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DOE OSTI2023

Virus diversity and activity is driven by snowmelt and host dynamics in a high-altitude watershed soil ecosystem

Background: Viruses impact nearly all organisms on Earth, including microbial communities and their associated biogeochemical processes. In soils, highly diverse viral communities have been identified, with a global distribution seemingly driven by multiple biotic and abiotic factors, especially soil temperature and moisture. However, our current understanding of the stability of soil viral communities across time and their response to strong seasonal changes in environmental parameters remains limited. Here, we investigated the diversity and activity of environmental soil DNA and RNA viruses, focusing especially on bacteriophages, across dynamics’ seasonal changes in a snow-dominated mountainous watershed by examining paired metagenomes and metatranscriptomes. Results: We identified a large number of DNA and RNA viruses taxonomically divergent from existing environmental viruses, including a significant proportion of fungal RNA viruses, and a large and unsuspected diversity of positive single-stranded RNA phages ( Leviviricetes ), highlighting the under-characterization of the global soil virosphere. Among these, we were able to distinguish subsets of active DNA and RNA phages that changed across seasons, consistent with a “seed-bank” viral community structure in which new phage activity, for example, replication and host lysis, is sequentially triggered by changes in environmental conditions. At the population level, we further identified virus-host dynamics matching two existing ecological models: “Kill-The-Winner” which proposes that lytic phages are actively infecting abundant bacteria, and “Piggyback-The-Persistent” which argues that when the host is growing slowly, it is more beneficial to remain in a dormant state. The former was associated with summer months of high and rapid microbial activity, and the latter with winter months of limited and slow host growth. Conclusion: Taken together, these results suggest that the high diversity of viruses in soils is likely associated with a broad range of host interaction types each adapted to specific host ecological strategies and environmental conditions. As our understanding of how environmental and host factors drive viral activity in soil ecosystems progresses, integrating these viral impacts in complex natural microbiome models will be key to accurately predict ecosystem biogeochemistry.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS1992

A new technique for simultaneous monitoring of electrocardiogram and walking cadence

A new technique for simultaneously recording continuous electrocardiographic (ECG) data and walking step rate (cadence) is described. The ECG and gait signals are recorded on 2 channels of an ambulatory Holter monitor. Footfall is detected using ultrathin, force-sensitive foot switches and is frequency modulated. The footfall signal provides an indication of the subject's activity (walking or standing), as well as the instantaneous walking rate. Twenty-three young and elderly subjects were studied to demonstrate the use of this ECG and gait recorder. High-quality gait signals were obtained in all subjects, and the effects of walking on the electrocardiogram were assessed. Initial investigation revealed the following findings: (1) Although walking rates were similar in young and elderly subjects, the elderly had both decreased heart rate (HR) variability (p < 0.005) and increased cadence variability (p < 0.0001). (2) Overall, there was an inverse relation between HR and cadence variability (r = -0.73). Three elderly subjects with no known cardiac disease had HR and cadence variability similar to those of the young, whereas elderly subjects with history of congestive heart failure were among those with the lowest HR variability and the highest cadence variability. (3) Low-frequency (approximately equal to 0.1 Hz) HR oscillations (frequently observed during standing) persisted during walking in all young subjects. (4) In some subjects, both step rate and HR oscillated at the same low frequency (approximately equal to 0.1 Hz) previously identified with autonomic control of the baroreflex.(ABSTRACT TRUNCATED AT 250 WORDS).

