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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 415 records · Page 23
All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

Molecular Dynamics Simulation of the Structures, Dynamics, and Aggregation of Dissolved Organic Matter

Dissolved organic matter (DOM) plays a significant role in the transport and transformation of pollutants in the aquatic environment. However, the experimental characterization of DOM has been limited mainly to bulk properties, and the molecular-level interactions among various components of DOM remain to be fully characterized. In this study, we use molecular dynamics (MD) simulations to probe the structural properties of model DOM systems at atomic detail. The 200 ns simulations, validated by available experimental data, reveal processes and mechanisms by which chemical species (cations, peptides, lipids, lignin, carbohydrates, and some low-molecular-weight aliphatic and aromatic compounds) aggregate to form complex DOM. The DOM aggregates are dynamic, consisting of a hydrophobic core and amphiphilic exterior. The lipid tails and other hydrophobic fragments form the core, with hydrophilic and amphiphilic groups exposed to water, making DOM accessible to both polar and nonpolar species. Thus, the lipid component acts as a nucleator, whereas cations (especially Ca 2+ ) connect the molecular fragments on the surface by coordinating with the O-containing functional groups of DOM. The structural details revealed here provide new insights including surface accessible atoms, overall assemblage, and interactions among the molecules of DOM for understanding the kinetics and mechanisms through which DOM interacts with metal and other contaminants.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Coherence mapping to identify the intermediates of multi-channel dissociative ionization

Identifying the short-lived intermediates and reaction mechanisms of multi-channel radical cation fragmentation processes remains a current and important challenge to understanding and predicting mass spectra. We find that coherent oscillations in the femtosecond time-dependent yields of several product ions following ultrafast strong-field ionization represent spectroscopic signatures that elucidate their mechanism of formation and identify the intermediate(s) they originate from. Experiments on endo-dicyclopentadiene show that vibrational frequencies from various intermediates are mapped onto their resulting products. Aided by ab initio methods, we identify the vibrational modes of both the cleaved and intact molecular ion intermediates. These results confirm stepwise and concerted fragmentation pathways of the dicyclopentadiene ion. This study highlights the power of tracking the femtosecond dynamics of all product ions simultaneously and sheds further light onto one of the fundamental reaction mechanisms in mass spectrometry, the retro-Diels Alder reaction.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2014

Generation of magnetic field on the accretion disk around a proto-first-star

The generation process of a magnetic field around a proto-first-star is studied. Utilizing the recent numerical results of proto-first-star formation based on radiation hydrodynamics simulations, we assess the magnetic field strength generated by the radiative force and the Biermann battery effect. We find that a magnetic field of ∼10{sup –9} G is generated on the surface of the accretion disk around the proto-first-star. The field strength on the accretion disk is smaller by two orders of magnitude than the critical value, above which the gravitational fragmentation of the disk is suppressed. Thus, the generated seed magnetic field hardly affect the dynamics of on-site first star formation directly, unless an efficient amplification process is taken into consideration. We also find that the generated magnetic field is continuously blown out from the disk on the outflows to the poles, that are driven by the thermal pressure of photoheated gas. The strength of the diffused magnetic field in low-density regions is ∼10{sup –14}-10{sup –13} G at n {sub H} = 10{sup 3} cm{sup –3}, which could play an important role in the next generation star formation, as well as the seeds of the magnetic field in the present-day universe.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2017

Nuclear shape evolution based on microscopic level densities

Here, by combining microscopically calculated level densities with the Metropolis walk method, we develop a consistent framework for treating the energy and angular-momentum dependence of the nuclear shape evolution in the fission process. For each nucleus under consideration, the level density is calculated microscopically for each of more than five million shapes with a recently developed combinatorial method. The method employs the same single-particle levels as those used for the extraction of the pairing and shell contributions to the macroscopic-microscopic deformation-energy surface. Containing no new parameters, the treatment is suitable for elucidating the energy dependence of the dynamics of warm nuclei on pairing and shell effects. It is illustrated for the fission fragment mass distribution for several uranium and plutonium isotopes of particular interest.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2023

