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At least 1,099 records · Page 61

Omics-Lethal Human Viruses, MERS-CoV Experiment MMVE001

The purpose of this experiment was to evaluate the human host response to wild-type Middle Eastern Respiratory Syndrome coronavirus (icMERS-CoV) virus infection. Sample data was obtained from human microvascular endothelial cells for mRNA, miRNA, proteomics, lipidomics, and metabolomics expression analysis. Secondary host-associated viral dataset downloads contain one or more statistically processed (normalization data transformation) quantitative dataset collections resulting in qualitative expression analyses of primary host-pathogen experimental study designs. Leveraging unique high-resolution Omics capabilities for proteomics, metabolomics, lipidomics, and transcriptomics dataset downloads each have a direct relationship to a primary sample submission corresponding to a specific MERS-CoV virus infection.

59 BASIC BIOLOGICAL SCIENCES↗

Omics-Lethal Human Viruses, MERS-CoV Experiment MMVE002

The purpose of this experiment was to evaluate the human host response to wild-type Middle Eastern Respiratory Syndrome coronavirus (icMERS-CoV EMC2012) virus infection. Sample data was obtained from primary human fibroblast cells for mRNA, proteomics, lipidomics, and metabolomics expression analysis. Secondary host-associated viral dataset downloads contain one or more statistically processed (normalization data transformation) quantitative dataset collections resulting in qualitative expression analyses of primary host-pathogen experimental study designs. Leveraging unique high-resolution Omics capabilities for proteomics, metabolomics, lipidomics, and transcriptomics dataset downloads each have a direct relationship to a primary sample submission corresponding to a specific MERS-CoV virus infection.

59 BASIC BIOLOGICAL SCIENCES↗

Omics-Lethal Human Viruses, MERS-CoV Experiment MMVE003

The purpose of this experiment was to evaluate the human host response to wild-type Middle Eastern Respiratory Syndrome coronavirus (icMERS-CoV EMC2012) virus infection. Sample data was obtained from human microvascular endothelial cells for mRNA, proteomics, lipidomics, and metabolomics expression analysis. Secondary host-associated viral dataset downloads contain one or more statistically processed (normalization data transformation) quantitative dataset collections resulting in qualitative expression analyses of primary host-pathogen experimental study designs. Leveraging unique high-resolution Omics capabilities for proteomics, metabolomics, lipidomics, and transcriptomics dataset downloads each have a direct relationship to a primary sample submission corresponding to a specific MERS-CoV virus infection.

59 BASIC BIOLOGICAL SCIENCES↗

Selective Enrichment Coupled with Proteomics to Identify S-Acylated Plasma Membrane Proteins in Arabidopsis

Protein S-acylation, predominately in the form of palmitoylation, is a reversible lipid post-translational modification (PTM) on cysteines that plays important roles in protein localization, trafficking, activity, and complex assembly. The functions and regulatory mechanisms of Sacylation have been extensively studied in mammals, owing to remarkable development of the high-resolution proteomics and the discovery of the S-acylation-related enzymes. However, the advance of S-acylation studies in plants lags farther behind than that in mammals, mainly due to the lack of knowledge about proteins responsible for this process, such as protein acyltransferases (PATs) and their substrates. In this article, a systematic protocol to study global S-acylation in Arabidopsis seedlings is described. The procedures are presented in detail, including preparation of Arabidopsis seedlings, enrichment of plasma membrane (PM) proteins, followed by enrichment of S-acylated proteins/peptides based on the acyl-biotin exchange (ABE) method, and large-scale identification of S-acylated proteins/peptides via mass spectrometry. This approach enables researchers to study S-acylation of PM proteins in plants in a systematic and straightforward way. Basic protocol 1: Preparation of Arabidopsis seedling materials Basic protocol 2: Isolation and enrichment of plasma membrane proteins Support protocol 1: Determination of protein concentration using BCA assay Basic Protocol 3: Enrichment of S-acylated proteins by ABE method Support protocol 2: Protein precipitation by methanol/chloroform method Basic Protocol 4: Trypsin digestion and proteomic analysis Alternate protocol 1: Pre-resin digestion and peptide level enrichment.

