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DOE OSTI2024

MISIP: a data standard for the reuse and reproducibility of any stable isotope probing-derived nucleic acid sequence and experiment

DNA/RNA-stable isotope probing (SIP) is a powerful tool to link in situ microbial activity to sequencing data. Every SIP dataset captures distinct information about microbial community metabolism, process rates, and population dynamics, offering valuable insights for a wide range of research questions. Data reuse maximizes the information derived from the labor and resource-intensive SIP approaches. Yet, a review of publicly available SIP sequencing metadata showed that critical information necessary for reproducibility and reuse was often missing. Here, we outline the Minimum Information for any Stable Isotope Probing Sequence (MISIP) according to the Minimum Information for any (x) Sequence (MIxS) framework and include examples of MISIP reporting for common SIP experiments. Our objectives are to expand the capacity of MIxS to accommodate SIP-specific metadata and guide SIP users in metadata collection when planning and reporting an experiment. The MISIP standard requires 5 metadata fields—isotope, isotopolog, isotopolog label, labeling approach, and gradient position—and recommends several fields that represent best practices in acquiring and reporting SIP sequencing data (e.g., gradient density and nucleic acid amount). The standard is intended to be used in concert with other MIxS checklists to comprehensively describe the origin of sequence data, such as for marker genes (MISIP-MIMARKS) or metagenomes (MISIP-MIMS), in combination with metadata required by an environmental extension (e.g., soil). The adoption of the proposed data standard will improve the reuse of any sequence derived from a SIP experiment and, by extension, deepen understanding of in situ biogeochemical processes and microbial ecology.

Simpson, Abigayle↗

DOE OSTI2025

Sustained strain applied at high rates drives dynamic tensioning in epithelial cells

Epithelial cells experience long lasting loads of different magnitudes and rates. How they adapt to these loads strongly impacts tissue health. Yet, much remains unknown about the evolution of cellular stress in response to sustained strain. Here, by subjecting cell pairs to sustained strain, we report a bimodal stress response, where in addition to the typically observed stress relaxation, a subset of cells exhibits a dynamic tensioning process with significant elevation in stress within 100 s, resembling active pulling-back in muscle fibers. Strikingly, the fraction of cells exhibiting tensioning increases with increasing strain rate. The tensioning response is accompanied by actin remodeling, and perturbation to actin abrogates it, supporting cell contractility’s role in the response. Collectively, our data show that epithelial cells adjust their tensional states over short timescales in a strain-rate dependent manner to adapt to sustained strains, demonstrating that the active pulling-back behavior could be a common protective mechanism against environmental stress.

bioinformatics↗

DOE OSTI2025

Exploring the Use of Non‐Invasive Drone‐Based Ground‐Penetrating Radar (GPR) to Characterize Biogenic Gas Dynamics in Subtropical Peat Soils

Peat soils are a critical component of the global carbon cycle as natural producers of biogenic greenhouse gases (e.g., methane and carbon dioxide) that accumulate within the soil and are released to the atmosphere. Previous studies have showed the ability of ground-based minimally-invasive geophysical methods such as ground-penetrating radar (GPR) to characterize carbon dynamics in peat soils. However, ground-based GPR is limited by scale of measurement and soil disturbance potentially altering gas releases during deployment. Here, we explore the potential of drone-based GPR for identification of hot spots and hot moments of gas accumulation and release in subtropical soils. Here, we collected drone-based GPR data sets across two grids (∼17,500 m 2 ) in the Everglades during January (dry season), September, and November (wet season) of 2023 to characterize peat thickness and seasonal variability of gas content. Results show that drone-based GPR is effective and efficient for: (a) capturing the temporal variation of in situ biogenic gas content in peat soils with changes between 1% and 25 % volumetric gas content over repeatable grids; (b) inferring a total peat thickness between 0.8 and 1.2 m; and (c) estimating flux releases of 63 and 135 mg CH 4 m −2 day −1 for specific locations and periods that are strikingly consistent with our coincident gas trap measurements. This work also indicates that (a) spatial distribution of gas content in the Everglades is strongly controlled by landscape morphology such as ridges and sloughs and (b) the temporal variation of gas content is seasonal with increased gas production during the wet season.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2026

