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At least 91 records · Page 5

Multi‐season analysis reveals hundreds of drought‐responsive genes in sorghum

Persistent drought affects global crop production and is becoming more severe in many parts of the world in recent decades. Deciphering how plants respond to drought will facilitate the development of flexible mitigation strategies. Sorghum bicolor L. Moench (sorghum), a major cereal crop and an emerging bioenergy crop, exhibits remarkable resilience to drought. To better understand the molecular traits that underlie sorghum's remarkable drought tolerance, we undertook a large-scale sorghum gene expression profiling effort, totaling nearly 1500 transcriptome profiles, across a 3-year field study with replicated plots in California's Central Valley. This study included time-resolved gene expression data from roots and leaves of two sorghum genotypes, BTx642 and RTx430, with different pre-flowering and post-flowering drought-tolerance adaptations under control and drought conditions. Quantification of genotype-specific drought tolerance effects was enabled by de novo sequencing, assembly, and annotation of both BTx642 and RTx430 genomes. These reference-quality genomes were used to construct a pangene set for characterizing conserved and genotype-specific expression. By integrating time-resolved transcriptomic responses to drought in the field across three consecutive years, we identified a set of 726 drought-responsive genes that responded similarly in all 3 years of our field study. Functional enrichment analysis identified abiotic stress, secondary cell wall-related processes and metabolism as particularly affected under both types of drought stress. We also found that some glyoxylate cycle pathway genes, including malate synthase and isocitrate lyase, are differentially regulated particularly during post-flowering drought stress, implicating this pathway as potentially important for drought responsiveness. This expansive dataset represents a unique resource for sorghum and drought research communities and provides a methodological framework for the integration of multi-faceted time-resolved transcriptomic datasets.

Cole, Benjamin [USDOE Joint Genome Institute (JGI)↗

Beam-Impedance Considerations for the EIC HSR Screen

The hadron storage ring (HSR) of the Electron-Ion Collider (EIC) will use the superconducting magnets from the Relativistic Heavy Ion Collider (RHIC). However, the beam pipes of these magnets show too large resistive-wall impedance and secondary electron yield to the HSR beams. The planned solution is to install beam screens that feature a thin film of amorphous carbon with low SEY on top of a high RRR copper layer for reduced impedance. This note discusses beam-impedance considerations that impact the EIC HSR beam screen design.

43 PARTICLE ACCELERATORS↗

CdZnTeSe: Recent advances for radiation detector applications

The quest for cost-effective, high performing room temperature semiconductor detector (RTSD) materials for high energy gamma rays has been continuing for more than three decades. The requirements for RTSD materials, however, are more stringent as compared to other applications unrelated to detection of X- and gamma-rays, mainly due to the requirement of thick detectors for sufficient absorption of high-energy electromagnetic radiation and excellent charge-transport properties. The II-VI compound CdZnTe (CZT) with the composition of 10 atomic % Zn (Cd0.9Zn0.1Te) has been the material of choice over the past several years, and it has dominated the commercial market for RTSD materials and detectors. Despite its commercial success as a room temperature radiation detection material, CZT suffers from a lack of compositional homogeneity on both a micro- and macro-scale and the presence of high concentrations of sub-grain boundary (dislocation walls) networks and secondary phases (Te-rich inclusions). This chapter focuses on the presence of performance-limiting defects in CZT that hinder the yield and elevate the cost of high-quality detectors. The presence of such performance-limiting defects has restricted widespread deployment of CZT for a variety of potential applications, particularly for uses of relatively large detectors where the demands on material perfection are significantly greater. In the recent past, replacing some of the tellurium with selenium in the CZT matrix was found to be very effective in drastically reducing the Te-rich secondary phases and dislocation networks, plus

Roy, Utpal N.↗

Investigating the Effect of Water on the Mechanical Properties of Cellulose from Multiscale Molecular Dynamics Simulations

