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DOE OSTI2025

Machine Learning Models for Mapping Groundwater Pollution Risk: Advancing Water Security and Sustainable Development Goals in Georgia, USA

The widespread use of pesticides, such as atrazine and malathion, in agricultural systems raises significant concerns regarding the contamination of groundwater, which serves as a critical resource for drinking water. This study applies machine learning techniques to predict the concentrations of atrazine and malathion in groundwater across Georgia, USA, using 2019 data. A Random Forest classifier was employed to integrate various environmental and demographic factors, including pesticide application rates, precipitation, lithology, and population density, to predict pesticide contamination in groundwater. The models demonstrated high training accuracies of 100% and moderate average testing accuracy of 55% for atrazine and 60% for malathion across five iterations. The low test accuracy of the model, ranging from 50% to 75%, is likely due to overfitting, which can be attributed to the small dataset size and the complex nature of pesticide-contamination patterns, making it challenging for the model to generalize to unseen data. Feature importance analysis revealed that average pesticide usage emerged as the most influential factor for atrazine, while aquifer lithology and precipitation played crucial roles in both models. These results provide valuable insights into the dynamics of pesticide contamination, highlighting areas at greater risk of contamination. The findings underscore the importance of integrating environmental, geological, and agricultural variables for more effective groundwater management and sustainable agricultural practices, contributing to the protection of water resources and public health.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Exploring the determinants of organic matter bioavailability through substrate-explicit thermodynamic modeling

Microbial decomposition of organic matter (OM) in river corridors is a major driver of nutrient and energy cycles in natural ecosystems. Recent advances in omics technologies enabled high-throughput generation of molecular data that could be used to inform biogeochemical models. With ultrahigh-resolution OM data becoming more readily available, in particular, the substrate-explicit thermodynamic modeling (SXTM) has emerged as a promising approach due to its ability to predict OM degradation and respiration rates from chemical formulae of compounds. This model implicitly assumes that all detected organic compounds are bioavailable, and that aerobic respiration is driven solely by thermodynamics. Despite promising demonstrations in previous studies, these assumptions may not be universally valid because OM degradation is a complex process governed by multiple factors. To identify key drivers of OM respiration, we performed a comprehensive analysis of diverse river systems using Fourier-transform ion cyclotron resonance mass spectrometry OM data and associated respiration measurements collected by the Worldwide Hydrobiogeochemistry Observation Network for Dynamic River Systems (WHONDRS) consortium. In support of our argument, we found that the incorporation of all compounds detected in the samples into the SXTM resulted in a poor correlation between the predicted and measured respiration rates. The data-model consistency was significantly improved by the selective use of a small subset (i.e., only about 5%) of organic compounds identified using an optimization method. Through a subsequent comparative analysis of the subset of compounds (which we presume as bioavailable) against the full set of compounds, we identified three major traits that potentially determine OM bioavailability, including: (1) thermodynamic favorability of aerobic respiration, (2) the number of C atoms contained in compounds, and (2) carbon/nitrogen (C/N) ratio. We found that all three factors serve as “filters” in that the compounds with undesirable properties in any of these traits are strictly excluded from the bioavailable fraction. This work highlights the importance of accounting for the complex interplay among multiple key traits to increase the predictive power of biogeochemical and ecosystem models.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2025

Strong Scalability Analysis of the Albany Land Ice code on HPC Architectures

Scalability is a critical factor in High-Performance Computing (HPC), where optimizing resource usage has a direct impact on cost-effectiveness and time-efficiency. This report presents a strong scaling performance study of the Albany Land Ice (ALI) code across different HPC architectures, towards determining the best configuration to use when running large-scale simulation ensembles.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2021

Analysis of Completion Design Impact on Cluster Efficiency and Pressure-Based Well Communication in HFTS-2 Delaware Basin