NASA Discipline Cardiopulmonary↗

NASA NTRS2012

Review of Human Cognitive Performance in Spaceflight

Human space exploration is inherently hazardous, particularly for lon g duration (LD) missions (22 days or longer). Maintenance of cognitive functioning is essential, but flight environments pose numerous pote ntial risks to the brain and cognitive performance (eg, radiation, to xins, chronic stress, sleep deprivation, hypercarbia, fluid shifts, h ormone imbalances, and injury). There have been persistent anecdotal reports of cognitive deficits during missions, but an up?-to-date rev iew of the evidence for such changes has remained unavailable. Method s: We identified and reviewed English language publications found via electronic searches in PubMed, PsycInfo, Inspec, the NASA Technical Report Server, and the Defense Technical Information Center, plus rec ursive searches of publication bibliographies. Search terms included the word cognition, cognitive, or performance along with spaceflight, flight, mission, or closely related terms. Results: Inter?-study variability precluded meta?-analysis. Some 32 published studies involving cognitive assessment during spaceflight were identified, involving a total of 110 participants (mean: 3.4 participants per study). The lo ngest?-duration study spanned 438 days, with six additional studies i nvolving flight durations of 90 days, and 11 more studies involved fl ight durations exceeding 21 days. The available evidence failed to st rongly support or refute the existence of cognitive deficits in LD sp aceflight, in part due to inadequate power or control conditions. Evi dence of increased variability in cognitive performance during spacef light, both within and between individuals, was common. Discussion: T hese results represent a negative finding based on small numbers of s ubjects for any given cognitive function. The increased variability within and (particularly) between individuals highlights the potential danger of generalizing from case studies. A mismatch therefore remain s between anecdotal reports describing generalized cognitive slowing, attention and memory problems during missions and the experimental e vidence supporting such deficits. Since a major justification for man ned spaceflight rests with the cognitive flexibility of humans, addit ional studies and further analysis of existing operational data appea rs warranted.

Strangman, Gary↗

NASA NTRS2023

Microbial Adaptation to Spaceflight Is Correlated With Bacteriophage-Encoded Functions

Evidence from the International Space Station suggests microbial populations are rapidly adapting to the spacecraft environment; however, the mechanism of this adaptation is not understood. Bacteriophages are prolific mediators of bacterial adaptation on Earth. Here we survey 245 genomes sequenced from bacterial strains isolated on the International Space Station for dormant (lysogenic) bacteriophages. Our analysis indicates phage-associated genes are significantly different between spaceflight strains and their terrestrial counterparts. Additionally, we identify 283 complete prophages, those that could initiate bacterial lysis and infect additional hosts, of which 21% are novel. These prophage regions encode functions that correlate with increased persistence in extreme environments, such as spaceflight, to include antimicrobial resistance and virulence, DNA damage repair, and dormancy. Our results correlate microbial adaptation in spaceflight to bacteriophage-encoded functions that may impact human health in spaceflight.

Space Biology↗

DOE OSTI2022

Where does the dust deposited over the Sierra Nevada snow come from?

Abstract. Mineral dust contributes up to one-half of surface aerosol loading in spring over the southwestern United States, posing an environmental challenge that threatens human health and the ecosystem. Using self-organizing map (SOM) analysis with dust deposition and flux data from WRF-Chem and Modern-Era Retrospective analysis for Research and Applications, Version 2 (MERRA-2), we identify four typical dust transport patterns across the Sierra Nevada, associated with the mesoscale winds, Sierra barrier jet (SBJ), North Pacific High (NPH), and long-range cross-Pacific westerlies, respectively. We find that dust emitted from the Central Valley is persistently transported eastward, while dust from the Mojave Desert and Great Basin influences the Sierra Nevada during mesoscale transport occurring mostly in winter and early spring. Asian dust reaching the mountain range comes either from the west through straight isobars (cross-Pacific transport) or from the north in the presence of the NPH. Extensive dust depositions are found on the west slope of the mountain, contributed by Central Valley emissions and cross-Pacific remote transport. In particular, the SBJ-related transport produces deposition through landfalling atmospheric rivers, whose frequency might increase in a warming climate.

Huang, Huilin (ORCID:0000000273286738)↗

DOE OSTI2018

Role of Troposphere-Convection-Land Coupling in the Southwestern Amazon Precipitation Bias of the Community Earth System Model version 1 (CESM1)

