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NASA NTRS1993

Kinetic dissection of individual steps in the poly(C)-directed oligoguanylate synthesis from guanosine 5'-monophosphate 2-methylimidazolide

A kinetic study of oligoguanylate synthesis on a polycytidylate template, poly(C), as a function of the concentration of the activated monomer, guanosine 5'-monophosphate 2-methylimidazolide, 2-MeImpG, is reported. Reactions were run with 0.005-0.045 M 2-MeImpG in the presence of 0.05 M poly(C) at 23 degrees C. The kinetic results are consistent with a reaction scheme (eq 1) that consists of a series of consecutive steps, each step representing the addition of one molecule of 2-MeImpG to the growing oligomer. This scheme allows the calculation of second-order rate constants for every step by analyzing the time-dependent growth of each oligomer. Computer simulations of the course of reaction based on the determined rate constants and eq 1 are in excellent agreement with the product distributions seen in the HPLC profiles. In accord with an earlier study (Fakhrai, H.; Inoue, T.; Orgel, L. E. Tetrahedron 1984, 40, 39), rate constants, ki, for the formation of the tetramer and longer oligomers up to the 16-mer were found to be independent of length and somewhat higher than k3 (formation of trimer), which in turn is much higher than k2 (formation of dimer). The ki (i > or = 4), k3, and k2 values are not true second-order rate constants but vary with monomer concentration. Mechanistic models for the dimerization (Scheme I) and elongation reactions (Scheme II) are proposed that are consistent with our results. These models take into account that the monomer associates with the template in a cooperative manner. Our kinetic analysis allowed the determination of rate constants for the elementary processes of covalent bond formation between two monomers (dimerization) and between an oligomer and a monomer (elongation) on the template. A major conclusion from our study is that bond formation between two monomer units or between a primer and a monomer is assisted by the presence of additional next-neighbor monomer units. This is consistent with recent findings with hairpin oligonucleotides (Wu, T.; Orgel, L. E. J. Am. Chem. Soc. 1992, 114, 317). Our study is the first of its kind that shows the feasibility of a thorough kinetic analysis of a template-directed oligomerization and provides a detailed mechanistic model of these reactions.

Non-NASA Center↗

NASA NTRS2003

Unified Models of Turbulence and Nonlinear Wave Evolution in the Extended Solar Corona and Solar Wind

The PI (Cranmer) and Co-I (A. van Ballegooijen) made significant progress toward the goal of building a "unified model" of the dominant physical processes responsible for the acceleration of the solar wind. The approach outlined in the original proposal comprised two complementary pieces: (1) to further investigate individual physical processes under realistic coronal and solar wind conditions, and (2) to extract the dominant physical effects from simulations and apply them to a one-dimensional and time-independent model of plasma heating and acceleration. The accomplishments in the report period are thus divided into these two categories: 1a. Focused Study of Kinetic MHD Turbulence. We have developed a model of magnetohydrodynamic (MHD) turbulence in the extended solar corona that contains the effects of collisionless dissipation and anisotropic particle heating. A turbulent cascade is one possible way of generating small-scale fluctuations (easy to dissipate/heat) from a pre-existing population of low-frequency Alfven waves (difficult to dissipate/heat). We modeled the cascade as a combination of advection and diffusion in wavenumber space. The dominant spectral transfer occurs in the direction perpendicular to the background magnetic field. As expected from earlier models, this leads to a highly anisotropic fluctuation spectrum with a rapidly decaying tail in the parallel wavenumber direction. The wave power that decays to high enough frequencies to become ion cyclotron resonant depends on the relative strengths of advection and diffusion in the cascade. For the most realistic values of these parameters, though, there is insufficient power to heat protons and heavy ions. The dominant oblique waves undergo Landau damping, which implies strong parallel electron heating. We thus investigated the nonlinear evolution of the electron velocity distributions (VDFs) into parallel beams and discrete phase-space holes (similar to those seen in the terrestrial magnetosphere) which are an alternate means of heating protons via stochastic interactions similar to particle-particle collisions. 1b. Focused Study of the Multi-Mode Detailed Balance Formalism. The PI began to explore the feasibility of using the "weak turbulence," or detailed-balance theory of Tsytovich, Melrose, and others to encompass the relevant physics of the solar wind. This study did not go far, however, because if the "strong" MHD turbulence discussed above is a dominant player in the wind's acceleration region, this formalism is inherently not applicable to the corona. We will continue to study the various published approaches to the weak turbulence formalism, especially with an eye on ways to parameterize nonlinear wave reflection rates. 2. Building the Unified Model Code Architecture. We have begun developing the computational model of a time-steady open flux tube in the extended corona. The model will be "unified" in the sense that it will include (simultaneously for the first time) as many of the various proposed physical processes as possible, all on equal footing. To retain this generality, we have formulated the problem in two interconnected parts: a completely kinetic model for the particles, using the Monte Carlo approach, and a finite-difference approach for the self-consistent fluctuation spectra. The two codes are run sequentially and iteratively until complete consistency is achieved. The current version of the Monte Carlo code incorporates gravity, the zero-current electric field, magnetic mirroring, and collisions. The fluctuation code incorporates WKJ3 wave action conservation and the cascade/dissipation processes discussed above. The codes are being run for various test problems with known solutions. Planned additions to the codes include prescriptions for nonlinear wave steepening, kinetic velocity-space diffusion, and multi-mode coupling (including reflection and refraction).

