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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 397 records · Page 22

Assessing time-of-flight signal-to-noise ratio gains within the myocardium and subsequent reductions in administered activity in cardiac PET studies

Background: Time-of-flight (TOF) is known to increase signal-to-noise ratio (SNR) and facilitate reductions in administered activity. Established measures of SNR gain are derived from areas of uniform uptake, which is not applicable to the heterogeneous uptake in cardiac PET images using fluoro-deoxyglucose (FDG). This study aimed to develop a technique to quantify SNR gains within the myocardium due to TOF. Methods: Reference TOF SNR gains were measured in 88 FDG oncology patients. Phantom data were used to translate reference SNR gains and validate a method of quantifying SNR gains within the myocardium from parametric images produced from multiple replicate images. This technique was applied to 13 FDG cardiac viability patients. Results: Reference TOF SNR gains of +23% ± 8.5% were measured in oncology patients. Measurements of SNR gain from the phantom data were in agreement and showed the parametric image technique to be sufficiently robust. SNR gains within the myocardium in the viability patients were +21% ± 2.8%. Conclusion: A method to quantify SNR gains from TOF within the myocardium has been developed and evaluated. SNR gains within the myocardium are comparable to those observed by established methods. This allows guidance for protocol optimization for TOF systems in cardiac PET.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

A comparison of model validation approaches for echo state networks using climate model replicates

As global temperatures continue to rise, climate mitigation strategies such as stratospheric aerosol injections (SAI) are increasingly discussed, but the downstream effects of these strategies are not well understood. As such, there is interest in developing statistical methods to quantify the evolution of climate variable relationships during the time period surrounding an SAI. Feature importance applied to echo state network (ESN) models has been proposed as a way to understand the effects of SAI using a data-driven model. This approach depends on the ESN fitting the data well. If not, the feature importance may place importance on features that are not representative of the underlying relationships. Typically, time series prediction models such as ESNs are assessed using out-of-sample performance metrics that divide the times series into separate training and testing sets. However, this model assessment approach is geared towards forecasting applications and not scenarios such as the motivating SAI example where the objective is using a data driven model to capture variable relationships. Here, in this paper, we demonstrate a novel use of climate model replicates to investigate the applicability of the commonly used repeated hold-out model assessment approach for the SAI application. Simulations of an SAI are generated using a simplified climate model, and different initialization conditions are used to provide independent training and testing sets containing the same SAI event. The climate model replicates enable out-of-sample measures of model performance, which are compared to the single time series hold-out validation approach. For our case study, it is found that the repeated hold-out sample performance is comparable, but conservative, to the replicate out-of-sample performance when the training set contains enough time after the aerosol injection.

54 ENVIRONMENTAL SCIENCES↗

Assessing saturation physics explanations of collectivity in small collision systems with the ip-jazma model

Experimental measurements in relativistic collisions of small systems from $p + p$ to $p/d/ ^3He + A$ at the Relativistic Heavy Ion Collider (RHIC) and the Large Hadron Collider (LHC) reveal particle emission patterns that are strikingly similar to those observed in $A + A$ collisions of large nuclei. One explanation of these patterns is the formation of small droplets of quark-gluon plasma (QGP) followed by hydrodynamic evolution. A geometry engineering program was proposed to further investigate these emission patterns, and the experimental data from that program in $p + Au, d + Au, ^3 He + Au$ collisions for elliptic and triangular anisotropy coefficients $v_2$ and $v_3$ follow the pattern predicted by hydrodynamic calculations [C. Aidala et al. (PHENIX Collaboration), Nat. Phys. 15, 214 (2019)]. One alternative approach, referred to as initial-state correlations, suggests that for small systems the patterns observed in the final-state hadrons are encoded at the earliest moments of the collision and therefore require no final-state parton scattering or hydrodynamic evolution. Recently, new calculations using only initial-state correlations, in the dilute-dense approximation of gluon saturation physics, reported striking agreement with the $v_2$ patterns observed in $p/d/ ^3He + Au$ data at RHIC [M. Mace, V. V. Skokov, P. Tribedy, and R. Venugopalan, Phys. Rev. Lett. 121, 052301 (2018)]. The results reported by Mace, Skokov, Tribedy and Venugopalan (MSTV) are counterintuitive and thus we aim here to reproduce some of the basic features of these calculations. In this first investigation, we provide a description of our publicly available model, ip-jazma, and investigate its implications for saturation scales, multiplicity distributions, and eccentricities, reserving for later work the analysis of momentum spectra and azimuthal anisotropies. We find that our implementation of the saturation physics model reproduces the results of the MSTV calculation of the multiplicity distribution in $d + Au$ collisions at RHIC. However, additional aspects of studies, together with existing data, call into question some of the essential elements reported by MSTV. Resolution of these issues will require further developments of ip-jazma, in order to determine if it can replicate the qualitative agreement with the $v_2$ reported by MSTV. Both the work reported here and future studies will establish which features in the experimental data are uniquely attributable to the color glass condensate description.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Integration and Quantitative Comparison of Up-Scaled Molecular Observation Network Data with Existing Soil Databases

