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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 379 records · Page 21
All sourcesNASA NTRSDOE OSTI
DOE OSTI2026

Study on Application of Distributed Network of Sensors with List Mode for NMAC Literature Review

Nuclear material accounting and control (NMAC) for nuclear security detects, deters, and resolves questions related to unauthorized removal (i.e. theft) or misuse of nuclear material. NMAC also serves as a key insider threat mitigation measure and aids in recovery of nuclear material that is missing. Effective nuclear security depends on NMAC for timely and accurate information about nuclear material types, quantities, and locations. Bulk nuclear material processing facilities, however, present unique challenges for effective NMAC due to the presence of large quantities of material in-process and the accumulation of residual material holdup within process equipment. These holdup accumulations can obscure accurate physical inventory taking and complicate efforts to resolve NMAC irregularities at the facility level. Bulk material monitoring systems often rely on material balance calculations and indirect measurement techniques, which may mask protracted theft of smaller amounts of nuclear material. These monitoring limitations have generated increased interest in continuous monitoring technologies, including distributed non-destructive assay (NDA) sensor networks capable of providing real-time or near-real-time measurement of material movement and accumulation within bulk processing environments. Recent advancements in distributed networks of NDA radiation detectors and sensing technologies provide an opportunity to address these limitations. Although such distributed sensor networks have been implemented in select facilities for IAEA Safeguards applications, their potential for supporting NMAC functions specifically tailored to nuclear security objectives remains largely unexplored. Furthermore, emerging list-mode data acquisition technologies have reached high technology readiness levels, enabling time-correlated detection of nuclear events across multiple temporal scales. These capabilities provide enhanced opportunities for accurate holdup measurement, continuous process monitoring, and improved detection of material theft or misuse over time. The increasing global expansion of civil nuclear power and development of related bulk material processing facilities, including those supporting high-assay low-enriched uranium (HALEU) and other advanced reactor fuel fabrication, further increases the need for advanced measurement and monitoring strategies for NMAC.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2026

Constraining high-energy neutrinos from tidal disruption events with IceCube high-energy starting events

Tidal disruption events (TDEs) have been proposed as candidate sources of high-energy neutrinos. Successful and choked jets, as well as the accretion disk, corona, wind, and outflow regions in a TDE have been examined and shown to produce TeV - PeV neutrinos. In this work, we use the IceCube 12.5 year high energy starting events (HESE) dataset and perform a maximum likelihood analysis to investigate the spatial and temporal correlations between HESE dataset and a selected sample of 89 TDEs. Our results indicate that the currently observed data do not show any significant correlation and hence is consistent with the background only hypothesis. Using this result, we place constraints on the fraction of TDEs harboring intrinsic jets ($f_{\rm jet}$) and the corresponding isotropic-equivalent cosmic ray (CR) energy ($\mathcal{E}_{\rm CR}$). We note that even with limited statistics, we can constrain the parameter space as $\mathcal{E}_{\rm CR} \lesssim 3 \times 10^{53}$ erg for $f_{\rm jet} \gtrsim 0.6$ at more than 90% C.L. Finally, we discuss the theoretical implications of our results and the limits on the all-sky diffuse neutrino flux from TDEs. With more observational data in the electromagnetic band for TDEs and neutrino observations from IceCube and KM3NeT, our analysis can be used to place stringent constraints on physical parameters associated with TDEs.

