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At least 1,063 records · Page 59

Modeling bacterial microcompartment architectures for enhanced cyanobacterial carbon fixation

The carboxysome is a bacterial microcompartment (BMC) which plays a central role in the cyanobacterial CO 2 -concentrating mechanism. These proteinaceous structures consist of an outer protein shell that partitions Rubisco and carbonic anhydrase from the rest of the cytosol, thereby providing a favorable microenvironment that enhances carbon fixation. The modular nature of carboxysomal architectures makes them attractive for a variety of biotechnological applications such as carbon capture and utilization. In silico approaches, such as molecular dynamics (MD) simulations, can support future carboxysome redesign efforts by providing new spatio-temporal insights on their structure and function beyond in vivo experimental limitations. However, specific computational studies on carboxysomes are limited. Fortunately, all BMC (including the carboxysome) are highly structurally conserved which allows for practical inferences to be made between classes. Here, we review simulations on BMC architectures which shed light on (1) permeation events through the shell and (2) assembly pathways. These models predict the biophysical properties surrounding the central pore in BMC-H shell subunits, which in turn dictate the efficiency of substrate diffusion. Meanwhile, simulations on BMC assembly demonstrate that assembly pathway is largely dictated kinetically by cargo interactions while final morphology is dependent on shell factors. Overall, these findings are contextualized within the wider experimental BMC literature and framed within the opportunities for carboxysome redesign for biomanufacturing and enhanced carbon fixation.

59 BASIC BIOLOGICAL SCIENCES↗

Gamma-Ray Bursts and Kilonovae from the Accretion-induced Collapse of White Dwarfs

Abstract We present the first seconds-long 2D general relativistic neutrino magnetohydrodynamic simulations of accretion-induced collapse (AIC) in rapidly rotating, strongly magnetized white dwarfs (WDs), which might originate as remnants of double-WD mergers. This study examines extreme combinations of magnetic fields and rotation rates, motivated both by the need to address the limitations of 2D axisymmetric simulations and to explore the physics of AIC under rare conditions that, while yet to be observationally confirmed, may be consistent with current theoretical models and account for unusual events. Under these assumptions, our results demonstrate that, if realizable, such systems can generate relativistic jets and neutron-rich outflows with properties consistent with long gamma-ray bursts (LGRBs) accompanied by kilonovae, such as GRB 211211A and GRB 230307A. These findings highlight the potential role of AIC in heavy r -process element production and offer a framework for understanding rare LGRBs associated with kilonova emission. Longer-duration 3D simulations are needed to fully capture magnetic field amplification, resolve instabilities, and determine the fate of the energy retained by the magnetar at the end of the simulations.

Cheong 張, Patrick Chi-Kit 志杰 (ORCID:00000003144933↗

Sources of gravitational waves

Sources of low frequency gravitational radiation are reviewed from an astrophysical point of view. Cosmological sources include the formation of massive black holes in galactic nuclei, the capture by such holes of neutron stars, the coalescence of orbiting pairs of giant black holes, and various means of producing a stochastic background of gravitational waves in the early universe. Sources local to our Galaxy include various kinds of close binaries and coalescing binaries. Gravitational wave astronomy can provide information that no other form of observing can supply; in particular, the positive identification of a cosmological background originating in the early universe would be an event as significant as was the detection of the cosmic microwave background.

Schutz, Bernard F.↗

The Automated Instrumentation and Monitoring System (AIMS): Design and Architecture