MONet provides novel soil molecular data to the research community for understanding biogeochemical processes and complementing other soil datasets. This study assesses MONet's ability to replicate known soil patterns via a comparative analysis of soil respiration (Rs), pH, and clay content against benchmark datasets. Results show moderate agreement for pH and clay content, highlighting MONet's strengths in capturing soil biogeochemical variation in underrepresented regions like urban areas. Rs data are marked by the appropriate trends relative to other datasets, but direct comparison is impractical due to methodological differences in underlying data. Strategic sampling is recommended to improve MONet's coverage and eventual utility in bridging molecular observations with global datasets.

54 ENVIRONMENTAL SCIENCES↗

COMPASS-FME Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) Experiment Level 1 Sensor Data v1-2

This is the version 1-2 Level 1 (L1) data release for COMPASS-FME environmental sensors located at our Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) experimental site. This manipulative, ecosystem-scale TEMPEST experiment addresses the potential for freshwater and estuarine-water disturbance events to alter tree function, species composition, and ecosystem processes in a deciduous coastal forest in MD, USA. The experiment uses a large-unit (2000 m2), un-replicated experimental design, with three 50 m × 40 m plots serving as control, freshwater, and estuarine-water treatments.L1 data are close to raw, but are units-transformed and have out-of-instrument-bounds and out-of-service flags added. Duplicates and missing data are removed but otherwise these data are not filtered, and have not been subject to any additional algorithmic or human QA/QC. Any scientific analyses of L1 data should be performed with care. **This dataset will be updated quarterly with new data for the duration of the project**This dataset includes:- An overall dataset README file that describes the current version, gives citation and contact information, etc.- Site- and year-specific folders, each holding up to 12 CSV (comma separated value) data files for each site and plot in that year.- Metadata files within each site-year folder provide full information on data units, expected ranges, contact information, detailed flood times, as well as a general description of the site.- Environmental sensor types that appear in the data files include weather (ClimaVUE50, CS, RM Young, and LI instruments in the graphs below); soil conditions (TEROS12); soil redox state (Redox); groundwater variables (AquaTROLL200 and AquaTROLL600); open water sondes (Exo); tree sap velocity (Sapflow); and system voltage and state (Datalogger). Data are normally logged every 15 minutes.Please see v1-2 TEMPEST L1 Sensor Package Quick Start.pdf for detailed information on data package structure, temporal coverage, and versioning.The TEMPEST flood events occurred on the following dates. They lasted for ~10 hours each day and delivered ~80,000 gallons to each plot; many data streams are available at 1 or 5 minute frequency during these periods.* Tests: Aug 25 (fresh plot) and Sep 9 (salt plot), 2021* TEMPEST 1: June 22, 2022* TEMPEST 2: June 6-7, 2023* TEMPEST 3: June 11-13, 2024

54 ENVIRONMENTAL SCIENCES↗

Moleculo Long-Read Sequencing Facilitates Assembly and Genomic Binning from Complex Soil Metagenomes