Mukhopadhyay, Mainak [Fermilab; Chicago U., KICP; ↗
DOE OSTI2024

STFM: Accurate Spatio-Temporal Fusion Model for Weather Forecasting

Meteorological prediction is crucial for various sectors, including agriculture, navigation, daily life, disaster prevention, and scientific research. However, traditional numerical weather prediction (NWP) models are constrained by their high computational resource requirements, while the accuracy of deep learning models remains suboptimal. In response to these challenges, we propose a novel deep learning-based model, the Spatiotemporal Fusion Model (STFM), designed to enhance the accuracy of meteorological predictions. Our model leverages Fifth-Generation ECMWF Reanalysis (ERA5) data and introduces two key components: a spatiotemporal encoder module and a spatiotemporal fusion module. The spatiotemporal encoder integrates the strengths of convolutional neural networks (CNNs) and recurrent neural networks (RNNs), effectively capturing both spatial and temporal dependencies. Meanwhile, the spatiotemporal fusion module employs a dual attention mechanism, decomposing spatial attention into global static attention and channel dynamic attention. This approach ensures comprehensive extraction of spatial features from meteorological data. The combination of these modules significantly improves prediction performance. Experimental results demonstrate that STFM excels in extracting spatiotemporal features from reanalysis data, yielding predictions that closely align with observed values. In comparative studies, STFM outperformed other models, achieving a 7% improvement in ground and high-altitude temperature predictions, a 5% enhancement in the prediction of the u/v components of 10 m wind speed, and an increase in the accuracy of potential height and relative humidity predictions by 3% and 1%, respectively. This enhanced performance highlights STFM’s potential to advance the accuracy and reliability of meteorological forecasting.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Addressing Issues with Working Memory in Video Object Segmentation

Contemporary state-of-the-art video object segmentation (VOS) models compare incoming unannotated images to a history of image-mask relations via affinity or cross-attention to predict object masks. We refer to the internal memory state of the initial image-mask pair and past image-masks as a working memory buffer. While the current state of the art models perform very well on clean video data, their reliance on a working memory of previous frames leaves room for error. Affinity-based algorithms include the inductive bias that there is temporal continuity between consecutive frames. To account for inconsistent camera views of the desired object, working memory models need an algorithmic modification that regulates the memory updates and avoid writing irrelevant frames into working memory. A simple algorithmic change is proposed that can be applied to any existing working memory-based VOS model to improve performance on inconsistent views, such as sudden camera cuts, frame interjections, and extreme context changes. The resulting model performances show significant improvement on video data with these frame interjections over the same model without the algorithmic addition. Our contribution is a simple decision function that determines whether working memory should be updated based on the detection of sudden, extreme changes and the assumption that the object is no longer in frame. By implementing algorithmic changes, such as this, we can increase the real-world applicability of current VOS models.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2024

Integrating multi-modal remote sensing, deep learning, and attention mechanisms for yield prediction in plant breeding experiments

In both plant breeding and crop management, interpretability plays a crucial role in instilling trust in AI-driven approaches and enabling the provision of actionable insights. The primary objective of this research is to explore and evaluate the potential contributions of deep learning network architectures that employ stacked LSTM for end-of-season maize grain yield prediction. A secondary aim is to expand the capabilities of these networks by adapting them to better accommodate and leverage the multi-modality properties of remote sensing data. In this study, a multi-modal deep learning architecture that assimilates inputs from heterogeneous data streams, including high-resolution hyperspectral imagery, LiDAR point clouds, and environmental data, is proposed to forecast maize crop yields. The architecture includes attention mechanisms that assign varying levels of importance to different modalities and temporal features that, reflect the dynamics of plant growth and environmental interactions. The interpretability of the attention weights is investigated in multi-modal networks that seek to both improve predictions and attribute crop yield outcomes to genetic and environmental variables. This approach also contributes to increased interpretability of the model's predictions. The temporal attention weight distributions highlighted relevant factors and critical growth stages that contribute to the predictions. The results of this study affirm that the attention weights are consistent with recognized biological growth stages, thereby substantiating the network's capability to learn biologically interpretable features. Accuracies of the model's predictions of yield ranged from 0.82-0.93 R 2 ref in this genetics-focused study, further highlighting the potential of attention-based models. Further, this research facilitates understanding of how multi-modality remote sensing aligns with the physiological stages of maize. The proposed architecture shows promise in improving predictions and offering interpretable insights into the factors affecting maize crop yields, while demonstrating the impact of data collection by different modalities through the growing season. By identifying relevant factors and critical growth stages, the model's attention weights provide valuable information that can be used in both plant breeding and crop management. The consistency of attention weights with biological growth stages reinforces the potential of deep learning networks in agricultural applications, particularly in leveraging remote sensing data for yield prediction. To the best of our knowledge, this is the first study that investigates the use of hyperspectral and LiDAR UAV time series data for explaining/interpreting plant growth stages within deep learning networks and forecasting plot-level maize grain yield using late fusion modalities with attention mechanisms.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Micro Rain Radar Pro Data at the Argonne Testbed for Multiscale Observational Science obtained during the CROCUS Urban Integrated Field Laboratory