Whether a researcher is designing the 'next parallel programming paradigm', another 'scalable multiprocessor' or investigating resource allocation algorithms for multiprocessors, a facility that enables parallel program execution to be captured and displayed is invaluable. Careful analysis of such information can help computer and software architects to capture, and therefore, exploit behavioral variations among/within various parallel programs to take advantage of specific hardware characteristics. A software tool-set that facilitates performance evaluation of parallel applications on multiprocessors has been put together at NASA Ames Research Center under the sponsorship of NASA's High Performance Computing and Communications Program over the past five years. The Automated Instrumentation and Monitoring Systematic has three major software components: a source code instrumentor which automatically inserts active event recorders into program source code before compilation; a run-time performance monitoring library which collects performance data; and a visualization tool-set which reconstructs program execution based on the data collected. Besides being used as a prototype for developing new techniques for instrumenting, monitoring and presenting parallel program execution, AIMS is also being incorporated into the run-time environments of various hardware testbeds to evaluate their impact on user productivity. Currently, the execution of FORTRAN and C programs on the Intel Paragon and PALM workstations can be automatically instrumented and monitored. Performance data thus collected can be displayed graphically on various workstations. The process of performance tuning with AIMS will be illustrated using various NAB Parallel Benchmarks. This report includes a description of the internal architecture of AIMS and a listing of the source code.

Yan, Jerry C.↗

The NASA Soil Moisture Active Passive (SMAP) Mission - Science and Data Product Development Status

The Soil Moisture Active Passive (SMAP) mission, planned for launch in late 2014, has the objective of frequent, global mapping of near-surface soil moisture and its freeze-thaw state. The SMAP measurement system utilizes an L-band radar and radiometer sharing a rotating 6-meter mesh reflector antenna. The instruments will operate on a spacecraft in a 685 km polar orbit with 6am/6pm nodal crossings, viewing the surface at a constant 40-degree incidence angle with a 1000-km swath width, providing 3-day global coverage. Data from the instruments will yield global maps of soil moisture and freeze/thaw state at 10 km and 3 km resolutions, respectively, every two to three days. The 10-km soil moisture product will be generated using a combined radar and radiometer retrieval algorithm. SMAP will also provide a radiometer-only soil moisture product at 40-km spatial resolution and a radar-only soil moisture product at 3-km resolution. The relative accuracies of these products will vary regionally and will depend on surface characteristics such as vegetation water content, vegetation type, surface roughness, and landscape heterogeneity. The SMAP soil moisture and freeze/thaw measurements will enable significantly improved estimates of the fluxes of water, energy and carbon between the land and atmosphere. Soil moisture and freeze/thaw controls of these fluxes are key factors in the performance of models used for weather and climate predictions and for quantifYing the global carbon balance. Soil moisture measurements are also of importance in modeling and predicting extreme events such as floods and droughts. The algorithms and data products for SMAP are being developed in the SMAP Science Data System (SDS) Testbed. In the Testbed algorithms are developed and evaluated using simulated SMAP observations as well as observational data from current airborne and spaceborne L-band sensors including data from the SMOS and Aquarius missions. We report here on the development status of the SMAP data products. The Testbed simulations are designed to capture various sources of errors in the products including environment effects, instrument effects (nonideal aspects of the measurement system), and retrieval algorithm errors. The SMAP project has developed a Calibration and Validation (Cal/Val) Plan that is designed to support algorithm development (pre-launch) and data product validation (post-launch). A key component of the Cal/Val Plan is the identification, characterization, and instrumentation of sites that can be used to calibrate and validate the sensor data (Level l) and derived geophysical products (Level 2 and higher).

Nloku, E.↗

Quantified Event Automata: Towards Expressive and Efficient Runtime Monitors

Runtime verification is the process of checking a property on a trace of events produced by the execution of a computational system. Runtime verification techniques have recently focused on parametric specifications where events take data values as parameters. These techniques exist on a spectrum inhabited by both efficient and expressive techniques. These characteristics are usually shown to be conflicting - in state-of-the-art solutions, efficiency is obtained at the cost of loss of expressiveness and vice-versa. To seek a solution to this conflict we explore a new point on the spectrum by defining an alternative runtime verification approach.We introduce a new formalism for concisely capturing expressive specifications with parameters. Our technique is more expressive than the currently most efficient techniques while at the same time allowing for optimizations.

state machines↗

Experimental Results and Interfacial Lift-off Model Predictions of Critical Heat Flux for Flow Boiling with Subcooled Inlet Conditions – In Preparation for Experiments Onboard the International Space Station

