sections. The new thermal scattering law was tested by comparing it against benchmarks from the International Criticality Safety Benchmark Evaluation Project Handbook, which showed a slight improvement over the ENDF/B-VIII.0 library. Additionally, the covariance matrix of the phonon density of states was validated to confirm that the spread of k eff from the density of states used to generate the covariance matrix was similar to the spread of k eff from the density of states of the sampled covariance matrix.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

The Page curve for reflected entropy

We study the reflected entropy $S_{R}$ in the West Coast Model, a toy model of black hole evaporation consisting of JT gravity coupled to end-of-the-world branes. We demonstrate the validity of the holographic duality relating it to the entanglement wedge cross section away from phase transitions. Further, we analyze the important non-perturbative effects that smooth out the discontinuity in the phase transition. By performing the gravitational path integral, we obtain the reflected entanglement spectrum analytically. The spectrum takes a simple form consisting of superselection sectors, which we interpret as a direct sum of geometries, a disconnected one and a connected one involving a closed universe. We find that area fluctuations of $\textit{O}$$\sqrt{G_N}$ spread out the $S_{R}$ phase transition in the canonical ensemble, analogous to the entanglement entropy phase transition. We also consider a Renyi generalization of the reflected entropy and show that the location of the phase transition varies as a function of the Renyi parameter.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Evolutionary Game and Simulation Research of Blockchain-Based Co-Governance of Emergency Supply Allocation

Recently, with the spread of COVID-19 pandemic, emergency supply allocation system is drawing more and more social attention. Emergency supply allocation system is an important part of emergency governance system. It reflects social organizations’ credibility, public safety, and the modernization level of social governance. However, emergency supply allocation system still has some problems, such as information asymmetry, different desires of participants, unreasonable allocation, and so on. At present, it is widely accepted that the advantage of blockchain in co-governance could be of great help in solving above problems. And in order to distinguish the effect of blockchain to the emergency supply allocation, the paper builds a tripartite evolutionary game model among the government, social organizations, and the public to analyse the impact of blockchain platform on emergency supply allocation. The simulation analysis shows the following: (1) The strategy choices of the government have a crucial impact on the evolution and stability of social organizations’ strategies. It needs a long-term process to guide social organizations practicing active allocation, and the government should accelerate to build the blockchain platform to promote this process. (2) With the help of blockchain platform, the increment of penalty intensity of the government is conductive to increasing the probabilities that social organizations practice active allocation and the government practices strict supervision. (3) Blockchain platform has a significant impact on social organizations’ choice for active allocation in many aspects, such as the positive and negative effects of social organizations, effect’s increasing multiple, and the cost of the public informing. In the end, some suggestions are presented to improve the co-governance of emergency supply allocation.

Zhao, Huawei↗

Prevalence and scalable control of localized networks

The ability to control network dynamics is essential for ensuring desirable functionality of many technological, biological, and social systems. Such systems often consist of a large number of network elements, and controlling large-scale networks remains challenging because the computation and communication requirements increase prohibitively fast with network size. Here, we introduce a notion of network locality that can be exploited to make the control of networks scalable, even when the dynamics are nonlinear. We show that network locality is captured by an information metric and is almost universally observed across real and model networks. In localized networks, the optimal control actions and system responses are both shown to be necessarily concentrated in small neighborhoods induced by the information metric. This allows us to develop localized algorithms for determining network controllability and optimizing the placement of driver nodes. This also allows us to develop a localized algorithm for designing local feedback controllers that approach the performance of the corresponding best global controllers, while incurring a computational cost orders-of-magnitude lower. Here, we validate the locality, performance, and efficiency of the algorithms in Kuramoto oscillator networks, as well as three large empirical networks: synchronization dynamics in the Eastern US power grid, epidemic spreading mediated by the global air-transportation network, and Alzheimer’s disease dynamics in a human brain network. Taken together, our results establish that large networks can be controlled with computation and communication costs comparable to those for small networks.

42 ENGINEERING↗

The Biomechanics of Indirect Traumatic Optic Neuropathy Using a Computational Head Model With a Biofidelic Orbit

Indirect traumatic optic neuropathy (ITON) is an injury to the optic nerve due to head trauma and usually results in partial or complete loss of vision. In order to advance a mechanistic understanding of the injury to the optic nerve, we developed a head model with a biofidelic orbit. Head impacts were simulated under controlled conditions of impactor velocity. The locations of impact were varied to include frontal, lateral, and posterior parts of the head. Impact studies were conducted using two types of impactors that differed in their rigidity relative to the skull. The simulated results from both the impactors suggest that forehead impacts are those to which the optic nerve is most vulnerable. The mode and location of optic nerve injury is significantly different between the impacting conditions. Simulated results using a relatively rigid impactor (metal cylinder) suggest optic nerve injury initiates at the location of the intracranial end of the optic canal and spreads to the regions of the optic nerve in the vicinity of the optic canal. In this case, the deformation of the skull at the optic canal, resulting in deformation of the optic nerve, was the primary mode of injury. On the other hand, simulated results using a relatively compliant impactor (soccer ball) suggest that primary mode of injury comes from the brain tugging upon the optic nerve (from where it is affixed to the intracranial end of the optic canal) during coup countercoup motion of the brain. This study represents the first published effort to employ a biofidelic simulation of the full length of the optic nerve in which the orbit is integrated within the whole head.