The Hydraulic Fracturing Test Site 2 (HFTS-2) is a joint industry project in the Delaware basin to advance hydraulic fracturing understanding and improve productivity in shale reservoirs. The project integrates multi-disciplinary approaches to evaluate different completion designs, well spacing, inter-well communication, and stimulated rock volume, among other factors. This paper focused on two major areas related to hydraulic fracture performance. First, an analysis of different completion designs on cluster efficiency based on near well Distributed Acoustic Sensing (DAS). Second, an evaluation of well and completion designs on inter-well fracture driven interactions (FDIs) based on downhole pressure monitoring. Fluid/sand distribution and cluster efficiency analyses were based on near wellbore DAS data collected from two adjacent horizontal wells completed in two different landing zones in the Wolfcamp formation. These wells had different completion designs aiming to evaluate the effect of normal vs. extended stage lengths, perforation hole tapering and limited entry. Standard deviation from ideal fluid/sand distribution and waterfall plots were used to evaluate cluster efficiency for each design and stage. Inter-well FDIs analysis was conducted among the horizontal wells and a vertical monitor well. One horizontal well served as the monitor well while the other horizontal well was being treated. The vertical well was instrumented with downhole pressure and temperature gauges to aid monitoring fracture height growth. The pressure response during and after fracturing was characterized based on maximum pressure increase value and slope. Pressure response vs. FDIs trigger factors such distance, cluster efficiency and stage fluid volume were also analyzed. Based on the different completion and perforation designs tested, DAS analysis suggests that limited entry design worked best. Extreme limited entry showed the potential of high perforation erosion and reduced cluster efficiency. Here, the limited entry and tapered perforation design demonstrated potential to improve the cluster efficiency for extended stage lengths. Pressure monitoring across formation units proved to be critical to understand fracture interactions and fracture vertical growth. Pressure communication across different formation units during hydraulic fracturing operation indicate fractures grew upwards during Wolfcamp wells fracturing. However, this pressure communication dissipated over time. High intensity FDIs were recorded when the frac stages Downloaded from http://onepetro.org/URTECONF/proceedings-pdf/21URTC/1-21URTC/D011S018R001/2477607/urtec-2021-5289-ms.pdf/1 by Carol Worster on 28 February 2022 URTeC 5289 were closer to the pressure gauge location in the monitor wells. Some of these stages that produced high intensity FDIs also had high fluid volume per cluster and low cluster efficiency. The multi-disciplinary and high-quality data collected from HFTS-2 helped to further understand why completion approaches such as limited entry and tapered perforation design are successful in improving cluster efficiency. The DAS data combined with downhole high-resolution pressure measurements also helped to quantify the effect of lower cluster efficiency data on the incidence and intensity of FDIs.

58 GEOSCIENCES↗

DOE OSTI2020

Transfer Factors for the FRMAC Assessment Manual and Turbo FRMAC to Improve Radiological Dose Assessment

The Turbo FRMAC analysis tool is used to perform complex calculations to quickly evaluate radiological consequences and aid in decision making during an emergency response by assessing impacts to the public, workers, and the food supply. Turbo FRMAC calculations are based on methods established by the Federal Radiological Monitoring and Assessment Center (FRMAC). To be able to assess impacts, input data called transfer factors that describe radionuclide uptake by local plants and animals are required. During the code application exercises in late 2016, identifying, finding, and validating nonstandard transfer factors proved to be time consuming and diverted the teams’ activity away from other critical tasks. As a result, a task was undertaken to dramatically expand the list of available transfer factors (food and non-food) and incorporate these factors into Turbo FRMAC. This will ultimately result in improved efficiency of the assessment team to perform calculations during times when the FRMAC is activated and provide more defensible, vetted data from which to calculate results. As a result of these and subsequent exercises, transfer factors were needed for the following items: bell peppers, Christmas tree, deer, flowers, fresh cucumbers, tomatoes, grapefruit, lichens, mushrooms, oranges, snap beans, squash, strawberries, sugarcane for sugar and seed, sweet corn, tea, tobacco, tree bark, and watermelon. To expand the applicability of the information tables, generic transfer data were also provided for common categories and recommendations were made for expanding the list of chemicals based on chemical similarity. The data presented in this report were compiled from recent literature with most of the data encompassing the period from 2000 to 2018. The following radionuclides were targeted during the literature search: elements associated with reactor accidents or nuclear detonations (Sr 89/90, Cs 134/137, Ce 141/144, Ru 103/106, I 129/131/133, Pu 238/239, Am 241, Zr 95, and Nb 95) and elements associated with industrial accidents or dirty bombs (Ir 192 and Co 60). Data from other elements were evaluated if they were identified during the literature search. In addition, reports were evaluated that were recommended by the research consultants. For each plant or animal transfer factor, the goal was to determine the geometric mean, the geometric standard deviation, the minimum, the maximum, and the number of measurements used. If only one measurement was available that was presented as the mean. Concentration ratios with large geometric standard deviations (GSDs) were generally the result of a paucity of measurements or a few disparate measurements. Measurement disparity was observed for data from different soil types. The geometric mean (GM) is a good reference value for planning and responses purposes, but the location-specific concentrations are unlikely to be similar to the model results. Recommendations for further work include: segregating the data to reflect the influence of soil type, developing approaches to incorporate animal data based on aggregated transfer measurements, and including data for foliar deposition on plants.

