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DOE OSTI2021

Biodiversity and Global Health: Intersection of Health, Security, and the Environment

One of the biggest consequences of large-scale environmental change is the loss of biodiversity. Recent studies predict a loss of 1 million species in the near future. Biodiversity loss and land use change through anthropogenic disturbance are known to affect disease exposure, disease severity, and disease impacts. It is becoming increasingly clear that biodiversity loss will lead to an increase in infectious diseases in certain regions. Changes in biodiversity may contain important signatures for prediction of infectious diseases and outbreaks. Here, we argue that areas of high or rapid biodiversity loss will be critical to monitor under the umbrella of global health security. Global Health Security consists of the actions and activities required to reduce the impact of public health events in populations living in different geographic regions and across international borders. Like infectious diseases, climate change and other causes of environmental changes do not respect international borders and are becoming more widespread in all parts of the world. Here, the relationships among biodiversity, climate and environmental changes, and pathogen prevalence are dynamic, context dependent, and complex. Accounting for this complexity requires the inclusion of the environment sector, presently missing, when evaluating the potential of global health security actions for mitigating disease risks.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2021

Biosurfactant production by halophilic yeasts isolated from extreme environments in Botswana

ABSTRACT Nine morphologically distinct halophilic yeasts were isolated from Makgadikgadi and Sua pans, as pristine and extreme environments in Botswana. Screening for biosurfactant production showed that Rhodotorula mucilaginosa SP6 and Debaryomyces hansenii MK9 exhibited the highest biosurfactant activity using Xanthocercis zambesiaca seed powder as a novel and alternative inexpensive carbon substrate. Chemical characterization of the purified biosurfactants by Fourier Transform Infra-Red spectroscopy suggested that the biosurfactant from R. mucilaginosa SP6 was a rhamnolipid-type whereas the biosurfactant from D. hansenii MK9 was a sophorolipid-type. The two biosurfactants exhibited antimicrobial activities against eight pathogenic bacteria and fungal strains (Proteus vulgaris, Escherichia coli, Klebsiella pneumoniae, Staphylococcus aureus, Micrococcus luteus, Cryptococcus neoformans, Candida albicans and Aspergilus niger). The sophorolopid-type biosurfactant was found to be the most potent among the antimicrobial drug resistant strains tested. The findings open up prospects for the development of environmentally friendly antimicrobial drugs that use an inexpensive source of carbon to reduce the costs associated with the production of biosurfactants.

Loeto, Daniel↗

DOE OSTI2021

The large-scale environment of thermonuclear and core-collapse supernovae

ABSTRACT The new generation of wide-field time-domain surveys has made it feasible to study the clustering of supernova (SN) host galaxies in the large-scale structure (LSS) for the first time. We investigate the LSS environment of SN populations, using 106 dark matter density realisations with a resolution of ∼3.8 Mpc, constrained by the 2M+ + galaxy survey. We limit our analysis to redshift z < 0.036, using samples of 498 thermonuclear and 782 core-collapse SNe from the Zwicky Transient Facility’s Bright Transient Survey and Census of the Local Universe catalogues. We detect clustering of SNe with high significance; the observed clustering of the two SNe populations is consistent with each other. Further, the clustering of SN hosts is consistent with that of the Sloan Digital Sky Survey (SDSS) Baryon Oscillation Spectroscopic Survey DR12 spectroscopic galaxy sample in the same redshift range. Using a tidal shear classifier, we classify the LSS into voids, sheets, filaments, and knots. We find that both SNe and SDSS galaxies are predominantly found in sheets and filaments. SNe are significantly under-represented in voids and over-represented in knots compared to the volume fraction in these structures. This work opens the potential for using forthcoming wide-field deep SN surveys as a complementary LSS probe.

Astronomy & Astrophysics↗

DOE OSTI2021

Type Ia supernova magnitude step from the local dark matter environment

ABSTRACT Residuals in the Hubble diagram at optical wavelengths and host galaxy stellar mass are observed to correlate in type Ia supernovae (SNe Ia) (‘magnitude step’). Among possible progenitor channels for the associated explosions, those based on dark matter (DM) have attracted significant attention, including our recent proposal that ‘normal’ SNe Ia from bare detonations in sub-Chandrasekhar white dwarf stars are triggered by the passage of asteroid-mass primordial black holes (PBHs): the magnitude step could then originate from a brightness dependence on stellar properties, on DM properties, or both. Here, we present a method to estimate the local DM density and velocity dispersion of the environment of SN Ia progenitors. We find a luminosity step of $0.52\pm 0.11\,$ mag corresponding to bins of high versus low DM density in a sample of 222 low-redshift events from The Open Supernova Catalog. We investigate whether the magnitude step can be attributed to local DM properties alone, assuming asteroid-mass PBHs. Given the inverse correlation between SN Ia brightness and PBH mass, an intriguing explanation is a spatially inhomogeneous PBH mass function. If so, a strong mass segregation in the DM density-dependent PBH mass scale is needed to explain the magnitude step. While mass segregation is observed in dense clusters, it is unlikely to be realized on galactic scales. Therefore, if DM consists of asteroid-mass PBHs, the magnitude step is more likely to exist, and dominantly to be attributed to local stellar properties.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2021

