Results for “model species” — Page 43

DOE OSTI2023

Analytical population dynamics underlying harmful algal blooms triggered by prey avoidance

A modified version of the NPZD ecosystem model is used to analytically examine the effects of predation avoidance, a possible mechanism for triggering harmful algal blooms (HAB). To resolve HAB development caused by predation avoidance, an additional phytoplankton functional group is considered, one that has slower nutrient uptake and better predation avoidance characteristics than the non-harmful phytoplankton group used in traditional NPZD models. Because the two phytoplankton groups (one non-harmful and one HAB) compete for only one resource within the same system, steady state (equilibrium) conditions cannot occur without the presence of zooplankton; only the non-harmful phytoplankton group, which defeats the HAB group in the resource competition, can survive in the equilibrium. The presence of sufficient zooplankton effectively acts to replenish the nutrient pool by consuming the non-harmful phytoplankton. When this occurs, two equilibrium states are found: one with both phytoplankton groups coexisting, and one that only includes the HAB group. Further, the condition required for equilibrium is that the total nitrogen within the system should be larger than a threshold determined by model coefficients. The threshold and feasibility of the equilibrium are sensitive to the relative HAB predation avoidance coefficient. If the coefficient is larger than the ratio of net growth rates between the HAB and non-harmful phytoplankton group, the threshold becomes infinite, and an equilibrium is not feasible. The time scale for the system to reach an equilibrium state that includes a HAB group is determined asymptotically. The dependence of a threshold condition as a controlling factor may explain the regime shift of dominant species causing HABs. The ecosystem model is fully implemented into the Regional Ocean Modeling System and applied to an idealized coastal embayment (with depths and geometry taken from San Francisco Bay) to show numerically the dominance of prey avoidance dynamics in a natural shallow water environment that includes advection and diffusion. The analytical results improve strategies for HAB modeling and provide guidance for setting model coefficients necessary to resolve a HAB event.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS1991

Radiative interactions in chemically reacting supersonic internal flows

The two-dimensional, elliptic Navier-Stokes equations are used to investigate supersonic flows with finite-rate chemistry and radiation for hydrogen-air systems. The chemistry source terms in the species equation is treated implicitly to alleviate the stiffness associated with fast reactions. The explicit, unsplit MacCormack finite-difference scheme is used to advance the governing equations in time, until convergence is achieved. The specific problem considered is the premixed flow in a channel with a ten-degree compression ramp. Three different chemistry models are used, accounting for increasing number of reactions and participating species. Two chemistry models assure nitrogen as inert, while the third model accounts for nitrogen reactions and NO(x) formation. The tangent slab approximation is used in the radiative flux formulation. A pseudo-gray model is used to represent the absorption-emission characteristics of the participating species. Results obtained for specific conditions indicate that the radiative interactions vary substantially, depending on reactions involving HO2 and NO species and that this can have a significant influence on the flowfield.

Tiwari, S. N.↗

DOE OSTI2022

Boosts in leaf-level photosynthetic capacity aid Pinus ponderosa recovery from wildfire

Forests mitigate climate change by sequestering massive amounts of carbon, but recent increases in wildfire activity are threatening carbon storage. Currently, our understanding of wildfire impacts on forest resilience and the mechanisms controlling post-fire recovery remains unresolved due to a lack of empirical data on mature trees in natural settings. Here, we quantify the physiological mechanisms controlling carbon uptake immediately following wildfire in mature individuals of ponderosa pine (Pinus ponderosa), a wide-spread and canopy-dominant tree species in fire-prone forests. While photosynthetic capacity was lower in burned than unburned trees due to an overall depletion of resources, we show that within the burned trees, photosynthetic capacity increases with the severity of damage. Our data reveal that boosts in the efficiency of carbon uptake at the leaf-level may compensate for whole-tree damage, including the loss of leaf area and roots. We further show that heightened photosynthetic capacity in remaining needles on burned trees may be linked with reduced water stress and leaf nitrogen content, providing pivotal information about post-fire physiological processes. Our results have implications for Earth system modeling efforts because measurements of species-level physiological parameters are used in models to predict ecosystem and landscape-level carbon trajectories. Finally, current land management practices do not account for physiological resilience and recovery of severely burned trees. Our results suggest premature harvest may remove individuals that may otherwise survive, irrevocably altering forest carbon balance.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2024

Resistive drift wave turbulence and anomalous transport of multi-species plasma

Anomalous transport of multi-species plasma is considered with the generalized Hasegawa–Wakatani model. It is shown that the transport of all plasma species is described by fractional diffusion equations with the same effective diffusion coefficient. Strongly enhanced perturbations of heavy impurity density are found in long-living plasma flow vortices.