61 RADIATION PROTECTION AND DOSIMETRY↗

DOE OSTI2021

2020 Cost Analysis of Hydropower Options at Non-Powered Dams

This report provides a cost analysis of potential hydropower development for representative non-powered dam (NPD) sites in the United States. The overarching objective is to support the establishment of a basis for evaluating progress towards improving the competitiveness of new hydropower development for electricity generation. The representative sites, herein referred to as “reference sites”, were selected from sites with detailed water resource data to support the cost analysis. Facility designs, capital costs, plant generation and efficiency profiles, capacity factors, and levelized costs of energy (LCOE) are presented for the sites under baseline and near-term innovation cases. The baseline case represents facility configurations using technologies that are already widely applied in the hydropower industry, whereas near-term innovations are technologies likely to reach wide acceptance within the next 5 to 10 years. Cost savings in the near-term relative to the baseline are discussed to illustrate the potential benefits to the hydropower industry from research and development (R&D) and adoption of these innovations. Medium- to long-term innovation options expected from ongoing private and government R&D efforts are also highlighted but are not quantified in this report because of a current lack of complete information on these options. The key findings of the cost analysis in this study imply that near-term innovations could reduce the baseline costs of hydropower development at US NPD sites. Thus, if remaining R&D issues with these near-term innovations can be resolved within the next 5 to 10 years, industry-wide adoption of these technologies and improved competitiveness of NPD hydropower development can be expected. Specific key findings of the analysis include the following: 1) Potential installed capacity at the NPD sites evaluated in this study vary from 200 kW to 70 MW, representing two orders of magnitude variation across nearly 20 sites; 2) Capital costs, not including development costs, for the sites evaluated in this study vary from $2,200/kW to $34,000/kW but are below $12,000/kW for most sites; 3) Baseline LCOE estimates for lake dams are from $79/MWh to $790/MWh with most sites under $400/MWh, whereas estimates for lock dams are from $134/MWh to $289/MWh with most sites under $200/MWh; 4) Reductions in capital cost per kilowatt under the near-term innovation case are from −77% to −14% for lake dams and −21% to −2.1% for lock dams (excluding one site with a 14% increase in per-kilowatt capital costs); 5) Combined changes in capital costs and capacity factors in the near-term case relative to the baseline lead to reductions in LCOE of −71% to −14% for lake dams and −21% to −14% for lock dams; 6) Overall, LCOE reductions lead to 8 of the 18 sites under the near-term case having LCOE values below $150/MWh compared with only 2 of 18 sites in the baseline case.