This study investigates critical heat flux (CHF) for subcooled flow boiling of n-Perfluorohexane based on results of pre-launch Earth-gravity Mission Sequence Tests (MSTs) of the Flow Boiling and Condensation Experiment (FBCE), which was launched to the International Space Station (ISS) in August 2021. CHF measurements were made in a rectangular channel having a 2.5 mm by 5 mm cross-section and a 114.6-mm long heated segment. Both single-sided and double-sided heating were tested in vertical upflow in Earth gravity for a variety of inlet conditions. The inlet subcooling was varied in the range of 0.4 – 32.0°C and encompassed both near-saturated and highly subcooled conditions. Experimental trends and high-speed video records were investigated to better understand the mechanism of CHF. Overall trends show CHF increases as flow rate and/or inlet subcooling are increased. Flow features from the events around CHF justify the applicability of the Interfacial Lift-off Model and the determination of limiting criteria for its application. The present experimental data are combined with prior databases for various flow orientations with respect to Earth gravity and microgravity data collected on parabolic flights. Predictions are made using the Interfacial Lift-off Model for this consolidated subcooled-inlet FBCE-CHF database. A heat utility ratio was included in the model to capture the effects of subcooling and corresponding thermodynamic non-equilibrium. An overall mean absolute error of 19.04% indicates good predictive capability of the model for both heating configurations, different gravity environments, and a wide range of inlet subcooling.

flow boiling↗

Performance evaluation of CMIP6 models on the Arctic-Siberian Plain teleconnection affecting the East Asian heat waves

The frequency and intensity of summer heat waves in East Asia have increased sharply in recent decades, significantly impacting public health and the economy. The Arctic-Siberian Plain (ASP) teleconnection pattern has been identified as a key driver, with ASP warming amplifying atmospheric circulation patterns conducive to extreme temperatures. This study evaluates the ability of Coupled Model Inter-comparison Project phase 6 models to simulate the ASP pattern across interannual variability (IAV) and intra-seasonal variability (ISV) timescales using the Common Basis Function method. The multi-model mean shows statistically significant pattern correlations with ERA5 reanalysis, with correlation coefficients of 0.90 and 0.99 for IAV and ISV, respectively. While the ASP pattern is generally well captured, models exhibit substantial inter-model diversity in the intensity and position of anticyclonic anomalies over the ASP and East Asia. Models with ASP pattern variability similar to reanalysis better reproduce extreme East Asian temperatures, whereas those over- or underestimating ASP variability exhibit lower skill. These performance differences are related to differences in simulating key variables associated with the development of the ASP pattern. Our findings highlight the role of the ASP pattern in modulating extreme heat events, as models with improved ASP simulations align more closely with observed temperature extremes. Refining ASP representations in models could enhance seasonal heat wave predictions, improving climate adaptation strategies.

Arctic-Siberian Plain (ASP)↗

Characterization of runaway electron impact on instrumented sacrificial limiters on DIII-D

Instrumented sacrificial limiter heads, both domed (proud) and flat (flush) are used in DIII-D runaway electron (RE) wall strikes to study the wall impact dynamics with high spatial and time resolution. The approximate structure of the RE wetted area and heating depth on the domed limiter heads were predicted qualitatively using orbit-tracking simulations, although a strong left–right asymmetry (about the magnetic field direction) was not captured well by the simulations. It is hypothesized that this difference is perhaps due to the local 3D magnetic field perturbation of the dome limiter head. The average kinetic energy K and pitch angle θ of REs striking the limiter head were estimated from the spatial distribution of local HXR emission and were estimated to be roughly K ≈ 4 MeV and θ ≈ 0.2 rad. These values are roughly consistent with in-plasma values estimated before the loss event, indicating that RE kinetic energy and pitch angle are not drastically altered when transporting to the wall. Large shot–shot variations (1–10 kJ) in energy deposition into the limiter head were observed and were explained by shot–shot variations in locked magneto-hydrodynamics mode toroidal phase. For the largest deposited energies (10 kJ), graphite material failure and explosive dust release was observed, and the depth of material failure at higher energy deposition was successfully reproduced using modelling of volumetric energy deposition and brittle failure. The presence of energetic (keV) level ion impact during the RE wall strike was confirmed by three different surface analysis techniques. The ratio of energetic ion to RE flux appears to be larger on flat surfaces within the RE wetted area, although the energetic ion flux and total energy flux due to energetic ions have not yet been quantified.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

