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At least 523 records · Page 29

Positive selection moments identify potential functional residues in human olfactory receptors

Correlated mutation analysis and molecular models of olfactory receptors have provided evidence that residues in the transmembrane domains form a binding pocket for odor ligands. As an independent test of these results, we have calculated positive selection moments for the alpha-helical sixth transmembrane domain (TM6) of human olfactory receptors. The moments can be used to identify residues that have been preferentially affected by positive selection and are thus likely to interact with odor ligands. The results suggest that residue 622, which is commonly a serine or threonine, could form critical H-bonds. In some receptors a dual-serine subsite, formed by residues 622 and 625, could bind hydroxyl determinants on odor ligands. The potential importance of these residues is further supported by site-directed mutagenesis in the beta-adrenergic receptor. The findings should be of practical value for future physiological studies, binding assays, and site-directed mutagenesis.

Non-NASA Center↗

Word Effects in Dual-Task Studies Using Lexical Decision and Naming as Task 2

Word frequency effects in dual-task, lexical decision are variously reported to be additive or under-additive across SOA. We replicate and extend earlier lexical decision studies and find word frequency to be additive across SOA. To more directly capture lexical processing, we examine dual-task naming. Once again we find word frequency to be additive across SOA. Lexical processing appears to be constrained by central processing limitations.

Remington, Roger↗

Word Frequency Effects in Dual-Task Studies Using Lexical Decision and Naming as Task 2

Word frequency effects in dual-task lexical decision are variously reported to be additive or underadditive across SOA. We replicate and extend earlier lexical decision studies and find word frequency to be additive across SOA. To more directly capture lexical processing, we examine dual-task naming. Once again, we find word frequency to be additive across SOA. Lexical processing appears to be constrained by central processing limitations.

Remington, Roger W.↗

A Computational and Experimental Study of Resonators in Three Dimensions

In a previous work by the present authors, a computational and experimental investigation of the acoustic properties of two-dimensional slit resonators was carried out. The present paper reports the results of a study extending the previous work to three dimensions. This investigation has two basic objectives. The first is to validate the computed results from direct numerical simulations of the flow and acoustic fields of slit resonators in three dimensions by comparing with experimental measurements in a normal incidence impedance tube. The second objective is to study the flow physics of resonant liners responsible for sound wave dissipation. Extensive comparisons are provided between computed and measured acoustic liner properties with both discrete frequency and broadband sound sources. Good agreements are found over a wide range of frequencies and sound pressure levels. Direct numerical simulation confirms the previous finding in two dimensions that vortex shedding is the dominant dissipation mechanism at high sound pressure intensity. However, it is observed that the behavior of the shed vortices in three dimensions is quite different from those of two dimensions. In three dimensions, the shed vortices tend to evolve into ring (circular in plan form) vortices, even though the slit resonator opening from which the vortices are shed has an aspect ratio of 2.5. Under the excitation of discrete frequency sound, the shed vortices align themselves into two regularly spaced vortex trains moving away from the resonator opening in opposite directions. This is different from the chaotic shedding of vortices found in two-dimensional simulations. The effect of slit aspect ratio at a fixed porosity is briefly studied. For the range of liners considered in this investigation, it is found that the absorption coefficient of a liner increases when the open area of the single slit is subdivided into multiple, smaller slits.

Tam, C. K. W.↗

Fast neutrino cooling of nuclear pasta in neutron stars: Molecular dynamics simulations

The direct Urca process of rapid neutrino emission can occur in nonuniform nuclear pasta phases that are expected in the inner crusts of neutron stars. Here, the periodic potential for a nucleon in nuclear pasta allows momentum conservation to be satisfied for direct Urca reactions. We improve on earlier work by modeling a rich variety of pasta phases (gnocchi, waffle, lasagna, and anti-spaghetti) with large-scale molecular dynamics simulations. We find that the neutrino luminosity due to direct Urca reactions in nuclear pasta can be 3 to 4 orders of magnitude larger than that from the modified Urca process in the NS core. Thus neutrino radiation from pasta could dominate radiation from the core and this could significantly impact the cooling of neutron stars.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Root Influences on Mobilization and Export of Mineral-bound Soil Organic Matter