Classical molecular dynamics (MD) simulations provide insight into the structure and physicochemical properties of materials with atomic resolution. However, the length and time scales accessible to atomistic MD are orders of magnitude smaller than many relevant processes such as the response of a bulk material to experimentally accessible strain rates, which presents challenges when comparing models to experimental measurements. Bottom-up coarse-graining provides a means for systematically mapping atomistic information to lower resolution models to increase the length and time scales achievable by simulation. Cellulose is an abundant carbohydrate biopolymer with applications to many fields of research, such as materials science and renewable energy, due to its desirable mechanical properties and viability for conversion into biofuel. The effect of moisture content on the Young's modulus of cellulose is of special interest due to its native environment often being in the hydrated secondary plant cell wall and the grinding energy requirements for biomass feedstock preprocessing. The current work investigates the effects of water solvent on the Young's modulus of cellulose calculated from coarse-grained MD mechanical stress simulations. The coarse-grained model was parametrized from atomistic MD calculations of cellulose-cellulose potentials of mean force using umbrella sampling techniques under vacuum and solvated conditions. The Young's moduli of the coarse-grained cellulose assemblies parametrized from cellulose in vacuum or solvated in water were computed via mechanical stress simulations to highlight the importance of capturing solvent interactions for modeling the mechanical behavior of cellulose.

BASIC BIOLOGICAL SCIENCES,RADIATION PROTECTION AND↗

Effects of oxidation and impurities in lithium surfaces on the emitting wall plasma sheath

The use of lithium as a surface coating in fusion devices improves the plasma performance, but the change in the wall properties affects the secondary electron emission properties of the material. Lithium oxidizes easily, which drives the emission yield well above unity. We present here simulations demonstrating the change in the sheath structure from monotonic to the nonmonotonic space-charge limited sheath using an energy-dependent data-driven emission model, which self-consistently captures both secondary emission and backscattering populations. Increased secondary electron emission from the material has ramifications for the degradation and erosion of the wall. The results show that the oxidation leads to an increased electron energy flux into the wall and a reduced ion energy flux. The net transfer of energy to the surface is significantly greater for the oxidized case than for the pure lithium case. High backscattering rates of low-energy particles lead to a high re-emission rate at the wall.

Fusion reactors↗

Energy-dependent implementation of secondary electron emission models in continuum kinetic sheath simulations

The plasma-material interactions present in multiple fusion and propulsion concepts between the flow of plasma through a channel and a material wall drive the emission of secondary electrons. This emission is capable of altering the fundamental structure of the sheath region, significantly changing the expected particle fluxes to the wall. The emission spectrum is separated into two major energy regimes, a peak of elastically backscattered primary electrons at the incoming energy, and cold secondary electrons inelastically emitted directly from the material. The ability of continuum kinetic simulations to accurately represent the secondary electron emission is limited by relevant models being formulated in terms of monoenergetic particle interactions which cannot be applied directly to the discrete distribution function. As a result, rigorous implementation of energy-dependent physics is often neglected in favor of simplified, constant models. We present here a novel implementation of semi-empirical models in the boundary of continuum kinetic simulations which allows the full range of this emission to be accurately captured in physically-relevant regimes.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

The molecular architecture distinctions between compression, opposite and normal wood of Pinus radiata

In gymnosperms compression wood is a specialised type of structural cell wall formed in response to biomechanical stresses. The differences in terms of gross structure, ultrastructure and chemistry are well-known. However, the differences between compression wood, normal wood, and opposite wood regarding the arrangements and interactions of the various polymers and water within their cell walls still needs to be established. The analysis of 13 C-labelled Pinus radiata by solid-state NMR spectroscopy and other complementary techniques revealed several new aspects of compression and opposite wood molecular architecture. Compared to normal wood, compression wood has a lower water content, its overall nanoporosity is reduced, and the water and matrix polymers have a lower molecular mobility. Galactan, which is a specific marker of compression wood, is broadly distributed within the cell wall, disordered, and not aligned with cellulose, and is found to be in close proximity to xylan. Dehydroabietic acid (a resin acid) is immobilised and close to the H-lignin only in compression wood. Although the overall molecular mobility of normal wood and opposite wood are similar, opposite wood has different arabinose conformations, a large increase in the amount of chain ends, contains significantly more galactan and has additional unassigned mobile components highlighting the different molecular arrangement of cell wall polymers in opposite and normal wood.