U.S. Spacesuit Knowledge Capture Status and Initiatives in Fiscal Year 2014

Since its 2008 inception, the NASA U.S. Spacesuit Knowledge Capture (KC) program has shared historical spacesuit information with engineers and other technical team members to expand their understanding of the spacesuit's evolution, known capability and limitations, and future desires and needs for its use. As part of the U.S. Spacesuit KC program, subject-matter experts have delivered presentations, held workshops, and participated in interviews to share valuable spacesuit lessons learned to ensure this vital information will survive for existing and future generations to use. These events have included spacesuit knowledge from the inception of NASA's first spacesuit to current spacesuit design. To ensure that this information is shared with the entire NASA community and other interested or invested entities, these KC events were digitally recorded and transcribed to be uploaded onto several applicable NASA Web sites. This paper discusses the various Web sites that the KC events are uploaded to and possible future sites that will channel this information.

Chullen, Cinda↗

Uncertainties in Simulating Flooding During Hurricane Harvey Using 2D Shallow Water Equations

Abstract Flooding is one of the most impactful weather‐related natural hazards. Numerical models that solve the two dimensional (2D) shallow water equations (SWE) represent the first‐principles approach to simulate all types of spatial flooding, such as pluvial, fluvial, and coastal flooding, and their compound dynamics. High spatial resolution (e.g., () m) is needed in 2D SWE simulations to capture flood dynamics accurately, resulting in formidable computational challenges. Thus, relatively coarser spatial resolutions are used for large‐scale simulations of flooding, which introduce uncertainties in the results. It is unclear how the uncertainty associated with the model resolution compares to the uncertainties in precipitation data sets and assumptions regarding boundary conditions when channelized flows interact with other water bodies. In this study, we compare these three sources of uncertainties in 2D SWE simulations for the 2017 Houston flooding event. Our results show that precipitation uncertainty and mesh resolution have more significant impacts on the simulated streamflow and inundation dynamics than the choice of the downstream boundary condition at the watershed outlet. We point out the viability to confine the uncertainty of coarsening mesh resolution by using the variable resolution mesh (VRM) which refines critical topographic features with far fewer grid cells. Specifically, in simulations with VRM, the simulated inundation depths over the refined region are comparable to that use the finest uniform mesh. This study contributes to understanding the challenges and pathways for applying 2D SWE models to improve the realism of flood simulations over large scales.

54 ENVIRONMENTAL SCIENCES↗

Topological structure and dynamics of three-dimensional active nematics

Topological structures are effective descriptors of the nonequilibrium dynamics of diverse many-body systems. For example, motile, point-like topological defects capture the salient features of two-dimensional active liquid crystals composed of energy-consuming anisotropic units. We dispersed force-generating microtubule bundles in a passive colloidal liquid crystal to form a three-dimensional active nematic. Light-sheet microscopy revealed the temporal evolution of the millimeter-scale structure of these active nematics with single-bundle resolution. The primary topological excitations are extended, charge-neutral disclination loops that undergo complex dynamics and recombination events. Our work suggests a framework for analyzing the nonequilibrium dynamics of bulk anisotropic systems as diverse as driven complex fluids, active metamaterials, biological tissues, and collections of robots or organisms.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Sensitivity of Optical Satellites to Estimate Windthrow Tree-Mortality in a Central Amazon Forest

