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At least 253 records · Page 14

Validation of Two-Phase Flow Modeling Techniques in Loci-Stream Using Axial Jet Pressure Control and Autogenous Pressurization Experiments

Improvements to computational fluid dynamics modeling of cryogenic fluid management operations are presented with experimental validations. Modeling improvements includes utilizing improved delayed detaches eddy simulation to more effectively model turbulence compared to the Reynolds-averaged Navier Stokes modeling, modeling temperature dependent tank solid properties to capture large variation in thermodynamic properties at cryogenic conditions, modeling real gas equation of state for hydrogen instead of ideal gas behavior, and an on-going effort to improve interface turbulence transport for the volume of fluid method. Two flight-scale ground tests, five K-site tank axial jet pressure control experiments and an Engineering Design Unit tank autogenous pressurization experiment are validated and show the effectiveness of the improved modeling techniques. The successful validation establishes further trust in these models for flight project support and provides a pathway for maturation of in-development interface turbulence damping model for the volume of fluid method for more generalized applications.

CFD↗

The challenges of modelling antibody repertoire dynamics in HIV infection

Antibody affinity maturation by somatic hypermutation of B-cell immunoglobulin variable region genes has been studied for decades in various model systems using well-defined antigens. While much is known about the molecular details of the process, our understanding of the selective forces that generate affinity maturation are less well developed, particularly in the case of a co-evolving pathogen such as HIV. Despite this gap in understanding, high-throughput antibody sequence data are increasingly being collected to investigate the evolutionary trajectories of antibody lineages in HIV-infected individuals. Here, we review what is known in controlled experimental systems about the mechanisms underlying antibody selection and compare this to the observed temporal patterns of antibody evolution in HIV infection. In addition, we describe how our current understanding of antibody selection mechanisms leaves questions about antibody dynamics in HIV infection unanswered. Without a mechanistic understanding of antibody selection in the context of a co-evolving viral population, modelling and analysis of antibody sequences in HIV-infected individuals will be limited in their interpretation and predictive ability.

59 BASIC BIOLOGICAL SCIENCES↗

Unravelling the dynamics of the maturation protein in MS2 bacteriophage via molecular simulations

The MS2 bacteriophage capsid serves as a model system for studying viral structure and function. Mature MS2 virus consists of 178 capsid proteins and a single maturation protein (MP), which is essential for host receptor binding and infection initiation. Despite its critical role, the dynamic behavior of the capsid with the MP remains poorly understood. To address this, we conducted 0.5 µs all-atom molecular dynamics (MD) simulations of the MS2 capsid with and without the MP, revealing key insights into its structural dynamics. Our simulations showed that MP exhibits high flexibility, particularly in the “tip” and “side-loop” regions, which undergo significant motions that likely enhance its ability to engage with the F-pilus receptor. Detailed analysis of MP conformational states revealed that loop rearrangements around H357 enable transient switching between “semi-closed” and “open” conformations, suggesting a conformational selection mechanism for pilus binding. Additionally, ion interaction analyses revealed distinct sodium and chloride binding patterns, where sodium ions were mostly found at the outer capsid shell, while chloride ions interacted with the basic residues on the RNA-facing side. We also found that the presence of the MP enhances salt-bridge interactions, contributing to increased capsid stability, yet it does not significantly alter the pore sizes of pentameric and hexameric units. Together, these findings provide new insights into the functional role of the MP, highlighting its contribution to capsid stability and host receptor engagement. This study offers a foundation for understanding capsid dynamics relevant to viral infectivity and may guide future rational strategies aimed at disrupting host-virus interactions.

Capsid stability↗

Optimization of Application-Driven Development of In Vitro Neuromuscular Junction Models