The Amazon forest plays an important role in the tropical circulation and global water and biogeochemical cycles. However, the common Amazon precipitation biases in global climate models undermine our ability to understand future changes in the Amazon and their global consequences. The Community Earth System Model exhibits a persistent wet season dry bias over the southwestern Amazon. The bias is also characterized by inaccurate diurnal timing and intensity of rainfall events. Analysis of a diverse set of simulations suggests that the bias originates from local processes. A known land model bias in the partitioning of surface energy fluxes is found not to contribute significantly to the rainfall bias. Key model processes are identified to be the low-level divergent circulation controlling horizontal moisture flow and the sensitivity of the modeled deep convection to the lower tropospheric moisture. The lower tropospheric moisture divergence dictates the spatiotemporal distributions of convective precipitation through parameterized entrainment mixing, which generally improves the rainfall diurnal cycle. However, it also limits convective precipitation over the areas with frequent and large-scale divergence in the lower troposphere. The southwestern Amazon is such an area, particularly in the late afternoon, although uncertainty exists in the low-level flow in the simulation and reanalyses. One way to sustain rainfall in the presence of low-level divergence is a convective trigger based on both the moisture and temperature changes by large-scale processes, which is shown to help in reducing the dry bias.

Sakaguchi, Koichi↗

DOE OSTI2025

Environmental life cycle of fentanyl: From the cradle to an unknown grave

The lack of available information on the presence and persistence of fentanyl in the environment is a significant gap in the technical literature. Although the origins of the opioid in the environment are well-known because they follow the same pathways of other drug-related environmental contaminants, the downstream effects of fentanyl in the water supply and its retention in soil are less understood. The characterization of fentanyl and its potential degradation products in complex environmental samples such as soil is severely understudied. Very few articles are available that work to identify fentanyl and its degradation products in complex samples or name the possible hazards that may result from environmental exposure and degradation. Therefore, the objectives were to identify available articles focused on environmental fentanyl and its pathways and highlight quantifiable research or results that included specific degradation products or downstream effects. Research articles focused on fentanyl between 2000 and 2024 were identified and reviewed and then filtered using Boolean search terms for environmental parameters. Various studies have determined that trace levels of fentanyl can be found in a variety of environments, and additional data suggest preferential partitioning into soils from water and long-term persistence. Despite this knowledge, very little data exists on the long-term downstream effects of fentanyl or its analogs. As the chronic effects from low-level fentanyl exposure are currently unknown, this lack of insight brings to the forefront the need for further research to improve our understanding of fentanyl persistence, degradation, and toxicity within the environment.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2015

Persistent human Borna disease virus infection modifies the acetylome of human oligodendroglia cells towards higher energy and transporter levels

Background: Borna disease virus (BDV) is a neurotropic RNA virus persistently infecting mammalian hosts including humans. Lysine acetylation (Kac) is a key protein post-translational modification (PTM). The unexpectedly broad regulatory scope of Kac let us to profile the entire acetylome upon BDV infection. Methods: The acetylome was profiled through stable isotope labeling for cell culture (SILAC)-based quantitative proteomics. The quantifiable proteome was annotated using bioinformatics. Results: We identified and quantified 791 Kac sites in 473 Kac proteins in human BDV Hu-H1-infected and non-infected oligodendroglial (OL) cells. Bioinformatic analysis revealed that BDV infection alters the acetylation of metabolic proteins, membrane-associated proteins and transmembrane transporter activity, and affects the acetylation of several lysine acetyltransferases (KAT). Conclusions: Upon BDV persistence the OL acetylome is manipulated towards higher energy and transporter levels necessary for shuttling BDV proteins to and from nuclear replication sites. - Highlights: • We used SILAC-based proteomics to analyze the acetylome of BDV infected OL cells. • We quantified 791Kac sites in 473 proteins. • Bioinformatic analysis revealed altered acetylation of metabolic proteins et al. • BDV manipulates the OL acetylome towards higher energy and transporter levels. • BDV infection is associated with enriched phosphate-associated metabolic processes.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2020

Building fault detection data to aid diagnostic algorithm creation and performance testing

It is estimated that approximately 4-5% of national energy consumption can be saved through corrections to existing commercial building controls infrastructure and resulting improvements to efficiency. Correspondingly, automated fault detection and diagnostics (FDD) algorithms are designed to identify the presence of operational faults and their root causes. A diversity of techniques is used for FDD spanning physical models, black box, and rule-based approaches. A persistent challenge has been the lack of common datasets and test methods to benchmark their performance accuracy. This article presents a first of its kind public dataset with ground-truth data on the presence and absence of building faults. This dataset spans a range of seasons and operational conditions and encompasses multiple building system types. It contains information on fault severity, as well as data points reflective of the measurements in building control systems that FDD algorithms typically have access to. The data were created using simulation models as well as experimental test facilities, and will be expanded over time.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

