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DOE OSTI2024

Integration of the NCRC Database and Other INL Databases

The Nuclear Computational Resource Center provides a portal by which industry professionals, educational staff, students, national laboratory employees, and others may request access to certain engineering software tools. As the tools provided through the Nuclear Computational Resource Center portal are not open-source and freely available, a set of approvals are necessary before access is granted. All code recipients must be associated with an institution that has a license with Idaho National Laboratory for the code requested. Information about these licenses is controlled by Idaho National Laboratory’s Technology Deployment organization and housed in a Technology Deployment database. Those requesting code access who are not citizens of the United States must also have a security plan, mandated by Idaho National Laboratory policy. Security plans are managed by the International Access Program and are stored in an International Access Program database known as IFacts. Granting access to software thus depends on information stored in the Technology Deployment database and IFacts. In the past, no connection between the Nuclear Computational Resource Center portal and these databases existed, making checking the status of license agreements and security plans time consuming and error prone. This report demonstrates that the Nuclear Computational Resource Center portal now connects to both the Technology Deployment database and IFacts, greatly improving the ease of use of the Nuclear Computational Resource Center system for administrators, which leads to a better overall experience for those requesting code access.

99 GENERAL AND MISCELLANEOUS↗

DOE OSTI2023

Method and apparatus for front end gather/scatter memory coalescing

A system for processing gather and scatter instructions can implement a front-end subsystem, a back-end subsystem, or both. The front-end subsystem includes a prediction unit configured to determine a predicted quantity of coalesced memory access operations required by an instruction. A decode unit converts the instruction into a plurality of access operations based on the predicted quantity, and transmits the plurality of access operations and an indication of the predicted quantity to an issue queue. The back-end subsystem includes a load-store unit that receives a plurality of access operations corresponding to an instruction, determines a subset of the plurality of access operations that can be coalesced, and forms a coalesced memory access operation from the subset. A queue stores multiple memory addresses for a given load-store entry to provide for execution of coalesced memory accesses.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2023

Method and apparatus for back end gather/scatter memory coalescing

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2024

Systems, devices, and methods for authenticating millimeter wave devices

Systems, devices, and methods are described for millimeter wave device authentication. A system may include one or more access points. Each access point of the one or more access points is configured to extract, from one or more beam patterns generated via a client device, a beam feature associated with the client device. Each access point may also be configured to transmit the beam feature. The system may also include a server communicatively coupled to the one or more access points and including a database for storing known beam features. The server may be configured to receive the beam feature associated with the client device from at least one access point of the one or more access points. Also, the server may be configured to authenticate the client device in response to the received beam feature matching a known beam feature stored in the at least one database.

Bhuyan, Arupjyoti↗

DOE OSTI2023

Demand for off-grid desalination technology in small-island communities — Can interfacial solar vapor generation be the answer?

The demand for an off-grid desalination technology and the feasibility of using interfacial solar vapor generation (ISVG) to address the problem were evaluated within the context of Bungin Island. Bungin Island is a small-island community in Indonesia facing water scarcity. By conducting interviews with households there, we found that households located on the exterior portion of the island faced the greatest challenges to water access. For example, only 17% of exterior households had piped water access, whereas 67% central households had piped water access. Similar inequities for exterior households were also found with respect to the cost of getting additional water. Thus, we determined that an off-grid desalination technology is best suited for solving the water access problems for the most vulnerable communities in small islands. Further, ISVG technologies that draw on the radiative energy in sunlight to achieve desalination are promising in increasing water access by offering a floating off-grid devices on water near exterior households, passive operation, low capital investment, and simple maintenance. These findings stress the importance of understanding how contextual factors shape barriers to water access and provide a road map on how to begin incorporating these factors into the development of a more sustainable desalination technology.