S-acylation, palmitoylation, plasma membrane prote↗

Sensitivity of 44 Ti and 56 Ni Production in Core-collapse Supernova Shock-driven Nucleosynthesis to Nuclear Reaction Rate Variations

Recent observational advances have enabled high resolution mapping of 44 Ti in core-collapse supernova (CCSN) remnants. Comparisons between observations and models provide stringent constraints on the CCSN mechanism. However, past work has identified several uncertain nuclear reaction rates that influence 44 Ti and 56 Ni production in postprocessing model calculations. We evolved one-dimensional models of 15 M ⊙ , 18 M ⊙ , 22 M ⊙ , and 25 M ⊙ stars from zero age main sequence through CCSN using Modules for Experiments in Stellar Astrophysics and investigated the previously identified reaction rate sensitivities of 44 Ti and 56 Ni production. In this work, we tested the robustness of our results by making various assumptions about the CCSN explosion energy and mass cut. We found a number of reactions that have a significant impact on the nucleosynthesis of 44 Ti and 56 Ni, particularly for lower progenitor masses. Notably, the reaction rates ${}^{13}{\rm{N}}{(\alpha ,p)}^{16}{\rm{O}}$, ${}^{17}{\rm{F}}{(\alpha ,p)}^{20}\mathrm{Ne}$, ${}^{52}\mathrm{Fe}{(\alpha ,p)}^{55}\mathrm{Co}$, ${}^{56}\mathrm{Ni}{(\alpha ,p)}^{59}\mathrm{Cu}$, ${}^{57}\mathrm{Ni}{(n,p)}^{57}\mathrm{Co}$, ${}^{56}\mathrm{Co}{(p,n)}^{56}\mathrm{Ni}$, ${}^{39}{\rm{K}}{(p,\gamma )}^{40}\mathrm{Ca}$, ${}^{47}{\rm{V}}{(p,\gamma )}^{48}\mathrm{Cr}$, ${}^{52}\mathrm{Mn}{(p,\gamma )}^{53}\mathrm{Fe}$, ${}^{57}\mathrm{Co}{(p,\gamma )}^{58}\mathrm{Ni}$, and ${}^{39}{\rm{K}}{(p,\alpha )}^{36}\mathrm{Ar}$ are influential for a large number of model conditions. Furthermore, we found the list of influential reactions identified by previous postprocessing studies of CCSN shock-driven nucleosynthesis is likely incomplete, motivating future larger-scale sensitivity studies.

79 ASTRONOMY AND ASTROPHYSICS↗

Revealing the Atomic Structures of Exposed Lateral Surfaces for Polymorphic Manganese Dioxide Nanowires

Polymorphic 1D MnO 2 nanostructures are widely applied in fields such as catalysis, sensing, and energy storage with the functionality mainly determined by the atomic patterns of their laterally exposed facets, which largely remain unclear so far. Herein, by high‐resolution transmission electron microscopy (HRTEM) imaging directly along their axial directions, the atomic structures of the outmost lateral facets of polymorphic MnO 2 nanowires are disclosed. To generalize the findings, four most commonly seen phases with characteristic tunnel structures are targeted, i.e., β‐, γ‐, α‐, and todorokite(t)‐MnO 2 , which are synthesized conventionally using a hydrothermal method reported in the literature. Axially imaging these MnO 2 nanowires via HRTEM, the {hkl} facets covering the lateral surfaces are accurately indexed, the atomic pattern of each {hkl} facet is revealed, and it is further coupled with the outmost tunnel configuration that can significantly affect the physicochemical property of MnO 2 materials via tunnel‐driven mass adsorption/transport. This work provides a reliable reference for atomic modeling of MnO 2 to benefit the pursuit of its structure–property relationship; in addition, it can benefit surface engineering strategies to better rationalize the facet growth control with optimized functionality.

