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At least 739 records · Page 41

Time course and auxin sensitivity of cortical microtubule reorientation in maize roots

The kinetics of MT [microtubule] reorientation in primary roots of Zea mays cv. Merit, were examined 15, 30, 45, and 60 min after horizontal positioning. Confocal microscopy of longitudinal tissue sections showed no change in MT orientation 15 and 30 min after horizontal placement. However, after 45 and 60 min, MTs of the outer 4-5 cortical cell layers along the lower side were reoriented. In order to test whether MT reorientation during graviresponse is caused by an auxin gradient, we examined the organization of MTs in roots that were incubated for 1 h in solutions containing 10(-9) to 10(-6) M IAA. IAA treatment at 10(-8) M or less showed no major or consistent changes but 10(-7) M IAA resulted in MT reorientation in the cortex. The auxin effect does not appear to be acid-induced since benzoic acid (10(-5) M) did not cause MT reorientation. The region closest to the maturation zone was most sensitive to IAA. The data indicate that early stages of gravity induced curvature occur in the absence of MT reorientation but sustained curvature leads to reoriented MTs in the outer cortex. Growth inhibition along the lower side of graviresponding roots appears to result from asymmetric distribution of auxin following gravistimulation.

NASA Discipline Plant Biology↗

Flow adjustment inside homogeneous canopies after a leading edge – An analytical approach backed by LES

A two-dimensional analytical model for describing the mean flow behavior inside a vegetation canopy after a leading edge in neutral conditions was developed and tested by means of large eddy simulations (LES) employing the LES code PALM. The analytical model is developed for the region directly after the canopy edge, the adjustment region, where one-dimensional canopy models fail due to the sharp change in roughness. The derivation of this adjustment region model is based on an analytic solution of the two-dimensional Reynolds averaged Navier–Stokes equation in neutral conditions for a canopy with constant plant area density (PAD). The main assumptions for solving the governing equations are separability of the velocity components concerning the spatial variables and the neglection of the Reynolds stress gradients. These two assumptions are verified by means of LES. To determine the emerging model parameters, a simultaneous fitting scheme was applied to the velocity and pressure data of a reference LES simulation. Furthermore a sensitivity analysis of the adjustment region model, equipped with the previously calculated parameters, was performed varying the three relevant length, the canopy height ( h ), the canopy length and the adjustment length ( L c ), in additional LES. Even if the model parameters are, in general, functions of h / L c , it was found out that the model is capable of predicting the flow quantities in various cases, when using constant parameters. Subsequently the adjustment region model is combined with the one-dimensional model of Massman, which is applicable for the interior of the canopy, to attain an analytical model capable of describing the mean flow for the full canopy domain. As a result, the model is tested against an analytical model based on a linearization approach.

54 ENVIRONMENTAL SCIENCES↗

Geometries, stabilities and electronic properties of photo sensitized (CdS) 2n (n=5–27) nanoclusters

As advanced materials for energy storage or conversion applications, metal sulfides with hollow structures are as widely used as supercapacitors and sensors. The geometries and electronic properties of (CdS) 2n (n = 5–27) nanocages are calculated here by density functional theory with the gradient corrected Perdew-Burke-Ernzerh of exchange-correlation functional and including the relativistic effect. The obtained results showed that the inner radius and charge-transfers, surface stabilities along with ionic semiconductor and metallic properties of the hollowed (CdS) 2n are increased as cage size being increased. The distinct metallic features in large-size (CdS) 2n are revealed. Particularly, the calculated energy gaps for (CdS) 2n are generally decreased as the size of (CdS) 2n being increased, together with absorption spectra moving from short to long wavelength. The photon to current conversion efficiency related energy conversion is discussed. Interestingly, the encapsulated double-layer CdS nanocages have bigger capacity for energy conversion than the monolayer nanocages.