42 ENGINEERING↗

DOE OSTI2021

The nth-plant scenario for blended feedstock conversion and preprocessing nationwide: biorefineries and depots

The sustainability of the biofuel industry depends on the development of a mature conversion technology on a national level that can take advantage of the economies of scale: the nth-plant. Defining the future location and supply logistics of conversion plants is imperative to ultimately transform the nation’s renewable biomass resources into cost-competitive, high-performance feedstock for production of biofuels and bioproducts. Since the US has put restrictions on production levels of conventional biofuels from edible resources, the nation needs to plan for the widespread accessibility and development of the cellulosic biofuel scenario. Conventional feedstock supply systems will be unable to handle cellulosic biomass nationwide, making it essential to expand the industry with an advanced feedstock supply system incorporating a distributed network of preprocessing depots and conversion plants, or biorefineries. Current studies are mostly limited to designing supply systems for specific regions of the country. We developed a national database with potential locations for depots and biorefineries to meet the nation’s target demand of cellulosic biofuel. Blended feedstock with switchgrass and corn stover (harvested by either a two- or three-pass method) are considered in a Mixed Integer Linear Programming model to deliver on-spec biomass that considers both, a desired quantity and quality at the biorefinery. A total delivered feedstock cost that is less than $79.07/dt (2016$) is evaluated for years 2022, 2030, and 2040. In 2022, 124 depots and 59 biorefineries could be supplied with 42.8 million dt of corn stover and switchgrass. In 2030 and 2040, the total accessible biomass could increase to 215% and 393% respectively when compared to 2022. However, an $8/dry tons reduction in targeted delivery cost could reduce total accessible biomass by 67%. Kansas, Nebraska, South Dakota and Texas were identified as potential states with a strong biofuel economy given that they had six or more biorefineries located in all scenarios. In some scenarios, Colorado, Alabama, Georgia, Minnesota, Mississippi and South Carolina would greatly benefit from a depot network as these could only deliver to a biorefinery in a nearby state. To elaborate the impact of a nationwide consideration, the findings were compared with existing literature for different US regions. We also present results for biorefinery capacities that are double, triple, and quadruple in size.

09 BIOMASS FUELS↗

DOE OSTI2024

Darshan for HEP applications

Modern HEP workflows must manage increasingly large and complex data collections. HPC facilities may be employed to help meet these workflows’ growing data processing needs. However, a better understanding of the I/O patterns and underlying bottlenecks of these workflows is necessary to meet the performance expectations of HPC systems.Darshan is a lightweight I/O characterization tool that captures concise views of HPC application I/O behavior. It intercepts application I/O calls at runtime, records file access statistics for each process, and generates log files detailing application I/O access patterns.Typical HEP workflows include event generation, detector simulation, event reconstruction, and subsequent analysis stages. A study of the I/O behavior of the ATLAS simulation and filtering stage, and the CMS simulation workflow using Darshan is presented, including insights into the I/O operations and data access size.

Wang, Rui↗

DOE OSTI2023

Effectiveness and predictability of in-network storage cache for Scientific Workflows

Large scientific collaborations often have multiple scientists accessing the same set of files while doing different analyses, which create repeated accesses to the large amounts of shared data located far away. These data accesses have long latency due to distance and occupy the limited bandwidth available over the wide-area network. To reduce the wide-area network traffic and the data access latency, regional data storage caches have been installed as a new networking service. To study the effectiveness of such a cache system in scientific applications, we examine the Southern California Petabyte Scale Cache for a high-energy physics experiment. By examining about 3TB of operational logs, we show that this cache removed 67.6% of file requests from the wide-area network and reduced the traffic volume on wide-area network by 12. 3TB (or 35.4%) an average day. The reduction in the traffic volume (35.4%) is less than the reduction in file counts (67.6%) because the larger files are less likely to be reused. Due to this difference in data access patterns, the cache system has implemented a policy to avoid evicting smaller files when processing larger files. We also build a machine learning model to study the predictability of the cache behavior. Tests show that this model is able to accurately predict the cache accesses, cache misses, and network throughput, making the model useful for future studies on resource provisioning and planning.

Sim, Caitlin↗

DOE OSTI2025

Hydrologic Model Data for the East Fork Poplar Creek Watershed Simulated with the Advanced Terrestrial Simulator (ATS): Streamflow and Network Expansion–Contraction Dynamics