Informing Robust Functional Relationship Benchmarks: An Evaluation of the Temperature Sensitivity of Ecosystem Respiration Across the Arctic-Boreal Region

During land model development, simulated carbon dynamics are often benchmarked against observational data sets to evaluate model performance. Functional relationship benchmarks are the relationship between a driving variable (e.g., temperature) and a response variable (e.g., ecosystem respiration) and are a promising tool for assessing model performance by evaluating modeled sensitivities to changing environmental conditions. However, observed functional relationships can be influenced by choices made during data collection and throughout the benchmarking process, impacting the inferred skill of land models. To avoid misrepresenting a model's true performance, it is necessary to systematically evaluate best practices when constructing functional relationship benchmarks. We developed a set of guidelines for constructing functional relationship benchmarks, considering the choice of data set, number of daily observations, temporal extent, and temporal resolution across Alaska and Canada over a 20-year period from 2001 to 2020. The temperature sensitivity of ecosystem respiration from observations, evaluated through an apparent Q 10 , is highly variable both spatially and as a result of the data processing approach applied in the benchmark formation. When benchmarking 13 models from the Warming Permafrost Model Intercomparison Project (WrPMIP), the range in inferred model skill is substantially impacted by the choices applied in constructing functional relationship benchmarks. The inferred performance of a given model is most sensitive to the number of daily observations and temporal extent, followed by choice of benchmark data set and temporal averaging. Results from this analysis can guide the development of consistent and robust functional relationships for future model evaluation studies.

Poe, Jeralyn [Northern Arizona University, Flagsta↗

DOE OSTI2026

Dated soil C–N–P profiles, water quality, and chamber fluxes across Ohio and Michigan wetlands (2024–2025)

This dataset includes dated soil core chemistry (bulk density, phosphorus, nitrogen and carbon concentrations), water quality, and chamber flux measurements collected from wetlands in the Midwest United States—12 sites in Ohio, one site in Indiana, one site in Michigan—collected in the spring or summer of 2024 or 2025, all in (.csv) format. These data were generated to examine how wetland restoration, management activities, and time since restoration affect biogeochemical processes, carbon sequestration, nutrient accumulation, water quality, and greenhouse gas emissions. Specifically, these data aim to investigate how restored wetlands differ from natural wetlands in terms of carbon, nitrogen, phosphorus dynamics, as well as carbon dioxide and methane fluxes. Also included are surface and porewater quality parameters and chamber flux measurements across these different wetlands. Sampling was conducted at various sites representing a range of restoration stages, from about 4 years post-restoration up to 105 years post-restoration, and also includes a natural wetland used as a reference in Michigan. These data can be used to determine carbon sequestration rates, nutrient cycling, and to enhance our understanding of biogeochemical responses to wetland restoration in temperate ecosystems. This data package contains (1) a csv file (Water_Quality.csv) containing water quality data (dissolved organic carbon, total dissolved nitrogen, and temperature) organized by location; (2) a csv file (Soil_C_N_P_Seq.csv) containing carbon, nitrogen, and phosphorus concentrations at each soil level and time of each soil level, as well as their sequestration rates; (3) a csv file (CH4_CO2_Flux.csv) including methane and carbon dioxide fluxes that were measured with a chamber; (4) a file-level metadata (FLMD.csv) file that lists each file contained in the dataset with associated metadata; (5) a data dictionary (DD.csv) file that contains terms/column headers used throughout the files along with a definition, units, and data type; and (6) a locations metadata file (Location_metadata.csv).