Cranmer, Steven R.↗

NASA NTRS1995

GRO: Black hole models for gamma-ray bursts

The Burst and Transient Source Experiment (BATSE) on board the Compton Gamma Ray Observatory (CGRO) has established that the distribution of gamma-ray bursts (GRB's) is isotropic but is bound radially. This finding suggests that the bursts are either cosmological or they originate from an extended Galactic halo. The implied luminosities and the observed variability of the GRB's on time scales as short as one millisecond suggest that they originate from compact objects. We are presently studying black hole models for GRB's. Any such model must produce a non-thermal photon spectrum to agree with the observed properties. For a wide range of burst parameters the assumed bursting source consists of a non-thermal electron-positron-photon plasma of very high density. It seems possible to produce such a plasma in accretion onto black holes. In our on-going work, we are developing the kinetic theory for a non-equilibrium pair plasma. The main new features of our work are as follows: (1) We do not assume the presence of a thermal electron bath. (2) Non-thermal, high-energy pairs are allowed to have an arbitrary concentration and energy distribution. (3) There is no soft photon source in our model; initially all the photons in the plasma are either energetic X-rays or gamma-rays. (4) The initial energy distribution of the pairs as well as photons is arbitrary. (5) We collect the analytical expressions for the kinetic kernels for all relevant processes. And (6) we present a different approach to finding the time-evolution of pair and photon spectra, which is a combination of the kinetic-theory and the non-linear Monte-Carlo schemes. We have developed many Monte-Carlo programs to model various process, to take into account the time evolution, and to incorporate various physical effects which are unique to non-thermal plasmas. The hydrodynamics of fireballs in GRB's was studied before. Applying results from kinetic theory will improve our understanding of these systems.

Ruderman, Malvin↗

NASA NTRS1995

A Large-Particle Monte Carlo Code for Simulating Non-Linear High-Energy Processes Near Compact Objects

High-energy radiation processes in compact cosmic objects are often expected to have a strongly non-linear behavior. Such behavior is shown, for example, by electron-positron pair cascades and the time evolution of relativistic proton distributions in dense radiation fields. Three independent techniques have been developed to simulate these non-linear problems: the kinetic equation approach; the phase-space density (PSD) Monte Carlo method; and the large-particle (LP) Monte Carlo method. In this paper, we present the latest version of the LP method and compare it with the other methods. The efficiency of the method in treating geometrically complex problems is illustrated by showing results of simulations of 1D, 2D and 3D systems. The method is shown to be powerful enough to treat non-spherical geometries, including such effects as bulk motion of the background plasma, reflection of radiation from cold matter, and anisotropic distributions of radiating particles. It can therefore be applied to simulate high-energy processes in such astrophysical systems as accretion discs with coronae, relativistic jets, pulsar magnetospheres and gamma-ray bursts.

Stern, Boris E.↗

NASA NTRSDate not supplied

Constraints on triple oxygen isotope kinetics

The general assumption that systems are in equilibrium is convenient, but imperfect. Instead, the partial or full expression of kinetic reaction steps may need to be determined. Using an isotope fractionation Monte-Carlo model under the harmonic approximation (Figure 1 envelopes), we find the range of kinetic isotope effects (i.e., resulting from unidirectional chemical reactions) contains and exceeds the range of accessible equilibrium isotope effects. For the 16O-17O-18O system, accessible kinetic isotope effects can yield Δ′17O variations as large 0.8‰ from a single kinetic fractionation step. Reactions that yield the largest deviations from equilibrium are those with the largest molecular mass difference between decomposition fragments, typically the two products, such as a gas and solid generated from the thermal decomposition of an initial solid. For example, previously published experiments on the thermal decomposition of calcite (CaCO3) and dehydroxylation of brucite (Mg(OH)2) are matched by density functional theory models of each kinetic isotope effect, thus revealing their origin in mass-dependent reaction. Beyond oxygen, our approach applies to any system with more than two isotopes.