This dataset supports hydrologic modeling and stream network expansion–contraction analysis for the East Fork Poplar Creek (EFPC) Watershed in Tennessee. It includes a Jupyter notebook for model setup, model configuration files, simulation outputs, and derived products used to evaluate model performance and investigate stream dynamics under varying hydrologic conditions. The dataset was generated using the Watershed Workflow Python package and the Advanced Terrestrial Simulator (ATS), enabling integrated surface–subsurface hydrologic simulations using a stream-aligned mesh. Outputs include high-resolution time series of streamflow, active network length, water table depth, and related hydrologic variables. Also included are spatially explicit stream persistency indices and classifications of reaches as perennial or non-perennial. These data facilitate reproducibility and support further research on stream intermittency and variability in network extent.The model data archive is organized in following directories:1) model_setup_inputsContains the Watershed Workflow Jupyter notebooks (accessed through any open source code editor), selected input datasets, and resulting ATS input files, including XML files (access through any open source code editor), computational mesh (.exo files can be viewed using Paraview), and meteorological forcing files (.h5 files can be accessed through h5py python package and HDFView open source software). 2) model_outputsIncludes ATS simulation outputs relevant to this study. Time series of spatially integrated or averaged variables (e.g., streamflow, water table depth) are provided as CSV files. Select spatial fields (e.g., ponded depth and water table depth) are saved as pickled Python objects to reduce file size, and can be accessed through pickle package in Python. Key geometry objects from Watershed Workflow—such as the surface mesh and river tree—are also included to support analysis of streamflow persistency and expansion–contraction dynamics. These files can also be accessed through Watershed Workflow Python package.3) model_evaluationProvides observed streamflow time series and field survey-based flow regime classifications used to evaluate model performance. Jupyter notebooks for processing ATS outputs and comparing model predictions with observations to build confidence in the model prior to scientific analysis are also included.4) Q_L_relationshipsContains workflows for generating time series of discharge, active network length, and related hydrologic variables used in the stream network expansion–contraction analysis. Includes routines for delineating baseflow-dominated periods. For each catchment, notebooks and processed data (as pickled DataFrames accessed through Pandas Python package) are provided. 5) figure_scriptsProvides the Jupyter notebooks used to generate the figures presented in the paper.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2026

A bespoke model of Arctic river basins based on hillslope delineation: Model Archive

This dataset is a model archive of the paper A bespoke model of Arctic river basins based on hillslope delineation (in prep), which introduces a watershed decomposition and parameterization method for large scale permafrost hydrology simulation. With this dataset, this study aims to address the research question: whether a computationally efficient hillslope-based modeling framework can reliably simulate discharge at Arctic river-basin scales. This dataset contains model input and output data for five modeling scenarios at a study site located in the Sagavanirktok River basin. The five modeling scenarios include three modeling cases under temperate conditions using full 3D, decomposed 3D, and decomposed 2D modeling strategies; and two modeling cases under actual Arctic conditions with permafrost using full 3D and decomposed 2D modeling strategies. Simulations were performed using the Advanced Terrestrial Simulator (ATS, v1.6 for three temperate scenarios and v1.5 for two Arctic scenarios), a physics-rich integrated surface–subsurface hydrologic model with cryo-hydrology features. For the three temperate models, simulations were conducted for the period of 10/01/1993 - 09/30/2002; and for the two Arctic models, simulations were conducted for the period of 01/01/1994 - 12/31/2002. To facilitate reproducibility of simulations, all datasets are organized hierarchically. The dataset contains: (1) Mesh files (.exo) for full 3D model, decomposed 3D models, and decomposed 2D models, located in huc/190604020802_gauge15906000/mesh/. Mesh files can be visualized through Paraview or read by Python. (2) Climate forcings (.h5) for full 3D model and decomposed 3D/2D models are located in huc/190604020802_gauge15906000/daymet_onePiece/, and huc/190604020802_gauge15906000/vp_pr_revised_daymet_1980_2006_with_wind/ separately. Accessible by Python. (3) Raw measured gage discharge (.csv) from USGS, located in huc/190604020802_gauge15906000/gaged_basin15906000_discharge_usgs/. Accessible by Python. (4) Delineated subdomain raster (.tif) and shape files (.shp), and the final parameterized results (.npy) for decomposed models, located in huc/190604020802_gauge15906000/data_preprocessed-meshing. Accessible by Python. (5) Temperate models are located in nonpermaf_huc190604020802_gauge15906000/, which includes three cases: decomposed 2D models (inside model_0*-hillslope_*), decomposed 3D models (inside model_1*-subcatchment_*), and full 3D model (inside model_2*-onepiece_*). Two step spin-up results (checkpoint_final.h5) are located in model_*1-*_spinup_steadystate and model_*2-*_spinup_cycle, separately, which are used to initialize real transient models. The input files (.xml) and output results (.dat) of the real transient models are located in model_*3-*_transient/. Especially, for two example hillslope models (ID=-11 and 11), additional h5py files are included in model_03-hillslope_transient/hillslope-11/, model_03-hillslope_transient/hillslope11, model_13-subcatchment_transient/subcatchment-11/, model_13-subcatchment_transient/subcatchment/11, respectively, which are used to plot the saturation figure (Figure 5) in the manuscript. Accessible by Python. (6) Arctic models are located in huc190604020802_gauge15906000/, which includes two cases: decomposed 2D models (inside model_04-hillslope_transient), and full 3D model (inside model_05-onepiece_transient_mannp1_ra). Three step spin-up results (checkpoint_final.h5) are located in model_01-column_freezeup/, model_02-column_spinup/, model_03-hillslope_spinup/, respectively, which are used to initialize real 2D transient hillslope models. The input files (.xml) and output results (.dat) of transient 2D hillslope models are located in model_04-hillslope_transient/. The input files (.xml) and output results (.dat) of the full 3D transient model is located in model_05-onepiece_transient_mannp1_ra/. The full 3D transient model is initialized by model_02-column_spinup/. Accessible by Python. (7) The MOSART routed discharge results (.csv) under Arctic conditions is located in huc190604020802_gauge15906000/MOSART/. Accessible by Python. (8) All Python codes (.py) used to parameterize full 3D model to decomposed 2D models are located in script/. These codes fit with watershed workflow (a watershed delineation tool) v1.4 under the branch gaob/v1.4 from https://github.com/gaobhub/watershed-workflow.git.