DOE OSTI2013

THE IMPORTANCE OF GEOMETRIC EFFECTS IN CORONAL LOOP MODELS

We systematically investigate the effects of geometrical assumptions in one-dimensional (1D) models of coronal loops. Many investigations of coronal loops have been based on restrictive assumptions, including symmetry in the loop shape and heating profile, and a uniform cross-sectional area. Starting with a solution for a symmetric uniform-area loop with uniform heating, we gradually relax these restrictive assumptions to consider the effects of nonuniform area, nonuniform heating, a nonsymmetric loop shape, and nonsymmetric heating, to show that the character of the solutions can change in important ways. We find that loops with nonuniform cross-sectional area are more likely to experience thermal nonequilibrium, and that they produce significantly enhanced coronal emission, compared with their uniform-area counterparts. We identify a process of incomplete condensation in loops experiencing thermal nonequilibrium during which the coronal parts of loops never fully cool to chromospheric temperatures. These solutions are characterized by persistent siphon flows. Their properties agree with observations (Lionello et al.) and may not suffer from the drawbacks that led Klimchuk et al. to conclude that thermal nonequilibrium is not consistent with observations. We show that our 1D results are qualitatively similar to those seen in a three-dimensional model of an active region. Our results suggest that thermal nonequilibrium may play an important role in the behavior of coronal loops, and that its dismissal by Klimchuk et al., whose model suffered from some of the restrictive assumptions we described, may have been premature.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2021

Viability, behavior, and color expression in the offspring of matings between common wall lizard Podarcis muralis color morphs

Abstract Color polymorphisms are widely studied to identify the mechanisms responsible for the origin and maintenance of phenotypic variability in nature. Two of the mechanisms of balancing selection currently thought to explain the long-term persistence of polymorphisms are the evolution of alternative phenotypic optima through correlational selection on suites of traits including color and heterosis. Both of these mechanisms can generate differences in offspring viability and fitness arising from different morph combinations. Here, we examined the effect of parental morph combination on fertilization success, embryonic viability, newborn quality, antipredator, and foraging behavior, as well as inter-annual survival by conducting controlled matings in a polymorphic lacertid Podarcis muralis, where color morphs are frequently assumed to reflect alternative phenotypic optima (e.g., alternative reproductive strategies). Juveniles were kept in outdoor tubs for a year in order to study inter-annual growth, survival, and morph inheritance. In agreement with a previous genome-wide association analysis, morph frequencies in the year-old juveniles matched the frequencies expected if orange and yellow expressions depended on recessive homozygosity at 2 separate loci. Our findings also agree with previous literature reporting higher reproductive output of heavy females and the higher overall viability of heavy newborn lizards, but we found no evidence for the existence of alternative breeding investment strategies in female morphs, or morph-combination effects on offspring viability and behavior. We conclude that inter-morph breeding remains entirely viable and genetic incompatibilities are of little significance for the maintenance of discrete color morphs in P. muralis from the Pyrenees.

Abalos, Javier↗

DOE OSTI2023

Leveraging Application Data Constraints to Optimize Database-Backed Web Applications

Exploiting the relationships among data is a classical query optimization technique. As persistent data is increasingly being created and maintained programmatically, prior work that infers data relationships from data statistics misses an important opportunity. We present Coco, the first tool that identifies data relationships by analyzing database-backed applications. Once identified, Coco leverages the constraints to optimize the application's physical design and query execution. Instead of developing a fixed set of predefined rewriting rules, Coco employs an enumerate-test-verify technique to automatically exploit the discovered data constraints to improve query execution. Each resulting rewrite is provably equivalent to the original query. Using 14 real-world web applications, our experiments show that Coco can discover numerous data constraints from code analysis and improve real-world application performance significantly.