Oxygen isotopes↗

NASA NTRS1992

Measurement and analysis of a small nozzle plume in vacuum

Measurements of Pitot pressure and flow angle were made in the plume of a nozzle flowing nitrogen and exhausting to a vacuum. The measurements were compared to results from a numerical simulation of the flow that was based on kinetic theory and used the direct-simulation Monte Carlo (DSMC) method. Numerical results were compared with measurements made in the plume at various axial and radial stations. Total pressure measurements were made with Pitot tubes sized for specific regions of the plume. Flow angle measurements were made with a conical probe. The measurement area for flow angle extended to 160 mm (5 exit diameters) downstream of the nozzle exit plane and radially to 60 mm (1.9 exit diameters) from the plume axis. The total pressure measurements extended 480 mm (16 exit diameters) downstream and radially to 60 mm. Comparisons of computed results from the DSMC method with measurements of flow angle displayed improved agreement with increasing distance from the exit plane. Pitot pressures computed from the DSMC method were in reasonably good agreement with experimental results over the entire measurement area.

Penko, Paul F.↗

NASA NTRS1991

A review of the kinetic detail required for accurate predictions of normal shock waves

Several aspects of the kinetic models used in the collision phase of Monte Carlo direct simulations have been studied. Accurate molecular velocity distribution function predictions require a significantly increased number of computational cells in one maximum slope shock thickness, compared to predictions of macroscopic properties. The shape of the highly repulsive portion of the interatomic potential for argon is not well modeled by conventional interatomic potentials; this portion of the potential controls high Mach number shock thickness predictions, indicating that the specification of the energetic repulsive portion of interatomic or intermolecular potentials must be chosen with care for correct modeling of nonequilibrium flows at high temperatures. It has been shown for inverse power potentials that the assumption of variable hard sphere scattering provides accurate predictions of the macroscopic properties in shock waves, by comparison with simulations in which differential scattering is employed in the collision phase. On the other hand, velocity distribution functions are not well predicted by the variable hard sphere scattering model for softer potentials at higher Mach numbers.

Muntz, E. P.↗

NASA NTRS1993

Measurement and analysis of a small nozzle plume in vacuum

Pitot pressures and flow angles are measured in the plume of a nozzle flowing nitrogen and exhausting to a vacuum. Total pressures are measured with Pitot tubes sized for specific regions of the plume and flow angles measured with a conical probe. The measurement area for total pressure extends 480 mm (16 exit diameters) downstream of the nozzle exit plane and radially to 60 mm (1.9 exit diameters) off the plume axis. The measurement area for flow angle extends to 160 mm (5 exit diameters) downstream and radially to 60 mm. The measurements are compared to results from a numerical simulation of the flow that is based on kinetic theory and uses the direct-simulation Monte Carlo (DSMC) method. Comparisons of computed results from the DSMC method with measurements of flow angle display good agreement in the far-field of the plume and improve with increasing distance from the exit plane. Pitot pressures computed from the DSMC method are in reasonably good agreement with experimental results over the entire measurement area.

Penko, P. F.↗

NASA NTRS1990

Growth morphology with anisotropic surface kinetics

The morphological evolution of crystals growing from an incongruent vapor phase is studied using a Monte Carlo model, and the full range of growth morphologies is recovered. The diffusion in the bulk nutrient and the anisotropy in the interface kinetics are morphologically destabilizing and stabilizing, respectively. For a given set of simulation parameters and lattice symmetries there is a critical size, which scales linearly with the mean free path in the vapor, beyond which a crystal cannot retain its stable, macroscopically faceted growth shape. Surface diffusion stabilizes faceted growth on the shorter scale of the mean surface diffusion length. In simulations with a uniform drift superimposed on the random walk nutrient transport, crystal faces oriented toward the drift show enhanced morphological stability compared to the purely diffusive situation. Rotational drifts with periodic reversal of direction are morphologically stabilizing for all crystal facets.

Xiao, Rong-Fu↗

NASA NTRS1988

Comparison of shock structure solutions using independent continuum and kinetic theory approaches

A vehicle traversing the atmosphere will experience flight regimes at high altitudes in which the thickness of a hypersonic shock wave is not small compared to the shock standoff distance from the hard body. When this occurs, it is essential to compute accurate flow field solutions within the shock structure. In this paper, one-dimensional shock structure is investigated for various monatomic gases from Mach 1.4 to Mach 35. Kinetic theory solutions are computed using the Direct Simulation Monte Carlo method. Steady-state solutions of the Navier-Stokes equations and of a slightly truncated form of the Burnett equations are determined by relaxation to a steady state of the time-dependent continuum equations. Monte Carlo results are in excellent agreement with published experimental data and are used as bases of comparison for continuum solutions. For a Maxwellian gas, the truncated Burnett equations are shown to produce far more accurate solutions of shock structure than the Navier-Stokes equations.