The Micro Rain Radar Pro (MRR-PRO) is a vertically pointing Ka-band Doppler radar designed to capture the fine-scale structure and evolution of precipitation. By recording the full Doppler spectrum at high temporal and spatial resolution, the MRR-PRO provides insight into both hydrometeor fall velocities and precipitation microphysics. From these spectra, key moments—reflectivity, mean Doppler velocity, spectral width, and rainfall rate—are derived and stored alongside the raw spectral data in CF/Radial 1.4-compliant files. Deployed at the Argonne Testbed for Multiscale Observational Studies (ATMOS) since November 2024, the MRR-PRO delivers vertical profiles at 70 m range resolution extending up to 4.5 km above ground level. These observations enable detailed analyses of precipitation type, intensity, and vertical structure, supporting process-level studies of cloud and precipitation dynamics in diverse weather regimes.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

PPI DataHub Project Data Package: S. elongatus PCC 7942 Circadian Control Bioproduction Metabolomics (PB-DP5)

The purpose of this experiment was to evaluate how circadian clock regulation impacts carbon partitioning between storage, growth, and product synthesis in Synechococcus elongatus PCC 7942 in providing insights to strategies for enhanced bioproduction. Culture samples were collected at 0, 0.5, 1, 2, 4, 6, and 8 hours for extracellular sucrose analysis. Circadian metabolomics data was acquired using a Agilent single quadrupole gas chromatography-mass spectrometer and processed using Agilent Mass Hunter for targeted sucrose quantification. Metabolomic analysis of PCC 7942 light-dark cycle cultures transitioned to constant light revealed distinct temporal patterns in sucrose production. Processed metabolomic datasets are openly accessible from the PNNL DataHub project dataset download page and contain secondary processed GC-MS results files and supporting metadata materials linked to relevant source code information supporting data transparency and reuse.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2024

CROCUS Weather Data at Argonne National Laboratory Prairie Site

Vaisala WXT sensor is an all-in-one weather instrument that provides 6 of the most important weather parameters: barometric pressure, temperature, relative humidity, rainfall, wind speed and direction. Temperature, pressure, relative humidity, and rainfall are sampled at 1 second frequency, while wind speed/direction is measured at ten per second (10Hz) frequency. These measurements are useful for looking at characterizing local weather, identifying unique weather events, and studying local turbulence, especially given the high temporal resolution of the wind measurements. These measurements are collected at the Argonne Testbed for Multiscale Observational Science (ATMOS), a prairie field site at Argonne National Laboratory in Lemont, Illinois. Data is available in the netCDF data format, we encourage data users review documentation through Project Pythia to understand how to work with netCDF data https://foundations.projectpythia.org/core/data-formats/netcdf-cf.html. The data is aggregated into daily frequency to make it easier to process multiple days, and compress the higher-resolution fields. Each file contains one day's worth of data (24 hours, starting at 0000 UTC). File naming convention includes the project (CROCUS), location (atmos), data level (raw, a1), date (year, month, day), and hour (0000).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Five Years of Dissolved Oxygen, Temperature, Salinity, Depth, Weather Data from a Transitioning Wetland at Beaver Creek, Washington, USA

Groundwater dissolved oxygen (DO) variability in coastal system remains poorly understood despite its importance for biogeochemical cycling and ecosystem modeling. Here we investigate the temporal variability in groundwater DO and its hydro-climatic drivers across hourly to seasonal timescales in a transitioning wetland at Beaver Creek, Washington, USA. The site is transitioning from a freshwater forest to a brackish tidal wetland following removal of a barrier in 2014 that prevented tides from accessing the freshwater creek. By utilizing novel optical dissolved oxygen instrumentation (Opti O2, LLC) we obtained continuous, high-frequency (5-minute), in-situ measurements of DO from the flood-plain from June 26th, 2019 through September 30th, 2024. This 63 month dataset is comprised of groundwater dissolved oxygen, temperature, water level and salinity timeseries from the floodplain. This dataset also includes rainfall, air pressure, air temperature, and solar radiation data collected with a co-located Campbell ClimaVUE50 weather sensor. All data is contained within a single csv (2019-06-26 to 2024-09-30 Beaver Creek DO, saln, BGS, temp, weather.csv) that can easily be viewed either using software such as Excel or using any text editor.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Assessing Radiative Feedbacks and Their Contribution to the Arctic Amplification Measured by Various Metrics