EARTH SCIENCE > CRYOSPHERE↗

DOE OSTI2023

Genomic dissection of anthracnose resistance response in sorghum [Sorghum bicolor (L.) Moench]

Sorghum [Sorghum bicolor (L.) Moench] is the fifth most important grain crop behind maize, wheat, rice, and barley. Today, it is of interest as a source of fermentable sugars for the production of renewable fuels and chemicals, and as a source of biomass for co-firing. The productivity and profitability of sorghum are limited by several biotic constraints, most notably anthracnose caused by the fungal pathogen Colletotrichum sublineolum. The most cost-effective and environmentally benign strategy to control anthracnose is through the incorporation of resistance genes. Over the last three years, our research efforts have been directed to identify new sources of resistance in temperate adapted and tropical germplasm, and to delimited genomic regions associated with the observe anthracnose resistant response. Three biparental mapping populations derived from the resistant lines SC112-14, QL3 and IS18760 were evaluated for anthracnose resistance response in Texas, Georgia, Florida and Puerto Rico. In parallel, three high density recombination maps were constructed and used to identify resistant loci. Anthracnose resistant response in line SC112-14 is controlled by a major locus on chromosome 5. Segregation analysis of 1,500 progenies delimited the resistance locus on chromosome 5 to a 23-kb region harboring three candidate genes, including Sobic.005G17230 identified by GWAS of the sorghum association panel (SAP). The latter gene belongs to a family of genes encoding F-box proteins indicating that this resistance response involved in signaling cascades and transcriptional reprograming, rather than recognition of pathotype-associated molecular patterns. In contrast, anthracnose resistant response in lines QL3 and IS18760 is controlled by multiple small-effect genes. Greenhouse evaluation of a representative subset of the three mapping populations against nine pathotypes found that lines susceptible in the field could be resistant to a single pathotype in the greenhouse. Thus, the activation of a resistance response system by a single pathotype could not provide a broader resistance response against multiple pathotypes. The screening of 1,801 sweet sorghum accessions from the National Plant Germplasm System identified 654 accessions with Brix value larger than 10, which in turn was used to select a subset of 233 accessions for evaluation of anthracnose resistant response. Even though most of the accessions were not completely infected by anthracnose, 28 accessions were completely resistant against pathotypes from Texas, Georgia, Florida and Puerto Rico. Genotyping-by-sequencing analysis of this subset identified 157,843 single nucleotide polymorphisms. Population structure analysis of the subset based on a subset of 2,345 unlinked SNPs found that the genetic diversity could be divided into four populations. The genetic relatedness among accessions within populations suggests most of the resistant germplasm may contain few different resistance sources. These resistance sources present in sweet sorghum germplasm could expedite the development of new resistant sweet sorghum cultivars and hybrids by avoiding time-consuming introgression breeding approaches with non-sweet sorghums serving as donor of the resistance alleles.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2024