Biogeochemical cycles within mountainous watersheds are key regulators of ecosystem carbon storage and downstream nutrient loadings, and they have shown to be particularly vulnerable to climate change impacts. Increasing temperature and persistent droughts have already dramatically changed vegetation cover across the mountainous western US, with unknown consequences for soil carbon and nutrient cycles belowground. What remains elusive is to what extent associated changes in root-soil interactions may mobilize the vast pool of organic matter (OM) that has been stabilized by associations with minerals for centuries or millennia. Although plant root-driven OM mobilization from minerals may be a central control on carbon loss and nutrient export, such mechanisms are currently missing from conceptual and numerical models. The overall objective of this Exploratory Project is to identify the biogeochemical mechanisms by which roots destabilize mineral-associated organic matter (MAOM) and the cumulative impact on carbon and nutrient fate. To accomplish this goal, we integrated well-controlled laboratory experiments with in-field measurements and a scalable modeling approach. First, we conducted model system experiments to assess the vulnerability of MAOM to exudate-mediated mechanisms. Our results show that common root exudates effectively destabilize MAOM not only through direct, ligand-driven mobilization mechanisms, but also indirect, microbially-mediated mechanisms relying on secondary metabolites and enzymes. We further found that OM bound to poorly crystalline Fe and Al (hydr)oxides is more vulnerable to exudate-induced destabilization than OM bound to more crystalline phases, particularly in response to direct, ligand-promoted mechanisms. These findings demonstrate that the stability of MAOM is not just a function of their inherent properties, but also will depend in large parts on the ability of plant roots and microbes to produce exudates capable of triggering suitable mobilization mechanisms. We further employed a well-controlled rhizobox approach, combining advanced microsensor and mass spectrometry techniques, to resolve spatiotemporal variations in the composition and availability of exudates along single growing roots of grasses. Our results show that the composition of functionally relevant exudate compounds varies at extremely short time scales, seemingly shifting from ligands such as aromatic acids around root tips to less reactive metabolites such as amino acids around mature root segments. These results suggest a prevalence of direct MAOM mobilization mechanisms around the root tip, while indirect MAOM mobilization strategies may dominate around more mature root segments. Additionally, we utilized microsensor measurements in rhizoboxes to parameterize a rhizosphere (hydro)biogeochemistry reactive transport model (eSTOMP-ROOTS). The resulting model was used to assess how root exudations affects the stability of MAOM. Model simulations show that diel pulses of root exudation are strong enough to cause oscillations in biogeochemical conditions—particularly in pH, oxygen concentrations, and microbial activity— that repeatedly disrupt MAOM. Finally, we assessed field-scale impacts of root-driven MAOM destabilization over short and long time scales. A combination of in-field incubations and field-based characterizations showed that MAOM may not only be vulnerable to seasonal variations in root activity, but also to root-driven weathering over pedogenic time scales. In sum, results from our Exploratory Award highlight the strong control plant roots exert on MAOM mobilization and, thus, on the potential for carbon and nutrient export from watersheds.

54 ENVIRONMENTAL SCIENCES↗

Identification of defective illegitimate recombinational repair of oxidatively-induced DNA double-strand breaks in ataxia-telangiectasia cells