Fiscko, Kurt A.↗

NASA NTRS1991

Pressure measurements in a low-density nozzle plume for code verification

Measurements of Pitot pressure were made in the exit plane and plume of a low-density, nitrogen nozzle flow. Two numerical computer codes were used to analyze the flow, including one based on continuum theory using the explicit MacCormack method, and the other on kinetic theory using the method of direct-simulation Monte Carlo (DSMC). The continuum analysis was carried to the nozzle exit plane and the results were compared to the measurements. The DSMC analysis was extended into the plume of the nozzle flow and the results were compared with measurements at the exit plane and axial stations 12, 24 and 36 mm into the near-field plume. Two experimental apparatus were used that differed in design and gave slightly different profiles of pressure measurements. The DSMC method compared well with the measurements from each apparatus at all axial stations and provided a more accurate prediction of the flow than the continuum method, verifying the validity of DSMC for such calculations.

Penko, Paul F.↗

NASA NTRS1991

Pressure measurements in a low-density nozzle plume for code verification

Penko, Paul F.↗

NASA NTRSDate not supplied

Simulation of Vacuum Chamber Pressure Distribution with Surrogate Modeling and Uncertainty Quantification

A major challenge in understanding differences in electric propulsion performance in ground tests and in space operations concerns the pressure distribution within the test vacuum chamber. The chamber backpressure is much higher than experienced in space, modifying thruster performance and plume dynamics. Numerical simulation is a key element to determining the background conditions in non-ideal vacuum chamber environments. An important parameter for the accurate simulation of chamber backpressure is the probability that an atom will stick to a cryogenic panel used to pump away the plume gases. This quantity can be used to model vacuum pumps in particle-based kinetic numerical methods. In this work, a three-dimensional direct simulation Monte Carlo code is used to model neutral xenon atoms flowing from the anode of the H9 Hall Effect Thruster within the University of Michigan’s Large Vacuum Test Facility. Simulated pressures are compared with ion gauge pressure measurements to infer the effective sticking coefficient of the chamber’s vacuum pumps. A pressure predicting surrogate model is developed for inference of pump sticking coefficients and for uncertainty quantification. This information enables accurate and useful kinetic simulations of electric propulsion thruster plasma plumes in vacuum chambers.

DSMC↗

NASA NTRS1983

Monte Carlo simulation of steady state shock structure including cosmic ray mediation and particle escape

Both hydrodynamic calculations (Drury and Volk, 1981, and Axford et al., 1982) and kinetic simulations imply the existence of thermal subshocks in high-Mach-number cosmic-ray-mediated shocks. The injection efficiency of particles from the thermal background into the diffusive shock-acceleration process is determined in part by the sharpness and compression ratio of these subshocks. Results are reported for a Monte Carlo simulation that includes both the back reaction of accelerated particles on the inflowing plasma, producing a smoothing of the shock transition, and the free escape of particles allowing arbitrarily large overall compression ratios in high-Mach-number steady-state shocks. Energy spectra and estimates of the proportion of thermal ions accelerated to high energy are obtained.

Ellison, D. C.↗

NASA NTRS1995

Observations and analysis of O(1D) and NH2 line profiles for the coma of comet P/Halley

A set of high-resolution Fabry-Perot measurements of the coma of comet P/Halley was acquired in the (O I) 6300 A and NH2 6298.62 A emission lines. These high-resolution measurements provide the first optical observations capable of studying directly the photochemical kinetics and dynamic outflow of the coma. The observations were analyzed by a Monte Carlo Particle Trajectory Model. The agreement of the model and observed line profiles was excellent and verified the underlying dynamics, exothermic photodissociative chemistry, and collisional thermalization in the coma. The somewhat wider intrinsic line profile width for the O(1D) emission in 1986 January compared to 1986 May, is, for example, produced by the larger outflow speeds and gas temperatures nearer perihelion in January. The January O(1D) profile, which is wider than the January NH2 profile, is indicative of the photochemical kinetics in the dissociation of the parent molecules H2O and OH in the coma. The absolute calibration of the observations in 1986 January allowed the production rates for H2O and the NH2-parent molecules to be determined. The average daily water production rates derived from the O(1D) emission data for January 16 and 17 are presented. These very large water production rates are consistent with the extrapolated (and 7.6 day time variable) water production rates determined from the analysis of lower spectral resolution observations for O(1D) and H-alpha emissions that covered the time period up to January 13. The large production rates on January 16 and 17 establish that the maximum water production rate for comet Halley accurred pre-perihelion in January. Implications drawn from comparison with 18 cm radio emission data in January suggest that the peak water production rate was even larger. The average production rate for NH3 determined from the NH2 emission data for January 17 was (1.48 +/- 0.10) x 10(exp 28) molecules/s, yielding an NH3/H2O production rate ratio of 0.55%.