Yuan, Yifei↗

Dark Matter Search in Pu-241 Beta Decays

Our universe is predominantly composed of mysterious unknowns: Dark Matter (DM) and Dark Energy. DM constitutes approximately 27% of the universe, yet its nature and origins remain elusive. Among the various candidates for dark matter, this project focuses on the search for keV-scale sterile neutrinos. A sterile neutrino is a hypothetical particle that belongs to the neutrino family and may possess a higher mass than ordinary neutrinos. They are considered a compelling warm dark matter candidate if their mass is on the order of kilo-electronvolts. Existence of sterile neutrinos can be investigated via high precision beta spectroscopy. Sterile neutrinos can be produced during nuclear beta decay processes, similar to ordinary active neutrinos, but they uniquely alter the beta decay spectrum. The emission of sterile neutrinos will introduce a distinctive "kink" structure in the middle of the beta spectrum. This project investigated the existence of sterile neutrino dark matter by employing high-precision decay energy spectroscopy of Pu-241 beta decays using magnetic microcalorimeters (MMCs). The Pu-241 source material is embedded within the microcalorimeter detectors, enabling the measurement of full beta decay energies with ultra-high energy resolution. In this project, the most precise Pu-241 spectrum to date was obtained by collecting a total of 1 billion beta decay events in the MMC detectors. This extensive data set allows us to investigate evidence of keV sterile neutrino emission in beta decays with unprecedented sensitivity.

79 ASTRONOMY AND ASTROPHYSICS↗

The Chemical Composition of Extreme-velocity Stars* †

Abstract Little is known about the origin of the fastest stars in the Galaxy. Our understanding of the chemical evolution history of the Milky Way and surrounding dwarf galaxies allows us to use the chemical composition of a star to investigate its origin and to say whether it was formed in situ or was accreted. However, the fastest stars, the hypervelocity stars, are young and massive and their chemical composition has not yet been analyzed. Though it is difficult to analyze the chemical composition of a massive young star, we are well versed in the analysis of late-type stars. We have used high-resolution ARCES/3.5 m Apache Point Observatory, MIKE/Magellan spectra to study the chemical details of 15 late-type hypervelocity star candidates. With Gaia EDR3 astrometry and spectroscopically determined radial velocities we found total velocities with a range of 274–520 km s −1 and mean value of 381 km s −1 . Therefore, our sample stars are not fast enough to be classified as hypervelocity stars, and are what is known as extreme-velocity stars. Our sample has a wide iron abundance range of −2.5 ≤ [Fe/H] ≤ −0.9. Their chemistry indicates that at least 50% of them are accreted extragalactic stars, with iron-peak elements consistent with prior enrichment by sub-Chandrasekhar mass Type Ia supernovae. Without indication of binary companions, their chemical abundances and orbital parameters indicate that they are the accelerated tidal debris of disrupted dwarf galaxies.

Reggiani, Henrique (ORCID:0000000165336179)↗

Athermal phonon collection efficiency in diamond crystals for low mass dark matter detection

Here, we explored the efficacy of lab-grown diamonds as potential target materials for the direct detection of sub-GeV dark matter (DM) using metallic magnetic calorimeters (MMCs). Diamond, with its excellent phononic properties and the low atomic mass of the constituent carbon, can play a crucial role in detecting low mass dark matter particles. The relatively long electron-hole pair lifetime inside the crystal may provide discrimination power between the DM-induced nuclear recoil events and the background-induced electron recoil events. Utilizing the fast response times of the MMCs and their unique geometric versatility, we deployed a novel methodology for quantifying phonon dynamics inside diamond crystals. We demonstrated that lab-grown diamond crystals fabricated via the chemical vapor deposition (CVD) technique can satisfy the stringent quality requirements for sub-GeV dark matter searches. The high-quality polycrystalline CVD diamond showed a superior athermal phonon collection efficiency compared to that of the reference sapphire crystal, and achieved energy resolution 62.7 eV at the 8.05 keV copper fluorescence line. With this energy resolution, we explored the low-energy range below 100 eV and confirmed the existence of so-called low-energy excess (LEE) reported by multiple cryogenic experiments.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Detailed Abundances in the Ultra-faint Magellanic Satellites Carina II and III