Distributed Wind Monitoring Best Practices

Accessible performance and operational data have been identified as a key enabler for distributed wind energy industry advancement. While utility-scale wind turbines benefit from reliable and continuous supervisory control and data acquisition (SCADA)-based monitoring platforms, monitoring of the U.S. fleet of distributed wind (DW) turbines has been more inconsistent, unreliable, and sometime difficult to access. Without fleet monitoring data, the industry will never understand and thus work to improve turbine under-performance and reliability issues. For the DW industry to scale up, attract investors, and boost credibility, fleetwide monitoring must be robust and reliable, select data must be made accessible to stakeholders, and the data must be in a format useful to users. To help move the industry toward a more standardized, accessible stream of monitoring data, this distributed wind monitoring best practices report attempts to cover topics including key monitoring channels, hardware, communication strategies, and accessibility. Strategic engagement with DW original equipment manufacturers (OEMs), service providers, lab and university researchers, testing organization, certification bodies, end users and solar photovoltaic (PV) monitoring experts has enabled a better understanding of the current state-of-the-art of monitoring and aided in articulating this set of best practices that will guide OEMs toward harmonized monitoring strategies, aimed at a future goal of achieving accessible performance and operational data for the entire fleet of U.S. distributed wind turbines.

17 WIND ENERGY↗

DOE OSTI2025

A Software/Hardware Framework for Efficient and Safe Emergency Response in Post-Crash Scenarios of Battery Electric Vehicles

The adoption rate of battery electric vehicles (EVs) is rapidly increasing. Electric vehicles differ significantly from conventional internal combustion engine vehicles and vary widely across different manufacturers. Emergency responders (ERs) and recovery personnel may have less experience with EVs and lack timely access to critical information such as the extent of the stranded energy present, high-voltage safety hazards, and post-crash handling procedures in a user-friendly manner. This paper presents a software/hardware interactive tool named Electric Vehicle Information for Incident Response Solutions (EVIRS) to aid in the quick access to emergency response and recovery information. The current prototype of EVIRS identifies EVs using the VIN or Make, Model, and Year, and offers several useful features for ERs and recovery personnel. These features include integration and easy access to emergency response procedures tailored to an identified EV, vehicle structural schematics, the quick identification of battery pack specifications, and more. For EVs that are not severely damaged, EVIRS can perform calculations to estimate stranded energy in the EV’s battery and discharge time for various power loads using either EV dashboard information or operational data accessed through the CAN interface. Knowledge of this information may be helpful in the post-crash handling, management, and storage of an EV. The functionality and accuracy of EVIRS were demonstrated through laboratory tests using a 2021 Ford Mach-E and associated data acquisition system. The results indicated that when the remaining driving range was used as an input, EVIRS was able to estimate the pack voltage with an error of less than 3 V. Conversely, when pack voltage was used as an input, the estimated state of charge (SOC) error was less than 5% within the range of 30–90% SOC. Additionally, other features, such as retrieving emergency response guides for identified EVs and accessing lessons learned from archived incidents, have been successfully demonstrated through EVIRS for quick access. EVIRS can be a valuable tool for emergency responders and recovery personnel, both in action and during offline training, by providing crucial information related to assessing EV/battery safety risks, appropriate handling, de-energizing, transport, and storage in an integrated and user-friendly manner.

25 ENERGY STORAGE↗

DOE OSTI2025

Evaluating the impacts of Variable Message Signs on Airport Curbside Performance Using Microsimulation