Arctic amplification (AA), characterized by a more rapid surface air temperature (SAT) warming in the Arctic than the global average, is a major feature of global climate warming. Various metrics have been used to quantify AA based on SAT anomalies, trends, or variability, and they can yield quite different conclusions regarding the magnitude and temporal patterns of AA. This study examines and compares various AA metrics for their temporal consistency in the region north of 70°N from the early twentieth to the early 21st century using observational data and reanalysis products. We also quantify contributions of different radiative feedback mechanisms to AA based on short-term climate variability in reanalysis and model data using the Kernel-Gregory approach. Albedo and lapse rate feedbacks are positive and comparable, with albedo feedback being the leading contributor for all AA metrics. The net cloud feedback, which has large uncertainties, depends strongly on the data sets and AA metrics used. By quantifying the influence of internal variability on AA and related feedbacks based on global climate model ensemble simulations, we find that water vapor and cloud feedbacks are most heavily affected by internal variability.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Estimating Interplanetary Magnetic Field Conditions at Mercury's Orbit From MESSENGER Magnetosheath Observations Using a Feedforward Neural Network

Abstract Mercury's small magnetosphere is embedded in the dynamic and intense solar wind environment characteristic of the inner heliosphere. Both the magnitude and orientation of the interplanetary magnetic field (IMF) significantly influence the solar wind‐magnetospheric interaction at Mercury, driving phenomena such as magnetic reconnection. The MErcury Surface, Space Environment, Geochemistry and Ranging (MESSENGER) spacecraft provided in‐situ magnetic field measurements of the solar wind, the magnetosheath, and the magnetosphere along each orbit. However, it is a challenge to directly assess the IMF's impact on Mercury's plasma environment due to the temporal separation between observations within the solar wind and the magnetosphere, especially in the absence of an upstream monitor. Here, we present a feedforward neural network (FNN) trained on a subset of magnetosheath observations to estimate the strength and orientation of the IMF upstream of the bow shock. Utilizing magnetosheath magnetic field, cylindrical spatial coordinates, and heliocentric distance measurements, the FNN predicts upstream IMF conditions with an score of 0.70 and mean averaged error of 5.3 nT, thereby greatly decreasing the temporal separation between IMF estimates and magnetospheric measurements throughout the MESSENGER mission. This approach yields IMF estimates for all magnetosheath data measured by MESSENGER, providing a useful tool for future investigations of the IMF impact on Mercury's magnetosphere. This method will be integrable with the dual‐spacecraft BepiColombo magnetosheath measurements, providing useful estimates of upstream IMF conditions particularly during the extended periods in which neither spacecraft sample the solar wind. Our results demonstrate the utility of machine learning techniques on advancing space science research.

Bowers, Charles F.↗
DOE OSTI2024

Using convolutional neural networks to detect edge localized modes in DIII-D from Doppler backscattering measurements

In H-mode tokamak plasmas, the plasma is sometimes ejected beyond the edge transport barrier. These events are known as edge localized modes (ELMs). ELMs cause a loss of energy and damage the vessel walls. Understanding the physics of ELMs, and by extension, how to detect and mitigate them, is an important challenge. In this paper, we focus on two diagnostic methods—deuterium-alpha (D α ) spectroscopy and Doppler backscattering (DBS). The former detects ELMs by measuring Balmer alpha emission, while the latter uses microwave radiation to probe the plasma. DBS has the advantages of having a higher temporal resolution and robustness to damage. These advantages of DBS diagnostic may be beneficial for future operational tokamaks, and thus, data processing techniques for DBS should be developed in preparation. In sight of this, we explore the training of neural networks to detect ELMs from DBS data, using D α data as the ground truth. With shots found in the DIII-D database, the model is trained to classify each time step based on the occurrence of an ELM event. The results are promising. When tested on shots similar to those used for training, the model is capable of consistently achieving a high f1-score of 0.93. Furthermore, this score is a performance metric for imbalanced datasets that ranges between 0 and 1. We evaluate the performance of our neural network on a variety of ELMs in different high confinement regimes (grassy ELM, RMP mitigated, and wide-pedestal), finding broad applicability. Beyond ELMs, our work demonstrates the wider feasibility of applying neural networks to data from DBS diagnostic.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2026

Powered By reV [Slides]