59 BASIC BIOLOGICAL SCIENCES↗

Integrated positron emission particle tracking (PEPT) and X-ray computed tomography (CT) imaging of flow phenomena in twisted tape swirl flow

Abstract A combined positron emission particle tracking (PEPT) and X-ray computed tomography (CT) technique is presented, and its utility is demonstrated through investigation of flow in a pipe with twisted tape swirl insert with varying flow conditions (diameter-based Reynolds numbers 16,300–63,300). A description of this technique is given, as well as data handling practices used to relate geometric information captured by CT to fluid flow data gathered via PEPT. It is found that the CT component is readily capable of capturing the stainless steel insert geometry in this present system, but the use of combined plastic and metal materials leads to artifacts in imaging of the plastic surface. Nonetheless, CT data are related to PEPT flow measurements, and average velocity fields are calculated via a pseudo-framing and interpolation scheme and used to visualize and interrogate key flow phenomena within the system. Radial velocity profiles of the mean flow characteristics are seen to collapse to a nearly common form across all flow conditions considered. Helical vortices are seen propagating through the flow field, generated by bypass flow around the gap between the insert and pipe wall, with additional coherent secondary flow structures seen in the higher Reynolds number cases. These findings enhance the understanding of the mixing mechanisms in these swirl flows and encourage the continued development of PEPT-CT methodologies for 3D flow measurements in optically inaccessible systems.

42 ENGINEERING↗

Wall modes and the transition to bulk convection in rotating Rayleigh-Bénard convection

We investigate states of rapidly rotating Rayleigh-Bénard convection in a cylindrical cell over a range of Rayleigh numbers 3 × 10 5 ≤ Ra ≤ 5 × 10 9 and Ekman numbers 10 − 6 ≤ Ek ≤ 10 − 4 for Prandtl number Pr = 0.8 and aspect ratios 1 / 5 ≤ Γ ≤ 5 using direct numerical simulations. We characterize, for perfectly insulating sidewall boundary conditions, the first transition to convection via wall mode instability and the nonlinear growth and instability of the resulting wall mode states, including a secondary transition to time dependence. We show how the radial structure of the vertical velocity u z and the temperature T is captured well by the linear eigenfunctions of the wall mode instability where the radial width of u z is δ u z ∼ Ek 1 / 3 r / H whereas δ T ∼ e − k r ( k is the wave number of a laterally infinite wall mode state). The disparity in spatial scales for Ek = 10 − 6 means that the heat transport is dominated by the radial structure of u z since T varies slowly over the radial scale δ u z . We further describe how the transition to a state of bulk convection is influenced by the presence of the wall mode states. We use temporal and spatial scales as measures of the local state of convection and the Nusselt number Nu as representative of global transport. Our results elucidate the evolution of the wall state of rotating convection and confirm that wall modes are strongly linked with the boundary zonal flow being the robust remnant of nonlinear wall mode states. We also show how the heat transport ( Nu ) contributions of wall modes and bulk modes are related and discuss approaches to disentangling their relative contributions. Published by the American Physical Society 2024

58 GEOSCIENCES↗

The development of extracellular vesicle markers for the fungal phytopathogen Colletotrichum higginsianum

Fungal phytopathogens secrete extracellular vesicles (EVs) associated with enzymes and phytotoxic metabolites. While these vesicles are thought to promote infection, defining the true contents and functions of fungal EVs, as well as suitable protein markers, is an ongoing process. To expand our understanding of fungal EVs and their possible roles during infection, we purified EVs from the hemibiotrophic phytopathogen Colletotrichum higginsianum, the causative agent of anthracnose disease in multiple plant species, including Arabidopsis thaliana. EVs were purified in large numbers from the supernatant of protoplasts but not the supernatant of intact mycelial cultures. We purified two separate populations of EVs, each associated with over 700 detected proteins, including proteins involved in vesicle transport, cell wall biogenesis and the synthesis of secondary metabolites. We selected two SNARE proteins (Snc1 and Sso2) and one 14-3-3 protein (Bmh1) as potential EV markers and generated transgenic strains expressing fluorescent fusions. Each marker was confirmed to be protected inside EVs. Fluorescence microscopy was used to examine the localization of each marker during infection on Arabidopsis leaves. These findings further our understanding of EVs in fungal phytopathogens and will help build an experimental system to study EV interkingdom communication between plants and fungi.