Ataxia-telangiectasia (A-T) is an autosomal-recessive lethal human disease. Homozygotes suffer from a number of neurological disorders, as well as very high cancer incidence. Heterozygotes may also have a higher than normal risk of cancer, particularly for the breast. The gene responsible for the disease (ATM) has been cloned, but its role in mechanisms of the disease remain unknown. Cellular A-T phenotypes, such as radiosensitivity and genomic instability, suggest that a deficiency in the repair of DNA double-strand breaks (DSBs) may be the primary defect; however, overall levels of DSB rejoining appear normal. We used the shuttle vector, pZ189, containing an oxidatively-induced DSB, to compare the integrity of DSB rejoining in one normal and two A-T fibroblast cells lines. Mutation frequencies were two-fold higher in A-T cells, and the mutational spectrum was different. The majority of the mutations found in all three cell lines were deletions (44-63%). The DNA sequence analysis indicated that 17 of the 17 plasmids with deletion mutations in normal cells occurred between short direct-repeat sequences (removing one of the repeats plus the intervening sequences), implicating illegitimate recombination in DSB rejoining. The combined data from both A-T cell lines showed that 21 of 24 deletions did not involve direct-repeats sequences, implicating a defect in the illegitimate recombination pathway. These findings suggest that the A-T gene product may either directly participate in illegitimate recombination or modulate the pathway. Regardless, this defect is likely to be important to a mechanistic understanding of this lethal disease.

Non-NASA Center↗

Direct Manipulation in Virtual Reality

Virtual Reality interfaces offer several advantages for scientific visualization such as the ability to perceive three-dimensional data structures in a natural way. The focus of this chapter is direct manipulation, the ability for a user in virtual reality to control objects in the virtual environment in a direct and natural way, much as objects are manipulated in the real world. Direct manipulation provides many advantages for the exploration of complex, multi-dimensional data sets, by allowing the investigator the ability to intuitively explore the data environment. Because direct manipulation is essentially a control interface, it is better suited for the exploration and analysis of a data set than for the publishing or communication of features found in that data set. Thus direct manipulation is most relevant to the analysis of complex data that fills a volume of three-dimensional space, such as a fluid flow data set. Direct manipulation allows the intuitive exploration of that data, which facilitates the discovery of data features that would be difficult to find using more conventional visualization methods. Using a direct manipulation interface in virtual reality, an investigator can, for example, move a data probe about in space, watching the results and getting a sense of how the data varies within its spatial volume.

Bryson, Steve↗

Direction and Integration of Experimental Ground Test Capabilities and Computational Methods

This paper groups and summarizes the salient points and findings from two AIAA conference panels targeted at defining the direction, with associated key issues and recommendations, for the integration of experimental ground testing and computational methods. Each panel session utilized rapporteurs to capture comments from both the panel members and the audience. Additionally, a virtual panel of several experts were consulted between the two sessions and their comments were also captured. The information is organized into three time-based groupings, as well as by subject area. These panel sessions were designed to provide guidance to both researchers/developers and experimental/computational service providers in defining the future of ground testing, which will be inextricably integrated with the advancement of computational tools.

Dunn, Steven C.↗

Optimizing the Resolution of Hydrodynamic Simulations for MCRaT Radiative Transfer Calculations

Despite their discovery about half a century ago, the Gamma-ray burst (GRB) prompt emission mechanism is still not well understood. Theoretical modeling of the prompt emission has advanced considerably due to new computational tools and techniques. One such tool is the PLUTO hydro dynamics code, which is used to numerically simulate GRB outflows. PLUTO uses Adaptive Mesh Refinement to focus computational efforts on the portion of the grid that contains the simulated jet. Another tool is the Monte Carlo Radiation Transfer (MCRaT) code, which predicts electromagnetic signatures of GRBs by conducting photon scatterings within a jet using PLUTO. The effects of the underlying resolution of a PLUTO simulation with respect to MCRaT post-processing radiative transfer results have not yet been quantified. We analyze an analytic spherical outflow and a hydrodynamically simulated GRB jet with MCRaT at varying spatial and temporal resolutions and quantify how decreasing both resolutions affect the resulting mock observations. We find that changing the spatial resolution changes the hydrodynamic properties of the jet, which directly affect the MCRaT mock observable peak energies. We also find that decreasing the temporal resolution artificially decreases the high energy slope of the mock observed spectrum, which increases both the spectral peak energy and the luminosity. We show that the effects are additive when both spatial and temporal resolutions are modified. Our results allow us to understand how decreased hydrodynamic temporal and spatial resolutions affect the results of post-processing radiative transfer calculations, allowing for the optimization of hydrodynamic simulations for radiative transfer codes.

