Correlating simulated surface marks with near-surface tornado structure

Tornadoes often leave behind patterns of debris deposition, or surface marks , which provide a direct signature of their near surface winds. The intent of this thesis is to investigate what can be learned about near-surface tornado structure and intensity through the properties of surface marks generated by simulated, debris-laden tornadoes. Earlier work showed through numerical simulations that the tornado\u27s structure and intensity is highly sensitive to properties of the near-surface flow and can change rapidly in time for some conditions. The strongest winds often occur within tens of meters of the surface where the threat to human life and property is highest, and factors such as massive debris loadings and asymmetry of the main vortex have proven to be critical complications in some regimes. However, studying this portion of the flow in the field is problematic; while Doppler radar provides the best tornado wind field measurements, it cannot probe below about 20 m, and interpretation of Doppler data requires assumptions about tornado symmetry, steadiness in time, and correlation between scatterer and air velocities that are more uncertain near the surface.;As early as 1967, Fujita proposed estimating tornado wind speeds from analysis of aerial photography and ground documentation of surface marks. A handful of studies followed but were limited by difficulties in interpreting physical origins of the marks, and little scientific attention has been paid to them since. Here, Fujita\u27s original idea is revisited in the context of three-dimensional, large-eddy simulations of tornadoes with fully-coupled debris.;In this thesis, the origins of the most prominent simulated marks are determined and compared with historical interpretations of real marks. The earlier hypothesis that cycloidal surface marks were directly correlated with the paths of individual vortices (either the main vortex or its secondary vortices, when present) is unsupported by the simulation results. Cycloids in the simulations arise from debris deposited beneath the central annular updraft that has converged from a much larger area and are modulated by turbulent fluctuations in debris amount. Other classes of marks noted in the literature such as lineation and scalloping are also reinterpreted. Variations in the shapes, sizes, and spacings of surface marks with the most critical dimensionless parameters characterizing near-surface and debris cloud structure are explored. Analysis techniques are presented to capture the geometric properties of marks in some regimes, and possibilities for inferring near-surface vortex flow scales from mark properties are discussed. The prospects are promising enough to warrant documentation of surface marks when available (likely through aerial photography), particularly for cases where useful Doppler measurements have been gathered

Doubly-Shadowed Regions in Lunar Polar Craters: Hydrogen Accumulation in the Presence of Recursive Plasma Wakes

Permanently shadowed regions (PSRs) of the Moon have been identified as unique environments of extreme cold and comprise a natural cold trap for sequestering volatiles [Paige et al. 2010]. The diverse chemical composition of the LCROSS impact plume provided evidence for a volatile-rich and chemically-complex PSR environment [Cola prete et al. 2010, Schultz et al. 2010]. Additionally, the polar electrostatic environment is highly complex, with the possibility of strong, localized electric fields that divert solar wind ions directly into polar cold traps [Farrell et al. 2010, Zimmerman et al. 2011]. Thus, regional plasma physics processes couple directly with volatile sequestration. In the present work, kinetic simulations show that recursive plasma wake structure arises in the presence of step-like topographic features (Le. doubly-shadowed craters). Combining the plasma code with a numerical sputtering model demonstrates that solar wind protons can be either a hydrogen source via implantation or a volatile loss mechanism via sputtering, depending on properties of the regolith and solar wind. The present model provides a novel theoretical pathway toward understanding the lunar surface/solar wind physical and chemical interactions for complex topography near the poles

Lunar Crater Mini-Wakes: Structure, Variability, and Volatiles

Within a permanently shadowed lunar crater the horizontal flow of solar wind is obstructed by upstream topography, forming a regional plasma mini-wake. In the present work kinetic simulations are utilized to investigate how the most prominent structural aspects of a crater mini-wake are modulated during passage of a solar storm. In addition, the simulated particle fluxes are coupled into an equivalent-circuit model of a roving astronaut,. including triboelectric charging due to frictional contact with the lunar regolith, to characterize charging of the astronaut suit during the various stages of the storm. In some cases, triboelectric charging of the astronaut suit becomes effectively perpetual, representing a critical engineering concern for roving within shadowed lunar regions. Finally, the present results suggest that wake structure plays a critical role in modulating the spatial distribution of volatiles at the lunar poles

Plasma Wake Simulations and Object Charging in a Shadowed Lunar Crater During a Solar Storm

Within a permanently shadowed lunar crater the horizontal flow of solar wind is obstructed by upstream topography, forming a plasma wake that electrostatically diverts ions toward the crater floor and generates a surface potential that can reach kilovolts. In the present work kinetic plasma simulations are employed to investigate the morphology of a lunar crater wake during passage of a solar storm. Results are cast in terms of leading dimensionless ratios including the ion Mach number, ratio of crater depth to plasma Debye length, peak secondary electron yield, and electron temperature vs. electron impact energy at peak secondary yield. This small set of ratios allows generalization to a much wider range of scenarios. The kinetic simulation results are fed forward into an equivalent-circuit model of a roving astronaut. In very low-plasma-current environments triboelectric charging of the astronaut suit becomes effectively perpetual, representing a critical engineering concern for roving within shadowed lunar regions. Finally, simulated ion fluxes are used to explore sputtering and implantation processes within an idealized crater. It is suggested that the physics of plasma mini-wakes formed in the vicinity of permanently shadowed topography may play a critical role in modulating the enigmatic spatial distribution of volatiles at the lunar poles

Conformational distributions of isolated myosin motor domains encode their mechanochemical properties