Earth Science > Atmosphere > Atmospheric Chemistry↗

DOE OSTI2025

Kinetic Deep Learning v0.1

Here, we present a method that uses protein levels to predict times series of metabolite concentrations. Understanding this type of pathway dynamics is important in order to predict the behavior of the pathway and, more pragmatically, to be able to design biological systems (such as strains bioengineered to produce chemical products) reliably. Typically, for this purpose, kinetic models consisting of differential equations based on the Michaelis-Menten dynamics have been used in the past. However, these methods can rarely produce good fits to measured data time series. Possibly, this happens because the kinetic constants are unknown or are different from the ones measured in vivo, or perhaps because Michaelis-Menten dynamics is not a satisfactory description. In order to improve the predictive nature of these kinetic models we have eliminated the Michaelis-Menten description of pathway dynamics and we have substituted it by algorithms that automatically learn these dynamics from previously obtained metabolomics and proteomics data using machine learning approaches. Specifically, kinetic deep learning uses deep learning to map proteomics time series to metabolite concentration time series, instead of learning the first metabolite derivative and integrating in (as in the first version of kinetic learning). This approach is shown to provide good to excellent results with a data set specifically collected for this purpose.

Garcia Martin, Hector [Joint BioEnergy Institute (↗

DOE OSTI2024

Theory of capillary tension and interfacial dynamics of motility-induced phases

The statistical mechanics of equilibrium interfaces has been well-established for over a half century. In the past decade, a wealth of observations have made increasingly clear that a new perspective is required to describe interfaces arbitrarily far from equilibrium. In this work, beginning from microscopic particle dynamics that break time-reversal symmetry, we derive the linear interfacial dynamics of coexisting motility-induced phases. Doing so allows us to identify the athermal energy scale that excites interfacial fluctuations and the nonequilibrium surface tension that resists these excitations. Our theory identifies that, in contrast to equilibrium fluids, this active surface tension contains contributions arising from nonconservative forces which act to suppress interfacial fluctuations and, crucially, is distinct from the mechanical surface tension of Kirkwood and Buff. Here we find that the interfacial stiffness scales linearly with the intrinsic persistence length of the constituent active particle trajectories, in agreement with simulation data. We demonstrate that at wavelengths much larger than the persistence length, the interface obeys surface-area minimizing Boltzmann statistics with our derived nonequilibrium interfacial stiffness playing a role identical to that of equilibrium systems.

36 MATERIALS SCIENCE↗

DOE OSTI2024

Equation-of-state measured via x-ray phase contrast imaging for Epon 828/DEA epoxy

Epoxies are a broad class of polymer materials often used as adhesive, structural or binding materials. Epon 828 is an epoxy resin that can be polymerized with a variety of curing agents with the choice of curing agent potentially having an effect on the resulting epoxy polymer’s material properties. In this study, the dynamic behavior of Epon 828 epoxy resin cured with diethanolamine (DEA) is investigated through a series of tamped Richtmyer-Meshkov instability (RMI) experiments measured with x-ray phase-contrast imaging. The measured shock and particle velocities are combined with data in the literature to calibrate Mie-Grüneisen equations-of-state (EOS) for portions and combinations of the collective dataset. The calibrated Mie-Grüneisen EOS are validated against particle velocity profiles extracted from published literature using the Eulerian hydrocode CTH. Here, the Mie-Grüneisen EOS fit to only the tamped RMI experimental data presented here most closely follows the particle velocity profile in the published literature.

36 MATERIALS SCIENCE↗

DOE OSTI2025

Analysis of a Disturbance Event with Inverter-Based Resources Using EMT Simulations

Increasing penetration of inverter-based resources (IBRs) necessitates newer methods of planning and analysis of disturbances. The existing phasor-domain transient stability (TS) analysis may not capture the dynamics of IBRs during fault events. Here, in this paper, electromagnetic transient (EMT) simulations using high-fidelity detailed model of power grid and one of the affected photovoltaic (PV) plants during the Angeles Forest disturbance in 2018 are performed. In these simulations, the processes to develop EMT models of power grid from traditional phasor-domain TS data and PV plant from collected data are described. Thereafter, using these simulations, the response of the PV plant during the fault event in 2018 is replicated and a sensitivity analysis is performed. The sensitivity analysis consists of making changes to the components within the PV plant and in the power grid to evaluate the impact they have on the response observed by the PV plant during the fault event. This analysis provides an understanding of the components that impact the operation of a PV plant during fault events and provide guidance to system planners on the studies that need to be performed to maintain a reliable power grid as new IBR plants are integrated.