The reV model empowers users to calculate energy capacity, generation, and cost based on geospatial intersection with grid infrastructure and land-use characteristics. The tool can model a single site up to an entire continent at temporal resolutions ranging from five minutes to hourly, spanning a single year or multiple decades. By automating access to resource data at unprecedented scale, fidelity, and flexibility, the reV model integrates formerly disparate analysis frameworks in the fields of resource modeling, technical potential, and energy cost supply curves.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗
DOE OSTI2026

Alaska Meteorology, Energy, and Transmission (MET) Toolkit

The Alaska MET (Meteorology, Energy, and Transmission) Toolkit is the National Laboratory of the Rockies' (NLR) new flagship atmospheric dataset, designed to support comprehensive long-term planning and operations across the entire power sector. Serving as the regional counterpart to CONUS-wide HRRR MET Toolkit, this dataset provides a comprehensive, high-fidelity meteorological record covering Alaska.The Alaska MET Toolkit is delivered at an hourly resolution on a standardized 2-km horizontal grid. This dataset is repackaged from the National Oceanic and Atmospheric Administration's (NOAA) operational High-Resolution Rapid Refresh for Alaska (HRRR-AK) forecasts. Spanning from 2019 to 2025, it overcomes the technical barriers of native weather models by providing spatial regridding from the native 3-km HRRR-AK horizontal resolution to a 2-km grid, temporal gap-filling, and vertical interpolation at key energy-relevant heights. By delivering highly accurate, validation-backed data across a comprehensive suite of atmospheric variables - including temperature, pressure, humidity, and wind characteristics - the Alaska MET Toolkit provides a highly accessible and strictly standardized foundation for modern power system modeling.

17 WIND ENERGY↗
DOE OSTI2024

Event-Based Energy Impact Tracking and Forecasting with Limited Measurements for Rooftop Units

Packaged air conditioning units and heat pumps, also known as rooftop units (RTUs), are responsible for almost 133 billion kWh of electricity usage annually on site for space cooling U.S. commercial buildings. In addition, the use of heat pumps is a trend we expect to accelerate as buildings transition from fossil fuel-based heating to electricity as a key step for decarbonizing the U.S. commercial buildings sector. However, the operation conditions and energy use of RTUs and heat pumps are usually not well monitored as they are not commonly integrated with building automation systems and lack exposed sensing and control points. To fill this gap, this paper proposes a framework for tracking and forecasting energy impacts resulting from degradation of performance and improved performance for unit servicing using limited data. The proposed framework makes use of a constrained dataset, specifically measurements of the outdoor air temperature and the power demand of individual RTUs, to track and forecast changes in energy use associated with changes in performance over various temporal horizons ranging from days to weeks. Following the detection of an RTU fault, performance degradation, or performance improvement, the framework employs a prediction model to assess the cumulative energy impact. We demonstrate the effectiveness of the method with field-collected data for servicing and degradation examples and compare the predicting accuracy of Gradient Boosting Decision Tree (GBDT) Regression models to Support Vector Regression and Linear Regression models. The results show that GBDT achieved the best accuracy for time-series validation datasets for the servicing and degradation cases, and the prediction model was able to track the cumulative energy impacts of events. The proposed framework can inform building owners of the cumulative change in energy usage of RTUs associated with performance degradation, performance improvement, or a fault.

packaged air conditioners, packaged heat pumps, ro↗
DOE OSTI2025

In situ Visible Light and Thermal Imaging Data from a Laser Powder Bed Fusion Additive Manufacturing Process Co-Registered to X-ray Computed Tomography and Fatigue Data

