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DOE OSTI2022

High-throughput characterization, correlation, and mapping of leaf photosynthetic and functional traits in the soybean ( Glycine max ) nested association mapping population

We report photosynthesis is a key target to improve crop production in many species including soybean [Glycine max (L.) Merr.]. A challenge is that phenotyping photosynthetic traits by traditional approaches is slow and destructive. There is proof-of-concept for leaf hyperspectral reflectance as a rapid method to model photosynthetic traits. However, the crucial step of demonstrating that hyperspectral approaches can be used to advance understanding of the genetic architecture of photosynthetic traits is untested. To address this challenge, we used full-range (500–2,400 nm) leaf reflectance spectroscopy to build partial least squares regression models to estimate leaf traits, including the rate-limiting processes of photosynthesis, maximum Rubisco carboxylation rate, and maximum electron transport. In total, 11 models were produced from a diverse population of soybean sampled over multiple field seasons to estimate photosynthetic parameters, chlorophyll content, leaf carbon and leaf nitrogen percentage, and specific leaf area (with R 2 from 0.56 to 0.96 and root mean square error approximately <10% of the range of calibration data). We explore the utility of these models by applying them to the soybean nested association mapping population, which showed variability in photosynthetic and leaf traits. Genetic mapping provided insights into the underlying genetic architecture of photosynthetic traits and potential improvement in soybean. Notably, the maximum Rubisco carboxylation rate mapped to a region of chromosome 19 containing genes encoding multiple small subunits of Rubisco. We also mapped the maximum electron transport rate to a region of chromosome 10 containing a fructose 1,6-bisphosphatase gene, encoding an important enzyme in the regeneration of ribulose 1,5-bisphosphate and the sucrose biosynthetic pathway. The estimated rate-limiting steps of photosynthesis were low or negatively correlated with yield suggesting that these traits are not influenced by the same genetic mechanisms and are not limiting yield in the soybean NAM population. Leaf carbon percentage, leaf nitrogen percentage, and specific leaf area showed strong correlations with yield and may be of interest in breeding programs as a proxy for yield. This work is among the first to use hyperspectral reflectance to model and map the genetic architecture of the rate-limiting steps of photosynthesis.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2022

Gaussian processes meet NeuralODEs: a Bayesian framework for learning the dynamics of partially observed systems from scarce and noisy data

We present a machine learning framework (GP-NODE) for Bayesian model discovery from partial, noisy and irregular observations of nonlinear dynamical systems. The proposed method takes advantage of differentiable programming to propagate gradient information through ordinary differential equation solvers and perform Bayesian inference with respect to unknown model parameters using Hamiltonian Monte Carlo sampling and Gaussian Process priors over the observed system states. This allows us to exploit temporal correlations in the observed data, and efficiently infer posterior distributions over plausible models with quantified uncertainty. The use of the Finnish Horseshoe as a sparsity-promoting prior for free model parameters also enables the discovery of parsimonious representations for the latent dynamics. A series of numerical studies is presented to demonstrate the effectiveness of the proposed GP-NODE method including predator–prey systems, systems biology and a 50-dimensional human motion dynamical system. This article is part of the theme issue ‘Data-driven prediction in dynamical systems’.

Science & Technology - Other Topics↗

DOE OSTI2020

Angle-resolved nonresonant two-photon single ionization of argon using 9.3-eV photons produced via high-order harmonic generation

Here we present an experimental study on the photoionization dynamics of nonresonant one-color two-photon single valence ionization of neutral argon atoms. Using 9.3-eV photons produced via high harmonic generation and a three-dimensional momentum imaging spectrometer, we detect the photoelectrons and ions produced from nonresonant two-photon ionization in coincidence. Photoionization from the $3p$ orbital produces a photoelectron scattering wave function with $p$- and $f$-partial-wave components, which interfere and result in a photoelectron angular distribution with peak amplitude perpendicular to the vacuum ultraviolet polarization. The comparison between the present results and the two previous sets of theoretical calculations [Phys. Rev. A 44, 324 (1991), and J. Phys. B: At. Mol. Phys. 16, 2737 (1983)] indicates that electron-electron correlation contributes appreciably to the two-photon ionization dynamics.