Neuromuscular junctions (NMJs) are specialized synapses responsible for signal transduction between motor neurons (MNs) and skeletal muscle tissue. Malfunction at this site can result from developmental disorders, toxic environmental exposures, and neurodegenerative diseases leading to severe neurological dysfunction. Exploring these conditions in human or animal subjects is restricted by ethical concerns and confounding environmental factors. Therefore, in vitro NMJ models provide exciting opportunities for advancements in tissue engineering. In the last two decades, multiple NMJ prototypes and platforms have been reported, and each model system design is strongly tied to a specific application: exploring developmental physiology, disease modeling, or high-throughput screening. Directing the differentiation of stem cells into mature MNs and/or skeletal muscle for NMJ modeling has provided critical cues to recapitulate early-stage development. Patient-derived inducible pluripotent stem cells provide a personalized approach to investigating NMJ disease, especially when disease etiology cannot be resolved down to a specific gene mutation. Having reproducible NMJ culture replicates is useful for high-throughput screening to evaluate drug toxicity and determine the impact of environmental threat exposures. Cutting-edge bioengineering techniques have propelled this field forward with innovative microfabrication and design approaches allowing both two-dimensional and three-dimensional NMJ culture models. Many of these NMJ systems require further validation for broader application by regulatory agencies, pharmaceutical companies, and the general research community. In this summary, we present a comprehensive review on the current state-of-art research in NMJ models and discuss their ability to provide valuable insight into cell and tissue interactions.

59 BASIC BIOLOGICAL SCIENCES↗

Computational Fluid Dynamics Simulations of the Transonic Dynamics Tunnel Airstream Oscillator System

This paper presents a Computational Fluid Dynamics (CFD) model of the flow in the NASA Langley Research Center Transonic Dynamics Tunnel (TDT) with the Airstream Oscillator System (AOS) in operation. The TDT is a continuous-flow, closed circuit wind tunnel with a 16- by 16-foot slotted test section with cropped corners. The tunnel was originally built as the 19-ft Pressure Tunnel in 1938, but it was converted to the current transonic tunnel in the 1950s, with capabilities to use either air or heavy gas (R-134a) as the test medium. The TDT was also fitted with an AOS which can be used to create a gust field in the test section. To date, no computational analyses of the TDT involving the AOS have been performed. In this study, experimental data acquired of an oscillating airstream in the tunnel will be used to calibrate the computational analyses. A significant motivation of this work is to attempt to compare computational gust velocities to those recorded in the TDT literature. In addition to a validation of this model with experimental data, it may also be possible to supplement the experimental data with computational data. The experimental data is rather sparse and at only a few Mach numbers. Computational results may be able to expand the AOS data set. Another motivation for this work is that the Integrated Adaptive Wing Technology Maturation (IAWTM) semi-span model of the high-aspect-ratio CRM with 10 trailing edge control surfaces is currently being fabricated and will be delivered to the NASA Langley Transonic Dynamics Tunnel (TDT) for testing in late 2020. Among tests to be conducted, gust load alleviation (GLA) will be demonstrated at transonic conditions using the AOS.

Computational Fluid Dynamics↗

Bone density in limb-immobilized beagles: An animal model for bone loss in weightlessness

Prolonged weightlessness is man in space flight results in a slow progressive demineralization of bone accompanied by an increased calcium output in the urine resulting in negative calcium balances. This possibly irreversible bone loss may constitute a serious limiting factor to long duration manned space flight. In order to seek and test preventative measures an appropriate ground based animal model simulating weightlessness is necessary. Use of the mature Beagle in limb immobilization has been documented as an excellent model for orthopedic research since this animal most closely simulates the phenomenom of bone loss with regards to growth, remodeling, structure, chemistry and mineralization. The purpose of this project is to develop a research protocol for the study of bone loss in Beagles during and after cast immobilization of a hindleg; research will then be initiated.

Wolinsky, Ira↗

A Gaussian process autoregressive model capturing microstructure evolution paths in a Ni–Mo–Nb alloy