36 MATERIALS SCIENCE↗

Comparison of nuclear electric resonance and nuclear magnetic resonance in integer and fractional quantum Hall states

Electric-field-induced nuclear resonance (NER: nuclear electric resonance) involving quantum Hall states (QHSs) was studied at various filling factors by exploiting changes in nuclear spins polarized at quantum Hall breakdown. Distinct from the magnetic dipole interaction in nuclear magnetic resonance, the interaction of the electric-field gradient with the electric quadrupole moment plays the dominant role in the NER mechanism. The magnitude of the NER signal strongly depends on whether electronic states are localized or extended. This indicates that NER is sensitive to the screening capability of the electric field associated with QHSs.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Ginzburg–Landau expansion in strongly disordered attractive Anderson–Hubbard model

We have studied disordering effects on the coefficients of Ginzburg–Landau expansion in powers of superconducting order parameter in the attractive Anderson–Hubbard model within the generalized DMFT+Σ approximation. We consider the wide region of attractive potentials U from the weak coupling region, where superconductivity is described by BCS model, to the strong coupling region, where the superconducting transition is related with Bose–Einstein condensation (ВЕС) of compact Cooper pairs formed at temperatures essentially larger than the temperature of superconducting transition, and a wide range of disorder—from weak to strong, where the system is in the vicinity of Anderson transition. In the case of semielliptic bare density of states, disorder’s influence upon the coefficients A and В of the square and the fourth power of the order parameter is universal for any value of electron correlation and is related only to the general disorder widening of the bare band (generalized Anderson theorem). Such universality is absent for the gradient term expansion coefficient C. In the usual theory of “dirty” superconductors, the С coefficient drops with the growth of disorder. In the limit of strong disorder in BCS limit, the coefficient С is very sensitive to the effects of Anderson localization, which lead to its further drop with disorder growth up to the region of the Anderson insulator. In the region of BCS–ВЕС crossover and in ВЕС limit, the coefficient С and all related physical properties are weakly dependent on disorder. In particular, this leads to relatively weak disorder dependence of both penetration depth and coherence lengths, as well as of related slope of the upper critical magnetic field at superconducting transition, in the region of very strong coupling.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Hysteretic temperature sensitivity of wetland CH4 fluxes explained by substrate availability and microbial activity: Model Archive

This Modeling Archive is in support of an NGEE Arctic publication "Hysteretic temperature sensitivity of wetland CH4 fluxes explained by substrate availability and microbial activity" in the Journal Biogeosciences (https://doi.org/10.5194/bg-17-5849-2020), which includes the model data used in the publication. CH4 emissions from terrestrial systems are posited to increase, which can offset mitigation efforts and accelerate climate change. Yet, the accuracy of modeled CH4 emissions is sensitive to the prescribed CH4 production (or emission) temperature dependencies that are currently uncertain. Here, we use a comprehensive biogeochemistry model (ecosys) to investigate factors modulating CH4 production and emission rates across a permafrost thaw gradient encompassing a partly thawed bog and a fully thawed fen. We find that seasonally varying substrate availability drives lower and higher modeled methanogen biomass and activity, and thereby CH4 production, during the earlier and later periods of the thawed season, respectively. Package follows the Model data archiving guidelines with data in a *.zip file with three subfolders containing *.csv files and raw model output files; a data dictionary table (data_dictionary.csv) and two model output description tables (ecosys_plantspecies_output_notes.csv and ecosys_soil_ouput_notes.csv) to explain the format and meaning of individual output variables; and a user guide as a *.pdf. A detailed model description can be found in the supplement of (Grant, 2013). The ecosys source code is available at https://doi:10.5281/zenodo.3906642. The Next-Generation Ecosystem Experiments: Arctic (NGEE Arctic), was a research effort to reduce uncertainty in Earth System Models by developing a predictive understanding of carbon-rich Arctic ecosystems and feedbacks to climate. NGEE Arctic was supported by the Department of Energy's Office of Biological and Environmental Research. The NGEE Arctic project had two field research sites: 1) located within the Arctic polygonal tundra coastal region on the Barrow Environmental Observatory (BEO) and the North Slope near Utqiagvik (Barrow), Alaska and 2) multiple areas on the discontinuous permafrost region of the Seward Peninsula north of Nome, Alaska. Through observations, experiments, and synthesis with existing datasets, NGEE Arctic provided an enhanced knowledge base for multi-scale modeling and contributed to improved process representation at global pan-Arctic scales within the Department of Energy's Earth system Model (the Energy Exascale Earth System Model, or E3SM), and specifically within the E3SM Land Model component (ELM).