Computer Science↗

NASA NTRS1988

Carbon monoxide over the Amazon Basin during the 1985 dry season

During the Amazon Boundary Layer Experiment, approximately 100 hours of in situ carbon monoxide measurements were obtained using a tunable diode laser sensor that provided continuous, fast-response (about 1 s) measurements. This data set, taken on board the NASA Electra between July 12 and August 12, 1985, characterizes the temporal and spatial changes in the CO distribution over the Amazon Basin as meteorological conditions progressed from the early to middle phases of the 1985 day season. Early dry-season CO values of 75-95 ppbv were generally observed in the PBL. As the dry season became well established, biomass burning and a persistent capping inversion at about 3 km profoundly altered the CO distribution, with PBL values typically reaching 150-275 ppbv. Concentrations as high as 800 ppbv were measured within identifiable haze layers. An analysis of satellite imagery shows that biomass burning was occurring along the Amazon River system and in savannah areas located more than 1000 km south of the region sampled.

Sachse, G. W.↗

DOE OSTI2020

Persistent Protein Motions in a Rugged Energy Landscape Revealed by Normal Mode Ensemble Analysis

Proteins are allosteric machines that couple motions at distinct, often distant, sites to control biological function. Low-frequency structural vibrations are a mechanism of this long-distance connection and are often used computationally to predict correlations, but experimentally identifying the vibrations associated with specific motions has proved challenging. Spectroscopy is an ideal tool to explore these excitations, but measurements have been largely unable to identify important frequency bands. The result is at odds with some previous calculations and raises the question what methods could successfully characterize protein structural vibrations. Here we show the lack of spectral structure arises in part from the variations in protein structure as the protein samples the energy landscape. However, by averaging over the energy landscape as sampled using an aggregate 18.5 μs of all-atom molecular dynamics simulation of hen egg white lysozyme and normal-mode analyses, we find vibrations with large overlap with functional displacements are surprisingly concentrated in narrow frequency bands. These bands are not apparent in either the ensemble averaged vibrational density of states or isotropic absorption. However, in the case of the ensemble averaged anisotropic absorption, there is persistent spectral structure and overlap between this structure and the functional displacement frequency bands. We systematically lay out heuristics for calculating the spectra robustly, including the need for statistical sampling of the protein and inclusion of adequate water in the spectral calculation. The results show the congested spectrum of these complex molecules obscures important frequency bands associated with function and reveal a method to overcome this congestion by combining structurally sensitive spectroscopy with robust normal mode ensemble analysis.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

NASA NTRS1997

Characterization of Ionospheric Flow Patterns During Times of Unusual Auroral Activity Using DE and DMSP Data

This final report describes the work done by Dr. Marc Hairston and Dr. Rod Heelis on NASA SR&T grant NAGW-4411 studying the theta aurora using DE-1 ultraviolet imager data and DMSP particle data. This report covers the period from summer 1995 through summer 1996 along with a review of the previous work. Previous work on this grant looked at the time period from the launch of DMSP-F8 in June 1987 through the end of mission of DE-1 in summer 1991. Despite the sporadic and decreasing frequency of observations from DE-1 over this time period, we were able to identify six events for study where the DE-1 imager observed a theta aurora occurring during a period in which the DMSP-F8 satellite flew through the region of the aurora at an altitude of 800 km. We focused on the best two events where the theta aurora persisted for an extended period so that we could observe the DMSP particle signatures in both the hemisphere observed by DE-1 and in the other polar hemisphere immediately before or afterwards. These results were presented at the Fall 1994 meeting of the AGU. Initially we had hoped to expand on this work. However, further work showed that none of these events gave a clear enough signature in the DMSP data for us to identify a theta aurora in the hemisphere opposite to the hemisphere imaged by DE-1. Without that, there were no results from this work that were new enough to warrant publication. So instead we used the final year of the grant to work with our colleague, J. A. Cumnock on a similar project using DE data to study the evolution of theta auroras as a function of the IMF A paper from that work was published which acknowledged this grant and a copy of that paper is included with this final report.