Additive manufacturing is increasingly being employed to produce components of complex geometries in structural alloys because of the expected energy savings associated with the near-net-shape capability and the ability to build in novel internal features that are not possible with many conventional manufacturing approaches. However, because of the extreme thermal conditions encountered, the non-equilibrium microstructures produced during powder bed-based additive manufacturing processes must be subjected to custom post-heat treatment processes to recover the target mechanical properties. Phase-field models and simulation techniques have matured to a state where the microstructure evolution paths, and the morphologies of the resulting precipitate phases can be predicted reasonably accurately, considering alloy-specific thermodynamic and kinetic aspects of the nucleation and growth processes. However, phase-field simulations are computationally intensive, which precludes the ability to apply the simulations directly to the length scale of the entire component. Therefore, it is highly desirable to develop low-computational-cost surrogate models that effectively capture the physics at the microstructural length scale, while facilitating the design of optimized processing conditions resulting in location-specific targeted microstructures at the component scale. The work presented here demonstrates the application of the materials knowledge system framework to develop a surrogate model that effectively captures the microstructural path during annealing of a Ni–Mo–Nb alloy containing different Mo and Nb compositions known to segregate during solidification under additive manufacturing conditions. Specifically, the surrogate model built in this work is based on a Gaussian process autoregressive model informed by statistical representation of simulated microstructures using two-point correlations and dimensionality reduction through principal component analysis. In conclusion, this surrogate model is shown to capture the bifurcation of the microstructural path during precipitation, which yields a microstructure dominated by the $\gamma^{\prime\prime}$ phase at high Nb concentrations and the $\delta$ phase at low Nb concentrations.

36 MATERIALS SCIENCE↗

Generalized Predictive Control for Active Stability Augmentation and Vibration Reduction on an Aeroelastic Tiltrotor Model

Tiltrotor aircraft are defining the state-of-the-art in vertical lift technology as they have the potential to greatly expand rotary-wing operational boundaries. However, they are often limited in forward flight speed due to complex coupled rotor and wing dynamic instabilities. The U.S. Army and NASA have been developing a new wind tunnel model, the TiltRotor Aeroelastic Stability Testbed(TRAST), to test proprotors in the NASA Langley Research Center Transonic Dynamics Tunnel (TDT) to investigate aeroelastic stability in cruise. The test is intended to provide high-quality research data for analytical tool development and validation. In addition, the TRAST model will support, develop, and mature new technologies for the design of advanced proprotor aircraft. Stability augmentation and vibration reduction during testing is planned with the use of an active control methodology known as Generalized Predictive Control(GPC). GPC is an autoregressive control law that experimentally acquires a system identification to derive the input-output relation of controls and corresponding sensors. This type of control law is especially useful for complex dynamic interactions that are difficult to explicitly model such as proprotor pylon instability, often referred to as whirl flutter. GPC has been successfully employed on other tiltrotor vehicles to suppress whirl flutter instabilities and vibrations. To aid in the characterization of the wind-tunnel model and in tool development, an analytical representation of the wind-tunnel model was developed using the rotorcraft comprehensive analysis system (RCAS) that simulates structural dynamics and aerodynamics. RCAS was used to derive state-space estimates of the physical plant at various flight conditions to test control law effectiveness. This paper will present an overview of the test article development, a description of RCAS, an explanation of the GPC methodology, and results of GPC being applied to state-space plant estimates of the TRAST model. In these simulations, GPC was effective at stabilizing the aircraft beyond the whirl-flutter boundary while simultaneously reducing vibrations across the flight regime. Additionally, a modern advancement to GPC, termed advanced GPC (AGPC), is introduced that enables a self-adapting system identification. Preliminary results show that AGPC is successful at self-correction as the plant changes from what was used for system identification.

tiltrotor↗

A Multi-Year Plan for Enhancing Turbulence Modeling in Hydra-TH Revised and Updated Version 2.0

The purpose of this report is to document a multi-year plan for enhancing turbulence modeling in Hydra-TH for the Consortium for Advanced Simulation of Light Water Reactors (CASL) program. Hydra-TH is being developed to the meet the high- fidelity, high-Reynolds number CFD based thermal hydraulic simulation needs of the program. This work is being conducted within the thermal hydraulics methods (THM) focus area. This report is an extension of THM CASL milestone L3:THM.CFD.P10.02 [33] (March, 2015) and picks up where it left off. It will also serve to meet the requirements of CASL THM level three milestone, L3:THM.CFD.P11.04, scheduled for completion September 30, 2015. The objectives of this plan will be met by: maturation of recently added turbulence models, strategic design/development of new models and systematic and rigorous testing of existing and new models and model extensions. While multi-phase turbulent flow simulations are important to the program, only single-phase modeling will be considered in this report. Large Eddy Simulation (LES) is also an important modeling methodology. However, at least in the first year, the focus is on steady-state Reynolds Averaged Navier-Stokes (RANS) turbulence modeling.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