We present the first detailed elemental abundances in the ultra-faint Magellanic satellite galaxies Carina II (Car II) and Carina III (Car III). With high-resolution Magellan/MIKE spectroscopy, we determined the abundances of nine stars in Car II, including the first abundances of an RR Lyrae star in an ultra-faint dwarf galaxy (UFD), and two stars in Car III. The chemical abundances demonstrate that both systems are clearly galaxies and not globular clusters. The stars in these galaxies mostly display abundance trends matching those of other similarly faint dwarf galaxies: enhanced but declining [α/Fe] ratios, iron-peak elements matching the stellar halo, and unusually low neutron-capture element abundances. One star displays a low outlying [Sc/Fe] = −1.0. We detect a large Ba scatter in Car II, likely due to inhomogeneous enrichment by low-mass asymptotic giant branch star winds. The most striking abundance trend is for [Mg/Ca] in Car II, which decreases from +0.4 to −0.4 and indicates clear variation in the initial progenitor masses of enriching core-collapse supernovae. So far, the only UFDs displaying a similar [Mg/Ca] trend are likely satellites of the Large Magellanic Cloud. We find two stars with [Fe/H] ≤ −3.5 whose abundances likely trace the first generation of metal-free Population III stars and are well fit by Population III core-collapse supernova yields. An appendix describes our new abundance uncertainty analysis that propagates line-by-line stellar parameter uncertainties.

79 ASTRONOMY AND ASTROPHYSICS↗

Exploring ice sheet model sensitivity to ocean thermal forcing and basal sliding using the Community Ice Sheet Model (CISM)

Abstract. Multi-meter sea level rise (SLR) is thought to be possible within the next few centuries, with most of the uncertainty originating from the Antarctic land ice contribution. One source of uncertainty relates to the ice sheet model initialization. Since ice sheets have a long response time (compared to other Earth system components such as the atmosphere), ice sheet model initialization methods can have significant impacts on how the ice sheet responds to future forcings. To assess this, we generated 25 different ice sheet spin-ups, using the Community Ice Sheet Model (CISM) at a 4 km resolution. During each spin-up, we varied two key parameters known to impact the sensitivity of the ice sheet to future forcing: one related to the sensitivity of the ice shelf melt rate to ocean thermal forcing (TF) and the other related to the basal friction. The spin-ups all nudge toward observed thickness and enforce a no-advance calving criterion, such that all final spin-up states resemble observations but differ in their melt and friction parameter settings. Each spin-up was then forced with future ocean thermal forcings from 13 different CMIP6 models under the Shared Socioeconomic Pathway (SSP)5-8.5 emissions scenario and modern climatological surface mass balance data. Our results show that the effects of the ice sheet and ocean parameter settings used during the spin-up are capable of impacting multi-century future SLR predictions by as much as 2 m. By the end of this century, the effects of these choices are more modest, but still significant, with differences of up to 0.2 m of SLR. We have identified a combined ocean and ice parameter space that leads to widespread mass loss within 500 years (low friction and high melt rate sensitivity). To explore temperature thresholds, we also ran a synthetically forced CISM ensemble that is focused on the Amundsen region only. Given certain ocean and ice parameter choices, Amundsen mass loss can be triggered with thermal forcing anomalies between 1.5 and 2 ∘C relative to the spin-up. Our results emphasize the critical importance of considering ice sheet and ocean parameter choices during spin-up for SLR predictions and suggest the importance of including glacial isostatic adjustment in ice sheet simulations.

54 ENVIRONMENTAL SCIENCES↗

CO 2 –Based Dual–Tone Resists for Electron Beam Lithography

The increasing global environmental and energy crisis has urgently motivated the advancement of sustainable materials. Significant effort has been focused on developing new materials to replace the fossil-based resists in the semiconductor industry based on greener sources such as ice, dry ice, small organic molecules, and proteins. Such resist materials, however, have yet to meet the stringent requirements of high sensitivity, high resolution, reliable repeatability, and good compatibility with the current protocols. To this end, CO 2 -based polycarbonates (CO 2 -PCs) obtained from the copolymerization of CO 2 and epoxides are demonstrated as sustainable dual-tone (positive & negative tone) resists for electron beam lithography. By adjusting the chemical structure, developing agent, and molecular weight, the CO 2 -PCs present high sensitivities to electron beam (1.3/120 μC cm -2 ), narrow critical dimensions (29/58 nm), and moderate line edge roughness (4.6/26.7 nm) for negative and positive resists, respectively. Here, a deep understanding of the exposure mechanism of CO 2 -PC resists is provided on the basis of the Fourier transform infrared, Raman, and electron ionization mass spectroscopy. 2D photonic crystal devices are fabricated using the negative and positive CO 2 -PC resists, respectively, and both devices show distinct colors derived from their well-defined nanostructures, indicating the great practical potential of CO 2 -derived electron beam resists.