Crystal structure of MbnF: an NADPH-dependent flavin monooxygenase from Methylocystis strain SB2

Methanobactins (MBs) are ribosomally produced and post-translationally modified peptides (RiPPs) that are used by methanotrophs for copper acquisition. The signature post-translational modification of MBs is the formation of two heterocyclic groups, either an oxazolone, pyrazinedione or imidazolone group, with an associated thioamide from an X -Cys dipeptide. The precursor peptide (MbnA) for MB formation is found in a gene cluster of MB-associated genes. The exact biosynthetic pathway of MB formation is not yet fully understood, and there are still uncharacterized proteins in some MB gene clusters, particularly those that produce pyrazinedione or imidazolone rings. One such protein is MbnF, which is proposed to be a flavin monooxygenase (FMO) based on homology. To help to elucidate its possible function, MbnF from Methylocystis sp. strain SB2 was recombinantly produced in Escherichia coli and its X-ray crystal structure was resolved to 2.6 Å resolution. Based on its structural features, MbnF appears to be a type A FMO, most of which catalyze hydroxylation reactions. Preliminary functional characterization shows that MbnF preferentially oxidizes NADPH over NADH, supporting NAD(P)H-mediated flavin reduction, which is the initial step in the reaction cycle of several type A FMO enzymes. It is also shown that MbnF binds the precursor peptide for MB, with subsequent loss of the leader peptide sequence as well as the last three C-terminal amino acids, suggesting that MbnF might be needed for this process to occur. Finally, molecular-dynamics simulations revealed a channel in MbnF that is capable of accommodating the core MbnA fragment minus the three C-terminal amino acids.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2016

Phenomenological Studies of Macroscale Failure in Metals

Highlights of recent phenomenological studies of metal failure are given. Failure leading to spallation and fragmentation are typically of interest. The current ‘best model’ includes the following; a full history stress in tension; nucleation initiating dynamic relaxation; toward a tensile yield function; failure dependent on strain, strain rate, and temperature; a mean-preserving ‘macrodefect’ is introduced when failure occurs in tension; and multifield theoretical refinements

36 MATERIALS SCIENCE↗
DOE OSTI2013

Liposomal Encapsulation Enhances In Vivo Near Infrared Imaging of Exposed Phosphatidylserine in a Mouse Glioma Model

We have previously demonstrated that exposed phosphatidylserine (PS) on tumor vascular endothelial cells is highly tumor specific, and development of the PS targeted near infrared (NIR) optical probe enables successful in vivo optical imaging of U87 gliomas in a mouse model. Liposomes have been widely used as a nanovector for delivery of chemotherapeutics and imaging contrast agents due to their high payload and longer circulation time. In the current study, we have fabricated PS-targeted liposomal nanoprobes encapsulating a NIR dye, IRDye® 800CW, aiming to enhance PS-targeted tumor imaging. Hydrophilic 800CW dye was packed into the core of polyethylene glycol (PEG)-coated liposomes functionalized with F(ab’)2 fragments of PGN635, a fully human monoclonal antibody that binds PS. As expected, in vivo dynamic NIR imaging revealed significantly improved tumor/normal contrast (TNR = 20 ± 3; p < 0.01) of subcutaneous U87 gliomas in mice after injection of the liposomal nanoprobes. Markedly enhanced TNR was observed after the tumors were irradiated to increase PS exposure (TNR = 48 ± 6; p < 0.05). Intriguingly, the liposomal nanoprobes, PGN-L-800CW showed distinct biodistribution and pharmacokinetics compared to the 800CW-PGN probes used in our previous study. Our data further suggest the usefulness of PS-targeted imaging probes for sensitive tumor detection and the potential of utilizing liposomal platform for glioma theranostics.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
NASA NTRS1979