The birth of a field through a marriage of scales: urban meteorological modeling meets regional climate modeling

Urban meteorological modeling and regional climate modeling developed largely independently, with each discipline addressing different aspects of atmospheric processes across space and time. In this review, I show that urban climate modeling did not arise as a simple scaling extension of urban meteorological modeling or an add-on to regional climate modeling, but instead emerged through the selective inheritance of complementary strengths from its parents after both disciplines reached sufficient methodological maturity. By tracing the parallel evolution of these disciplines, I demonstrate that urban climate modeling inherited the physically explicit treatment of the built environment developed within urban meteorological modeling, and the hierarchical scale translation and climatological framing that matured within regional climate modeling, allowing urban effects to influence climate-relevant outcomes. Building on this synthesis, I propose an objective, and methodologically-grounded definition of urban climate modeling that distinguishes it from urban meteorological modeling. This distinction is increasingly important as urban climate data informs decisions with long-lived societal consequences, and as ambiguity in terminology risks conflating fundamentally different modeling frameworks with distinct physical meaning and decision relevance. In addition to a clarifying definition, this review outlines a research framework for advancing urban climate modeling through scale-aware coupling strategies that preserve physically consistent urban-atmosphere interactions.

regional climate↗

Future Aviation Biofuel Analysis Using the Biomass Scenario Model

This presentation summarizes the findings from two articles that use the Biomass Scenario Model (BSM) to explore potential future aviation biofuels scenarios. Newes et al. (2017) concluded that construction/build out capabilities and development of the feedstock market are key bottlenecks in the initial years. Displacement of jet fuel by 30% with biofuels by 2030 is possible, but several factors related to policy design-in the absence of high oil prices or policy uncertainty-contribute to the timing and magnitude of aviation biofuels production. First, incentives targeted toward jet fuel production, such as financial incentives (e.g., a producer tax credit or a CO2 tax) could be sufficient to reach six billion gallons. Second, R&D investment in pre-commercial technologies is needed to reduce the cost of production through learning-by-doing. Third, reduction of investment risk through loan guarantees and offtake agreements may allow production to ramp up more quickly through accelerating industry learning. Lewis et al. (2018) showed that both BSM and the Freight and Fuel Transportation Optimization Tool suggest that 200 million to 1 billion gallons per year of alternative jet fuel production are possible by 2030, given multiple incentives and a favorable investment climate. However, different capital costs and technology maturation rates in the two models will affect deployment of different fuel production technologies and therefore the feedstocks needed. Further collaboration on these modeling approaches would reduce methodological blind spots while providing insights into future industry trajectories.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

The HIV-1 late domain-2 S40A polymorphism in antiretroviral (or ART)-exposed individuals influences protease inhibitor susceptibility

Background: The p6 region of the HIV-1 structural precursor polyprotein, Gag, contains two motifs, P 7 TAP 11 and L 35 YPLXSL 41 , designated as late (L) domain-1 and -2, respectively . These motifs bind the ESCRT-I factor Tsg101 and the ESCRT adaptor Alix, respectively, and are critical for efficient budding of virus particles from the plasma membrane. L domain-2 is thought to be functionally redundant to PTAP. To identify possible other functions of L domain-2, we examined this motif in dominant viruses that emerged in a group of 14 women who had detectable levels of HIV-1 in both plasma and genital tract despite a history of current or previous antiretroviral therapy. Results: Remarkably, variants possessing mutations or rare polymorphisms in the highly conserved L domain-2 were identified in seven of these women. A mutation in a conserved residue (S40A) that does not reduce Gag interaction with Alix and therefore did not reduce budding efficiency was further investigated. This mutation causes a simultaneous change in the Pol reading frame but exhibits little deficiency in Gag processing and virion maturation. Whether introduced into the HIV-1 NL4-3 strain genome or a model protease (PR) precursor, S40A reduced production of mature PR. This same mutation also led to high level detection of two extended forms of PR that were fairly stable compared to the WT in the presence of IDV at various concentrations; one of the extended forms was effective in trans processing even at micromolar IDV. Conclusions: Our results indicate that L domain-2, considered redundant in vitro, can undergo mutations in vivo that significantly alter PR function. These may contribute fitness benefits in both the absence and presence of PR inhibitor.