Physics↗

NASA NTRS1974

Nonequilibrium boundary layer at a stagnation point for a hydrogen-helium stream over ablating graphite

The nonequilibrium axisymmetric stagnation point boundary layer over an ablating graphite surface is considered. The external stream is a high temperature mixture of hydrogen and helium. Variable thermodynamic and transport properties are assumed. Lennard-Jones potential model is used to calculate the transport coefficients of each species. Although the mixture rules for viscosity of the gas mixture are used, the weighting functions are more sophisticated than those commonly employed. For the conductivity of the mixture, generalized Wassiljewa coefficients are used. Seven species with 28 dissociation/recombination reactions are considered. Hansen's model for the dissociation rate constants is employed. The recombination rate constants are obtained by invoking detailed balance principles assisted by the JANAF thermodynamic data and the Hansen-Pearson thermodynamic data for C3.

Liu, T.-M.↗

DOE OSTI2025

BBN-simple: How to bake a universe-sized cake

Big Bang Nucleosynthesis (BBN), the process of creation of lightest elements in the early universe, is a highly robust, precise, and ultimately successful theory that forms one of the three pillars of the standard hot-Big-Bang cosmological model. Existing theoretical treatments of BBN and the associated computer codes are accurate and flexible, but are typically highly technical and opaque, and not suitable for pedagogical understanding of the BBN. Here we present BBN-simple - a from-scratch numerical calculation of the lightest element abundances pitched at an advanced undergraduate or beginning graduate level. We review the physics of the early universe relevant for BBN, provide information about the reaction rates, and discuss computational-mathematics background that is essential in setting up a BBN calculation. Here, we calculate the abundances of the principal nuclear species in a standard cosmological model, and find a reasonably good agreement with public precision-level BBN codes.

Big bang nucleosynthesis↗

DOE OSTI2025

Scalar flux transport models for self-similar turbulent mixing

A common approach to closing turbulent species flux in multicomponent Reynolds-averaged Navier-Stokes models is to use the standard gradient diffusion approximation. While such an approach has been shown to work well when applied to many canonical turbulent mixing configurations, a gradient diffusion approach is fundamentally limited in its ability to capture complex phenomena such as countergradient transport. For this reason, complicated mixing applications may benefit by treating the turbulent diffusivity with a model transport equation in a manner analogous to second-moment momentum closure in Reynolds-stress transport models. Here, the present work explores the development and application of two different scalar flux transport (SFT) models. Self-similarity constraints are derived for these models, and they are evaluated against gradient-diffusion-based models in several one- and two-dimensional problems of turbulent mixing. It is found that the new SFT models out-perform gradient diffusion models in problems involving rapid acceleration reversal and in problems involving anisotropic transport of materials. In addition, it is found that even a hybrid-SFT approach, in which an SFT equation is utilized along with a gradient diffusion closure, provides some measure of improvement over models that transport the mass flux rather than the scalar flux.

Reynolds-averaged Navier Stokes↗

NASA NTRSDate not supplied

Atmospheric Composition Forecast Model Evaluation Using Ozone Measurements Collected by the Langley Mobile Ozone Lidar

The Langley Mobile Ozone Lidar (LMOL) is a mobile ground based lidar system based at NASA Langley in Hampton, Virginia. Between 2022 and 2024, LMOL collected over 2500 hours of ozone measurements for a range of different atmospheric conditions, including calm days, stratospheric intrusions, surface frontal passages, and long-range transported wildfire smoke plumes. Here, the data is used to evaluate the forecast accuracy of NASA’s Global GEOS Composition Forecasting (GEOS-CF) model. GEOS-CF makes daily three-dimensional forecasts of trace gases and aerosol species. Overall, for calm periods, the forecast model predicts lower tropospheric ozone at NASA Langley with reasonable accuracy (within 20%). The model best predicts the timing and extent of stratospheric intrusions but often vary in the magnitude of the ozone mixing ratio. Among the other types of atmospheric conditions, there is more variability in the model forecasts. Based on this analysis, model forecasts are utilized to determine future data acquisition opportunities with the goal of providing feedback to the modeling teams, thereby enabling them to better understand the model biases and improve the model forecasts of ozone during these different atmospheric conditions.