Stratigraphy and depositional history of the Apollo 17 drill core

Lithologic abundances obtained from modal analyses of a continuous string of polished thin sections indicate that the Apollo 17 deep drill core can be divided into three main zones: An upper zone (0-19 cm depth) characterized by high abundances of agglutinates (30%) and a high ratio of mare to non-mare lithic fragments (less than 0.8); a coarse-grained layer (24-56 cm) rich in fragments of high-Ti mare basalts and mineral fragments derived from them, and poor in agglutinates (6%); and a lower zone (56-285 cm) characterized by variable but generally high agglutinate abundances (25%) and a low ratio of mare to nonmare lithic fragments (0.6). Using observations of the geology of the landing site, the principles of cratering dynamics, and the vast amount of data collected on the core, the following depositional history for the section of regolith sampled by the Apollo 17 drill core: was devised.

Taylor, G. J.↗
NASA NTRS1993

Widths of transverse momentum distributions in intermediate-energy heavy-ion collisions

The need to include dynamical collision momentum transfer contributions, arising from interacting nuclear and Coulomb fields, to estimates of fragment momentum distributions is discussed. Methods based upon an optical potential model are presented. Comparisons with recent experimental data of the Siegen group for variances of transverse momentum distributions for gold nuclei at 980 A MeV fragmenting on silver foil and plastic nuclear track detector targets are made. The agreement between theory and experiment is good.

Khan, Ferdous↗
DOE OSTI2020

Zonal-Based Emission Source Term Model for Predicting Particulate Emission Factors in Wildfire Simulations

A physics/chemistry-based numerical model for predicting the emission of fine particles from wildfires is proposed. This model implements the fundamental mechanisms of soot formation in a combustion environment: soot nucleation, surface growth, agglomeration, oxidation, and particle fragmentation. These mechanisms occur on a scale too fine for the discretization of most wildfire models, which need to simulate landscape-scale dynamics. As a result this model implements a zonal approach, where the computed soot particle distribution is partitioned into process zones within a single resolved grid cell. These process zones include: an inception zone (for nucleation), a heating zone (for coagulation, surface growth, and fragmentation), a reaction zone (for oxidation), and a quenched zone (for atmospheric processes). Governing mechanisms are applied to the appropriate zones to predict total particle growth and emission. Additionally, the proposed model is implemented into HIGRAD/FIRETEC, a physics-based wildfire simulation code which couples interactions between fire, fuels, atmosphere, and topography on a landscape scale. Fire simulations among grasslands and conifer forests are performed and compared against experimental data for emission factors.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS2011

Passage of Bolides Through the Atmosphere

Different fragmentation models are applied to a number of events, including the entry of TC3 2008 asteroid in order to reproduce existing observational data. Keywords meteoroid entry fragmentation modeling 1 Introduction Fragmentation is a very important phenomenon which occurs during the meteoroid entry into the atmosphere and adds more drastic effects than mere deceleration and ablation. Modeling of bolide fragmentation (100 106 kg in mass) may be divided into several approaches. Detail fitting of observational data (deceleration and/or light curves) allows the determination of some meteoroid parameters (ablation and shape-density coefficients, fragmentation points, amount of mass loss) (Ceplecha et al. 1993; Ceplecha and ReVelle 2005). Observational data with high accuracy are needed for the gross-fragmentation model (Ceplecha et al. 1993), which is used for the analysis of European and Desert bolide networks data. Hydrodynamical models, which describe the entry of the meteoroid including evolution of its material, are applied mainly for large bodies (>106 kg) (Boslough et al. 1994; Svetsov et al. 1995; Shuvalov and Artemieva 2002, and others). Numerous papers were devoted to the application of standard equations for large meteoroid entry in the attempts to reproduce dynamics and/or radiation for different bolides and to predict meteorite falls. These modeling efforts are often supplemented by different fragmentation models (Baldwin and Sheaffer, 1971; Borovi.ka et al. 1998; Artemieva and Shuvalov, 2001; Bland and Artemieva, 2006, and others). The fragmentation may occur in different ways. For example, few large fragments are formed. These pieces initially interact through their shock waves and then continue their flight independently. The progressive fragmentation model suggests that meteoroids are disrupted into fragments, which continue their flight as independent bodies and may be disrupted further. Similar models were suggested in numerous papers, beginning with Levin (1956) and initial interaction of fragments started to be taken into account after the paper by Passey and Melosh (1980). The progressive fragmentation model with lateral spreading of formed fragments is widely used (Artemieva and Shuvalov, 1996; Nemtchinov and Popova, 1997; Borovi.ka et al. 1998; Bland and Artemieva, 2006).