13 HYDRO ENERGY↗

DOE OSTI2020

Validation of Stage N3 of the Eighth Edition AJCC Staging System for Nasopharyngeal Carcinoma

Objectives To validate stage nodal (N)3 of the 8th edition American Joint Committee on Cancer (AJCC) staging system for nasopharyngeal carcinoma (NPC). Methods This retrospective cohort study extracted NPC patients from the Surveillance, Epidemiology, and End Results database between 2004 and 2016. Pathologically confirmed patients with complete data of level IV, N3a, and N3b lymph node metastasis were investigated. The included patients were divided into level IV, N3a, and N3b groups. Five‐year overall survival (OS) and cancer‐specific survival (CSS) were compared among the three groups. Results A total of 693 patients were included: 285 (41.13%) patients in the level IV group, 124 (17.89%) patients in the N3a group, and 284 (40.98%) patients in the N3b group. The 5‐year OS (57.1%, 55.0%, and 55.2%) and CSS (64.4%, 63.5%, and 64.4%) were not different among the level IV, N3a, and N3b groups. Multivariate regression analysis revealed that N stage was not an independent prognostic factor for OS (hazard ratio [HR] = 1.03, 95% confidence interval [CI]: 0.91–1.17; P = .65) or CSS (HR = 1.03, 95% CI: 0.89–1.19; P = .70). Conclusion Stage N3 of the 8th edition AJCC staging system for NPC is reasonable. Level of Evidence III Laryngoscope , 131:535–540, 2021

Pan, Xin‐Bin↗

DOE OSTI2021

Revealing the effect of local stresses on twin growth mechanisms in titanium using synchrotron X-ray diffraction

Deformation twinning has a significant impact on the evolution of microstructure and mechanical response in hexagonal close packed (hcp) metals. Understanding the physical mechanisms associated with twin nucleation and growth processes is important to enable the broad use of hcp metals. While both nucleation and growth are conditioned by the local stress state, few studies have quantified it in bulk deformed samples. In this study, we reveal the effects of local stresses on twin thickening using in-situ synchrotron experiments with differential aperture X-ray microscopy. High purity Ti is deformed under four-point bending to activate {1012} tensile twins. Further, 3D stress fields with a spatial resolution of 0.5μm are mapped in the vicinity of low and high macroscopic Schmid factor (MSF) twins growing inside a grain. Reconciling this experimental analysis with recent twin growth models reveals that the growth of low MSF twins is limited by the nucleation of twin growth defects in the high-purity Ti sample. While growth-inducing defect nucleation may occur in many places on the interface of the high resolved shear stress (RSS)/MSF twin, the nucleation rate of twinning disconnections for the low MSF twin is high only at the end of the twin near a stress concentration. Once nucleated, these defects easily propagate into lower RSS regions of the grain resulting in twin growth. This work highlights the importance of stress concentrations not only for twin (embryo) nucleation, but also to the growth process of twins, particularly in low MSF twins.

36 MATERIALS SCIENCE↗

DOE OSTI2022

Asymmetric daytime and nighttime surface temperature feedback induced by crop greening across Northeast China

Mid-high latitude Northeast China witnessed significant crop greening from 2001 to 2020, as evidenced by satellite records and field observations. The land surface temperature of croplands during the growing season showed a decreasing trend, suggesting negative surface temperature feedback to crop greening of agricultural ecosystems in mid-high latitude Northeast China. Here, using time-series remote sensing products and long-term scenario simulations, the present study highlights that crop greening can slow climate warming. Our study noted a stronger surface cooling effect induced by crop greening during the growing season in the day than at the night, which contributed to asymmetric diurnal temperature cycle changes in Northeast China. In addition, our biophysical mechanism analysis revealed aerodynamic and surface resistances as the major driving factors for the daytime land surface temperature (LST) cooling effect induced by crop greening, while the ground heat flux and ambient temperature feedback as the major attributes of the nighttime LST cooling impact due to crop greening.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Compressive strength improvements from noncircular carbon fibers: A numerical study