Windthrow (i.e., trees broken and uprooted by wind) is a major natural disturbance in Amazon forests. Images from medium-resolution optical satellites combined with extensive field data have allowed researchers to assess patterns of windthrow tree-mortality and to monitor forest recovery over decades of succession in different regions. Although satellites with high spatial-resolution have become available in the last decade, they have not yet been employed for the quantification of windthrow tree-mortality. Here, we address how increasing the spatial resolution of satellites affects plot-to-landscape estimates of windthrow tree-mortality. We combined forest inventory data with Landsat 8 (30 m pixel), Sentinel 2 (10 m), and WorldView 2 (2 m) imagery over an old-growth forest in the Central Amazon that was disturbed by a single windthrow event in November 2015. Remote sensing estimates of windthrow tree-mortality were produced from Spectral Mixture Analysis and evaluated with forest inventory data (i.e., ground true) by using Generalized Linear Models. Field measured windthrow tree-mortality (3 transects and 30 subplots) crossing the entire disturbance gradient was 26.9 ± 11.1% (mean ± 95% CI). Although the three satellites produced reliable and statistically similar estimates (from 26.5% to 30.3%, p < 0.001), Landsat 8 had the most accurate results and efficiently captured field-observed variations in windthrow tree-mortality across the entire gradient of disturbance (Sentinel 2 and WorldView 2 produced the second and third best results, respectively). As expected, mean-associated uncertainties decreased systematically with increasing spatial resolution (i.e., from Landsat 8 to Sentinel 2 and WorldView 2). However, the overall quality of model fits showed the opposite pattern. We suggest that this reflects the influence of a relatively minor disturbance, such as defoliation and crown damage, and the fast growth of natural regeneration, which were not measured in the field nor can be captured by coarser resolution imagery. Our results validate the reliability of Landsat imagery for assessing plot-to-landscape patterns of windthrow tree-mortality in dense and heterogeneous tropical forests. Satellites with high spatial resolution can improve estimates of windthrow severity by allowing the quantification of crown damage and mortality of lower canopy and understory trees. However, this requires the validation of remote sensing metrics using field data at compatible scales.

54 ENVIRONMENTAL SCIENCES↗

Influence of simple terrain on the spatial variability of a low-level jet and wind farm performance in the AWAKEN field campaign

In wind energy research, scientific challenges are often associated with complex terrain sites, where orography, vegetation, and buildings disrupt flow uniformity. However, even sites characterized as simple terrain can exhibit significant spatial variability in wind speed, particularly during stable boundary layers (SBLs) and low-level jets (LLJs). This study investigates these terrain interactions using both simulations and observations from the American WAKe ExperimeNt (AWAKEN). We employ a multiscale Weather Research and Forecasting (WRF) model simulation, integrating mesoscale forcing in the coarse domains and representing three rows of turbines from the King Plains wind farm as generalized actuator disks (GAD) in the large-eddy simulation (LES) domains. During a nocturnal LLJ event on 3 April 2023, the downstream, wake-affected turbine rows outperformed the upstream, unwaked row by 25 %–51 %. This counterintuitive result arises from terrain-induced streamwise variations in hub-height wind speed of approximately 4 m s −1 over 5 km – equivalent to ∼50 % of the upstream reference speed. This enhancement outweighs the wake-induced reduction in mean wind speed (∼12 %) and global blockage effects reported in the literature (∼1 %–3.4 %). The multiscale simulations capture the intra-farm spatial variability in power performance observed in SCADA data. Terrain-induced vertical displacement of the LLJ, coupled with large wind shear below the jet maximum, drives the substantial streamwise acceleration within the wind farm. These findings underscore the importance of accounting for spatial variability related to terrain, even in simple landscapes, particularly during LLJ conditions. Incorporating such effects into reduced-order modeling frameworks for wind farm design and control could significantly enhance their effectiveness.