Jose Arita-Escalante↗

Applications of Machine Learning to Predicting Core-collapse Supernova Explosion Outcomes

Most existing criteria derived from progenitor properties of core-collapse supernovae are not very accurate in predicting explosion outcomes. We present a novel look at identifying the explosion outcome of core-collapse supernovae using a machine-learning approach. Informed by a sample of 100 2D axisymmetric supernova simulations evolved with F ornax , we train and evaluate a random forest classifier as an explosion predictor. Furthermore, we examine physics-based feature sets including the compactness parameter, the Ertl condition, and a newly developed set that characterizes the silicon/oxygen interface. With over 1500 supernovae progenitors from 9-27 M ⊙ , we additionally train an autoencoder to extract physics-agnostic features directly from the progenitor density profiles. We find that the density profiles alone contain meaningful information regarding their explodability. Both the silicon/oxygen and autoencoder features predict the explosion outcome with ≈90% accuracy. In anticipation of much larger multidimensional simulation sets, we identify future directions in which machine-learning applications will be useful beyond the explosion outcome prediction.

79 ASTRONOMY AND ASTROPHYSICS↗

Numerical studies of the thermal design sensitivity calculation for a reaction-diffusion system with discontinuous derivatives

The aim of this study is to find a reliable numerical algorithm to calculate thermal design sensitivities of a transient problem with discontinuous derivatives. The thermal system of interest is a transient heat conduction problem related to the curing process of a composite laminate. A logical function which can smoothly approximate the discontinuity is introduced to modify the system equation. Two commonly used methods, the adjoint variable method and the direct differentiation method, are then applied to find the design derivatives of the modified system. The comparisons of numerical results obtained by these two methods demonstrate that the direct differentiation method is a better choice to be used in calculating thermal design sensitivity.

Hou, Jean W.↗

Planck 2018 results - VIII. Gravitational lensing

We present measurements of the cosmic microwave background (CMB) lensing potential using the final Planck 2018 temperature and polarization data. Using polarization maps filtered to account for the noise anisotropy, we increase the significance of the detection of lensing in the polarization maps from 5σ to 9σ. Combined with temperature, lensing is detected at 40σ. We present an extensive set of tests of the robustness of the lensing-potential power spectrum, and construct a minimum-variance estimator likelihood over lensing multipoles 8 ≤ L ≤ 400 (extending the range to lower L compared to 2015), which we use to constrain cosmological parameters. We find good consistency between lensing constraints and the results from the Planck CMB power spectra within the ΛCDM model. Combined with baryon density and other weak priors, the lensing analysis alone constrains σ 8 Ωm 0.25 = 0.589 ± 0.020 (1σ errors). Also combining with baryon acoustic oscillation data, we find tight individual parameter constraints, σ8 = 0.811 ± 0.019, H0 = 67.9-1.3+1.2 km s -1 Mpc -1 , and Ω m = 0.303 -0.018 +0.016 . Combining with Planck CMB power spectrum data, we measure σ 8 to better than 1% precision, finding σ 8 = 0.811 ± 0.006. CMB lensing reconstruction data are complementary to galaxy lensing data at lower redshift, having a different degeneracy direction in σ 8 - Ω m space; we find consistency with the lensing results from the Dark Energy Survey, and give combined lensing-only parameter constraints that are tighter than joint results using galaxy clustering. Using the Planck cosmic infrared background (CIB) maps as an additional tracer of high-redshift matter, we make a combined Planck-only estimate of the lensing potential over 60% of the sky with considerably more small-scale signal. We additionally demonstrate delensing of the Planck power spectra using the joint and individual lensing potential estimates, detecting a maximum removal of 40% of the lensing-induced power in all spectra. The improvement in the sharpening of the acoustic peaks by including both CIB and the quadratic lensing reconstruction is detected at high significance.