Resolved H i in two ultra-diffuse galaxies from contrasting non-cluster environments

ABSTRACT We report on the first resolved H i observations of two blue ultra-diffuse galaxies (UDGs), using the Giant Metrewave Radio Telescope (GMRT). These observations add to the so-far limited number of UDGs with resolved H i data. The targets are from contrasting non-cluster environments: UDG-B1 is projected in the outskirts of Hickson Compact Group 25 and Secco-dI-2 (SdI-2) is an isolated UDG. These UDGs also have contrasting effective radii with Re of 3.7 kpc (similar to the Milky Way) and 1.3 kpc, respectively. SdI-2 has an unusually large $\frac{M_{\rm H\,{\small I}}}{M_*}$ ratio = 28.9, confirming a previous single dish H i observation. Both galaxies display H i morphological and kinematic signatures consistent with a recent tidal interaction, which is also supported by observations from other wavelengths, including optical spectroscopy. Within the limits of the observations’ resolution our analysis indicates that SdI-2 is dark matter dominated within its H i radius and this is also likely to be the case for UDG-B1. Our study highlights the importance of high spatial and spectral resolution H i observations for the study of the dark matter properties of UDGs.

Scott, T. C.↗

DOE OSTI2022

The impact of environment on the lives of disc galaxies as revealed by SDSS-IV MaNGA

Environment has long been known to have significant impact on the evolution of galaxies, but here we seek to quantify the subtler differences that might be found in disc galaxies, depending on whether they are isolated, the most massive galaxy in a group (centrals), or a lesser member (satellites). The MaNGA survey allows us to define a large mass-matched sample of 574 galaxies with high-quality integrated spectra in each category. Initial examination of their spectral indices indicates significant differences, particularly in low-mass galaxies. Semi-analytic spectral fitting of a full chemical evolution model to these spectra confirms these differences, with low-mass satellites having a shorter period of star formation and chemical enrichment typical of a closed box, while central galaxies have more extended histories, with evidence of ongoing gas accretion over their lifetimes. The derived parameters for gas infall time-scale and wind strength suggest that low-mass satellite galaxies have their hot haloes of gas effectively removed, while central galaxies retain a larger fraction of gas than isolated galaxies due to the deeper group potential well in which they sit. S0 galaxies form a distinct subset within the sample, particularly at higher masses, but do not bias the inferred lower mass environmental impact significantly. The consistent picture that emerges underlines the wealth of archaeological information that can be extracted from high-quality spectral data using techniques like semi-analytic spectral fitting.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2023

SN 2022ann: a Type Icn supernova from a dwarf galaxy that reveals helium in its circumstellar environment

Here, we present optical and near-infrared (NIR) observations of the Type Icn supernova (SN Icn) 2022ann, the fifth member of its newly identified class of SNe. Its early optical spectra are dominated by narrow carbon and oxygen P-Cygni features with absorption velocities of ∼800 km s −1 ; slower than other SNe Icn and indicative of interaction with a dense, H/He-poor circumstellar medium (CSM) that is outflowing slower than typical Wolf–Rayet wind velocities of >1000 km s −1 . We identify helium in NIR spectra 2 weeks after maximum and in optical spectra at 3 weeks, demonstrating that the CSM is not fully devoid of helium. Unlike other SNe Icn, the spectra of SN 2022ann never develop broad features from SN ejecta, including in the nebular phase. Compared to other SNe Icn, SN 2022ann has a low luminosity (o-band absolute magnitude of ∼−17.7), and evolves slowly. The bolometric light curve is well-modelled by 4.8 M ⊙ of SN ejecta interacting with 1.3 M ⊙ of CSM. We place an upper limit of 0.04 M ⊙ of 56 Ni synthesized in the explosion. The host galaxy is a dwarf galaxy with a stellar mass of 10 7.34 M ⊙ (implied metallicity of log(Z/Z ⊙ ) ≈ 0.10) and integrated star-formation rate of log (SFR) = −2.20 M ⊙ yr −1 ; both lower than 97 per cent of galaxies observed to produce core-collapse supernovae, although consistent with star-forming galaxies on the galaxy Main Sequence. The low CSM velocity, nickel and ejecta masses, and likely low-metallicity environment disfavour a single Wolf–Rayet progenitor star. Instead, a binary companion is likely required to adequately strip the progenitor and produce a low-velocity outflow.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2023