The benefits of high-performance unidirectional carbon fiber composites are limited in many cost-driven industries due to the high cost relative to alternative reinforcement fibers. Low-cost carbon fibers have been previously proposed, but the longitudinal compressive strength continues to be a limiting factor or studies are based on simplifications that warrant further analysis. A micromechanical model is used to (1) determine if the longitudinal compressive strength of composites can be improved with noncircular carbon fiber shapes and (2) characterize why some shapes are stronger than others in compression. In comparison to circular fibers, the results suggest that the strength can be increased by 10%–13% by using a specific six-lobe fiber shape and by 6%–9% for a three-lobe fiber shape. A slight increase is predicted in the compressive strength of the study two-lobe fiber but has the highest uncertainty and sensitivity to fiber orientation and misalignment direction. The underlying mechanism governing the compressive failure of the composites was linked to the unique stress fields created by the lobes, particularly the pressure stress in the matrix. Importantly, this work provides mechanics-based evidence of strength improvements from noncircular fiber shapes and insight on how matrix yielding is altered with alternative fiber shapes.

36 MATERIALS SCIENCE↗

DOE OSTI2020

Severe weather, utility spending, and the long-term reliability of the U.S. power system

There has been a limited amount of peer-reviewed literature on long-term trends in electricity reliability including the underlying factors that impact reliability across the United States. In this analysis, we considered up to 16 years of data from 203 U S. utilities—representing about 70% of electricity sales. Annual frequency of interruptions for an average customer—at the regional and U.S. national-level—has generally decreased over this timeframe. But we do not find that there is a statistically significant trend in the annual duration of interruptions for an average customer. We find that more explicit measures of severe weather are correlated with reliability. We are able to explain 7% and 16% of past variation in the reliability metrics system average interruption duration and frequency indices, respectively, is due to severe weather—a significant improvement over earlier studies. We find that current year spending by utilities is correlated with worse reliability and that cumulative spending over the preceding three years is correlated with better reliability. Finally, we demonstrate that using a statistical instrument to represent the annual frequency of interruptions for an average customer can greatly improve analysis of trends in the annual duration of interruptions for an average customer.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

DOE OSTI2024

Machine-learning-assisted deciphering of microstructural effects on ionic transport in composite materials: A case study of Li 7 La 3 Zr 2 O 12 -LiCoO 2

The effective diffusivity of ionic species in multiphase materials is critical for the design and function of composite materials for electrochemical energy storage. In practice, effective diffusivity depends sensitively not only on the intrinsic diffusivities of constituting materials but also on their topological arrangement; nevertheless, these coupled contributions are oversimplified in most analytical models. Here, we combine atomistically informed mesoscale modeling and machine learning (ML) analysis to unravel how such features affect effective diffusivity in two-phase composites. Using the Li 7 La 3 Zr 2 O 12 -LiCoO 2 composite solid-state battery cathode as a model system, we compute effective diffusivity for 600 distinct dense polycrystalline microstructures with different topological configurations of grains, grain boundaries, and heterointerfaces. We verify that in addition to atomic-scale variabilities, microstructural feature diversity can significantly impact effective transport properties. Across the ensemble of test microstructures, this often results in bimodal distributions of effective diffusivity that encompass two qualitatively distinct operating mechanisms, which we identify via flux analysis. An ML approach reveals that the most critical determining factors for effective diffusivity are the connectivity of bulk phases and their heterointerfaces. The role of ionic mobility at the heterointerfaces is also discussed. These insights highlight the combined importance of microstructure and interface engineering in tuning the transport properties of ionic species in composite materials. In conclusion, our framework can also be extended for understanding generic microstructure-property relationships in other complex multiphase materials.

25 ENERGY STORAGE↗

DOE OSTI2025

Benchmarking CO₂ storage simulations: Results from the 11 th Society of Petroleum Engineers Comparative Solution Project