54 ENVIRONMENTAL SCIENCES↗

Quantitative comparisons of electron-scale turbulence measurements in NSTX via synthetic diagnostics for high-k scattering.

Two synthetic diagnostics are implemented for the high-k scattering system in NSTX [D. R. Smith, E. Mazzucato, W. Lee, H. K. Park, C. W. Domier, and N. C. Luhmann Jr., Rev. Sci. Instrum., 79, 123501 (2008)] allowing direct comparisons between synthetic and experimentally detected frequency and wavenumber spectra of electron-scale turbulence fluctuations. Synthetic diagnostics were formulated in real-space and in wavenumber space, and were deployed to realistic electron-scale simulations carried out with the GYRO code [J. Candy and R. E. Waltz, J. Comput. Phys. 186 (2003) 545]. A highly unstable ETG regime (electron temperature gradient mode) in a modest beta NSTX NBI-heated H-mode discharge was chosen for the analysis. Mapping the measured wavenumbers to field aligned coordinates showed that the high-k system is sensitive to fluctuations that are closer to the spectral peak in the density fluctuation wavenumber spectrum (streamers) than originally predicted. Analysis of synthetic spectra show that the frequency response of the detected fluctuations is dominated by Doppler shift and insensitive to the turbulence drive. The shape of the high-k density fluctuation wavenumber spectrum is sensitive to the ETG turbulence drive conditions, and can be reproduced in a sensitivity scan of the most pertinent turbulent drive terms in the simulation.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Preconditioned Minimal Residual Methods for Chebyshev Spectral Caluclations

The problem of preconditioning the pseudospectral Chebyshev approximation of an elliptic operator is considered. The numerical sensitiveness to variations of the coefficients of the operator are investigated for two classes of preconditioning matrices: one arising from finite differences, the other from finite elements. The preconditioned system is solved by a conjugate gradient type method, and by a DuFort-Frankel method with dynamical parameters. The methods are compared on some test problems with the Richardson method and with the minimal residual Richardson method.

Canuto, C.↗

Preconditioned minimal residual methods for Chebyshev spectral calculations

The problem of preconditioning the pseudospectral Chebyshev approximation of an elliptic operator is considered. The numerical sensitiveness to variations of the coefficients of the operator are investigated for two classes of preconditioning matrices: one arising from finite differences, the other from finite elements. The preconditioned system is solved by a conjugate gradient type method, and by a Dufort-Frankel method with dynamical parameters. The methods are compared on some test problems with the Richardson method and with the minimal residual Richardson method.

Canuto, C.↗

NIST torsion oscillator viscometer response: Performance on the LeRC active vibration isolation platform

Critical point viscosity measurements are limited to their reduced temperature approach to T(sub c) in an Earth bound system, because of density gradients imposed by gravity. Therefore, these classes of experiments have been proposed as good candidates for 'microgravity' science experiments where this limitation is not present. The nature of these viscosity measurements dictate hardware that is sensitive to low frequency excitations. Because of the vibratory acceleration sensitivity of a torsion oscillator viscometer, used to acquire such measurements, a vibration isolation sensitivity test was performed on candidate 'microgravity' hardware to study the possibility of meeting the stringent oscillatory sensitivity requirements of a National Institute of Standards and Technology (NIST) torsion oscillator viscometer. A prototype six degree of freedom active magnetic isolation system, developed at NASA Lewis Research Center, was used as the isolation system. The ambient acceleration levels of the platform were reduced to the noise floor levels of its control sensors, about one microgravity in the 0.1 to 10 Hz bandwidth.