79 ASTRONOMY AND ASTROPHYSICS↗

Analysis of Co-Located MODIS and CALIPSO Observations Near Clouds

The purpose of this paper is to help researchers combine data from different satellites and thus gain new insights into two critical yet poorly understood aspects of anthropogenic climate change, aerosol-cloud interactions and aerosol radiative effects, For this, the paper explores whether cloud information from the Aqua satellite's MODIS instrument can help characterize systematic aerosol changes near clouds by refining earlier perceptions of these changes that were based on the CALIPSO satellite's CALIOP instrument. Similar to a radar but using visible and ncar-infrared light, CALIOP sends out laser pulses and provides aerosol and cloud information along a single line that tracks the satellite orbit by measuring the reflection of its pulses. In contrast, MODIS takes images of reflected sunlight and emitted infrared radiation at several wavelengths, and covers wide areas around the satellite track. This paper analyzes a year-long global dataset covering all ice-free oceans, and finds that MODIS can greatly help the interpretation of CALIOP observations, especially by detecting clouds that lie outside the line observed by CALlPSO. The paper also finds that complications such as differences in view direction or clouds drifting in the 72 seconds that elapse between MODIS and CALIOP observations have only a minor impact. The study also finds that MODIS data helps refine but does not qualitatively alter perceptions of the systematic aerosol changes that were detected in earlier studies using only CALIOP data. It then proposes a statistical approach to account for clouds lying outside the CALIOP track even when MODIS cannot as reliably detect low clouds, for example at night or over ice. Finally, the paper finds that, because of variations in cloud amount and type, the typical distance to clouds in maritime clear areas varies with season and location. The overall median distance to clouds in maritime clear areas around 4-5 km. The fact that half of all clear areas is closer than 5 km to clouds implies that pronounced near-cloud changes in aerosol properties have significant implications for overall clear-sky characteristics, including the radiative impact of aerosols.

Varnai, Tamas↗

Charge Concentration Limits the Hydrogen Evolution Rate in Organic Nanoparticle Photocatalysts

Colloidal organic nanoparticles have proven to be a promising class of photocatalyst for performing the Hydrogen Evolution Reaction (HER) due to their dispersibility in aqueous environments, their strong absorption within the visible region, and the tunabilty of their component materials' redox potentials. Currently, there is little understanding of how charge generation and accumulation in organic semiconductors change when these materials are formed into nanoparticles that share a high interfacial area with water, nor is it known what mechanism limits the hydrogen evolution efficiency in recent reports on organic nanoparticle photocatalysts. Herein, we use Time-Resolved Microwave Conductivity to study aqueous-soluble organic nanoparticles and bulk thin films composed of various blend ratios of the non-fullerene acceptor EH-IDTBR and conjugated polymer PTB7-Th and examine the relationship between composition, interfacial surface area, charge carrier dynamics, and photocatalytic activity. We quantitatively measure the rate of Hydrogen Evolution Reaction by nanoparticles composed of various donor:acceptor blend ratio compositions and find that the most active blend ratio displays a Hydrogen Quantum Yield of 0.83% per photon. Moreover, we find that nanoparticle photocatalytic activity corresponds directly to charge generation, and that nanoparticles have 3x more long-lived accumulated charges relative to bulk samples of the same material composition. Here these results suggest that, under our current reaction conditions, with approximately 3x solar flux, catalytic activity by these nanoparticles is limited by the concentration of electrons and holes in operando and not a finite number of active surface cites or the catalytic rate at the interface. This provides a clear design goal for the next generation of efficient photocatalytic nanoparticles.