14-3-3 proteins↗

Peak cooling load shift capability of a thermal energy storage system integrated with an active insulation system in US climate zones

This study aims to evaluate a thermal energy storage (TES) system integrated with an active insulation system (AIS) to form a TES + AIS integrated wall system as a partition and as a secondary cooling system to shift the peak load and reduce cooling energy consumption. To understand and demonstrate its cooling performance, the TES + AIS integrated wall system was installed in an office building in Oak Ridge, Tennessee. To investigate the effect of the TES + AIS integrated wall system in a typical office building and various climate zones, the US Department of Energy’s prototype office building model was modified to accommodate the proposed system. In this work, results showed that the minimum size of the proposed system to achieve energy savings varies depending on climate conditions. The minimum size of the proposed system for cooling energy saving and shifting peak cooling demand in climate zones 2, 3, and 5 is 29.7 m 2 , whereas it is 44.6 m 2 in zones 4 and 6. By installing the minimum size of the proposed system, 11.3 % to 16.4 % of cooling energy can be shifted during discharge hours in a representative summer day.

25 ENERGY STORAGE↗

Unstable turbulent channel flow response to spanwise-heterogeneous heat fluxes: Prandtl's secondary flow of the third kind

Turbulent secondary flows are defined as Prandtl's secondary flow of the first or second kind, the former produced by stretching and/or tilting of vorticity, the latter produced via spatial heterogeneity of Reynolds stresses. Both mechanisms are instantaneously active within inertia-dominated wall turbulence; Reynolds stress spatial heterogeneity is required for Reynolds-averaged secondary flows. Spanwise-variable surface roughness can induce turbulent stress spatial heterogeneity in the spanwise–wall-normal plane and provide sustenance for streamwise-aligned mean secondary flows. Herein, we demonstrate that turbulent secondary flows can also be sustained by spanwise variability in the surface heat flux in unstably stratified turbulent channels, defined hereafter as Prandtl's secondary flow of the third kind. Support for this mechanism is established with scaling arguments, while large-eddy simulation is used to model inertia-dominated channel turbulence responding to a lower boundary with uniform aerodynamic/hydrodynamic roughness but spanwise-variable surface heat flux. Transport equations for streamwise vorticity and turbulent kinetic energy, k, outline the conditions needed for third-kind production: shear and buoyancy production over the elevated heat flux regions necessitates lateral entrainment of low- k fluid, inducing mean counter-rotating secondary cells aligned such that upwelling and downwelling occur over the high and low heat flux regions, respectively. Buoyancy-driven production of k alters aggregate flow response and thus is a distinctly different mechanism responsible for sustenance of secondary flows.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

In-situ thermal analysis of intermetallic and thermite projectiles in high velocity impact experiments

Particle fragmentation influences thermochemical energy conversion processes in different ways and is of significance in energy generation technologies. Different reactive material formulations trigger varied thermal response in extreme environments such as high velocity impact. Here we investigated optical thermal response of powder gun launched intermetallic (Al:Zr) and thermite (Al:MoO 3 ) projectiles using pyrometry and thermography. Projectiles were launched at 1250 m/s into an air-filled chamber and impacted a steel witness plate to create a dust explosion. The pyrometer was configured to measure temperatures directly at the point of impact, while the thermographic system measured temperatures throughout the explosion chamber. Results show that impact temperatures ranged between 3500 and 4000 K, but that the dynamics of energy conversion were different for the intermetallic and thermite projectiles. The intermetallic exhibited secondary reactions due to fragmented debris impacting the walls of the chamber. The thermite exhibited greater gas generation, propelling the debris field, and producing a more stochastic response with faster spreading and dissipation of thermal energy. Unique features such as microexplosions within fragmented particles were also analyzed. While both reactive materials produce similar temperatures, their mechanisms of energy conversion and release are different, indicating the potential of these materials for different ballistic applications.