74 ATOMIC AND MOLECULAR PHYSICS↗

DOE OSTI2024

Associations between regional blood-brain barrier permeability, aging, and Alzheimer’s disease biomarkers in cognitively normal older adults

Background Increased blood-brain barrier permeability (BBBp) has been hypothesized as a feature of aging that may lead to the development of Alzheimer’s disease (AD). We sought to identify the brain regions most vulnerable to greater BBBp during aging and examine their regional relationship with neuroimaging biomarkers of AD. Methods We studied 31 cognitively normal older adults (OA) and 10 young adults (YA) from the Berkeley Aging Cohort Study (BACS). Both OA and YA received dynamic contrast-enhanced MRI (DCE-MRI) to quantify K trans values, as a measure of BBBp, in 37 brain regions across the cortex. The OA also received Pittsburgh compound B (PiB)-PET to create distribution volume ratios (DVR) images and flortaucipir (FTP)- PET to create partial volume corrected standardized uptake volume ratios (SUVR) images. Repeated measures ANOVA assessed the brain regions where OA showed greater BBBp than YA. In OA, K trans values were compared based on sex, Aβ positivity status, and APOE4carrier status within a composite region across the areas susceptible to aging. We used linear models and sparse canonical correlation analysis (SCCA) to examine the relationship between K trans and AD biomarkers. Results OA showed greater BBBp than YA predominately in the temporal lobe, with some involvement of parietal, occipital and frontal lobes. Within an averaged ROI of affected regions, there was no difference in K trans values based on sex or Aβ positivity, but OA who were APOE4carriers had significantly higher K trans values. There was no direct relationship between averaged K trans and global Aβ pathology, but there was a trend for an Ab status by tau interaction on K trans in this region. SCCA showed increased K trans was associated with increased PiB DVR, mainly in temporal and parietal brain regions. There was not a significant relationship between K trans and FTP SUVR. Discussion Our findings indicate that the BBB shows regional vulnerability during normal aging that overlaps considerably with the pattern of AD pathology. Greater BBBp in brain regions affected in aging is related to APOE genotype and may also be related to the pathological accumulation of Aβ.

Science & Technology - Other Topics↗

DOE OSTI2023

Flexoelectricity and New Phenomena

It is easy to miss the scientific implications of our recent work on Triboelectricity. Everyone knows that rubbing and contact can produce static electricity; less appreciated is that the thermodynamic driver has been an open question since static electricity was first observed by Thales of Miletus around 585 BC. People think they understand it, for instance one common explanation that can still be found in the current literature is that differences in the work function drives charge transfer, often called the Volta-Helmholtz hypothesis. As summarized in 1967 by Harper, this fails to explain many experimental observations, for instance that charging can occur when two pieces of the same material are rubbed against each other. We are the first to place triboelectricity on a solid foundation rooted in quantum mechanics – the flexoelectric effect. We were able to explain a significant number of previously unexplained phenomena: 1) Bipolar tribocurrents associated with stick-slip, due to the change in sign of the strain gradients. 2) A one-third power scaling of tribocurrents with indentation force. 3) Tribocharging when two identical materials are used, these being due to local variations in the asperities so there are usually local potential differences. 4) Inhomogeneous charging of insulators, related to the statistical nature of asperities. 5) An experimentally observed reversal in the sign of charge transfer for negative and positive curvature, which is related to a change in the sign of the strain gradient. Exploiting our DOE prior funded work on flexoelectricity, we obtained semi-quantitative matching to existing experimental measurements of the surface charge in triboelectric experiments. The work has been well received in the literature. The work has been the focus of a number of popular science press articles, and also formed the basis for a Podcast for children 6-10 “The Rise and Fall of Static Man” posted in December 2019 by NPR as part of their “Wow in the World” series. I was also briefly interviewed by the Chicago PBS station in January 2020. This work are significant for a wide range of energy applications; to quote from an independent source: "Triboelectric power has plenty of potential, says Wenzhuo Wu, an assistant professor of engineering at Purdue. If the basics of static electricity are better understood, we could maximize the efficiency of wind or wave power generators, Wu says. The body's own movement could be used to power internal medical devices. Imagine being able to create a roof shaped to harness the power of a raindrop — the friction of the rain passing over the surface — to generate triboelectricity, powering the building below it." This is the start of new science, some of which we already partially understand such as the role of band bending in charge transfer. We need to understand charge transfer combining elasticity, quantum mechanics, band bending and defect states. These directly involve several of the DOE Grand Challenges: "How do we control material processes at the level of electrons? How do remarkable properties of matter emerge from complex correlations of the atomic or electronic constituents and how can we control these properties? How do we characterize and control matter away—especially very far away— from equilibrium?" I will argue that this work truly falls into the class of disruptive science; it is not just a simple extension, linear science. Not everyone will accept the approach. Since we explain far more about triboelectricity than anyone before, the preponderance of evidence supports the model. The feedback I have received is that many agree with the work, to quote: "The model makes sense, says Michael McAlpine, a professor of engineering at the University of Minnesota. "It's such a simple explanation, I was surprised I didn't put my finger on that," McAlpine says." The proposal received strong reviews. It was also publicized on the Department of Energy Web Site.