17 WIND ENERGY↗

The Essence of Reactivity

Reactive programming, functional reactive programming, event-based programming, stream programming, and temporal logic all share an underlying commonality: values can vary over time. These languages differ in multiple ways, including the nature of time itself (e.g., continuous or discrete, dense or sparse, implicit or explicit), on how much of the past and future can be referenced, on the kinds of values that can be represented, as well as the mechanisms used to evaluate expressions or formulas. This paper presents a series of abstractions that capture the essence of different forms of time variance. By separating the aspects that differentiate each family of formalisms, we can better express the commonalities and differences between them. We demonstrate our work with a prototype in Haskell that allows us to write programs in terms of a generic interface that can be later instantiated to different abstractions depending on the desired target.

reactive programming↗

Capturing Secondary Kinetic Instabilities in Three‐Dimensional Dayside Reconnection Using an Improved Gradient‐Based Closure

Magnetic reconnection is a highly dynamic process that excites a wide variety of kinetic waves and instabilities. Transverse current sheet instabilities such as the lower-hybrid drift and secondary drift-kink instabilities in particular have been shown by kinetic simulations to modify the reconnection and introduce significant turbulence and mixing to the reconnection layer. Past studies using the ten-moment fluid model to capture important kinetic physics such as the electron inertia and full representation of the pressure tensor proved advantageous to a two-fluid representation of reconnection, but the model struggled when using a local relaxation closure for the heat flux to replicate the current sheet instabilities and subsequent mixing seen in kinetic simulations. This work uses the Gkeyll software framework to perform simulations of asymmetric reconnection based on the 16 October 2015 MMS crossing of a diffusion region, the Burch event. An improved gradient-based heat flux closure is implemented, showing significant improvement in secondary kinetic instabilities that grow in the current sheet. These instabilities generate turbulence which leads to growth of secondary magnetic islands and flux ropes.

Bradshaw, K. [Princeton University, NJ (United Sta↗

Blue Keanu: A Scientific Visualization Tool For Network Data

This software allows the user to visualize complex PCAP-ng files captured from network capture software such as Wireshark. The visualization runs in a GUI window that can be zoomed or moved to areas of interest in a waterfall type display. The user then can see an area of interest that looks different than the typical traffic visually, such as a human interaction or non-repetitive area of data. The program will tell the user the packet number and byte offset of interest for fast analysis of discrete atomic or non-random events. This is particularly useful for visualization of unknown binary format data, such as in PLC or SCADA protocols that may have human or other non-repetitive activity for further analysis, reverse engineering, or fast forensic analysis.

Durller, MichaelGeorge↗

Effective Kitchen Ventilation for Healthy Zero Net Energy Homes with Natural Gas

Past studies indicate that kitchen ventilation that minimally complies with California’s Residential Building Code is inadequate at controlling combustion pollutants from natural gas burners and particulate matter produced during cooking. Effectiveness is further limited by misperceptions that kitchen ventilation is infrequently needed. This project developed the technical basis for updating kitchen ventilation requirements to protect health in new California homes, especially in smaller homes common among low-income renters. Tasks included (1) a field study of ventilation equipment performance and indoor air quality in 23 low-income apartments at four sites; (2) analysis of range hood use related to cooking time and household parameters using data from 54 houses and 17 low-income apartments; (3)a measurement-based study to quantify performance of over-the-range microwave ovens with integrated exhaust fans;and (4) pollutant exposure simulations to inform capture efficiency standards.The field study found operational deficiencies with mechanical ventilation systems in a substantial fraction of low-income apartments that affected performance, resulting in higher exposures to pollutants generated indoors. Using gas cooking burners produced high short-term and weekly time-averaged nitrogen dioxide in apartments.Range hoods were used more frequently with cooking in houses (36percent) than apartments (28percent); use increased with overall cooking frequency in a home and with duration of cooktop but not oven events; actual use was correlated to, but lower than,self-reported use;and use was more frequent in houses when cooking generated any fine particulate matter (PM2.5)or when high PM2.5resulted from cooking in apartments. Performance of over-the-range microwaves with integrated exhaust fans was similar to that of range hoods of comparable price. Simulation analysis found that performance standards need to be updated to ensure that kitchen exhaust ventilation adequately protects for substantial cooking in new California residences.

03 NATURAL GAS↗