42 ENGINEERING↗

Measuring calcium content in plants using NEXAFS spectroscopy

Calcium is important for the growth and development of plants. It serves crucial functions in cell wall and cell membrane structure and serves as a secondary messenger in signaling pathways relevant to nutrient and immunity responses. Thus, measuring calcium levels in plants is important for studies of plant biology and for technology development in food, agriculture, energy, and forest industries. Often, calcium in plants has been measured through techniques such as atomic absorption spectrophotometry (AAS), inductively coupled plasma–mass spectrometry (ICP-MS), and electrophysiology. These techniques, however, require large sample sizes, chemical extraction of samples or have limited spatial resolution. Here, we used near-edge X-ray absorption fine structure (NEXAFS) spectroscopy at the calcium L- and K-edges to measure the calcium to carbon mass ratio with spatial resolution in plant samples without requiring chemical extraction or large sample sizes. We demonstrate that the integrated absorbance at the calcium L-edge and the edge jump in the fluorescence yield at the calcium K-edge can be used to quantify the calcium content as the calcium mass fraction, and validate this approach with onion epidermal peels and ICP-MS. We also used NEXAFS to estimate the calcium mass ratio in hypocotyls of a model plant, Arabidopsis thaliana , which has a cell wall composition that is similar to that of onion epidermal peels. These results show that NEXAFS spectroscopy performed at the calcium edge provides an approach to quantify calcium levels within plants, which is crucial for understanding plant physiology and advancing plant-based materials.

59 BASIC BIOLOGICAL SCIENCES↗

Laser-stimulated photodetachment of electrons from the negatively charged dielectric substrates

The photon-stimulated emission of bulk electrons has been extensively studied for various types of materials, while the photodetachment of surplus surface electrons has not been fully explored. The photodetachment barrier energy is commonly defined by the surface electron affinity of material, which is typically less than the work function and more pronounced for non-conducting substrates and in environments with a continuous flux of electrons to the surface, such as in gas discharge plasmas. Herein, it is experimentally shown that the photodetachment yield of surplus electrons created by plasma-induced charging of non-conductive surfaces of dielectric materials depends on the initial surface charge density and do not correlate with the tabulated affinity values of these materials under gas discharge charging conditions. In cocnclusion, this result obtained using laser-stimulated photodetachment for fused silica, boron nitride, and alumina, is critically important for the understanding of charging and discharging dynamics, secondary electron emission, and photo emission effects affecting plasma–wall interactions relevant to surface and capacitively coupled discharges, dusty plasmas, electrostatic probe diagnostics, and applications for plasma processing of materials, plasma propulsion, and gas breakdown.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Measurements and modeling of type-I and type-II ELMs heat flux to the DIII-D divertor

Type-I and type-II edge-localized-modes (ELMs) heat flux profiles measured at the DIII-D divertor feature a peak in the vicinity of the strike-point and a plateau in the scrape-off-layer (SOL), which extends to the first wall. The plateau is present in attached and detached divertors and it is found to originate with plasma bursts upstream in the SOL. The integrated ELM heat flux is distributed at ~65% in the peak and ~35% in this plateau. The parallel loss model, currently used at ITER to predict power loads to the walls, is benchmarked using these results in the primary and secondary divertors with unprecedented constraints using experimental input data for ELM size, radial velocity, energy, electron temperature and density, heat flux footprints and number of filaments. The model can reproduce the experimental near-SOL peak within ~20%, but cannot match the SOL plateau. Employing a two-component approach for the ELM radial velocity, as guided by intermittent data, the full radial heat flux profile can be well matched. The ELM-averaged radial velocity at the separatrix, which explains profile widening, increases from ~0.2 km s –1 in attached to ~0.8 km s –1 in detached scenarios, as the ELM filaments' path becomes electrically disconnected from the sheath at the target. The results presented here indicate filaments fragmentation as a possible mechanism for ELM transport to the far-SOL and provide evidence on the beneficial role of detachment to mitigate ELM flux in the divertor far-SOL. However, these findings imply that wall regions far from the strike points in future machines should be designed to withstand significant heat flux, even for small-ELM regimes.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