ABSTRACT Soil metagenomics has been touted as the “grand challenge” for metagenomics, as the high microbial diversity and spatial heterogeneity of soils make them unamenable to current assembly platforms. Here, we aimed to improve soil metagenomic sequence assembly by applying the Moleculo synthetic long-read sequencing technology. In total, we obtained 267 Gbp of raw sequence data from a native prairie soil; these data included 109.7 Gbp of short-read data (~100 bp) from the Joint Genome Institute (JGI), an additional 87.7 Gbp of rapid-mode read data (~250 bp), plus 69.6 Gbp (>1.5 kbp) from Moleculo sequencing. The Moleculo data alone yielded over 5,600 reads of >10 kbp in length, and over 95% of the unassembled reads mapped to contigs of >1.5 kbp. Hybrid assembly of all data resulted in more than 10,000 contigs over 10 kbp in length. We mapped three replicate metatranscriptomes derived from the same parent soil to the Moleculo subassembly and found that 95% of the predicted genes, based on their assignments to Enzyme Commission (EC) numbers, were expressed. The Moleculo subassembly also enabled binning of >100 microbial genome bins. We obtained via direct binning the first complete genome, that of “ Candidatus Pseudomonas sp. strain JKJ-1” from a native soil metagenome. By mapping metatranscriptome sequence reads back to the bins, we found that several bins corresponding to low-relative-abundance Acidobacteria were highly transcriptionally active, whereas bins corresponding to high-relative-abundance Verrucomicrobia were not. These results demonstrate that Moleculo sequencing provides a significant advance for resolving complex soil microbial communities. IMPORTANCE Soil microorganisms carry out key processes for life on our planet, including cycling of carbon and other nutrients and supporting growth of plants. However, there is poor molecular-level understanding of their functional roles in ecosystem stability and responses to environmental perturbations. This knowledge gap is largely due to the difficulty in culturing the majority of soil microbes. Thus, use of culture-independent approaches, such as metagenomics, promises the direct assessment of the functional potential of soil microbiomes. Soil is, however, a challenge for metagenomic assembly due to its high microbial diversity and variable evenness, resulting in low coverage and uneven sampling of microbial genomes. Despite increasingly large soil metagenome data volumes (>200 Gbp), the majority of the data do not assemble. Here, we used the cutting-edge approach of synthetic long-read sequencing technology (Moleculo) to assemble soil metagenome sequence data into long contigs and used the assemblies for binning of genomes. Author Video : An author video summary of this article is available.

De Novo assembly↗

Critical Factors in Computational Characterization of Hydrogen Storage in Metal–Organic Frameworks

Inconsistencies in high-pressure H2 adsorption data and a lack of comparative experiment–theory studies have made the evaluation of both new and existing metal–organic frameworks (MOFs) challenging in the context of hydrogen storage applications. In this work, we performed grand canonical Monte Carlo (GCMC) simulations in nearly 500 experimentally refined MOF structures to examine the variance in simulation results because of the equation of state, H 2 potential, and the effect of density functional theory structural optimization. We find that hydrogen capacity at 77 K and 100 bar, as well as hydrogen 100-to-5 bar deliverable capacity, is correlated more strongly with the MOF pore volume than with the MOF surface area (the latter correlation is known as the Chahine’s rule). The tested methodologies provide consistent rankings of materials. In addition, four prototypical MOFs (MOF-74, CuBTC, ZIF-8, and MOF-5) with a range of surface areas, pore structures, and surface chemistries, representative of promising adsorbents for hydrogen storage, are evaluated in detail with both GCMC simulations and experimental measurements. Simulations with a three-site classical potential for H 2 agree best with our experimental data except in the case of MOF-5, in which H 2 adsorption is best replicated with a five-site potential. However, for the purpose of ranking materials, these two choices for H 2 potential make little difference. Here more significantly, 100 bar loading estimates based on more accurate equations of state for the vapor–liquid equilibrium yield the best comparisons with the experiment.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Multi‐season analysis reveals hundreds of drought‐responsive genes in sorghum