Popova, O.↗
NASA NTRS2014

Physical and Dynamical Linkages between Lightning Jumps and Storm Conceptual Models

The presence and rates of total lightning are both correlated to and physically dependent upon storm updraft strength, mixed phase precipitation volume and the size of the charging zone. The updraft modulates the ingredients necessary for electrification within a thunderstorm, while the updraft also plays a critical role in the development of severe and hazardous weather. Therefore utilizing this relationship, the monitoring of lightning rates and jumps provides an additional piece of information on the evolution of a thunderstorm, more often than not, at higher temporal resolution than current operational radar systems. This correlation is the basis for the total lightning jump algorithm that has been developed in recent years. Currently, the lightning jump algorithm is being tested in two separate but important efforts. Schultz et al. (2014; this conference) is exploring the transition of the algorithm from its research based formulation to a fully objective algorithm that includes storm tracking, Geostationary Lightning Mapper (GLM) Proxy data and the lightning jump algorithm. Chronis et al. (2014; this conference) provides context for the transition to current operational forecasting using lightning mapping array based products. However, what remains is an end-to-end physical and dynamical basis for coupling total lightning flash rates to severe storm manifestation, so the forecaster has a reason beyond simple correlation to utilize the lightning jump algorithm within their severe storm conceptual models. Therefore, the physical basis for the lightning jump algorithm in relation to severe storm dynamics and microphysics is a key component that must be further explored. Many radar studies have examined flash rates and their relationship to updraft strength, updraft volume, precipitation-sized ice mass, etc.; however, their relationship specifically to lightning jumps is fragmented within the literature. Thus the goal of this study is to use multiple Doppler and polarimetric radar techniques to resolve the physical and dynamical storm characteristics specifically around the time of the lightning jump. This information will help forecasters anticipate lightning jump occurrence, or even be of use to determine future characteristics of a given storm (e.g., development of a mesocyclone, downdraft, or hail signature on radar), providing additional lead time/confidence in the severe storm warning paradigm.

Schultz, Christopher J.↗
NASA NTRS2014

Physical and Dynamical Linkages Between Lightning Jumps and Storm Conceptual Models