42 ENGINEERING↗

DOE OSTI2025

The total neutron cross section of liquid and solid ammonia

Ammonia is a material of interest for future neutron moderators at high-power sources due to its high hydrogen density, low melting point, and resistance to polymerization in an intense radiation field. Its performance in such applications cannot currently be calculated due to the absence of suitable computer models for the interaction of neutrons with ammonia under relevant conditions. In an effort to develop suitable scattering kernels for computer simulations of moderator performance, we have conducted a series of Density Functional Theory and Molecular Dynamics calculations of the molecular-level thermal properties of ammonia at various temperatures within both the solid and liquid phases. In this paper, we compare computer calculations for the energy-dependent total neutron cross section of ammonia, based on these models, to experimental measurements of those cross sections at temperatures of 221 K, 180 K, and 35 K. The experimental data were collected over an energy range from 0.1 meV to 10 eV using time-of-flight techniques at the Low Energy Neutron Source (LENS) facility at Indiana University. This comparison provides a first validation in the development of thermal scattering libraries for Monte Carlo source design simulations based on liquid and solid ammonia. In conclusion, we also provide some insights into where additional development of tools for creating such models may be needed.

Ammonia↗

DOE OSTI2024

Power generation forecasting for solar plants based on Dynamic Bayesian networks by fusing multi-source information

A Dynamic Bayesian network (DBN) model for solar power generation forecasting in solar plants is proposed in this paper. The key idea is to fuse sensor data, operational indicators, meteorological data, lagged output power information, and model errors for more accurate short-term (e.g., hours) and mid-term (e.g., days to weeks) power generation forecasting. The proposed DBN augments automated data-driven structure learning with expert knowledge encoding using continuous and categorical data given constraints to represent causal relationships within a solar inverter system. Additionally, an error compensation mechanism is proposed to capture temporal fluctuation. The effectiveness of the DBN on solar power generation forecasting was evaluated by rolling window analysis with one-year testing data collected from a local solar plant. The proposed DBN is compared with four state-of-art methods including support-vector regression (SVR), k-nearest neighbors (kNN), artificial neural network (ANN), and long short-term memory (LSTM) models. The result show that the proposed DBN achieves better accuracy in general, and it is not as data-hungry as some neural network-based models. The proposed DBN is also shown to have robust and consistent forecasting power with different forecasting horizons. The accuracy is 92% - 95% from one hour to one week ahead forecasting.

14 SOLAR ENERGY↗

DOE OSTI2025

Study of the light scalar a 0 ( 980 ) through the decay D 0 → a 0 ( 980 ) − e + ν e with a 0 ( 980 ) − → η π −

Using 7.93 fb − 1 of e + e − collision data collected at a center-of-mass energy of 3.773 GeV with the BESIII detector, we present an analysis of the decay D 0 → η π − e + ν e . The branching fraction of the decay D 0 → a 0 ( 980 ) − e + ν e with a 0 ( 980 ) − → η π − is measured to be ( 0.86 ± 0.1 7 stat ± 0.0 5 syst ) × 10 − 4 . The decay dynamics of this process is studied with a single-pole parametrization of the hadronic form factor and the Flatté formula describing the a 0 ( 980 ) line shape in the differential decay rate. The product of the form factor f + a 0 ( 0 ) and the Cabibbo-Kobayashi-Maskawa matrix element | V c d | is determined for the first time with the result f + a 0 ( 0 ) | V c d | = 0.126 ± 0.01 3 stat ± 0.00 3 syst . Published by the American Physical Society 2025