Persistent drought affects global crop production and is becoming more severe in many parts of the world in recent decades. Deciphering how plants respond to drought will facilitate the development of flexible mitigation strategies. Sorghum bicolor L. Moench (sorghum), a major cereal crop and an emerging bioenergy crop, exhibits remarkable resilience to drought. To better understand the molecular traits that underlie sorghum's remarkable drought tolerance, we undertook a large-scale sorghum gene expression profiling effort, totaling nearly 1500 transcriptome profiles, across a 3-year field study with replicated plots in California's Central Valley. This study included time-resolved gene expression data from roots and leaves of two sorghum genotypes, BTx642 and RTx430, with different pre-flowering and post-flowering drought-tolerance adaptations under control and drought conditions. Quantification of genotype-specific drought tolerance effects was enabled by de novo sequencing, assembly, and annotation of both BTx642 and RTx430 genomes. These reference-quality genomes were used to construct a pangene set for characterizing conserved and genotype-specific expression. By integrating time-resolved transcriptomic responses to drought in the field across three consecutive years, we identified a set of 726 drought-responsive genes that responded similarly in all 3 years of our field study. Functional enrichment analysis identified abiotic stress, secondary cell wall-related processes and metabolism as particularly affected under both types of drought stress. We also found that some glyoxylate cycle pathway genes, including malate synthase and isocitrate lyase, are differentially regulated particularly during post-flowering drought stress, implicating this pathway as potentially important for drought responsiveness. This expansive dataset represents a unique resource for sorghum and drought research communities and provides a methodological framework for the integration of multi-faceted time-resolved transcriptomic datasets.

Cole, Benjamin [USDOE Joint Genome Institute (JGI)↗

Implementation of Detailed Polyethylene Pyrolysis Kinetics into CFD Simulations using Machine Learning

Municipal solid waste (MSW) and waste plastics have received significant attention due to the issues of waste generation and storage, as well as their potential as an energy resource. High-density polyethylene (HDPE) makes up a large portion of plastic waste and has been the subject of several conversion studies. However, the mechanisms associated with converting HDPE through pyrolysis and gasification are extensive and complex making them difficult to implement into high-fidelity computational fluid dynamic (CFD) simulations. For this project, a primary pyrolysis mechanism containing 42 unique species and 737 heterogeneous reactions was used to generate kinetic data over a range of operating conditions. A machine learning (ML) model was developed to replicate the results of the detailed pyrolysis mechanism while significantly increasing the computational efficiency. A deep operator network (DeepONet) architecture was adopted to train the model using time steps relevant to CFD simulations. The ML used physics-based loss functions to ensure mass conservation. The ML model has been deployed in simple MFiX CFD simulations, single particle, and an experimental drop tube reactor, and has shown promising performance compared to the original scheme.

Houston, Ross↗

Process Anomaly Detection for Sparsely Labeled Events in Nuclear Power Plants

An essential aspect of online monitoring, subtle anomaly detection increases the detection lead time for equipment failure and enables a nuclear power plant (NPP) to mitigate unexpected partial or full outages, resulting in significant cost saving to the plant. Once an anomaly is detected by plant staff, its cause and severity are investigated. Because the vast majority of anomalies require some level of investigation, including some that require time-consuming examination, before they are passed over to the engineering organization for further analysis, plants are often equipped with tools to assist the staff in performing anomaly detection. Those tools operate as a black box and are often based on statistical methods that establish sensor correlations using preconfigured mathematical models and flag correlation deviations as anomalies. Due to the number of anomalies detected at a given NPP on a daily basis, a significant number of flagged anomalies usually await examination for days or weeks. A primary cause of this backlog is that the methods used by the tools generate many false positives. Though this is usually attributed to oversensitive model settings due to very narrow normal operation bands, it can also be associated with the model development being inadequate for the process being monitored, or with missing model inputs that could have explained misclassified positives. The performance of anomaly detection tools impacts their plant acceptance and utilization, especially when the effort to address false positives generated by the tool depletes the value or cost saved by using that tool. Thus, means to advance anomaly detection performance have been investigated by the Department of Energy’s Light Water Reactor Sustainability program. Previous and ongoing efforts have targeted unsupervised machine-learning (ML) methods, which do not require the labeling of any data fed into the ML model. By contrast, in supervised anomaly detection methods, every data point is labeled as either a normal or abnormal process condition, and the model is trained to replicate the classification process. Supervised methods usually outperform unsupervised methods, due to the added value in differentiating normal from anomalous states of the monitored process. An NPP’s corrective action program requires it to track and document, via a dedicated report, the resolution of any issues that occur within the plant. Once created, each report is reviewed by a plant screening committee, and several classifications and decisions are made. Recently, a collaborating NPP developed an artificial intelligence and ML-based classifier to categorize a condition report (CR) into classes that can serve to label the data as normal or anomalous. Applying CRs as labels represents a semi-supervised use case. Semi-supervised ML assumes that labels exist for some data points (i.e., labeled anomalies, in this case) but not for the rest. In this effort, semi-supervised ML methods were used to fuse data from CRs with anomaly detection methods in order to test the hypothesis that partially labeled anomalies would improve the accuracy of the anomaly detection methods. Specifically, two methods were used. The first is the deep Semi-supervised Anomaly Detection (deep SAD) method, which can handle labels ranging from fully unsupervised to fully supervised cases. The second is a newly designed ML method developed specifically for this effort and referred to as the high-order feature (HOF)-based method. To evaluate these two methods in controlled environments, synthetic data generators were developed and used. The first datasets used a spring-mass-damper (SMD) system simulator commonly found in mechanical engineering references. This was used to create two use cases: a one- and a three-mass system. Anomalies were introduced by changing the spring and damper coefficients while the system was actuated by random forces. The second datasets used the commercial Dymola-Modelica software to build a simplified nuclear reactor model. Anomalies were added in the form of corrupted sensor readings and/or control commands. The deep SAD method was tested using the SMD system, while the HOF method was tested using both datasets. Application of the deep SAD semi-supervised ML method demonstrated that labels can generate increased confidence in detecting true anomalies. This helped increase the number of true positives and decrease the number of false negatives—something that would aid in addressing the backlog of possible anomalies. Application of the HOF method demonstrated that labels can aid in down selecting from a candidate set of features to a more optimal subset in order to better differentiate between normal and anomalous conditions.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Predicted Extension of the Sagittarius Stream to the Milky Way Virial Radius