nanofabrication↗

Improvements to the macroscopic-microscopic approach of nuclear fission

The well-established macroscopic-microscopic (mac-mic) description of nuclear fission enables the prediction of fission-fragment yields for a broad range of fissioning systems. In this work, we present several key enhancements to this approach. We improve upon the microscopic sector of nuclear potential-energy surfaces by magnifying the resolution of the Lipkin-Nogami equations and strengthening the Strutinsky procedure, thus reducing spurious effects from the continuum. We further present a novel deterministic method for calculating fission dynamics under the assumption of strongly damped nucleonic motion. Our technique directly determines the evolution of the scissioned shape distribution according to the number of random-walk steps rather than the statistical accumulation of fission events. We show that our new technique is equivalent to the Metropolis random walk pioneered over the past decade by Randrup and colleagues. It further improves upon it because we remove the need for altering the nuclear landscape via a biased potential. With our final improvement, we calculate fission fragments mass and charge distributions using particle number projection, which affords the simultaneous calculation of both mass- and charge-yield distributions. Fission fragments are thus calculated from the quantum-mechanical A -body states of the potential-energy surface rather than from the collective mass asymmetry variable α g of the finite-range liquid-drop model used in past work. We highlight the success of our enhancements by predicting the odd-even staggering and the charge polarization for the neutron-induced fission of 233 U and 235 U .

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

New constraints on warm dark matter from the Lyman- α forest power spectrum

The forest of Lyman-α absorption lines detected in the spectra of distant quasars encodes information on the nature and properties of dark matter and the thermodynamics of diffuse baryonic material. Its main observable—the 1D flux power spectrum (FPS)—should exhibit a suppression on small scales and an enhancement on large scales in warm dark matter (WDM) cosmologies compared to standard Λ⁢CDM. Here, we present an unprecedented suite of 1080 high-resolution cosmological hydrodynamical simulations run with the graphics processing unit-accelerated code cholla to study the evolution of the Lyman-α forest under a wide range of physically motivated gas thermal histories along with different free-streaming lengths of WDM thermal relics in the early Universe. A statistical comparison of synthetic data with the forest FPS measured down to the smallest velocity scales ever probed at redshifts 4.0≲z≲5.2 [E. Boera et al., Revealing reionization with the thermal history of the intergalactic medium: New constraints from the Ly⁢α flux power spectrum, Astrophys. J. 872, 101 (2019)] yields a lower-limit m WDM >3.1 keV (95% C.L.) for the WDM particle mass and constrains the amplitude and spectrum of the photoheating and photoionizing background produced by star-forming galaxies and active galactic nuclei at these redshifts. Interestingly, our Bayesian inference analysis appears to weakly favor WDM models with a peak likelihood value at the thermal relic mass of m WDM =4.5 keV. In conclusion, we find that the suppression of the FPS from free-streaming saturates at k≳0.1 s km -1 because of peculiar velocity smearing, and this saturated suppression combined with a slightly lower gas temperature provides a moderately better fit to the observed small-scale FPS for WDM cosmologies.