The presence and rates of total lightning are both correlated to and physically dependent upon storm updraft strength, mixed phase precipitation volume and the size of the charging zone. The updraft modulates the ingredients necessary for electrification within a thunderstorm, while the updraft also plays a critical role in the development of severe and hazardous weather. Therefore utilizing this relationship, the monitoring of lightning rates and jumps provides an additional piece of information on the evolution of a thunderstorm, more often than not, at higher temporal resolution than current operational radar systems. This correlation is the basis for the total lightning jump algorithm that has been developed in recent years. Currently, the lightning jump algorithm is being tested in two separate but important efforts. Schultz et al. (2014; this conference) is exploring the transition of the algorithm from its research based formulation to a fully objective algorithm that includes storm tracking, Geostationary Lightning Mapper (GLM) Proxy data and the lightning jump algorithm. Chronis et al. (2014) provides context for the transition to current operational forecasting using lightning mapping array based products. However, what remains is an end-to-end physical and dynamical basis for coupling total lightning flash rates to severe storm manifestation, so the forecaster has a reason beyond simple correlation to utilize the lightning jump algorithm within their severe storm conceptual models. Therefore, the physical basis for the lightning jump algorithm in relation to severe storm dynamics and microphysics is a key component that must be further explored. Many radar studies have examined flash rates and their relationship to updraft strength, updraft volume, precipitation-sized ice mass, etc.; however, their relationship specifically to lightning jumps is fragmented within the literature. Thus the goal of this study is to use multiple Doppler and polarimetric radar techniques to resolve the physical and dynamical storm characteristics specifically around the time of the lightning jump. This information will help forecasters anticipate lightning jump occurrence, or even be of use to determine future characteristics of a given storm (e.g., development of a mesocyclone, downdraft, or hail signature on radar), providing additional lead time/confidence in the severe storm warning paradigm.

Schultz, Christopher J.↗
DOE OSTI2022

Structure and conformational dynamics of Clostridioides difficile toxin A

Clostridioides difficile toxin A and B (TcdA and TcdB) are two major virulence factors responsible for diseases associated with C. difficile infection (CDI). Here, we report the 3.18-Å resolution crystal structure of a TcdA fragment (residues L843–T2481), which advances our understanding of the complete structure of TcdA holotoxin. Our structural analysis, together with complementary single molecule FRET and limited proteolysis studies, reveal that TcdA adopts a dynamic structure and its CROPs domain can sample a spectrum of open and closed conformations in a pH-dependent manner. Furthermore, a small globular subdomain (SGS) and the CROPs protect the pore-forming region of TcdA in the closed state at neutral pH, which could contribute to modulating the pH-dependent pore formation of TcdA. A rationally designed TcdA mutation that trapped the CROPs in the closed conformation showed drastically reduced cytotoxicity. Taken together, these studies shed new lights into the conformational dynamics of TcdA and its roles in TcdA intoxication.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2017

Electronic Delocalization, Vibrational Dynamics and Energy Transfer in Organic Chromophores

The efficiency of materials developed for solar energy and technological applications depends on the interplay between molecular architecture and light-induced electronic energy redistribution. The spatial localization of electronic excitations is very sensitive to molecular distortions. Vibrational nuclear motions can couple to electronic dynamics driving changes in localization. The electronic energy transfer among multiple chromophores arises from several distinct mechanisms that can give rise to experimentally measured signals. Atomistic simulations of coupled electron-vibrational dynamics can help uncover the nuclear motions directing energy flow. Through careful analysis of excited state wave function evolution and a useful fragmenting of multichromophore systems, through-bond transport and exciton hopping (through-space) mechanisms can be distinguished. Such insights are crucial in the interpretation of fluorescence anisotropy measurements and can aid materials design. Finally, this Perspective highlights the interconnected vibrational and electronic motions at the foundation of nonadiabatic dynamics where nuclear motions, including torsional rotations and bond vibrations, drive electronic transitions.

36 MATERIALS SCIENCE↗
DOE OSTI2026

ACDC (Automated Campbell Diagram Code) [SWR-26-042]