The extensive span of the Sagittarius (Sgr) stream makes it a promising tool for studying the gravitational potential of the Milky Way (MW). Characterizing its stellar kinematics can constrain halo properties and provide a benchmark for the paradigm of galaxy formation from cold dark matter. Accurate models of the disruption dynamics of the Sgr progenitor are necessary to employ this tool. Using a combination of analytic modeling and N -body simulations, we build a new model of the Sgr orbit and resulting stellar stream. In contrast to previous models, we simulate the full infall trajectory of the Sgr progenitor from the time it first crossed the MW virial radius 8 Gyr ago. An exploration of the parameter space of initial phase-space conditions yields tight constraints on the angular momentum of the Sgr progenitor. Our best-fit model is the first to accurately reproduce existing data on the 3D positions and radial velocities of the debris detected 100 kpc away in the MW halo. In addition to replicating the mapped stream, the simulation also predicts the existence of several arms of the Sgr stream extending to hundreds of kiloparsecs. The two most distant stars known in the MW halo coincide with the predicted structure. Additional stars in the newly predicted arms can be found with future data from the Large Synoptic Survey Telescope. Detecting a statistical sample of stars in the most distant Sgr arms would provide an opportunity to constrain the MW potential out to unprecedented Galactocentric radii.

79 ASTRONOMY AND ASTROPHYSICS↗

Piloting the Use of Energy Policy Data to Drive Market Action

Information is only useful when put to use. Across the U.S., an ever-growing number of state and local jurisdictions are implementing building performance reporting laws regarding building energy and water use in the commercial and multifamily sectors. This wealth of performance information is not yet being deployed to its full potential to drive smarter business decisions and increase energy savings. Recognizing that this information can help advance energy efficiency in cities, in 2015 the Institute for Market Transformation (IMT) partnered with New York City and the District of Columbia and local groups, NYCEEC and the District of Columbia Sustainable Energy Utility, on a three-year project to understand and document how, exactly, this data can and should be integrated to reap an array of benefits for cities, energy efficiency service providers, utilities, and building owners. This paper examines how local governments, utilities, and program implementers can replicate the success of DC and NYC. It gathers the findings from the Cities’ and their partners’ efforts to fully understand the datasets, overcome integration challenges, and apply the data to visual engagement, strategic outreach, evidence-based policymaking, and retrofit project identification and deployment. The paper goes beyond theoretical discussion by outlining practical application of data using specific examples from NYC and DC, summarizing challenges and findings, and highlighting next steps for other jurisdictions to learn from and build off the work done in those jurisdictions.