Berg, Robert F.↗

Exploration of Failure and Potential Damage Markers in Ti-6Al-4V

To improve prognostics for predicting component life, coupon tests were conducted on Ti-6Al-4V to investigate the development of damage. Various test types were employed (tension, creep, stress relaxation, and fatigue) under a wide range of temperatures and loading rates to engage various amounts of time-dependent and damage behavior. Both stiffness degradation and Poisson’s ratio were monitored to see if they were useful in indicating the initiation and accumulation of damage and subsequently the onset of failure. Stiffness exhibited large decreases with increasing strain when calculated using engineering stress and strain. However, minimal stiffness change was observed when using the true-stress and true- strain values. Detailed microscopy and image analysis were performed to document the actual physical damage that occurred within the various specimens. Two types of damage were observed: shallow surface cracks and internal pores. The severity of damage was greater in the region of localized necking and diminished further away from the neck. The area fraction of pores was higher in the necked region, yet even there it did not exceed more than a few percent and, in most cases, was significantly lower. It was observed that conditions that induced more time-dependent deformation (e.g., slower strain rate testing) resulted in a larger number of pores and larger pore sizes. The pores were always found to occur in the softer β-phase. The severity of observed damage was inconsistent with the large drop in engineering stiffness, but was more aligned with stiffness changes from the true-stress and -strain values. Poisson’s ratio was monitored on every test and showed promise as a damage indicator. It was found to be more sensitive than either the ultimate tensile strength or the inception of tertiary creep. However, calculation of Poisson’s ratio was found to be more involved than expected because of anisotropy and the presence of strain gradients along the specimen at large applied strains. First, the material had a moderate texture and resulted in anisotropy of the strains. Second, the evolution of Poisson’s ratio as a function of axial strain showed strange and unexpected behaviors, which necessitated more extensive analyses of its development. This led to an investigation on the use of small versus large strain approaches and the importance of making consistent measurements; that is, axial and transverse strain measurements over the same volume of material. Additionally, finite element analysis of a tensile sample indicated that non- uniform strain occurred in the sample prior to attaining the maximum strength. This, along with the location at which transverse strain was measured, had a significant influence on the resulting values of Poisson’s ratio. Based on this, lessons learned are offered for future testing.

Ti-6Al-4V↗

Large-Scale Groundwater Monitoring in Brazil Assisted With Satellite-Based Artificial Intelligence Techniques

Here, we develop and test an artificial intelligence (AI)-based approach to monitor major Brazilian aquifers. The approach combines Gravity Recovery and Climate Experiment (GRACE) data and ground-based hydrogeological measurements from Brazil’s Integrated Groundwater Monitoring Network at hundreds of wells distributed in twelve aquifers across the country. We tested model ensembles based on three AI approaches: Extreme Gradient Boost, Light Gradient Boosting Model and CatBoost, followed by a Linear Regression (LR) step. The approach is further boosted with wavelet and seasonal decomposition processes applied to GRACE data. To determine the AI-based model’s sensitivity to data availability, we propose four experiments combining hydrogeological measurements from different aquifers. Groundwater storage estimates from the Global Land Data Assimilation System (GLDAS) are used as benchmark. A sensitivity analysis shows that the LR-based model ensemble is the best suited and to reproduce groundwater storage change in all studied Brazilian aquifers. Results show that the proposed approach outperforms GLDAS in all experiments, with an RMSE value of 2.68cm for the experiment that covers all monitored wells in Brazil. GLDAS resulted in RMSE=6.76cm. Using our AI model outputs, we quantified the groundwater storage change of two major aquifers, Urucuia and Bauru-Caiuá, over the past two decades: -31km 3 and -6km 3 , respectively. Water loss is driven by a prolonged drought across most of the country and intensification of groundwater pumping for irrigation. This study demonstrates that combining satellite data and AI can be a cost-effective alternative to monitor poorly equipped aquifers at the continental scale, with possible global replicability.

GRACE↗

Computational Modeling and Evolutionary Implications of Biochemical Reactions in Bacterial Microcompartments

Bacterial microcompartments (BMCs) are protein-encapsulated compartments found across at least 23 bacterial phyla. BMCs contain a variety of metabolic processes that share the commonality of toxic or volatile intermediates, oxygen-sensitive enzymes and cofactors, or increased substrate concentration for magnified reaction rates. These compartmentalized reactions have been computationally modeled to explore the encapsulated dynamics, ask evolutionary-based questions, and develop a more systematic understanding required for the engineering of novel BMCs. Many crucial aspects of these systems remain unknown or unmeasured, such as substrate permeabilities across the protein shell, feasibility of pH gradients, and transport rates of associated substrates into the cell. This review explores existing BMC models, dominated in the literature by cyanobacterial carboxysomes, and highlights potentially important areas for exploration.