Virology↗

Modelling TOVS radiances of synoptic systems

Two operational analysis models, produced by ECMWF and NMC, are compared against observed satellite radiances by converting the analyzed variables into synthetic radiances using a radiative transfer model (RTM). Observed TOVS satellite radiances are used as a ground truth, since they are the only source of continuous, synoptic-scale resolution observations available over the data-sparse tropical Pacific Ocean. It is assumed that if the analysis models correctly simulate atmospheric conditions, the observed and modelled radiance fields will have similar patterns and magnitudes. In each of seven TOVS channels examined, the mean temperature difference between the models was small, but the differences between the models and the observations were large. The mean temperature difference within each channel was larger than the standard deviation in most cases. The moisture channels of the RTM were sensitive to changes in moisture content, but none of the channels were significantly affected by changes in temperature. Single-day modelled radiance analyses contain synoptic information similar to the satellite observations. ECMWF is often too noisy, producing features not verified by the satellite; NMC is often too smooth. NMC more closely resembles the TOVS contours. Modelled water vapor channel analyses resemble observed monthly and composited observations well, but do not accurately reproduce the highly-variable single-day fields. ECMWF generally has more accurate gradients. Neither model simulates the tropics well. The water vapor channels, especially channel eleven (weighted at 700 mb), most closely resembled the tropical plume composite described by McGuirk and Ulsh. The only plume evidence found in the thermal or microwave channels, in either the observations or the models, was a composite trough situated in the correct location, extending from the mid-latitudes into the subtropics. This feature was not readily discernable until the definition and mature stages. Additional information besides the modelled temperatures would be required to produce an accurate forecast for the tropics. Model patterns more closely resembled the observations in the quiescent atmosphere, though the magnitudes were not any closer. ECMWF simulates the TOVS quiescent state better than NMC. The moisture channels continue to present the most realistic patterns. The models contained more detail in the tropics than was verified by the satellite observations, apparently trying to force an active ITCZ. Lag correlations showed TOVS to be more persistent than the models. TOVS also showed a smoother lag trend, but all products appeared to have adequate ability to react to changes in the atmosphere over time.

Coe, Thomas Eddy↗

Remote Sensing of Solar-Induced Chlorophyll Fluorescence (SIF) in Vegetation: 50 Years of Progress

Remote sensing of solar-induced chlorophyll fluorescence (SIF) is a rapidly advancing front in terrestrial vegetation science, with emerging capability in space-based methodologies and diverse application prospects. Although remote sensing of SIF – especially from space – is seen as a contemporary new specialty for terrestrial plants, it is founded upon a multi-decadal history of research, applications, and sensor developments in active and passive sensing of chlorophyll fluorescence. Current technical capabilities allow SIF to be measured across a range of biological, spatial, and temporal scales. As an optical signal, SIF may be assessed remotely using highly-resolved spectral sensors and state-of-the-art algorithms to distinguish the emission from reflected and/or scattered ambient light. Because the red to far-red SIF emission is detectable non-invasively, it may be sampled repeatedly to acquire spatio-temporally explicit information about photosynthetic light responses and steady-state behaviour in vegetation. Progress in this field is accelerating with innovative sensor developments, retrieval methods, and modelling advances. This review distills the historical and current developments spanning the last several decades. It highlights SIF heritage and complementarity within the broader field of fluorescence science, the maturation of physiological and radiative transfer modelling, SIF signal retrieval strategies, techniques for field and airborne sensing, advances in satellite-based systems, and applications of these capabilities in evaluation of photosynthesis and stress effects. Progress, challenges, and future directions are considered for this unique avenue of remote sensing.