The haloes and environments of nearby galaxies ( HERON ) – III. A 45-kpc spiral structure in the GLSB galaxy UGC 4599

ABSTRACT We use a 0.7-m telescope in the framework of the Halos and Environments of Nearby Galaxies (HERON) survey to probe low surface brightness (LSB) structures in nearby galaxies. One of our targets, UGC 4599, is usually classified as an early-type galaxy surrounded by a blue ring making it a potential Hoag’s Object analogue. Prior photometric studies of UGC 4599 were focused on its bright core and the blue ring. However, the HERON survey allows us to study its faint extended regions. With an 8-h integration, we detect an extremely faint outer disc with an extrapolated central surface brightness of μ0, d(r) = 25.5 mag arcsec−2 down to 31 mag arcsec−2 and a scale length of 15 kpc. We identify two distinct spiral arms of pitch angle ∼6○ surrounding the ring. The spiral arms are detected out to ∼45 kpc in radius and the faint disc continues to ∼70 kpc. These features are also seen in the GALEX far- and near-ultraviolet bands, in a deep u-band image from the 4.3-m Lowell Discovery Telescope (which reveals inner spiral structure emerging from the core), and in H i. We compare this galaxy to ordinary spiral and elliptical galaxies, giant low surface brightness (GLSB) galaxies, and Hoag’s Object itself using several standard galaxy scaling relations. We conclude that the pseudo-bulge and disc properties of UGC 4599 significantly differ from those of Hoag’s Object and of normal galaxies, pointing toward a GLSB galaxy nature and filamentary accretion of gas to generate its outer disc.

Astronomy & Astrophysics↗

DOE OSTI2025

QUOKKA-based understanding of outflows (QED) – III. Outflow loading and phase structure as a function of galactic environment

ABSTRACT We present results from a suite of 3D high-resolution hydrodynamic simulations of supernova-driven outflows from galactic disc regions with a range of gas surface density, metallicity, and supernova scale height. We use this suite to quantify how outflow properties – particularly the loading factors for mass, metallicity, and energy – vary with these parameters. We find that the winds fall into three broad categories: steady and hot, multiphase and moderately bursty, and cool and highly bursty. The first of these is characterized by efficient metal and energy loading but weak mass loading, the second by moderate loading of mass, metals, and energy, and the third by negligible metal and energy loading but substantial mass loading. The most important factor in determining the kind of wind a galaxy will produce is the ratio of supernova to gas scale heights, with the latter set by a combination of supernova rate, metallicity-dependent cooling rate, and the gravitational potential. These often combine in counterintuitive ways – for example increased cooling causes cold clouds to sink into the galactic midplane more rapidly, lowering the volume-filling factor of dense gas and making the environment more favourable for strong winds. Our findings suggest that the nature of galactic winds is likely highly sensitive to phenomena such as runaway stars occurring at a large height and dense gas and are poorly captured in most simulations, and that metal loading factors for type Ia supernovae may be substantially larger than those for type II, with important implications for galactic chemical evolution.

Vijayan, Aditi (ORCID:0000000277142379)↗

DOE OSTI2022

Radon-222 Charcoal Canister Steady State Model Calibrations Performed in a Highly Controlled Environmental Chamber and a Natural Indoor Environment

Charcoal canisters are a common method of 222 Rn screening. The calibrations of different batches of activated charcoal used in different canister designs are typically performed in large volume controlled environmental chambers with known and controlled radon concentration, temperature, and humidity. Radon screening could be facilitated in locations without ready access to environmental chambers if canisters could be accurately calibrated and undergo quality control in less controlled environments. This study compares charcoal canister calibrations from a highly controlled radon chamber with calibrations from a basement storage area experiencing temporally varying radon. In addition, the impacts of exposure time and spectral region of interest selection on calibration accuracy are investigated by comparing calibrations calculated using three different choices. Approximately 30 mo after calibrations were completed, groups of canisters were exposed for different durations of time to investigate measurement accuracy and calibration validity over an extended time. A digital simulation of charcoal canister kinetics was also performed to establish limits on how stable radon must be in a space for equilibrium-based calibration to be performed there. Overall, the accuracy of measurements using calibrations from each space differed by less than 10% after 2 d exposure time, showing that carefully controlled conditions are not necessary for the accurate calibration of charcoal canisters. Furthermore, measurement accuracy differed by less than 2% for different spectral region selections. Accuracy improved slightly with canister exposure duration. Simulations suggest that radon instability is most tolerable near the beginning of canister calibration exposures, but this merits further experimental study.