Cities↗

Validation/Uncertainty Quantification for Large Eddy Simulations of the heat flux in the Tangentially Fired Oxy-Coal Alstom Boiler Simulation Facility

The objective of this task is to produce predictive capability with quantified uncertainty bounds for the heat flux in commercial-scale, tangentially fired, oxy-coal boilers. Validation data came from the Alstom Boiler Simulation Facility (BSF) for tangentially fired, oxy-coal operation. This task brings together experimental data collected under Alstom’s DOE project for measuring oxy-firing performance parameters in the BSF with this University of Utah project for large eddy simulation (LES) and validation/uncertainty quantification (V/UQ). The Utah work includes V/UQ with measurements in the single-burner facility where advanced strategies for O2 injection can be more easily controlled and data more easily obtained. Highlights of the work include: • Simulations of Alstom’s 15 megawatt (MW) BSF, exploring the uncertainty in thermal boundary conditions. A V/UQ analysis showed consistency between experimental results and simulation results, identifying uncertainty bounds on the quantities of interest for this system (Subtask 9.1) • A simulation study of the University of Utah’s oxy-fuel combustor (OFC) focused on heat flux (Subtask 9.2). A V/UQ analysis was used to show consistency between experimental and simulation results. • Measurement of heat flux and temperature with new optical diagnostic techniques and comparison with conventional measurements (Subtask 9.3). Various optical diagnostics systems were created to provide experimental data to the simulation team. The final configuration utilized a mid-wave infrared (MWIR) camera to measure heat flux and temperature, which was synchronized with a high-speed, visible camera to utilize two-color pyrometry to measure temperature and soot concentration. • Collection of heat flux and temperature measurements in the University of Utah’s OFC for use is subtasks 9.2 and 9.3 (Subtask 9.4). Several replicates were carried to better assess the experimental error. Experiments were specifically designed for the generation of high-fidelity data from a turbulent oxy-coal flame for the validation of oxy-coal simulation models. Experiments were also conducted on the OFC to determine heat flux profiles using advanced strategies for O2 injection. This is important when considering retrofit of advanced O2 injection in retrofit configurations.

Smith, P.J.↗

Bifacial PV test-bed irradiance measurements

Data for 2 front-facing and 4 rear-facing IMT irradiance sensors placed on a scaled-down setup that replicate a PV array in a highly-reflective rooftop. The test-bed consist of 3 rows of 20x2ft aluminum sheets (the “panels”), supported by a Unistrut structure, with 6 irradiance sensors (IMT) measuring front and rear irradiance in the center module of the center row. High quality weather-station data available

14 SOLAR ENERGY↗

Data-driven modeling of municipal water system responses to hydroclimate extremes

Sustainable western US municipal water system (MWS) management depends on quantifying the impacts of supply and demand dynamics on system infrastructure reliability and vulnerability. Systems modeling can replicate the interactions but extensive parameterization, high complexity, and long development cycles present barriers to widespread adoption. To address these challenges, we develop the Machine Learning Water Systems Model (ML-WSM) – a novel application of data-driven modeling for MWS management. We apply the ML-WSM framework to the Salt Lake City, Utah water system, where we benchmark prediction performance on the seasonal response of reservoir levels, groundwater withdrawal, and imported water requests to climate anomalies at a daily resolution against an existing systems model. The ML-WSM accurately predicts the seasonal dynamics of all components; especially during supply-limiting conditions (KGE > 0.88, PBias < ±3%). Extreme wet conditions challenged model skill but the ML-WSM communicated the appropriate seasonal trends and relationships to component thresholds (e.g., reservoir dead pool). The model correctly classified nearly all instances of vulnerability (83%) and peak severity (100%), encouraging its use as a guidance tool that complements systems models for evaluating the influences of climate on MWS performance.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

COMPASS-FME Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) Experiment Level 1 Sensor Data v2-1