08 HYDROGEN↗

NuGraph2 with context-aware inputs: physics-inspired improvements in semantic segmentation

Graph neural networks have recently shown strong promise for event reconstruction tasks in Liquid Argon Time Projection Chambers, yet their performance remains limited for underrepresented classes of particles, such as Michel electrons. In this work, we investigate physics-informed strategies to improve semantic segmentation within the NuGraph2 architecture. We explore three complementary approaches: (i) enriching the input representation with context-aware features derived from detector geometry and track continuity, (ii) introducing auxiliary decoders to capture class-level correlations, and (iii) incorporating energy-based regularization terms motivated by Michel electron energy distributions. Experiments on MicroBooNE public datasets show that physics-inspired feature augmentation yields the largest gains, particularly boosting Michel electron precision and recall by disentangling overlapping latent space regions. In contrast, auxiliary decoders and energy-regularization terms provided limited improvements, partly due to the hit-level nature of NuGraph2, which lacks explicit particle- or event-level representations. Our findings highlight that embedding physics context directly into node-level inputs is more effective than imposing task-specific auxiliary losses, and suggest that future hierarchical architectures such as NuGraph3, with explicit particle- and event-level reasoning, will provide a more natural setting for advanced decoders and physics-based regularization. The code for this work is publicly available on Github at https://github.com/vitorgrizzi/nugraph_phys/tree/main_phys.

Other Experiments↗

Automated vehicle microscopic energy consumption study (AV-Micro): Data collection and model development

While the Adaptive Cruise Control (ACC) system in automated vehicles (AVs) is expected to impact transportation energy significantly, existing AV energy consumption models only directly adopt those developed with Human-driven Vehicle (HV) data without even slight adaptation or calibration to accommodate unique AV energy consumption features. This study will investigate how accurately HV data-based models can predict the energy consumption of AVs. Empirical trajectory data and corresponding instantaneous energy consumption rates from both AVs and HVs were collected. We adopted two classical HV data-based models to fit these data. The calibration results indicated that these models yield around 20 30% prediction errors for AVs. To further improve the prediction accuracy, this study designed an AV-Micro model by incorporating components of multiple classic energy consumption models that better capture ACC energy consumption features, including piecewise driving behavior. With this, the AV-Micro model achieves lower than 10% prediction errors. The AV-Micro model’s high consistency across different test runs was verified with statistical significance tests, demonstrating its adaptability in different driving profiles. To confirm the discrepancies between the energy consumption features of AVs and HVs, more statistical significance tests were conducted to show that the AV-Micro model cannot be directly applied to HV data. The findings by calibrated AV-Micro models revealed that AVs consume approximately 80.5–146.4 J more energy than HVs for each meter traveled. Furthermore, the frequency analysis of energy consumption indicates that there is still some room for AVs to improve energy efficiency, particularly given their larger amplitude high-frequency fluctuations.

33 ADVANCED PROPULSION SYSTEMS↗

Technology, technology, technology: An integrated assessment of deep decarbonization pathways for the Canadian oil sands

As a party to the Paris Agreement, Canada has an ambitious climate target of net-zero emissions by 2050. The country also holds the world's third largest oil reserves in the Alberta oil sands. Given increasing emissions from the oil sands sector, achieving Canada's net-zero target requires significant oil sands decarbonization. If, while phasing out fossil fuels, there is still a demand for Canadian oil sands, then the decarbonization of the resource production process becomes crucial. In this study, we use an enhanced version of the Global Change Analysis Model (GCAM) with a detailed unconventional oil sector for Canada, including mining and in situ resources. We ask, what is the future of the oil sands sector in deeply decarbonized global and Canadian economies? We address this question under four mitigation scenarios with varying global net-zero GHG emissions constraints, three additional representative lower carbon extraction technologies available for the oil sands sector, as well as global direct air capture (DAC) deployment. We find that lower carbon technology deployment allows a 20%–44% increase in oil sands production by 2050 for scenarios with net-zero GHG emissions in 2100 or 2075. DAC helps maintain oil sands production in the most ambitious global decarbonization scenario (net-zero GHG by 2050), without which low international oil demand makes Canadian oil sands production uncompetitive. Canadian oil sands production thus depends highly on the availability of lower carbon extraction technologies and international oil demand, which to a certain extent relies on the availability and global deployment of negative emissions technologies.

04 OIL SHALES AND TAR SANDS↗