Review↗

Monitoring leaf phenology in moist tropical forests by applying a superpixel-based deep learning method to time-series images of tree canopies

Tropical leaf phenology-particularly its variability at the tree-crown scale-dominates the seasonality of carbon and water fluxes. However, given enormous species diversity, accurate means of monitoring leaf phenology in tropical forests is still lacking. Time series of the Green Chromatic Coordinate (GCC) metric derived from tower-based red-green-blue (RGB) phenocams have been widely used to monitor leaf phenology in temperate forests, but its application in the tropics remains problematic. To improve monitoring of tropical phenology, we explored the use of a deep learning model (i.e. superpixel-based Residual Networks 50, SP-ResNet50) to automatically differentiate leaves from non-leaves in phenocam images and to derive leaf fraction at the tree-crown scale. To evaluate our model, we used a year of data from six phenocams in two contrasting forests in Panama. Here, we first built a comprehensive library of leaf and non-leaf pixels across various acquisition times, exposure conditions and specific phenocams. We then divided this library into training and testing components. We evaluated the model at three levels: 1) superpixel level with a testing set, 2) crown level by comparing the model-derived leaf fractions with those derived using image-specific supervised classification, and 3) temporally using all daily images to assess the diurnal stability of the model-derived leaf fraction. Finally, we compared the model-derived leaf fraction phenology with leaf phenology derived from GCC. Our results show that: 1) the SP-ResNet50 model accurately differentiates leaves from non-leaves (overall accuracy of 93%) and is robust across all three levels of evaluations; 2) the model accurately quantifies leaf fraction phenology across tree-crowns and forest ecosystems; and 3) the combined use of leaf fraction and GCC helps infer the timing of leaf emergence, maturation and senescence, critical information for modeling photosynthetic seasonality of tropical forests. Collectively, this study offers an improved means for automated tropical phenology monitoring using phenocams.

54 ENVIRONMENTAL SCIENCES↗

High-throughput Li plating quantification for fast-charging battery design

Fast charging of most commercial lithium-ion batteries is limited due to fear of lithium plating on the graphite anode, which is difficult to detect and poses considerable safety risk. In this report we demonstrate the power of simple, accessible and high-throughput cycling techniques to quantify irreversible Li plating spanning data from over 200 cells. We first observe the effects of energy density, charge rate, temperature and state of charge on lithium plating, use the results to refine a mature physics-based electrochemical model and provide an interpretable empirical equation for predicting the plating onset state of charge. We then explore the reversibility of lithium plating and its connection to electrolyte design for preventing irreversible Li accumulation. Finally, we design a method to quantify in situ Li plating for commercially relevant graphite|LiNi 0.5 Mn 0.3 Co 0.2 O 2 (NMC) cells and compare with results from the experimentally convenient Li|graphite configuration. The hypotheses and abundant data herein were generated primarily with equipment universal to the battery researcher, encouraging further development of innovative testing methods and data processing that enable rapid battery engineering.

25 ENERGY STORAGE↗

A discussion on various experimental methods of impact ionization coefficient measurement in GaN

Impact ionization coefficients play a critical role in semiconductors. In addition to silicon, silicon carbide and gallium nitride are important semiconductors that are being seen more as mainstream semiconductor technologies. As a reflection of the maturity of these semiconductors, predictive modeling has become essential to device and circuit designers, and impact ionization coefficients play a key role here. Recently, several studies have measured impact ionization coefficients. We dedicated the first part of our study to comparing three experimental methods to estimate impact ionization coefficients in GaN, which are all based on photomultiplication but feature characteristic differences. The first method inserts an InGaN hole-injection layer, the accuracy of which is challenged by the dominance of ionization in InGaN, leading to possible overestimation of the coefficients. The second method utilizes the Franz–Keldysh effect for hole injection but not for electrons, where the mixed injection of induced carriers would require a margin of error. The third method uses complementary p–n and n–p structures that have been at the basis of this estimation in Si and SiC and leans on the assumption of a constant electric field, and any deviation would require a margin of error. In the second part of our study, we evaluated the models using recent experimental data from diodes demonstrating avalanche breakdown.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Experimental reduction of lunar mare soil and volcanic glass

We have reduced high-titanium lunar mare soil and iron-rich lunar volcanic glass with hydrogen at temperatures of 900-1100 C. Ilmenite is the most reactive phase in the soil, exhibiting rapid and complete reduction at all temperatures. Ferrous iron in the glass is extensively reduced concurrent with partial crystallization. In both samples pyroxene and olivine undergo partial reduction along with chemical and mineralogical modifications. High-temperature reduction provides insight into the optical and chemical effects of lunar soil maturation, and places constraints on models of that process. Mare soil and volcanic glass are attractive feedstocks for lunar oxygen production, with achievable yields of 2-5 wt%.

Allen, Carlton C.↗