Curbs play a vital role in facilitating vehicle access and egress for individuals at airports. Inefficiently allocating this resource hinders airport accessibility and productivity, resulting in congestion, longer travel times, and increased pollution. As airport demand fluctuates throughout the day and grows over time, airports face intensified curbside pressure. Yet, curb management research is significantly less robust at airports than in urban areas. Given the unbalanced nature of airport demand—riders tend to arrive simultaneously at specific entrances at certain hours—Variable Message Sign (VMS) arises as a cost-effective technology to divert vehicles from congested to underutilized curbs. Still, VMS implementation faces a significant challenge. Historically, airports have managed VMS heuristically and by intuition rather than an evidence-based approach. This research investigates the impacts of implementing VMS on curb performance at airports. By considering different driver compliance rates (DCR), we aim to determine when the sign should be turned on and off to diverge traffic to avoid undesired externalities while enhancing curb performance. Using a validated agent-based microsimulation model, VISSIM, we analyzed the Seattle-Tacoma (SeaTac) Airport as a case study. We modeled sixteen VMS management scenarios and a baseline where the message sign is not displayed, diverging vehicles between the departures and arrivals access levels at four different moments (early morning, morning, afternoon, and late night). We quantified the effects of VMS using seven metrics, including curb productivity index (CPI), curb accessibility (CA), queue length, queue duration, delay, vehicle counts, and emissions. The results of each scenario were compared against the baseline using absolute and relative changes and Repeated Measures ANOVA. Overall, VMS improved curb performance and traffic conditions at the airport, reducing emissions by 14.8% to 8.9%. Moreover, significant reductions in queue length (1,150 ft to 100 ft) and duration (15 to 144 minutes) were observed in the sending link under all VMS policies. However, impacts on the receiving link varied based on congestion, with significant increases in queue duration (9.8 to 24 min) when congested but no substantial changes in free flow. Notably, diverging vehicles to congested links resulted in non-significant results, and activating late and deactivating late VMS affected curb productivity (-5.8% to -61.4%), curb accessibility (-16.5% to -25.8%), cumulative counts (-33.4% to -59.4%), and vehicle delay (95.98% to 594.3%). Activating VMS before congestion begins in the sending link and deactivating before a queue forms in the receiving link yield the most significant improvements: 8.1% to 10.1% in CPI, 9.4% to9.6% in CA, -29.3% to -77.9% in total delay, -11.6% to -13.9% in total emissions, and 101% to 103% in cumulative counts. As the analysis was made with a wide range of time periods, access levels, driver compliance rates, and scenarios, we believe our findings can provide valuable insights into how airports should manage VMS. Our work introduces a novel approach to the scientific airport literature, as some of our metrics were previously unexplored. Additionally, we propose a methodology that other airports can adopt to maximize their curb performance.

Gutierrez, Jorge D.↗

DOE OSTI2025

Where to cool off: a geospatial framework for placement of cooling centers

Indoor cooling is essential to reduce heat stress and increase passive survivability during heatwaves. Although air conditioning (AC) is recommended for maintaining indoor thermal comfort, low- and medium-income households in the U.S. often do not own an AC and/or limit AC usage to reduce energy consumption and associated costs, thereby risking their health and safety. With the frequency and intensity of heatwaves increasing, cooling centers are considered an appropriate alternative to indoor cooling and a possible mitigation strategy to prevent adverse health impacts of heat exposure. However, these centers are limited in numbers and not always accessible. This requires (i) developing a geospatial framework using physical and social factors for optimal siting of cooling centers to meet future needs and (ii) ranking of existing and potential cooling centers (schools, libraries, religious institutions) based on their accessibility among vulnerable populations and proximity to healthcare facilities. We developed and deployed a geospatial framework based on the Multi-criteria Decision Analysis approach in five U.S. cities (Los Angeles (LA), Phoenix, Austin, Atlanta, Miami) to evaluate the effectiveness of the framework in ranking cooling centers based on accessibility and population coverage. The results revealed that (i) access to cooling centers varies across cities and 32.2–50.7% of centers are within walking distance of the most vulnerable populations, (ii) vulnerable populations exposed to Urban Heat Island (UHI) effects are more likely to experience energy burden, and (iii) about 21.2–49.4% of population with high energy burden have access to these centers. Considering that more cooling centers are needed to assist energy burdened households alleviate heat exposure impacts, the framework developed herein could be adapted to incorporate other factors (e.g. health impacts, policies) to assess site suitability of existing shelters, identify potential sites for new cooling centers, and geo-target communities where energy efficient emerging technologies could be deployed to reduce heat stress.