The 11 th Society of Petroleum Engineers Comparative Solution Project (shortened SPE11 herein) benchmarked simulation tools for geological carbon dioxide (CO 2 ) storage. A total of 45 groups from leading research institutions and industry across the globe signed up to participate, with 18 ultimately contributing valid results that were included in the comparative study reported here. This paper summarizes the SPE11 results. A comprehensive introduction and qualitative discussion of the submitted data are provided, together with an overview of online resources for accessing the full depth of data. A global metric for analyzing the relative distance between submissions is proposed and used to conduct a quantitative analysis of the submissions. This analysis attempts to statistically resolve the key aspects influencing the variability between submissions. The study shows that the major qualitative variation between the submitted results is related to thermal effects, dissolution-driven convective mixing, and resolution of facies discontinuities. Moreover, a strong dependence on grid resolution is observed across all three versions of the SPE11. However, our quantitative analysis suggests that the observed variations are predominantly influenced by factors not documented in the technical responses provided by the participants. We therefore identify that unreported variations due to human choices within the process of setting up, conducting, and reporting on the simulations underlying each SPE11 submission are at least as impactful as the computational choices reported.

Nordbotten, Jan M. [Univ. of Bergen (Norway); Norw↗

DOE OSTI2021

Local Control For High-Grade Nonrhabdomyosarcoma Soft Tissue Sarcoma Assigned to Radiation Therapy on ARST0332: A Report From the Childrens Oncology Group

The ARST0332 trial for pediatric and young adults with nonrhabdomyosarcoma soft tissue sarcoma (NRSTS) used risk-based treatment including primary resection with lower-than-standard radiation doses to optimize local control (LC) while minimizing long-term toxicity in those requiring radiation therapy (RT). RT for high-grade NRSTS was based on extent of resection (R0: negative margins, R1: microscopic margins, R2/U: gross disease/unresectable); those with >5 cm tumors received chemotherapy (CT; ifosfamide/doxorubicin). This analysis evaluates LC for patients assigned to RT and prognostic factors associated with local recurrence (LR).

62 RADIOLOGY AND NUCLEAR MEDICINE↗

DOE OSTI2025

A critical review and meta-analysis of energy demand, carbon footprint, and other environmental impacts from carbon fiber manufacturing

The demand for carbon fibers and carbon fiber-reinforced polymers (CFRPs) is rapidly growing due to their outstanding mechanical properties and potential to enhance sustainability, particularly for lightweighting applications. However, carbon fibers are typically produced from fossil-based feedstocks, involve energy-intensive processes, and have limited options for sustainable end-of-life management or circularity. Despite these challenges, the energy demand and lifecycle environmental implications of their production remain poorly understood. Here, we conduct a critical literature review and meta-analysis of carbon fiber manufacturing, revealing significant variations in reported energy demand, carbon footprint, and lifecycle inventory data. Our analysis makes two novel contributions. First, we identify key underlying factors driving these variations. Second, we highlight that carbon fiber, far from being a homogeneous product, has grades varying substantially in mechanical properties, end-use markets, energy intensity of manufacturing processes, and therefore environmental impacts—an aspect often underrepresented in life cycle assessments. We assert that current data are insufficient for reliably evaluating environmental impacts, posing a risk of misleading decision-making. Addressing this gap requires new lifecycle inventory datasets clearly incorporating carbon fiber heterogeneity and key influencing factors identified in this study. Additionally, we propose actionable recommendations, including a checklist, to advance sustainability in the carbon fiber sector.

CED↗

DOE OSTI2021

Modeling Volatility-Based Aerosol Phase State Predictions in the Amazon Rainforest