Daniel B Phoenix↗

NASA NTRSDate not supplied

Demonstration of Capability to Simulate Particle Irregular Shape and Poly-Disperse Mixtures Within Lunar Lander Plume-Surface Interaction

Plume-Surface Interaction (PSI) between lander engine plumes and regolith soil creates hazards in obscuration and contamination by particle clouds, high-energy ejecta streams, and landing area cratering damage. The MSFC Fluid Dynamics Branch is developing simulation tools to offer a predictive PSI capability to NASA customers such as the Human Lander System (HLS) and Commercial Lunar Payload Services (CLPS). The Gas-Granular Flow Solver (GGFS) is the main application tool for coupled gas-particle two-phase flow simulations to predict the range of PSI effects from onset of surface erosion to deep crater formation. GGFS features an Eulerian-Eulerian modeling approach, treating both gas and granular material as interacting continuum phases. Modeling the lunar regolith granular material fluidic characteristics poses special challenges due to complex particle shapes and mixture composition. The lunar regolith is poorly sorted with broad particle size distributions and large fines content. It has significant cohesion, due to interlocking jagged particle shapes. Eulerian granular material flow modeling requires closure formulations for the granular material constitutive models (stress, friction, collisional and kinetic energy dissipation, drag, etc.). While closure models for spherical particles are available from particle kinetic theory, closure models for realistic non-spherical particles must be extracted from unit physics Discrete Element Model (DEM) particle interaction simulations and provided in the form of tabular datasets. The effects of particle irregular shape (non-spherical shape factors, angular particle surface roughness, and interlocking features) are simulated by approximating the particle features in the form of grouped elemental spheres to form composite particles in the DEM simulations. The effects of the wide range of regolith mixture particle sizes and the strong effects of the presence of the small particle sizes results in high cohesion and low porosity of the regolith mixture. The range of particle sizes is simulated by binning the particle sizes into an appropriate finite number of particle-size species and solving the problem as a species mixture. Combining these two modeling approaches enables simulations to capture both, the contributions of the irregular particle shape and the particle size distribution. The integration and maturation of the DEM-based constitutive model database generation process and poly-disperse mixture binning approach into the GGFS simulation framework are proceeding under funding by the NASA Game Changing Development program. The status of current capabilities will be presented in comparisons of crater characteristics resulting for spherical and irregular shape particles, and for mono-, bi-, and tri-disperse mixture simulations of Apollo LM plume-surface interaction. The computational results confirm the significance of including the particle shape and mixture effects. Going forward plans for the full implementation of the general poly-disperse regolith modeling capability and maturation towards NASA project application readiness under the GCD program will be presented.

Peter A Liever↗

NASA NTRSDate not supplied

Demonstration of Capability to Simulate Particle Irregular Shape and Poly-Disperse Mixtures Within Lunar Lander Plume-Surface Interaction

Plume-Surface Interaction (PSI) between lander engine plumes and regolith soil creates hazards in obscuration and contamination by particle clouds, high-energy ejecta streams, and landing area cratering damage. The MSFC Fluid Dynamics Branch is developing simulation tools to offer a predictive PSI capability to NASA customers such as the Human Lander System (HLS) and Commercial Lunar Payload Services (CLPS). The Gas-Granular Flow Solver (GGFS) is the main application tool for coupled gas-particle two-phase flow simulations to predict the range of PSI effects from onset of surface erosion to deep crater formation. GGFS features an Eulerian-Eulerian modeling approach, treating both gas and granular material as interacting continuum phases. Modeling the lunar regolith granular material fluidic characteristics poses special challenges due to complex particle shapes and mixture composition. The lunar regolith is poorly sorted with broad particle size distributions and large fines content. It has significant cohesion, due to interlocking jagged particle shapes. Eulerian granular material flow modeling requires closure formulations for the granular material constitutive models (stress, friction, collisional and kinetic energy dissipation, drag, etc.). While closure models for spherical particles are available from particle kinetic theory, closure models for realistic non-spherical particles must be extracted from unit physics Discrete Element Model (DEM) particle interaction simulations and provided in the form of tabular datasets. The effects of particle irregular shape (non-spherical shape factors, angular particle surface roughness, and interlocking features) are simulated by approximating the particle features in the form of grouped elemental spheres to form composite particles in the DEM simulations. The effects of the wide range of regolith mixture particle sizes and the strong effects of the presence of the small particle sizes results in high cohesion and low porosity of the regolith mixture. The range of particle sizes is simulated by binning the particle sizes into an appropriate finite number of particle-size species and solving the problem as a species mixture. Combining these two modeling approaches enables simulations to capture both, the contributions of the irregular particle shape and the particle size distribution. The integration and maturation of the DEM-based constitutive model database generation process and poly-disperse mixture binning approach into the GGFS simulation framework are proceeding under funding by the NASA Game Changing Development program. The status of current capabilities will be presented in comparisons of crater characteristics resulting for spherical and irregular shape particles, and for mono-, bi-, and tri-disperse mixture simulations of Apollo LM plume-surface interaction. The computational results confirm the significance of including the particle shape and mixture effects. Going forward plans for the full implementation of the general poly-disperse regolith modeling capability and maturation towards NASA project application readiness under the GCD program will be presented.