bacterial microcompartments↗

THz Limb Sounder (TLS) for Lower Thermospheric Wind, Oxygen Density, and Temperature

Neutral winds are one of the most critical measurements in the lower thermosphere and E region ionosphere (LTEI) for understanding complex electrodynamic processes and ion-neutral interactions. We are developing a high-sensitivity, low-power, noncryogenic 2.06 THz Schottky receiver to measure wind profiles at 100-140 km. The new technique, THz limb sounder (TLS), aims to measure LTEI winds by resolving the wind-induced Doppler shift of 2.06 THz atomic oxygen (OI) emissions. As a transition between fine structure levels in the ground electronic state, the OI emission is in local thermodynamic equilibrium(LTE) at altitudes up to 350km. This LTE property, together with day-and-night capability and small line-of-sight gradient, makes the OI limb sounding a very attractive technique for neutral wind observations. In addition to the wind measurement, TLS can also retrieve [OI] density and neutral temperature in the LTEI region. TLS leverages rapid advances in THz receiver technologies including subharmonically pumped (SHP)mixers and Schottky-diode-based power multipliers. Current SHP Schottky receivers have produced good sensitivity for THz frequencies at ambient environment temperatures (120-150 K), which are achievable through passively cooling in spaceflight. As an emerging technique, TLS can fill the critical data gaps in the LTEI neutral wind observations to enable detailed studies on the coupling and dynamo processes between charged and neutral molecules.

wind profiles↗

Verification of Reduced Order Modeling Based Uncertainty/Sensitivity Estimator (ROMUSE)

This article presents a number of verification case studies for a recently developed sensitivity/uncertainty code package. The code package, ROMUSE (Reduced Order Modeling based Uncertainty/Sensitivity Estimator) is an effort to provide an analysis tool to be used in conjunction with reactor core simulators, in particular the Virtual Environment for Reactor Applications (VERA) core simulator. ROMUSE has been written in C++ and is currently capable of performing various types of parameter perturbations and associated sensitivity analysis, uncertainty quantification, surrogate model construction and subspace analysis. The current version 2.0 has the capability to interface with the Design Analysis Kit for Optimization and Terascale Applications (DAKOTA) code, which gives ROMUSE access to the various algorithms implemented within DAKOTA, most importantly model calibration. The verification study is performed via two basic problems and two reactor physics models. The first problem is used to verify the ROMUSE single physics gradient-based range finding algorithm capability using an abstract quadratic model. The second problem is the Brusselator problem, which is a coupled problem representative of multi-physics problems. This problem is used to test the capability of constructing surrogates via ROMUSE-DAKOTA. Finally, light water reactor pin cell and sodium-cooled fast reactor fuel assembly problems are simulated via SCALE 6.1 to test ROMUSE capability for uncertainty quantification and sensitivity analysis purposes.

97 MATHEMATICS AND COMPUTING↗

Monte Carlo calculations of electron beam quality conversion factors for several ion chamber types