58 GEOSCIENCES↗

DOE OSTI2022

Natural variation and improved genome annotation of the emerging biofuel crop field pennycress ( Thlaspi arvense )

The Brassicaceae family comprises more than 3,700 species with a diversity of phenotypic characteristics, including seed oil content and composition. Recently, the global interest in Thlaspi arvense L. (pennycress) has grown as the seed oil composition makes it a suitable source for biodiesel and aviation fuel production. However, many wild traits of this species need to be domesticated to make pennycress ideal for cultivation. Molecular breeding and engineering efforts require the availability of an accurate genome sequence of the species. Here, we describe pennycress genome annotation improvements, using a combination of long- and short-read transcriptome data obtained from RNA derived from embryos of 22 accessions, in addition to public genome and gene expression information. Our analysis identified 27,213 protein-coding genes, as well as on average 6,188 biallelic SNPs. In addition, we used the identified SNPs to evaluate the population structure of our accessions. The data from this analysis support that the accession Ames 32872, originally from Armenia, is highly divergent from the other accessions, while the accessions originating from Canada and the United States cluster together. When we evaluated the likely signatures of natural selection from alternative SNPs, we found 7 candidate genes under likely recent positive selection. These genes are enriched with functions related to amino acid metabolism and lipid biosynthesis and highlight possible future targets for crop improvement efforts in pennycress.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2025

Integrating the Mobility Energy Productivity Metric Into the Delaware Department of Transportation Statewide Model

The Mobility Energy Productivity (MEP) metric quantifies the quality of mobility at a given location and evaluates how changes in the transportation system impact mobility over time, such as through infrastructure investments. This study demonstrates the integration of the MEP metric into the Delaware Department of Transportation's (DelDOT's) transportation planning process by utilizing data from its statewide travel demand model. Specifically, the study assesses MEP for the 2020 baseline conditions and three alternative scenarios - 2030, Churchman, and Old Orchard - across multiple travel modes, including driving, walking, biking, and transit. The findings highlight that mobility and accessibility in Delaware are primarily supported by the driving mode, while transit services remain relatively limited, often ranking below biking and walking in many areas. In the 2030 scenario, where network operations and opportunities expand as projected, overall statewide accessibility declines, although Kent and Sussex counties experience improvements. The results from the Churchman and Old Orchard scenarios indicate that local network enhancements can positively influence accessibility, though primarily at a localized level, demonstrating MEP's capability to capture regional accessibility changes. Further, the National Renewable Energy Laboratory team successfully transferred MEP operational knowledge to the DelDOT team through dockerization, enabling DelDOT to independently run MEP for various scenarios of interest. Integrating MEP into DelDOT's planning framework supports future project evaluations and decision-making by incorporating access to opportunities as a key dimension of transportation system assessment.

33 ADVANCED PROPULSION SYSTEMS↗

DOE OSTI2025

mzPeak: Designing a Scalable, Interoperable, and Future-Ready Mass Spectrometry Data Format

Advances in mass spectrometry (MS) instrumentation, such as higher resolution, faster scan speeds, and improved sensitivity, have significantly increased the volume and complexity of data. The growing adoption of imaging and ion mobility further amplifies these challenges across MS-based omics fields, including proteomics, metabolomics, and lipidomics. While these technologies unlock new possibilities, they also present significant challenges in data management, storage, and accessibility. Existing open formats, such as the XML-based community standards mzML and imzML, struggle to meet the demands of modern MS workflows due to their large file sizes, slow data access, and limited metadata support. Vendor-specific formats, while optimized for proprietary instruments, lack interoperability, comprehensive metadata support and long-term archival reliability. This white paper lays the groundwork for mzPeak, a next-generation community data format designed to address these challenges and support high-throughput, multi-dimensional MS workflows. By adopting a hybrid model that combines efficient binary storage for numerical data and both human and machine-readable metadata storage, mzPeak will reduce file sizes, accelerate data access, and offer a scalable, adaptable solution for evolving MS technologies. For researchers, mzPeak will enable enhanced interoperability across platforms, seamless support for complex workflows including ion mobility and MS imaging, and faster data access compared to existing community formats such as mzML. Its design will ensure data is managed in compliance with regulatory standards, essential for applications such as precision medicine and chemical safety, where long-term data integrity and accessibility are critical. For vendors, mzPeak provides a streamlined, open alternative to proprietary formats, reducing the burden of regulatory compliance while aligning with the industry's push for transparency and standardization. By offering a high-performance, interoperable solution, mzPeak positions vendors to meet customer demands for sustainable data management tools which will be able to handle emerging and future data types and workflows. mzPeak aspires to become the cornerstone of MS data management, empowering researchers, vendors, and developers to innovate and collaborate more effectively.

data formats↗