Organic aerosol (OA) is a complex matrix of various constituents—fresh (primary organic aerosols—POA) and aged via oxidation (secondary organic aerosols—SOA), generated from biogenic, anthropogenic, and biomass burning sources. The viscosity of OA can be critical in influencing new particle formation, reactive uptake processes that impact evaporation-growth kinetics, and the lifetime of particles in the atmosphere. We report this work utilizes a well-defined relationship between volatility and viscosity for pure compounds, which we incorporated within the Weather Research and Forecasting Model coupled to chemistry (WRF-Chem) to simulate the phase state and viscosity of bulk OA during the dry-to-wet transition season (September–October) in the Amazon rainforest during 2014. Our simulations indicate spatial and temporal heterogeneity in aerosol phase state often not captured by global-scale models. We show the strong role of water associated with organic aerosol ($w_s$) as the dominant factor that can be used to quantitatively estimate OA viscosity. Analysis of WRF-Chem simulations across the entire atmospheric column indicates a strong inverse log-linear relationship between $w_s$ and OA viscosity with a correlation coefficient approaching 1, in the background and biomass burning-influenced conditions. At high altitudes where relative humidity (RH) and temperatures are low, our simulations indicate that OA exists in a semisolid-/solid-like phase state, consistent with previous studies. OA hygroscopicity is strongly correlated (ca. –0.8) with OA viscosity at RH ca. 30–50%, but this RH range is found mostly at low OA concentrations and the middle troposphere (ca. 6–10 km altitudes) in our simulated domain. OA hygroscopicity is uncorrelated with viscosity at higher-RH (near surface) and lower-RH (upper troposphere) regimes. At the urban site near surface, where day–night differences in RH are significant, RH is found to drive the phase state. At the background forested site near surface, where day–night RH differences are small, biomass burning-influenced OA is semisolid and a significant OA associated with background conditions is liquid-like. Simulations indicate a long tail of OA viscosity frequency distributions extending in the semisolid/solid regimes over background biogenic-influenced conditions due to the role of low-volatility OA components such as monoterpene oxidation products.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2025

Cyclization of archaeal membrane lipids impacts membrane protein activity and archaellum formation

Enhancement of the cyclization of membrane lipids GDGTs (glycerol dialkyl glycerol tetraethers) is a critical strategy for archaea to adapt to various environmental stresses. However, the physiological function of membrane lipid cyclization remains unclear. Here, we reported that the GDGT ring synthases mutant, deficient in GDGT cyclization, inhibited archaellum formation and reduced cell motility in thermoacidophilic crenarchaeon Sulfolobus acidocaldarius . This inhibition was caused by decreased transcription of the archaellum operon, likely due to cleavage of the C-terminal domains in transmembrane proteins ArnRs, the transcription factors that regulate archaellum operon expression. The transcriptomic and proteomic analysis showed deficiency of GDGT cyclization broadly impacted the expression of membrane associate proteins, including respiratory chain proteins, and decreased cellular ATP concentration. Moreover, phylogenetic analysis demonstrated that the correlation between GDGT cyclization and archaellum formation is widespread among (hyper)thermophilic archaea, and this was further verified in the euryarchaeon Thermococcus kodakarensis. Our findings suggested that archaea modify their membrane lipids to profoundly alter cellular appendages and cell physiology to adapt to environmental fluctuations.

Yang, Wei (ORCID:0000000262755981)↗

DOE OSTI2020

Testing dark matter halo properties using self-similarity

ABSTRACT We use self-similarity in N-body simulations of scale-free models to test for resolution dependence in the mass function and two-point correlation functions of dark matter haloes. We use 10243 particle simulations performed with abacus , and compare results obtained with two halo finders: friends-of-friends (fof ), and rockstar . The fof mass functions show a systematic deviation from self-similarity which is explained by resolution dependence of the fof mass assignment previously reported in the literature. Weak evidence for convergence is observed only starting from haloes of several thousand particles, and mass functions are overestimated by at least as much as $20-25{{\ \rm per\ cent}}$ for haloes of 50 particles. The mass function of the default rockstar halo catalogue (with bound virial spherical overdensity mass), on the other hand, shows good convergence of the order of 50 to 100 particles per halo, with no detectable evidence at the few percent level of any systematic dependence for larger particle number. Tests show that the mass unbinding procedure in rockstar is the key factor in obtaining this much improved resolution. Applying the same analysis to the halo–halo two point correlation function, we find again strong evidence for convergence only for rockstar haloes, at separations sufficiently large so that haloes do not overlap. At these separations, we can exclude dependence on resolution at the $5-10{{\ \rm per\ cent}}$ level once haloes have of the order of 50 to 100 particles. At smaller separations results are not converged even at significantly larger particle number, and bigger simulations would be required to establish the resolution required for convergence.

79 ASTRONOMY AND ASTROPHYSICS↗