Purpose: To provide a comprehensive investigation of electron beam reference dosimetry using Monte Carlo simulations of the response of 10 plane-parallel and 18 cylindrical ion chamber types. Specific emphasis is placed on the determination of the optimal shift of the chambers’ effective point of measurement (EPOM) and beam quality conversion factors. Methods: The EGSnrc system is used for calculations of the absorbed dose to gas in ion chamber models and the absorbed dose to water as a function of depth in a water phantom on which cobalt-60 and several electron beam source models are incident. The optimal EPOM shifts of the ion chambers are determined by comparing calculations of R{sub 50} converted from I{sub 50} (calculated using ion chamber simulations in phantom) to R{sub 50} calculated using simulations of the absorbed dose to water vs depth in water. Beam quality conversion factors are determined as the calculated ratio of the absorbed dose to water to the absorbed dose to air in the ion chamber at the reference depth in a cobalt-60 beam to that in electron beams. Results: For most plane-parallel chambers, the optimal EPOM shift is inside of the active cavity but different from the shift determined with water-equivalent scaling of the front window of the chamber. These optimal shifts for plane-parallel chambers also reduce the scatter of beam quality conversion factors, k{sub Q}, as a function of R{sub 50}. The optimal shift of cylindrical chambers is found to be less than the 0.5 r{sub cav} recommended by current dosimetry protocols. In most cases, the values of the optimal shift are close to 0.3 r{sub cav}. Values of k{sub ecal} are calculated and compared to those from the TG-51 protocol and differences are explained using accurate individual correction factors for a subset of ion chambers investigated. High-precision fits to beam quality conversion factors normalized to unity in a beam with R{sub 50} = 7.5 cm (k{sub Q}{sup ′}) are provided. These factors avoid the use of gradient correction factors as used in the TG-51 protocol although a chamber dependent optimal shift in the EPOM is required when using plane-parallel chambers while no shift is needed with cylindrical chambers. The sensitivity of these results to parameters used to model the ion chambers is discussed and the uncertainty related to the practical use of these results is evaluated. Conclusions: These results will prove useful as electron beam reference dosimetry protocols are being updated. The analysis of this work indicates that cylindrical ion chambers may be appropriate for use in low-energy electron beams but measurements are required to characterize their use in these beams.

07 ISOTOPE AND RADIATION SOURCES↗

Optimization of a Method To Quantify Soil Bacterial Abundance by Flow Cytometry

ABSTRACT Bacterial abundance is a fundamental metric for understanding the population dynamics of soil bacteria and their role in biogeochemical cycles. Despite its importance, methodological constraints hamper our ability to assess bacterial abundance in terrestrial environments. Here, we aimed to optimize the use of flow cytometry (FCM) to assay bacterial abundances in soil while providing a rigorous quantification of its limitations. Soil samples were spiked with Escherichia coli to evaluate the levels of recovery efficiency among three extraction approaches. The optimized method added a surfactant (a tetrasodium pyrophosphate [TSP] buffer) to 0.1 g of soil, applied an intermediate degree of agitation through shaking, and used a Nycodenz density gradient to separate the cells from background debris. This procedure resulted in a high (average, 89%) level of cell recovery. Recovery efficiencies did not differ significantly among sites across an elevation gradient but were positively correlated with percent carbon in the soil samples. Estimated abundances were also highly repeatable between technical replicates. The method was applied to samples from two field studies and, in both cases, was sensitive enough to detect treatment and site differences in bacterial abundances. We conclude that FCM offers a fast and sensitive method to assay soil bacterial abundance from relatively small amounts of soil. Further work is needed to assay differential biases of the method across a wider range of soil types. IMPORTANCE The ability to quantify bacterial abundance is important for understanding the contributions of microbial communities in soils, but such assays remain difficult and time-consuming. Flow cytometry offers a fast and direct way to count bacterial cells, but several concerns remain in applying the technique to soils. This study aimed to improve the efficiency of the method for soil while quantifying its limitations. We demonstrated that an optimized procedure was sensitive enough to capture differences in bacterial abundances among treatments and ecosystems in two field studies.

54 ENVIRONMENTAL SCIENCES↗

Deep learning assisted jet tomography for the study of Mach cones in QGP

Abstract Mach cones are expected to form in the expanding quark-gluon plasma (QGP) when energetic quarks and gluons traverse the hot medium at a velocity faster than the speed of sound in high-energy heavy-ion collisions. The shape of the Mach cone and the associated diffusion wake are sensitive to the initial jet production location and the propagation direction of the parton shower relative to the radial flow because of the distortion caused by the collective expansion of the QGP and the large density gradient. The shape of jet-induced Mach cones and their distortions in heavy-ion collisions provide a unique and direct probe of the dynamical evolution and the equation of state of QGP. However, it is difficult to identify the Mach cone and the diffusion wake in current experimental measurements of final hadron distributions because they are averaged over all possible initial jet production locations and parton-shower propagation directions. To overcome this difficulty, we develop a deep learning assisted jet tomography which uses the full information of the final hadrons from jets to localize the initial jet production positions. This method can help to constrain the initial regions of jet production in heavy-ion collisions and enable a differential study of Mach-cones with different path lengths and orientations relative to the radial flow of the QGP in heavy-ion collisions.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