16 TIDAL AND WAVE POWER↗

DOE OSTI2020

Scattering equations in AdS: scalar correlators in arbitrary dimensions

We introduce a bosonic ambitwistor string theory in AdS space. Even though the theory is anomalous at the quantum level, one can nevertheless use it in the classical limit to derive a novel formula for correlation functions of boundary CFT operators in arbitrary space-time dimensions. The resulting construction can be treated as a natural extension of the CHY formalism for the flat-space S-matrix, as it similarly expresses tree-level amplitudes in AdS as integrals over the moduli space of Riemann spheres with punctures. These integrals localize on an operator-valued version of scattering equations, which we derive directly from the ambitwistor string action on a coset manifold. As a testing ground for this formalism we focus on the simplest case of ambitwistor string coupled to two cur- rent algebras, which gives bi-adjoint scalar correlators in AdS. In order to evaluate them directly, we make use of a series of contour deformations on the moduli space of punctured Riemann spheres and check that the result agrees with tree level Witten diagram computations to all multiplicity. We also initiate the study of eigenfunctions of scattering equations in AdS, which interpolate between conformal partial waves in different OPE channels, and point out a connection to an elliptic deformation of the Calogero-Sutherland model.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2022

Assessing physics of ion temperature gradient turbulence via hierarchical reduced-model representations

In this work, the saturation physics of ion temperature gradient (ITG) turbulence is probed by studying how amplitudes and scalings with key parameters vary across a hierarchy of reduced models. The models derive from nonlinear fluid equations for toroidal ITG turbulence under approximations to the mode coupling interactions in wavenumber space and the representation of turbulent decorrelation. Mode coupling approximations include local-in-wavenumber treatments like the spectral density of flux in quasilinear theory, a truncation to three nonlinearly interacting waves, and the interactions in a cascade to high radial wavenumber mediated by a single zonal flow. Turbulent decorrelation treatments are based on the triplet correlation time with and without eddy damping. Model fidelity is assessed by the scalings and magnitudes of the squared amplitudes of unstable mode, stable mode, and zonal flow with respect to the flow-damping rate and temperature gradient. It is shown that all models reproduce fundamental scalings, provided they incorporate the coupling of unstable mode, stable mode, and zonal flow. Accurate amplitude prediction requires eddy damping in the triplet correlation time and proper representation of the zonal-flow drive by interactions associated with the radial wavenumber cascade.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2024

Using Machine Learning to Predict Cloud Turbulent Entrainment–Mixing Processes

Different turbulent entrainment–mixing mechanisms between clouds and environment are essential to cloud–related processes; however, accurate representation of entrainment–mixing in weather/climate models still poses a challenge. This study exploits the use of machine learning (ML) to address this challenge. Four ML (Light Gradient Boosting Machine [LGB], eXtreme Gradient Boosting, Random Forest, and Support Vector Regression) are examined and compared. It is found that LGB performs best, and thus is selected to understand the impact of entrainment–mixing on microphysics using simulation data from Explicit Mixing Parcel Model. Compared with traditional parameterizations, the trained LGB provides more accurate microphysical properties (number concentration and cloud droplet spectral dispersion). The partial dependences of predicted microphysics on features exhibit a strong alignment with physical mechanisms and expectations, as determined by the interpreting method, thus overcoming the limitations of the “black box” scheme. The underlying mechanisms are that the smaller number concentration and larger spectral dispersion correspond to more inhomogeneous entrainment–mixing. Specifically, number concentration after entrainment–mixing is positively correlated with adiabatic number concentration and liquid water content affected by entrainment–mixing, and inversely correlated with adiabatic volume mean radius. Spectral dispersion after entrainment–mixing is negatively correlated with liquid water content affected by entrainment–mixing, turbulent dissipation rate and relative humidity of entrained air. Sensitivity analysis further suggests that number concentration is mainly determined by cloud microphysical properties whereas spectral dispersion is influenced by both cloud microphysical properties and environmental variables. The results indicate that the LGB scheme has the potential to enhance the representation of entrainment–mixing in weather/climate models.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2024