Peter A. Liever↗

NASA NTRS1991

Troposphere-stratosphere interactions in a one-dimensional model of Jovian photochemistry

The case of a chemically unreactive species flowing downward through the stratosphere and troposphere with a constant flux is presently treated by a one-dimensional Jovian atmosphere model which encompasses the coupling between a rapidly mixed troposphere and a stagnant stratosphere, so that the contrast between the peak stratosphere and tropopause concentrations is reflective of the variation between the lower stratosphere and upper troposphere eddy diffusion coefficients. Numerical simulations of unreactive CO and C2H6 species indicate that upper troposphere abundances may possess a substantial photochemical contribution. The implications of these modeling results for higher spectral resolution observations are noted.

Landry, Bridget↗

DOE OSTI2023

Comparative study of two Saccharomyces cerevisiae strains with kinetic models at genome-scale

The parameterization of kinetic models requires measurement of fluxes and/or metabolite levels for a base strain and a few genetic perturbations thereof. Unlike stoichiometric models that are mostly invariant to the specific strain, it remains unclear whether kinetic models constructed for different strains of the same species have similar or significantly different kinetic parameters. This important question underpins the applicability range and prediction limits of kinetic reconstructions. To this end, herein we parameterize two separate large-scale kinetic models using K-FIT with genome-wide coverage corresponding to two distinct strains of Saccharomyces cerevisiae: CEN.PK 113-7D strain (model k-sacce306-CENPK), and growth-deficient BY4741 (isogenic to S288c; model k-sacce306-BY4741). The metabolic network for each model contains 306 reactions, 230 metabolites, and 119 substrate-level regulatory interactions. The two models (for CEN.PK and BY4741) recapitulate, within one standard deviation, 77% and 75% of the fitted dataset fluxes, respectively, determined by 13 C metabolic flux analysis for wild-type and eight single-gene knockout mutants of each strain. Strain-specific kinetic parameterization results indicate that key enzymes in the TCA cycle, glycolysis, and arginine and proline metabolism drive the metabolic differences between these two strains of S. cerevisiae. Our results suggest that although kinetic models cannot be readily used across strains as stoichiometric models, they can capture species-specific information through the kinetic parameterization process.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS2003

Cool Flames in Propane-Oxygen Premixtures at Low and Intermediate Temperatures at Reduced-Gravity

The Cool Flame Experiment aims to address the role of diffusive transport on the structure and the stability of gas-phase, non-isothermal, hydrocarbon oxidation reactions, cool flames and auto-ignition fronts in an unstirred, static reactor. These reactions cannot be studied on Earth where natural convection due to self-heating during the course of slow reaction dominates diffusive transport and produces spatio-temporal variations in the thermal and thus species concentration profiles. On Earth, reactions with associated Rayleigh numbers (Ra) less than the critical Ra for onset of convection (Ra(sub cr) approx. 600) cannot be achieved in laboratory-scale vessels for conditions representative of nearly all low-temperature reactions. In fact, the Ra at 1g ranges from 10(exp 4) - 10(exp 5) (or larger), while at reduced-gravity, these values can be reduced two to six orders of magnitude (below Ra(sub cr)), depending on the reduced-gravity test facility. Currently, laboratory (1g) and NASA s KC-135 reduced-gravity (g) aircraft studies are being conducted in parallel with the development of a detailed chemical kinetic model that includes thermal and species diffusion. Select experiments have also been conducted at partial gravity (Martian, 0.3gearth) aboard the KC-135 aircraft. This paper discusses these preliminary results for propane-oxygen premixtures in the low to intermediate temperature range (310- 350 C) at reduced-gravity.