79 ASTRONOMY AND ASTROPHYSICS↗

CROCUS Air Quality Data at Argonne National Laboratory Prairie Site

The AQT (Vaisala AQT530) instrument provides observations on meteorological conditions, including particulate matter (PM2.5, PM10), gas species concentrations (NO, NO2, O3, CO), and environment temperature and moisture. These measurements are critical for understanding air quality. These measurements are useful for understanding changes in aerosol properties, air quality research, and comparing to model experiments especially in urban environments. These measurements are collected at the Argonne Testbed for Multiscale Observational Science (ATMOS), a prairie field site at Argonne National Laboratory in Lemont, Illinois. Data is available in the netCDF data format, we encourage data users review documentation through Project Pythia to understand how to work with netCDF data https://foundations.projectpythia.org/core/data-formats/netcdf-cf.html. Each file contains one day's worth of data (24 hours, starting at 0000 UTC). The data is aggregated into daily frequency to make it easier to process multiple days, and compress the higher-resolution fields. File naming convention includes the project (CROCUS), location (atmos), data level (raw, a1), date (year, month, day), and hour (0000).

54 ENVIRONMENTAL SCIENCES↗

Demonstration and performance testing of extreme-resolution simulations with static meshes on Summit (CPU & GPU) for a parked-turbine configuration and an actuator-line (mid-fidelity model) wind farm configuration (ECP-Q4 FY2020 Milestone Report)

The goal of the ExaWind project is to enable predictive simulations of wind farms comprised of many megawatt-scale turbines situated in complex terrain. Predictive simulations will require computational fluid dynamics (CFD) simulations for which the mesh resolves the geometry of the turbines and captures the rotation and large deflections of blades. Whereas such simulations for a single turbine are arguably petascale class, multi-turbine wind farm simulations will require exascale-class resources. The primary physics codes in the ExaWind simulation environment are Nalu-Wind, an unstructured-grid solver for the acoustically incompressible Navier-Stokes equations, AMR-Wind, a block-structured-grid solver with adaptive mesh refinement capabilities, and OpenFAST, a wind-turbine structural dynamics solver. The Nalu-Wind model consists of the mass-continuity Poisson-type equation for pressure and Helmholtz-type equations for transport of momentum and other scalars. For such modeling approaches, simulation times are dominated by linear-system setup and solution for the continuity and momentum systems. For the ExaWind challenge problem, the moving meshes greatly affect overall solver costs as reinitialization of matrices and recomputation of preconditioners is required at every time step. The choice of overset-mesh methodology to model the moving and non-moving parts of the computational domain introduces constraint equations in the elliptic pressure-Poisson solver. The presence of constraints greatly affects the performance of algebraic multigrid preconditioners.

17 WIND ENERGY↗

Omics-Lethal Human Viruses, Influenza A Experiment ICL102

The purpose of this experiment was to evaluate the human host cellular response to wild-type Influenza A/Anhui/1/2013 (H7N9; "AH1-WT") virus and mutant viruses NS1-L103F/I106M ("AH1-F/M") and partially ferret-adapted ("AH1-691") infection. Sample data was obtained from human lung adenocarcinoma cells (Calu-3) and processed for mRNA, miRNA, proteomics, lipidomics, and metabolomics expression analysis. Secondary host-associated viral dataset downloads contain one or more statistically processed (normalization data transformation) quantitative dataset collections resulting in qualitative expression analyses of primary host-pathogen experimental study designs. Leveraging unique high-resolution Omics capabilities for proteomics, metabolomics, lipidomics, and transcriptomics dataset download each have a direct relationship to a primary sample submission corresponding to a specific Influenza A virus infection.

59 BASIC BIOLOGICAL SCIENCES↗

Omics-Lethal Human Viruses, Influenza A Experiment ICL103

The purpose of this experiment was to evaluate the human host response to Influenza A wild-type (H5N1) virus and mutant viruses. Sample data was obtained for human lung adenocarcinoma cell line (Calu-3) infected with WT Influenza A/Vietnam/1203/2004 (H5N1, VN1203) and mutant viruses PB2-K627E and NS1-trunc124 for mRNA, miRNA, proteomics, lipidomics, and metabolomics data analysis. Secondary host-associated viral dataset downloads contain one or more statistically processed (normalization data transformation) quantitative dataset collections resulting in qualitative expression analyses of primary host-pathogen experimental study designs. Leveraging unique high-resolution Omics capabilities for proteomics, metabolomics, lipidomics, and transcriptomics dataset download each have a direct relationship to a primary sample submission corresponding to a specific Influenza A virus infection.

59 BASIC BIOLOGICAL SCIENCES↗