This dataset is comprised of in situ sensing data collected during a laser-based powder bed fusion additive manufacturing process, as well as rasterized scan path information, post-build X-ray computed tomography (XCT), and fatigue test results. A total of 64 cylinders, approximately 15 mm in diameter and 102 mm tall, were printed out of stainless steel 316H on a Colibrium Additive Concept Laser M2 Series 5 machine. Parameters known to produce dense material were used to construct 56 of these cylinders, while the remaining 8 cylinders were printed with relatively high energy density parameters prone to producing keyhole pores. In addition, two spatter generation blocks were constructed upstream of the 64 cylinders such that ejecta produced during the melting of the spatter generators were stochastically seeded onto the 64 cylinders. Based on previous experiments, these spatter particles were theorized to produce stochastic lack-of-fusion pores. During the construction of the build, high-resolution images of reflected light in the visible spectrum were captured both before and after recoating for each print layer. Additionally, temporally integrated thermal imaging in the near infrared spectrum produced integrated sum and max images on a layerwise basis. The multimodal in situ data has been co-registered to the build plate coordinate system, allowing for identification of process anomalies (e.g., spatter particles) apparent in the two sensors. Following construction of the build, the cylinders were subjected to XCT to identify internal flaws, and the resulting data have also been registered to the build plate coordinate system. Finally, 60 of the 64 cylinders were machined into fatigue coupons conforming to ASTM E466 and subsequently subjected to either high- or -low-cycle fatigue testing. The results of the fatigue tests have also been included in the dataset, and the XCT data corresponded to the approximate location of the gauge sections of the machine fatigue specimen geometry.

42 ENGINEERING↗
DOE OSTI2025

Perspectives on Systematic Cloud Microphysics Scheme Development With Machine Learning

Cloud microphysics—the collection of processes that govern the small‐scale formation, evolution, and interactions of liquid droplets and ice crystals in clouds and precipitation—remains a major source of uncertainty in weather and climate models. Although too small in scale to be explicitly resolved in any large‐eddy simulation, weather, or climate model, the representation of cloud microphysical processes has significant impact at the climate scale. Current microphysical schemes are limited by both parametric uncertainty, linked to uncertainty in physical parameter values, and structural uncertainty, arising from incomplete physical understanding of the processes at play or approximations made for computational efficiency. Recent advances in the application of machine learning (ML) to the physical sciences show significant potential for minimizing these limitations by leveraging high‐fidelity simulations and observations. Here we outline the challenges that must be addressed to apply ML toward cloud microphysics scheme development. This perspectives paper synthesizes recent progress in using data‐driven methods, including ML, to improve cloud microphysics parameterizations and highlights opportunities to address key uncertainties. We discuss the roles of aleatoric (irreducible, or statistical) and epistemic (reducible, or systematic) errors in contributing to microphysics parameterization uncertainty. ML can leverage observations to improve microphysical schemes via bottom‐up and top‐down constraints. Methods such as differentiable programming and ML‐enhanced sampling strategies and the creation of large scale benchmark data sets promise to bridge the gap between observations and models and to improve the consistency of cloud microphysical representation across temporal and spatial scales.

Lamb, Kara D. [Columbia Univ., New York, NY (Unite↗
DOE OSTI2025

Addressing the dynamic nature of reference data: a new nucleotide database for robust metagenomic classification

Accurate metagenomic classification relies on comprehensive, up-to-date, and validated reference databases. While the NCBI BLAST Nucleotide (nt) database, encompassing a vast collection of sequences from all domains of life, represents an invaluable resource, its massive size—currently exceeding 10 12 nucleotides—and exponential growth pose significant challenges for researchers seeking to maintain current nt-based indices for metagenomic classification. Recognizing that no current nt-based indices exist for the widely used Centrifuge classifier, and the last public version currently available was released in 2018, we addressed this critical gap by leveraging advanced high-performance computing resources. We present new Centrifuge-compatible nt databases, meticulously constructed using a novel pipeline incorporating different quality control measures, including reference decontamination and filtering. These measures demonstrably reduce spurious classifications, as shown through our reanalysis of published metagenomic data where Plasmodium annotations were dramatically reduced using our decontaminated database, highlighting how database quality can significantly impact research conclusions. Through temporal comparisons, we also reveal how our approach minimizes inconsistencies in taxonomic assignments stemming from asynchronous updates between public sequence and taxonomy databases. These discrepancies are particularly evident in taxa such as Listeria monocytogenes and Naegleria fowleri, where classification accuracy varied significantly across database versions. These new databases, made available as pre-built Centrifuge indexes, respond to the need for an open, robust, nt-based pipeline for taxonomic classification in metagenomics. Applications such as environmental metagenomics, forensics, and clinical metagenomics, which require comprehensive taxonomic coverage, will benefit from this resource. Our work highlights the importance of treating reference databases as dynamic entities, subject to ongoing quality control and validation akin to software development best practices. This approach is crucial for ensuring accuracy and reliability of metagenomic analysis, especially as databases continue to expand in size and complexity.

59 BASIC BIOLOGICAL SCIENCES↗