This is the version 2-1 Level 1 (L1) data release for COMPASS-FME environmental sensors located at our Terrestrial Ecosystem Manipulation to Probe the Effects of Storm Treatments (TEMPEST) experimental site. This manipulative, ecosystem-scale TEMPEST experiment addresses the potential for freshwater and estuarine-water disturbance events to alter tree function, species composition, and ecosystem processes in a deciduous coastal forest in MD, USA. The experiment uses a large-unit (2000 m2), un-replicated experimental design, with three 50 m × 40 m plots serving as control, freshwater, and estuarine-water treatments. L1 data are close to raw, but are units-transformed and have out-of-instrument-bounds, out-of-service, and outlier flags added. Duplicates and missing data are removed but otherwise these data are not filtered, and have not been subject to any additional algorithmic or human QA/QC. Any scientific analyses of L1 data should be performed with care. **This dataset will be updated quarterly with new data for the duration of the project** This dataset includes: - An overall dataset README file that describes the current version, gives citation and contact information, etc. - Site- and year-specific folders, each holding variable-specific CSV (comma separated value) data files for each site and plot in that year. - Metadata files within each site-year folder provide full information on data units, expected ranges, contact information, detailed flood times, as well as a general description of the site. - Environmental sensor types that appear in the data files include weather (ClimaVUE50, CS, RM Young, and LI instruments in the graphs below); soil conditions (TEROS12); soil redox state (Redox); groundwater variables (AquaTROLL200 and AquaTROLL600); open water sondes (Exo); tree sap velocity (Sapflow); and system voltage and state (Datalogger). Data are normally logged every 15 minutes. Please see v2-1 TEMPEST L1 Sensor Package Quick Start.pdf for detailed information on data package structure, temporal coverage, and versioning. The TEMPEST flood events occurred on the following dates. They lasted for ~10 hours each day and delivered ~80,000 gallons to each plot; many data streams are available at 1 or 5 minute frequency during these periods. * Tests: Aug 25 (fresh plot) and Sep 9 (salt plot), 2021 * TEMPEST 1: June 22, 2022 * TEMPEST 2: June 6-7, 2023 * TEMPEST 3: June 11-13, 2024 This dataset was updated 2026-03-12: (i) data now go through 2025-12-31 (previous end was 2025-06-30) and (ii) dataset and file names updated to “…v2-1” (previously was “v2-0”).

54 ENVIRONMENTAL SCIENCES↗

Single Amino Acid Mutations Affect Zika Virus Replication In Vitro and Virulence In Vivo

The 2014–2016 Zika virus (ZIKV) epidemic in the Americas resulted in large deposits of next-generation sequencing data from clinical samples. This resource was mined to identify emerging mutations and trends in mutations as the outbreak progressed over time. Information on transmission dynamics, prevalence, and persistence of intra-host mutants, and the position of a mutation on a protein were then used to prioritize 544 reported mutations based on their ability to impact ZIKV phenotype. Using this criteria, six mutants (representing naturally occurring mutations) were generated as synthetic infectious clones using a 2015 Puerto Rican epidemic strain PRVABC59 as the parental backbone. The phenotypes of these naturally occurring variants were examined using both cell culture and murine model systems. Mutants had distinct phenotypes, including changes in replication rate, embryo death, and decreased head size. In particular, a NS2B mutant previously detected during in vivo studies in rhesus macaques was found to cause lethal infections in adult mice, abortions in pregnant females, and increased viral genome copies in both brain tissue and blood of female mice. Additionally, mutants with changes in the region of NS3 that interfaces with NS5 during replication displayed reduced replication in the blood of adult mice. This analytical pathway, integrating both bioinformatic and wet lab experiments, provides a foundation for understanding how naturally occurring single mutations affect disease outcome and can be used to predict the of severity of future ZIKV outbreaks. To determine if naturally occurring individual mutations in the Zika virus epidemic genotype affect viral virulence or replication rate in vitro or in vivo, we generated an infectious clone representing the epidemic genotype of stain Puerto Rico, 2015. Using this clone, six mutants were created by changing nucleotides in the genome to cause one to two amino acid substitutions in the encoded proteins. The six mutants we generated represent mutations that differentiated the early epidemic genotype from genotypes that were either ancestral or that occurred later in the epidemic. We assayed each mutant for changes in growth rate, and for virulence in adult mice and pregnant mice. Three of the mutants caused catastrophic embryo effects including increased embryonic death or significant decrease in head diameter. Three other mutants that had mutations in a genome region associated with replication resulted in changes in in vitro and in vivo replication rates. These results illustrate the potential impact of individual mutations in viral phenotype.

59 BASIC BIOLOGICAL SCIENCES↗