07 ISOTOPE AND RADIATION SOURCES↗

DOE OSTI2021

GW band structure of monolayer MoS 2 using the SternheimerGW method and effect of dielectric environment

Monolayers of transition-metal dichalcogenides (TMD) hold great promise as future nanoelectronic and optoelectronic devices. An essential feature for achieving high device performance is the use of suitable supporting substrates, which can affect the electronic and optical properties of these two-dimensional (2D) materials. Here, we perform many-body GW calculations using the SternheimerGW method to investigate the quasiparticle band structure of monolayer MoS 2 subject to an effective dielectric screening model, which is meant to approximately describe substrate polarization in real device applications. We show that, within this model, the dielectric screening has a sizeable effect on the quasiparticle band gap, for example the gap renormalization is as large as 250 meV for MoS 2 with model screening corresponding to SiO 2 . Within the G 0 W 0 approximation, we also find that the inclusion of the effective screening induces a direct band gap, in contrast to the unscreened monolayer. We also find that the dielectric screening induces an enhancement of the carrier effective masses by as much as 27% for holes, shifts plasmon satellites, and redistributes quasiparticle weight. Our results highlight the importance of the dielectric environment in the design of 2D TMD-based devices.

36 MATERIALS SCIENCE↗

DOE OSTI2021

Active matter shepherding and clustering in inhomogeneous environments

Here, we consider a mixture of active and passive run-and-tumble disks in an inhomogeneous environment where only half of the sample contains quenched disorder or pinning. The disks are initialized in a fully mixed state of uniform density. We identify several distinct dynamical phases as a function of motor force and pinning density. At high pinning densities and high motor forces, there is a two-step process initiated by a rapid accumulation of both active and passive disks in the pinned region, which produces a large density gradient in the system. This is followed by a slower species phase separation process where the inactive disks are shepherded by the active disks into the pin-free region, forming a nonclustered fluid and producing a more uniform density with species phase separation. For higher pinning densities and low motor forces, the dynamics becomes very slow and the system maintains a strong density gradient. For weaker pinning and large motor forces, a floating clustered state appears, and the time-averaged density of the system is uniform. We illustrate the appearance of these phases in a dynamic phase diagram.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2022

Eavesdropping on the Decohering Environment: Quantum Darwinism, Amplification, and the Origin of Objective Classical Reality

“How much information about a system S can one extract from a fragment F of the environment E that decohered it?” is the central question of Quantum Darwinism. To date, most answers relied on the quantum mutual information of SF, or on the Holevo bound on the channel capacity of F to communicate the classical information encoded in S. Furthermore, these are reasonable upper bounds on what is really needed but much harder to calculate—the accessible information in the fragment F about S. We consider a model based on imperfect c-not gates where all the above can be computed, and discuss its implications for the emergence of objective classical reality. We find that all relevant quantities, such as the quantum mutual information as well as various bounds on the accessible information exhibit similar behavior. In the regime relevant for the emergence of objective classical reality this includes scaling independent of the quality of the imperfect c-not gates or the size of E, and even nearly independent of the initial state of S.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2023

Classifying Topology in Photonic Heterostructures with Gapless Environments

Photonic topological insulators exhibit bulk-boundary correspondence, which requires that boundary-localized states appear at the interface formed between topologically distinct insulating materials. However, many topological photonic devices share a boundary with free space, which raises a subtle but critical problem as free space is gapless for photons above the light line. Here, we use a local theory of topological materials to resolve bulk-boundary correspondence in heterostructures containing gapless materials and in radiative environments. In particular, we construct the heterostructure’s spectral localizer, a composite operator based on the system’s real-space description that provides a local marker for the system’s topology and a corresponding local measure of its topological protection; both quantities are independent of the material’s bulk band gap (or lack thereof). Moreover, we show that approximating radiative outcoupling as material absorption overestimates a heterostructure’s topological protection. Importantly, as the spectral localizer is applicable to systems in any physical dimension and in any discrete symmetry class (i.e., any Altland-Zirnbauer class), our results show how to calculate topological invariants, quantify topological protection, and locate topological boundary-localized resonances in topological materials that interface with gapless media in general.