Smyth, William H.↗

NASA NTRS1996

A Burst Mode, Ultrahigh Temperature UF4 Vapor Core Reactor Rankine Cycle Space Power System Concept

Static and dynamic neutronic analyses have been performed on an innovative burst mode (100's of MW output for a few thousand seconds) Ulvahigh Temperature Vapor Core Reactor (UTVR) space nuclear power system. The NVTR employs multiple, neutronically-coupled fissioning cores and operates on a direct, closed Rankine cycle using a disk Magnetohydrodynamic (MHD) generater for energy conversion. The UTVR includes two types of fissioning core regions: (1) the central Ultrahigh Temperature Vapor Core (UTVC) which contains a vapor mixture of highly enriched UF4 fuel and a metal fluoride working fluid and (2) the UF4 boiler column cores located in the BeO moderator/reflector region. The gaseous nature of the fuel the fact that the fuel is circulating, the multiple coupled fissioning cores, and the use of a two phase fissioning fuel lead to unique static and dynamic neutronic characteristics. Static neutronic analysis was conducted using two-dimensional S sub n, transport theory calculations and three-dimensional Monte Carlo transport theory calculations. Circulating-fuel, coupled-core point reactor kinetics equations were used for analyzing the dynamic behavior of the UTVR. In addition to including reactivity feedback phenomena associated with the individual fissioning cores, the effects of core-to-core neutronic and mass flow coupling between the UTVC and the surrounding boiler cores were also included in the dynamic model The dynamic analysis of the UTVR reveals the existence of some very effectlve inherent reactivity feedback effects that are capable of quickly stabilizing this system, within a few seconds, even when large positive reactivity insertions are imposed. If the UTVC vapor fuel density feedback is suppressed, the UTVR is still inherently stable because of the boiler core liquid-fuel volume feedback; in contrast, suppression of the vapor fuel density feedback in 'conventional" gas core cavity reactors causes them to become inherently unstable. Due to the strength of the negative reactivity feedback in the UTVR, it is found that external reactivity insertions alone are inadequate for bringing about significant power level changes during normal reactor operations. Additional methods of reactivity control such as variations in the gaseous fuel mass flow rate, are needed to achieve the desired power level oontrol.

Dugan, E. T.↗

NASA NTRS1987

Particle and fluid simulations of resistive current-driven electrostatic ion cyclotron waves

The results from 1-D numerical simulations of electrostatic ion cyclotron waves (EIC) are presented for a model in which the electrons are a resistive (collisional) fluid. Simulations of both the kinetic and fluid descriptions are performed and compared in order to assess the fundamental limitations of fluid theory for EIC waves. The effect of ion-neutral collisions is also included using a simple Monte Carlo technique. It is found that a small ion-neutral collision frequency destroys the frequency harmonic coupling of kinetic EIC waves and tends to validate the fluid description. The saturation amplitude of the current-driven EIC instability is in agreement with recent laboratory experiments. The coherent nature (extremely narrow spectral width) and phase velocity agree with ground based (coherent backscatter radars) and in situ observations of current-driven EIC waves in the high latitude ionosphere.

Seyler, Charles E.↗

NASA NTRS1989

Monte-Carlo modeling of polar wind photoelectron distributions with anomalous heat flux

In situ measurements above the polar cap by the DE satellites show asymmetric field-aligned electron velocity distributions in the photoelectron energy range 5-60 eV. The formation of these anisotropic distributions is described by a collisional kinetic equation that includes the effects of Coulomb collisions (via a Fokker-Planck operator), those of a parallel electric field, and the magnetic mirror effects of the geomagnetic field. This equation is solved using a Monte Carlo simulation method. The simulation illustrates the formation of the portion of the observed electron distributions originating in the ionosphere and makes it possible to evaluate the significance of the suprathermal electrons at higher altitude. Both observations and calculations indicate that these electrons possess an energy flux which, by its effect on the polar-wind electric field, may influence the dynamics of the polar-wind outflow.

Yasseen, F.↗