Ablikim, M.↗

DOE OSTI2024

Investigating Soil Organic Matter Complexation using Spectral Induced Polarization

Spectral induced polarization (SIP) laboratory experiments were conducted to determine the sensitivity of this method to the formation of soil organic matter (SOM) complexes, with a long-term goal of field-scale monitoring. There are few SIP experiments that have explored this topic, yet understanding the dynamic behavior and interactions of SOM at the field scale could provide insight into soil fertility and health which influences crop yields, microorganisms that degrade organic pollutants, and carbon stabilization. We present the results of three experiments where the iron oxide, ferrihydrite (Fhy), was used to coat different media, and then the OM compound pentaglycine (PG) was pulse injected to form SOM complexes. SIP data was collected during these injections to capture any surface complexation changes. These experiments were performed in 1) a fluidic cell containing a micromodel, 2) a column containing Fhy coated ceramic beads and 3) a column containing Fhy coated Accusand®. Our results show a higher frequency response (defined here as > 1 Hz) in all three experiments, with the largest amplitude response after the first PG injection (Figure S.1). The repeatability of this response is encouraging and supporting data collected on the Accusand® experiment provides preliminary insight into the mechanisms controlling the SIP signatures. Sampling of fluid conductivity $σ_w$ and pH may indicate deprotonation of SOM occurring or rapid adsorption and release of protons from the Fhy sites. However additional experiments are needed to identify and confirm the primary and secondary reactions impacting the SIP response. We are looking towards other opportunities to continue this work, particularly to repeat experiments while collecting supporting datasets.

58 GEOSCIENCES↗

DOE OSTI2025

YbCuBi ARCS + POWGEN data

This dataset contains temperature-dependent powder diffraction patterns collected at POWGEN, SNS (10K - 520K), and inelastic neutron scattering data collected at ARCS, SNS at corresponding temperatures on YbCuBi powder samples.

36 MATERIALS SCIENCE↗

DOE OSTI2026

Hyporheic‐Zone Processes and Stream Oxygen Dynamics: Insights From a Multiscale Reactive Transport Model

Aquatic ecosystem metabolism encapsulates the daily fixation (gross primary production, GPP d ) and mineralization (ecosystem respiration, ER d ) of organic carbon. In fluvial systems, these are commonly estimated by inverse solutions to field observations using a model that describes oxygen concentrations varying in the water column in response to metabolic fluxes and air‐water gas exchange controlled by a rate coefficient (K 600 ). The most common conceptual model is the single‐station metabolism (SSM) model. The simplicity and flexibility of this conceptualization make it attractive; however, it implicitly assumes that all the processes that consume oxygen in fluvial systems can be lumped into a bulk estimate of respiration with poorly understood consequences for estimates of GPP d , ER d , and K 600 . Here, we focus on the implications of using SSM conceptualization when estimating metabolic fluxes from oxygen dynamics in channels where hyporheic exchange occurs. We use a new multiscale numerical model for reactive transport in streams that represents hyporheic exchange and streambed heterotrophic respiration. Nondimensionalization of this model reveals dimensionless groups that collectively control oxygen dynamics. Numerical experiments offer a mechanistic understanding of the impacts of hyporheic exchange on diel oxygen dynamics revealing that potential biases arise from neglecting mass transfer limitations. Specifically, we found that hyporheic exchange significantly affects diel oxygen dynamics, even for nonreactive streambed sediments. Moreover, while the SSM performs well in many situations, we find conditions where significant bias is produced by hyporheic exchange, even when oxygen data are well‐fitted. These situations pose a major challenge in the interpretation of metabolism assessment estimates.