This application provides a web-based graphical user interface to generating Campbell Diagrams and visualizing mode shapes for OpenFAST turbine models. Determining the aeroelastic stability and dynamic characteristics of wind turbines is a critical step in turbine design and analysis. Historically, extracting natural frequencies and mode shapes from OpenFAST—the industry-standard whole-turbine simulation code—has been a fragmented and tedious process. It required manual model configuration, command-line linearization execution, and complex post-processing via proprietary scripts to handle rotating-frame dynamics. To address these workflow bottlenecks, we present the Automated Campbell Diagram Code (ACDC), an open-source graphical software tool developed by the National Laboratory of the Rockies (NLR) under the DOE-funded Distributed Wind Aeroelastic Modeling (dWAM) project. ACDC streamlines the end-to-end linearization and stability analysis workflow into a single, intuitive cross-platform application. The software guides users through OpenFAST model configuration, definition of operating points, and the automated execution of steady-state trim and linearization simulations. Under the hood, ACDC automates the complex mathematical post-processing steps required for rotating systems, including Multi-Blade Coordinate (MBC) transformations, eigenanalysis, and advanced modal tracking utilizing the Modal Assurance Criterion (MAC) and spectral clustering. Finally, ACDC processes these results to automatically generate Campbell diagrams and features a robust 3D visualization engine to animate full-system mode shapes. By eliminating the reliance on external post-processing environments and manual data manipulation, ACDC significantly accelerates dynamic analysis and lowers the barrier to entry for wind energy researchers and engineers.

Summerville, Brent [National Laboratory of the Roc↗
NASA NTRS2004

Total Water Measurements Using In Situ UV Fragment Fluorescence Spectroscopy in Support of CRYSTAL-FACE

Given both the powerful diagnostic importance of the condensed phases of water for dynamics and the impact of phase changes in water on the radiation field, the accurate, in situ observation of total water is of central importance to CRYSTAL-FACE. This is clear both from the defined scientific objectives of the NRA and from developments in the coupled fields of stratosphere/troposphere exchange, cirrus cloud formation/removal and mechanisms for the distribution of water vapor in the middle/upper troposphere. Accordingly, we were funded under NASA Grant NAG5-115487 to perform the following tasks for the CRYSTAL-FACE mission that took place in Key West, Florida, during July 2001: 1) Prepare the Total Water instrument for integration into the WB57F and test flights scheduled for Spring 2002. 2) Calibrate and prepare the Total Water instrument for the Summer 2002 CRYSTAL-FACE science flights based in Jacksonville, Florida. 3) Provide both science and engineering support for the above-mentioned efforts. 4) Analyze and interpret the CRYSTAL-FACE data in collaboration with the other mission scientists. 5) Attend the proposed science workshop in Spring 2003. 6) Publish the data and analysis in peer-reviewed journals.

Anderson, James G.↗
DOE OSTI2013

Ions colliding with clusters of fullerenes-Decay pathways and covalent bond formations

We report experimental results for the ionization and fragmentation of weakly bound van der Waals clusters of n C{sub 60} molecules following collisions with Ar{sup 2+}, He{sup 2+}, and Xe{sup 20+} at laboratory kinetic energies of 13 keV, 22.5 keV, and 300 keV, respectively. Intact singly charged C{sub 60} monomers are the dominant reaction products in all three cases and this is accounted for by means of Monte Carlo calculations of energy transfer processes and a simple Arrhenius-type [C{sub 60}]{sub n}{sup +}{yields}C{sub 60}{sup +}+(n-1)C{sub 60} evaporation model. Excitation energies in the range of only {approx}0.7 eV per C{sub 60} molecule in a [C{sub 60}]{sub 13}{sup +} cluster are sufficient for complete evaporation and such low energies correspond to ion trajectories far outside the clusters. Still we observe singly and even doubly charged intact cluster ions which stem from even more distant collisions. For penetrating collisions the clusters become multiply charged and some of the individual molecules may be promptly fragmented in direct knock-out processes leading to efficient formations of new covalent systems. For Ar{sup 2+} and He{sup 2+} collisions, we observe very efficient C{sub 119}{sup +} and C{sub 118}{sup +} formation and molecular dynamics simulations suggest that they are covalent dumb-bell systems due to bonding between C{sub 59}{sup +} or C{sub 58}{sup +} and C{sub 60} during cluster fragmentation. In the Ar{sup 2+} case, it is possible to form even smaller C{sub 120-2m}{sup +} molecules (m= 2-7), while no molecular fusion reactions are observed for the present Xe{sup 20+} collisions.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