Hairston, Marc↗

NASA NTRS1973

Mineral exploration and fracture trends in Utah and Nevada, by ERTS-1 imagery

The author has identified the following significant results. Major structural trends have been compiled on five separate maps, at a scale of 1:1,000,000, of Utah and Nevada from ERTS-1 imagery. An arbitrary length of ten kilometers has been chosen as a minimum length of the trends. The selection is based upon: (1) obvious displacement of structures; (2) continuity or persistence of trends across structures; (3) line-up of outcrop patterns, drainage, erosional features or vegetation; and (4) near-linear trends. Several recognizable trend directions have noted, viz., N 10-15 deg W, N 35 deg W, N 80 deg W, N 30 deg E, and E-W. More than 1500 structural trends have been identified, some of which are mineralized and extend into pediment or shallow alluvial cover. Those fracture trends that exhibit mineralization in exposed bedrock will be assayed for mercury content with a soil-gas analyzer and similar collection will be done over alluvial posture blankets by the same technique with the hope of discovering blind mineralized zones that are not exposed on the surface.

Jensen, M. L.↗

DOE OSTI2019

Perspective on identifying and characterizing the processes controlling iron speciation and residence time at the atmosphere-ocean interface

It is well recognized that the atmospheric deposition of iron (Fe) affects ocean productivity, atmospheric CO 2 uptake, ecosystem diversity, and overall climate. Despite significant advances in measurement techniques and modeling efforts, discrepancies persist between observations and models that hinder accurate predictions of processes and their global effects. Here, we provide an assessment report on where the current state of knowledge is and where future research emphasis would have the highest impact in furthering the field of Fe atmosphere-ocean biogeochemical cycle. These results were determined through consensus reached by diverse researchers from the oceanographic and atmospheric science communities with backgrounds in laboratory and in situ measurements, modeling, and remote sensing. We discuss i) novel measurement methodologies and instrumentation that allow detection and speciation of different forms and oxidation states of Fe in deliquesced mineral aerosol, cloud/rainwater, and seawater; ii) oceanic models that treat Fe cycling with several external sources and sinks, dissolved, colloidal, particulate, inorganic, and organic ligand-complexed forms of Fe, as well as Fe in detritus and phytoplankton; and iii) atmospheric models that consider natural and anthropogenic sources of Fe, mobilization of Fe in mineral aerosols due to the dissolution of Fe-oxides and Fe-substituted aluminosilicates through proton-promoted, organic ligand-promoted, and photo-reductive mechanisms. In addition, the study identifies existing challenges and disconnects (both fundamental and methodological) such as i) inconsistencies in Fe nomenclature and the definition of bioavailable Fe between oceanic and atmospheric disciplines, and ii) the lack of characterization of the processes controlling Fe speciation and residence time at the atmosphere-ocean interface. Such challenges are undoubtedly caused by extremely low concentrations, short lifetime, and the myriad of physical, (photo)chemical, and biological processes affecting global biogeochemical cycling of Fe. However, we also argue that the historical division (separate treatment of Fe biogeochemistry in oceanic and atmospheric disciplines) and the classical funding structures (that often create obstacles for transdisciplinary collaboration) are also hampering the advancement of knowledge in the field. Finally, the study provides some specific ideas and guidelines for laboratory studies, field measurements, and modeling research required for improved characterization of global biogeochemical cycling of Fe in relationship with other trace elements and essential nutrients. In conclusion, the report is intended to aid scientists in their work related to Fe biogeochemistry as well as program managers at the relevant funding agencies

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2026

Will Nontoxic High‐Performance Perovskite Photovoltaics Ever Be Possible?

Lead-based halide perovskite solar cells represent a significant advancement in photovoltaic technology, achieving certified power conversion efficiencies of over 27%. However, the toxicity of lead poses a major barrier to widespread commercialization. The demand for environmentally safe alternatives has driven extensive research into Pb-free perovskites. Current efforts include replacing Pb with Sn or Ge; forming double perovskites in which Pb is substituted by a monovalent–trivalent cation pair; and developing chalcogenide perovskites where the B site (ABX 3 ) adopts tetravalent cations (rather than Pb) to balance the charge. This concept examines the recent progress in developing Pb-free alternatives, revealing fundamental performance bottlenecks, inherent material limitations, and persistent development challenges. Through a comparative assessment of material properties and device performance limitations, this work highlights the underlying dilemma between environmental safety and efficiency in perovskite photovoltaics. The analysis identifies fundamental material constraints that create substantial barriers to simultaneously achieving both objectives.

36 MATERIALS SCIENCE↗