Myosin motor domains perform an extraordinary diversity of biological functions despite sharing a common mechanochemical cycle. Motors are adapted to their function, in part, by tuning the thermodynamics and kinetics of steps in this cycle. However, it remains unclear how sequence encodes these differences, since biochemically distinct motors often have nearly indistinguishable crystal structures. We hypothesized that sequences produce distinct biochemical phenotypes by modulating the relative probabilities of an ensemble of conformations primed for different functional roles. To test this hypothesis, we modeled the distribution of conformations for 12 myosin motor domains by building Markov state models (MSMs) from an unprecedented two milliseconds of all-atom, explicit-solvent molecular dynamics simulations. Comparing motors reveals shifts in the balance between nucleotide-favorable and nucleotide-unfavorable P-loop conformations that predict experimentally measured duty ratios and ADP release rates better than sequence or individual structures. This result demonstrates the power of an ensemble perspective for interrogating sequence-function relationships

The Plasma Wake Downstream of Lunar Topographic Obstacles: Preliminary Results from 2D Particle Simulations

Anticipating the plasma and electrical environments in permanently shadowed regions (PSRs) of the moon is critical in understanding local processes of space weathering, surface charging, surface chemistry, volatile production and trapping, exo-ion sputtering, and charged dust transport. In the present study, we have employed the open-source XOOPIC code [I] to investigate the effects of solar wind conditions and plasma-surface interactions on the electrical environment in PSRs through fully two-dimensional pattic1e-in-cell simulations. By direct analogy with current understanding of the global lunar wake (e.g., references) deep, near-terminator, shadowed craters are expected to produce plasma "mini-wakes" just leeward of the crater wall. The present results (e.g., Figure I) are in agreement with previous claims that hot electrons rush into the crater void ahead of the heavier ions, fanning a negative cloud of charge. Charge separation along the initial plasma-vacuum interface gives rise to an ambipolar electric field that subsequently accelerates ions into the void. However, the situation is complicated by the presence of the dynamic lunar surface, which develops an electric potential in response to local plasma currents (e.g., Figure Ia). In some regimes, wake structure is clearly affected by the presence of the charged crater floor as it seeks to achieve current balance (i.e. zero net current to the surface)

The cap-snatching SFTSV endonuclease domain is an antiviral target

Severe fever with thrombocytopenia syndrome virus (SFTSV) is a tick-borne virus with 12%-30% case mortality rates and is related to the Heartland virus (HRTV) identified in the United States. Together, SFTSV and HRTV are emerging segmented, negative-sense RNA viral (sNSV) pathogens with potential global health impact. Here, we characterize the amino-terminal cap-snatching endonuclease domain of SFTSV polymerase (L) and solve a 2.4-Å X-ray crystal structure. While the overall structure is similar to those of other cap-snatching sNSV endonucleases, differences near the C terminus of the SFTSV endonuclease suggest divergence in regulation. Influenza virus endonuclease inhibitors, including the US Food and Drug Administration (FDA) approved Baloxavir (BXA), inhibit the endonuclease activity in in vitro enzymatic assays and in cell-based studies. BXA displays potent activity with a half maximal inhibitory concentration (I

Naturally occurring genetic variants in the oxytocin receptor alter receptor signaling profiles

The hormone oxytocin is commonly administered during childbirth to initiate and strengthen uterine contractions and prevent postpartum hemorrhage. However, patients have wide variation in the oxytocin dose required for a clinical response. To begin to uncover the mechanisms underlying this variability, we screened the 11 most prevalent missense genetic variants in the oxytocin receptor

Enhanced superconductivity in aluminum-based hyperbolic metamaterials

One of the most important goals of condensed matter physics is materials by design, i.e. the ability to reliably predict and design materials with a set of desired properties. A striking example is the deterministic enhancement of the superconducting properties of materials. Recent experiments have demonstrated that the metamaterial approach is capable of achieving this goal, such as tripling the critical temperature T-C in Al-Al2O3 epsilon near zero (ENZ) core-shell metamaterial superconductors. Here, we demonstrate that an Al/Al2O3 hyperbolic metamaterial geometry is capable of a similar T-C enhancement, while having superior transport and magnetic properties compared to the core-shell metamaterial superconductors

A proposed prioritization system for the management of invasive alien plants in South Africa

Every country has weed species whose presence conflicts in some way with human management objectives and needs. Resources for research and control are limited, so priority should be given to species that are the biggest problem. The prioritization system described in this article was designed to assess objectively research and control priorities of invasive alien plants at a national scale in South Africa. The evaluation consists of seventeen criteria, grouped into five modules, that assess invasiveness, spatial characteristics, potential impact, potential for control, and conflicts of interest for each plant species under consideration. Total prioritization scores, calculated from criterion and module scores, were used to assess a species' priority. Prioritization scores were calculated by combining independent assessments provided by several experts, thus increasing the reliability of the rankings. The total confidence score, a separate index, indicates the reliability and availability of data used to make an assessment. Candidate species for evaluation were identified and assessed by several experts using the prioritization system. The final ranking was made by combining two separate indices, the total prioritization score and the total confidence score. This approach integrates the plant's perceived priority with an index of data reliability. Of the 61 species assessed, those with the highest ranks (Lantana camara, Chromolaena odorata and Opuntia ficus-indica) had high prioritization and high confidence scores, and are thus of most concern. Those species with the lowest ranks, for example, Harrisia martinii, Opuntia spinulifera and Opuntia exaltata, had low prioritization scores and high confidence scores, and thus are of least concern. Our approach to ranking weeds offers several advantages over existing systems because it is designed for multiple assessors based on the Delphi decision-making technique, the criteria contribute equally to the total score, and the system can accommodate incomplete data on a species. Although the choice of criteria may be criticized and the system has certain limitations, it appears to have delivered credible results