59 BASIC BIOLOGICAL SCIENCES↗

Global QCD analysis and dark photons

We perform a global QCD analysis of high energy scattering data within the JAM Monte Carlo framework, including a coupling to a dark photon that augments the Standard Model (SM) electroweak coupling via kinetic mixing with the hypercharge B boson. We first set limits on the dark photon mass and mixing parameter assuming that the SM is the true theory of Nature, taking into account also the effect on g – 2 of the muon. If instead we entertain the possibility that the dark photon may play a role in deep-inelastic scattering (DIS), we find that the best fit is preferred over the SM at 6.5σ, even after accounting for missing higher order uncertainties. The improvement in χ 2 with the dark photon is stable against all the tests we have applied, with the improvements in the theoretical predictions spread across a wide range of x and Q 2 . The largest improvement corresponds to the fixed target and HERA DIS data, while the best fit yields a value of g – 2 which significantly reduces the disagreement with the latest experimental determination.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Can Cooling and Heating Functions Be Modeled with Homogeneous Radiation Fields?

Abstract Cooling and heating functions describe how radiative processes impact the thermal state of a gas as a function of its temperature and other physical properties. In a most general case the functions depend on the detailed distributions of ionic species and on the radiation spectrum. Hence, these functions may vary on a very wide range of spatial and temporal scales. In this paper, we explore cooling and heating functions between 5 ≤ z ≤ 10 in simulated galaxies from the Cosmic Reionization On Computers project. We compare three functions: (1) the actual cooling and heating rates of hydrodynamic cells as a function of cell temperature, (2) the median cooling and heating functions computed using median interstellar medium (ISM) properties (median ISM), and (3) the median of the cooling and heating functions of all gas cells (instantaneous). We find that the median ISM and instantaneous approaches to finding a median cooling and heating function give identical results within the spread due to cell-to-cell variation. However, the actual cooling (heating) rates experienced by the gas at different temperatures in the simulations do not correspond to either summarized cooling (heating) functions. In other words, the thermodynamics of the gas in the simulations cannot be described by a single set of a cooling plus a heating function with a spatially constant radiation field that could be computed with common tools, such as CLOUDY.

79 ASTRONOMY AND ASTROPHYSICS↗

Contributions to regional precipitation change and its polar-amplified pattern under warming

Abstract The polar regions are predicted to experience the largest relative change in precipitation in response to increased greenhouse-gas concentrations, where a substantial absolute increase in precipitation coincides with small precipitation rates in the present-day climate. The reasons for this amplification, however, are still debated. Here, we use an atmospheric energy budget to decompose regional precipitation change from climate models under greenhouse-gas forcing into contributions from atmospheric radiative feedbacks, dry-static energy flux divergence changes, and surface sensible heat flux changes. The polar-amplified relative precipitation change is shown to be a consequence of the Planck feedback, which, when combined with larger polar warming, favors substantial atmospheric radiative cooling that balances increases in latent heat release from precipitation. Changes in the dry-static energy flux divergence contribute modestly to the polar-amplified pattern. Additional contributions to the polar-amplified response come, in the Arctic, from the cloud feedback and, in the Antarctic, from both the cloud and water vapor feedbacks. The primary contributor to the intermodel spread in the relative precipitation change in the polar region is also the Planck feedback, with the lapse rate feedback and dry-static energy flux divergence changes playing secondary roles. For all regions, there are strong covariances between radiative feedbacks and changes in the dry-static energy flux divergence that impact the intermodel spread. These results imply that constraining regional precipitation change, particularly in the polar regions, will require constraining not only individual feedbacks but also the covariances between radiative feedbacks and atmospheric energy transport.

Bonan, David B. (ORCID:0000000338676009)↗

Characterization of SARS-CoV-2 Omicron BA.2.75 clinical isolates

The prevalence of the Omicron subvariant BA.2.75 rapidly increased in India and Nepal during the summer of 2022, and spread globally. However, the virological features of BA.2.75 are largely unknown. Here, we evaluated the replicative ability and pathogenicity of BA.2.75 clinical isolates in Syrian hamsters. Although we found no substantial differences in weight change among hamsters infected with BA.2, BA.5, or BA.2.75, the replicative ability of BA.2.75 in the lungs is higher than that of BA.2 and BA.5. Of note, BA.2.75 causes focal viral pneumonia in hamsters, characterized by patchy inflammation interspersed in alveolar regions, which is not observed in BA.5-infected hamsters. Moreover, in competition assays, BA.2.75 replicates better than BA.5 in the lungs of hamsters. These results suggest that BA.2.75 can cause more severe respiratory disease than BA.5 and BA.2 in a hamster model and should be closely monitored.

59 BASIC BIOLOGICAL SCIENCES↗

Multiple-carrier-lifetime model for carrier dynamics in InGaN/GaN LEDs with a non-uniform carrier distribution

Here we introduce a multiple-carrier-lifetime model (MCLM) for light-emitting diodes (LEDs) with non-uniform carrier distribution, such as in multiple-quantum-well (MQW) structures. By employing the MCLM, we successfully explain the modulation response of V-pit engineered MQW LEDs, which exhibit an S 21 roll-off slower than –20 dB/decade. Using the proposed model and employing a gradient descent method, we extract effective recombination and escape lifetimes by averaging the carrier behavior across the quantum wells. Our results reveal slower effective carrier recombination and escape in MQW LEDs compared with LEDs emitting from a single QW, indicating the advantages of lower carrier density achieved through V-pit engineering. Notably, the effective carrier recombination time is more than one order of magnitude lower than the effective escape lifetime, suggesting that most carriers in the quantum wells recombine, while the escape process remains weak. To ensure the reliability and robustness of the MCLM, we subject it to a comprehensive threefold validation process. This work confirms the positive impact of spreading carriers into several quantum wells through V-pit engineering. In addition, the MCLM is applicable to other LEDs with a non-uniform carrier distribution, such as micro-LEDs with significant surface recombination and non-uniform lateral carrier profiles.

42 ENGINEERING↗