Stochastic modeling of x-ray superfluorescence

An approach to modeling the dynamics of x-ray amplified spontaneous emission and superfluorescence, the phenomenon of collective x-ray emission initiated by intense pulses of x-ray free-electron lasers, is developed based on stochastic partial differential equations. The equations are derived from first principles, and the relevant approximations, derivation steps, and extensions specific to stimulated x-ray emission are presented. The resulting equations take the form of three-dimensional generalized Maxwell-Bloch equations augmented with noise terms for both field and atomic variables. The derived noise terms possess specific correlation properties that enable the correct reconstruction of spontaneous emission. Consequently, the developed theoretical formalism is universally suitable for describing all stages of stimulated x-ray emission: spontaneous emission, amplified spontaneous emission, and superfluorescence. Here, we present numerical examples that illustrate various properties of the emitted field, including spatiotemporal coherence and spectral-angular and polarization characteristics. We anticipate that the proposed theoretical framework will establish a robust foundation for interpreting measurements in stimulated x-ray emission spectroscopy, modeling x-ray laser oscillators, and describing other experiments leveraging x-ray superfluorescence.

74 ATOMIC AND MOLECULAR PHYSICS↗

DOE OSTI2023

Understanding the field and frequency dependence of rf loss in SRF cavities

SRF cavities subjected to heat treatment below 200 °C in the presence of nitrogen showed an improvement in quality factor while maintaining an accelerating gradient above 25 MV/m. Here, we report the rf performance of several single-cell superconducting radio frequency cavities with frequency ranging from 0.75 - 3.0 GHz subjected to low temperature heat treatment in nitrogen environment. The cavities were treated at temperature 120 - 175 oC for 24 - 48 hours in low partial pressure of ultra-pure nitrogen gas. The improvement in Q? with Q-rise was observed when nitrogen gas was injected ~300 °C during the furnace treatment. The surface modification was confirmed by the change in electronic mean free path and near surface elemental analysis by SIMS. The field dependence of the rf losses is strongly correlated to the cavity frequency. The analysis of experimental data with available theoretical models as well as comparison with similar study on high temperature nitrogen doped cavities will be presented.

Ciovati, Gianluigi↗

DOE OSTI2021

The Role of Metal Substitution in Tuning Anion Redox in Sodium Metal Layered Oxides Revealed by X‐Ray Spectroscopy and Theory

Abstract We investigate high‐valent oxygen redox in the positive Na‐ion electrode P2‐Na 0.67− x [Fe 0.5 Mn 0.5 ]O 2 (NMF) where Fe is partially substituted with Cu (P2‐Na 0.67− x [Mn 0.66 Fe 0.20 Cu 0.14 ]O 2 , NMFC) or Ni (P2‐Na 0.67− x [Mn 0.65 Fe 0.20 Ni 0.15 ]O 2 , NMFN). From combined analysis of resonant inelastic X‐ray scattering and X‐ray near‐edge structure with electrochemical voltage hysteresis and X‐ray pair distribution function profiles, we correlate structural disorder with high‐valent oxygen redox and its improvement by Ni or Cu substitution. Density of states calculations elaborate considerable anionic redox in NMF and NMFC without the widely accepted requirement of an A‐O‐A′ local configuration in the pristine materials (where A=Na and A′=Li, Mg, vacancy, etc.). We also show that the Jahn–Teller nature of Fe 4+ and the stabilization mechanism of anionic redox could determine the extent of structural disorder in the materials. These findings shed light on the design principles in TM and anion redox for positive electrodes to improve the performance of Na‐ion batteries.

Abate, Iwnetim↗

DOE OSTI2026

Generation of scalable genuine multipartite Gaussian entanglement with a parametric amplifier network

Genuine multipartite entanglement is a valuable resource in quantum information science, as it exhibits inseparability across all possible bipartitions of a multimode quantum state. The large degree of quantum correlations can be exploited in various quantum information protocols, such as teleportation, dense coding, and quantum interferometry. Here, in this study, we propose a scheme to generate scalable genuine multipartite continuous-variable entangled states of light using a parametric amplifier network. We verify the presence of genuine quadripartite, hexapartite, and octapartite entanglement through a violation of the positive partial transpose criteria. Additionally, we use 𝛼-entanglement of formation to demonstrate the scalability of our approach to an arbitrary number of 2⁢𝑁 genuinely entangled parties by taking advantage of the symmetries present in our scheme.

Kim, Saesun [Univ. of Oklahoma, Norman, OK (United↗

DOE OSTI2022

Bandgap and electronic structure of CaSiN 2 : Experiment and theory

Abstract We interrogate the electronic properties of the nitridosilicate CaSiN 2 as determined using soft X‐ray absorption and emission spectroscopy, which probe directly the partial electronic density of states. We compare our measurements to full potential, all electron density functional theory (DFT) calculations. Good agreement between experiment and theory is obtained, and the electronic bandgap of CaSiN 2 is determined to be 3.95 ± 0.3 eV, in contrast with our predicted value of 4.78 eV that was calculated using the modified Becke–Johnson exchange‐correlation functional with the DFT framework.