77 NANOSCIENCE AND NANOTECHNOLOGY↗

DOE OSTI2025

Investigating the effects of local environment on nitrogen vacancies in high-entropy metal nitrides

High-entropy metal nitrides are an important material class in a variety of applications, and the role of nitrogen vacancies is of great importance for understanding their stability and mechanical properties. Here, we study six different high-entropy nitrides with eight different metal species to build a predictive model of the nitrogen-vacancy formation energy. We construct sets of supercells that maximize the number of unique nitrogen environments for a given chemistry, and then use density-functional theory to calculate the energy density for all nitrogen sites, and the vacancy formation energies for the highest, lowest, and a median subset based on the energy densities. The energy density of nitrogen sites correlates with the vacancy formation energies, for binary, ternary, and high-entropy nitrides. A linear regression model predicts the vacancy formation energies using only the nearest-neighbor composition; across our eight metals, we find the largest vacancy formation energies next to Hf, then Zr, Ti, V, Cr, Ta, Nb, and the lowest near Mo. Additionally, we see that binary nitride data show qualitatively similar vacancy formation energy trends for high-entropy nitrides; however, the binary data alone are insufficient to predict the complex nitride behavior. Our model is both predictive and easily interpretable, and correlates with experimental data.

DeSilva, Charith R. [Univ. of Illinois at Urbana-C↗

DOE OSTI2020

In situ temperature profile measurements with high-energy X-rays as a probe of optical floating zone crystal growth environment

The ability of optical floating zone (OFZ) furnaces to rapidly produce large single crystals of complex emerging materials has had a transformative effect on many scientific fields that require samples of this type. However, the crystal growth process within the OFZ furnace is not well understood owing to the challenges involved in monitoring the high-temperature crystal growth process. Novel beamline-compatible optical furnaces that approximate the inhomogeneous growth environment within an OFZ furnace have been fabricated and tested in high-energy synchrotron beamlines. In this paper, it is demonstrated that temperature profiles can be effectively extracted from powder diffraction data collected on polycrystalline ceramic rods heated at their tip. Furthermore, these measured temperature profiles can be accurately reproduced using a heat-transfer model that accounts for solid-state thermal conduction, partial sample lamp power absorption, convective air cooling and radiative cooling, allowing key thermal parameters such as thermal conductivity to be extracted from experimental data.

36 MATERIALS SCIENCE↗

DOE OSTI2022

Multi-crystal native-SAD phasing at 5 keV with a helium environment

De novo structure determination from single-wavelength anomalous diffraction using native sulfur or phosphorus in biomolecules (native-SAD) is an appealing method to mitigate the labor-intensive production of heavy-atom derivatives and selenomethionyl substitutions. The native-SAD method is particularly attractive for membrane proteins, which are difficult to produce and often recalcitrant to grow into decent-sized crystals. Native-SAD uses lower-energy X-rays to enhance anomalous signals from sulfur or phosphorus. However, at lower energies, the scattering and absorption of air contribute to the background noise, reduce the signals and are thus adverse to native-SAD phasing. We have previously demonstrated native-SAD phasing at an energy of 5 keV in air at the NSLS-II FMX beamline. Here, the use of a helium path developed to reduce both the noise from background scattering and the air absorption of the diffracted X-ray beam are described. The helium path was used for collection of anomalous diffraction data at 5 keV for two proteins: thaumatin and the membrane protein TehA. Although anomalous signals from each individual crystal are very weak, robust anomalous signals are obtained from data assembled from micrometre-sized crystals. The thaumatin structure was determined from 15 microcrystals and the TehA structure from 18 microcrystals. These results demonstrate the usefulness of a helium environment in support of native-SAD phasing at 5 keV.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2021

Performance Profile of Transformer Fine-Tuning in Multi-GPU Cloud Environments

The study presented here focuses on performance characteristics and trade-offs associated with running machine-learning tasks in multi-GPU environments on both on-site cloud computing resources and commercial cloud services (Azure). Specifically, this study examines these tradeoffs by examining the performance of training and fine-tuning of transformer-based deep-learning (DL) networks on clinical notes and data, a task of critical importance in the medical domain. To this end, we perform DL-related experiments on the widely deployed NVIDIA V100 GPUs and on the newer A100 GPUs connected via NVLink or PCIe. This study analyzes the execution time of major operations to train DL models and investigate popular options to optimize each of them. We examine and present the findings on the impacts that various operations (e.g. data loading into GPUs, training, fine-tuning), optimizations, and system configurations (single vs. multi-GPU, NVLink vs. PCIe) have on the overall training performance.

Begoli, Edmon↗