Pearlman, Howard↗

DOE OSTI2023

Plasma Radicals as Kinetics-Controlling Species during Plasma-Assisted Catalytic NH 3 Formation: Support from Microkinetic Modeling

Not provided.

Chemistry↗

DOE OSTI2022

Climate and hydraulic traits interact to set thresholds for liana viability

Lianas, or woody vines, and trees dominate the canopy of tropical forests and comprise the majority of tropical aboveground carbon storage. These growth forms respond differently to contemporary variation in climate and resource availability, but their responses to future climate change are poorly understood because there are very few predictive ecosystem models representing lianas. We compile a database of liana functional traits (846 species) and use it to parameterize a mechanistic model of liana-tree competition. The substantial difference between liana and tree hydraulic conductivity represents a critical source of inter-growth form variation. Here, we show that lianas are many times more sensitive to drying atmospheric conditions than trees as a result of this trait difference. Further, we use our competition model and projections of tropical hydroclimate based on Representative Concentration Pathway 4.5 to show that lianas are more susceptible to reaching a hydraulic threshold for viability by 2100.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS1990

Analysis and interpretation of Wide Field Planetary Camera outgas data collected in the temperature range from -20 C to -100 C

The data from the Wide Field Planetary Camera (WFPC) are analyzed to determine the absolute source-emission parameters and contaminant reemission parameters of outgassing mass accumulation. The data correspond to the mass accumulated on a -100 C quartz crystal microbalance and then desorbed at -50 C as a function of time. The parameters investigated include contaminant mass, first-order rate constants, and characteristic energies. The data are modeled in terms of a minimum number of species characterized by source-rate and reemission-rate parameters. The modeling technique is found to produce adequate fits, and the contaminants that accumulate at -100 C and desorb at -50 C do not accumulate at -50 C. The data analysis is found to be an adequate technique for assessing outgassing parameters for the prediction of WFPC internal contamination.

Barengoltz, Jack B.↗

NASA NTRS1999

ICP Reactor Modeling: CF4 Discharge

Inductively coupled plasma (ICP) reactors are widely used now for etching and deposition applications due to their simpler design compared to other high density sources. Plasma reactor modeling has been playing an important role since it can, in principle, reduce the number of trial and error iterations in the design process and provide valuable understanding of mechanisms. Fluorocarbon precursors have been the choice for oxide etching. We have data available on CF4 from our laboratory. These are current voltage characteristics, La.ngmuir probe data, UV-absorption, and mass spectrometry measurements in a GEC-ICP reactor. We have developed a comprehensive model for ICP reactors which couples plasma generation and transport and neutral species dynamics with the gas flow equations. The model has been verified by comparison with experimental results for a nitrogen discharge in an ICP reactor. In the present work, the model has been applied to CF4 discharge and compared to available experimental data.

Bose, Deepak↗

DOE OSTI2025

Anatomy of Local Structural Disorder of Ni(II) Species in MgCl 2 –KCl Molten Salts

Understanding the speciation of metal ions dissolved in molten salts (MS) is critical for enabling a broad range of high-temperature energy applications, including MS nuclear reactors and concentrated solar power plants. However, due to the inherent dynamicity of metal species in the MS environment and the strong temperature dependencies of their multiple coexisting forms, they are difficult to resolve structurally. Herein, we show that combining in situ X-ray absorption spectroscopy (XAS) with ab initio molecular dynamics (AIMD) simulations is necessary to uncover and quantify the coexisting coordination states of Ni(II) in molten MgCl 2 –KCl mixtures and explain how the temperature and salt composition control their relative populations. Furthermore, from the interionic angle and distance distributions of nickel in different coordination states obtained from AIMD simulations, it is evident that for each coordination state, the width and skewness of their bonding distributions increase with increasing coordination number. In conclusion, the combination of XAS with first-principles modeling to resolve metastable metal species in MS is critical for understanding their behavior over a wide range of temperatures and chemical environments in nuclear and solar applications.

36 MATERIALS SCIENCE↗