Gomez‐Velez, Jesus D. [Oak Ridge National Laborato↗

DOE OSTI2025

Amplitude analysis of ψ3686→γKS0KS0

Using (2712 ± 14) × 106ψ(3686) events collected with the BESIII detector, we perform the first amplitude analysis of the radiative decay ψ3686→γKS0KS0$$ \psi (3686)\to \gamma {K}_S^0{K}_S^0 $$ within the mass region MKS0KS0<2.8$$ {M}_{K_S^0{K}_S^0}<2.8 $$ GeV/c2. Employing a one-channel K-matrix approach for the description of the dynamics of the KS0KS0$$ {K}_S^0{K}_S^0 $$ system, the data sample is well described with four poles for the f0-wave and three poles for the f2-wave. The determined pole positions are consistent with those of well-established resonance states. The observed f0 and f2 states are found to be in agreement with those produced in radiative J/ψ decays. The production behaviors of f0 and f2 poles in ψ3686→γKS0KS0$$ \psi (3686)\to \gamma {K}_S^0{K}_S^0 $$ are qualified with their residues and the converted branching fractions. By comparing with J/ψ→γKS0KS0$$ J/\psi \to \gamma {K}_S^0{K}_S^0 $$ decay, the ratios Bψ3686→γf0,2BJ/ψ→γf0,2$$ \frac{\mathcal{B}\left(\psi (3686)\to \gamma {f}_{0,2}\right)}{\mathcal{B}\left(J/\psi \to \gamma {f}_{0,2}\right)} $$ are determined, which provides crucial experimental inputs on the internal structure of the f0,2 states, especially their potential mixing with glueball components.

Ablikim, M↗

DOE OSTI2026

Data Driven Approach to Public Opinion Mining on Autonomous Vehicles: Sentiment Analysis of Social Media Comments Using Large Language Models

In the realm of online identity, social media has emerged as a rich and dynamic source of user-generated content, making it an invaluable resource for understanding public sentiment on a wide range of topics. Individuals often share their raw emotions and candid opinions on these platforms without fear of judgment or backlash. In this study, we conduct a sentiment analysis on user comments collected from various online platforms, with a specific focus on discussions surrounding autonomous vehicles. Leveraging the capabilities of large language models (LLMs), we classify each comment into one of five sentiment categories: Very Negative, Negative, Neutral, Positive, and Very Positive. Our approach demonstrates the effectiveness of LLMs in capturing nuanced contextual sentiment, offering a scalable and state-of-the-art alternative to traditional manual annotation methods. The results reveal key trends and insights into public perception, enabling a deeper understanding of how autonomous vehicle technologies are received by the online community. Our findings underscore the dynamic nature of public sentiment, which is shaped not only by advances in autonomous vehicle technology but also by contextual events such as regulatory developments, political adjustment and safety incidents.

24 POWER TRANSMISSION AND DISTRIBUTION↗

DOE OSTI2025

Observation of the Charged-Particle Multiplicity Dependence of 𝜎 𝜓⁡(2⁢𝑆 )/𝜎 𝐽/𝜓 in 𝑝-Pb Collisions at 8.16 TeV

Bound states of charm and anticharm quarks, known as charmonia, have a rich spectroscopic structure that can be used to probe the dynamics of hadron production in high-energy hadron collisions. Here, the cross section ratio of excited (𝜓⁡(2⁢𝑆)) and ground state (𝐽/𝜓) vector mesons is measured as a function of the charged-particle multiplicity in proton-lead (𝑝⁢Pb) collisions at a center-of-mass (CM) energy per nucleon pair of 8.16 TeV. The data corresponding to an integrated luminosity of 175 nb −1 were collected using the CMS detector. The ratio is measured separately for prompt and nonprompt charmonia in the transverse momentum range 6.5 < 𝑝 T < 30 GeV and in four rapidity ranges spanning −2.865 < 𝑦 CM < 1.935. For the first time, a statistically significant multiplicity dependence of the prompt cross section ratio is observed in proton-nucleus collisions. There is no clear rapidity dependence in the ratio. The prompt measurements are compared with a theoretical model which includes interactions with nearby particles during the evolution of the system. These results provide additional constraints on hadronization models of heavy quarks in nuclear collisions.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