Materials Science↗

DOE OSTI2023

Ab Initio Simulation of Structure and Properties in Ni-Based Superalloys: Haynes282 and Inconel740

The electronic structure, interatomic bonding, and mechanical properties of two supercell models of Ni-based superalloys are calculated using ab initio density functional theory methods. The alloys, Haynes282 and Inconel740, are face-centered cubic lattices with 864 atoms and eleven elements. These multi-component alloys have very complex electronic structure, bonding and partial-charge distributions depending on the composition and strength of the local bonding environment. We employ the novel concept of total bond order density (TBOD) and its partial components (PBOD) to ascertain the internal cohesion that controls the intricate balance between the propensity of metallic bonding between Ni, Cr and Co, and the strong bonds with C and Al. We find Inconel740 has slightly stronger mechanical properties than Haynes282. Both Inconel740 and Haynes282 show ductile natures based on Poisson’s ratio. Poisson’s ratio shows marginal correlation with the TBOD. Comparison with more conventional high entropy alloys with equal components are discussed.

36 MATERIALS SCIENCE↗

DOE OSTI2024

Responses of summer mesoscale convective systems to irrigation over the North China Plain based on convection-permitting model simulations

Extensive irrigation activities in the North China Plain (NCP) significantly influence regional weather and climate. However, previous studies focusing on the NCP were primarily based on coarse-resolution models, which are unable to explicitly resolve convection systems, causing large uncertainty in precipitation simulations. In this study, a convection-permitting model coupled with a dynamic irrigation scheme is utilized to investigate the impacts of irrigation on summertime mesoscale convective systems (MCSs) over the NCP. Sensitivity experiments with irrigation off and on are conducted for 5 summers and an MCS identification and tracking algorithm is applied to both satellite observations and model simulations. We find that incorporating irrigation in the model increases MCS precipitation, which agrees more with observations. The probability distributions of MCS lifetime, area, propagation speed, and intensity are all better simulated with irrigation. Irrigation increases the occurrence frequency of MCSs throughout the entire day. The nighttime increase is partly because of more frequent local initiation of MCS developed from isolated deep convection, while the daytime increase is mainly attributed to the changes in MCSs initiating elsewhere and then propagating to the NCP. On average, irrigation induces additional moisture that is more thermodynamically favorable for precipitation, but this effect is partially offset by the weakened ascending air motion primarily caused by irrigation surface cooling. Compared to weak MCS precipitation events, strong MCS precipitation events experience greater enhancement in precipitation intensity when including irrigation because the offset effect from the change in large-scale ascending air motion is insignificant. In addition, irrigation makes the variation of MCS precipitation intensity more correlated with the variation in ascending motion but less correlated with that in atmospheric moisture. Our results suggest the pronounced impacts of irrigation on MCSs over the NCP which should be included in numerical models to improve regional precipitation simulation and prediction.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2025

6D large charge and 2D Virasoro blocks

We compute observables in the interacting rank-one 6D 𝒩 =(2,0) superconformal field theory (SCFT) at large 𝑅-charge. We focus on correlators involving Φ 𝑛 , namely symmetric products of the bottom component of the supermultiplet containing the stress tensor. By using the moduli space effective action and methods from the large-charge expansion, we compute the operator product expansion coefficients ⟨Φ 𝑛 ⁢Φ 𝑚 ⁢Φ 𝑛+𝑚 ⟩ in an expansion in 1/𝑛. The coefficients of the expansion are only partially determined from the 6D perspective, but we manage to fix them order-by-order in 1/𝑛 numerically by utilizing the 6⁢D/2⁢D correspondence. This is made possible by the fact that this 6D observable can be extracted in 2D from a specific double-scaling limit of the vacuum Virasoro block, which can be efficiently computed numerically. We also extend the computation to higher-rank SCFTs, and discuss various applications of our results to 6D as well as 2D.

classical solutions in field theory↗

DOE OSTI2021

Electromagnetic turbulence in increased β plasmas in the Large Plasma Device

The variation of pressure-gradient-driven turbulence with plasma $\beta$ (up to $\beta \approx 15\,\%$ ) is investigated in linear, magnetized plasma. The magnitude of magnetic fluctuations is observed to increase substantially with increasing $\beta$ . More importantly, parallel magnetic fluctuations are observed to dominate at higher $\beta$ values, with $\delta B_\parallel / \delta B_\perp \approx 2$ and $\delta B / B_0 \approx 1\,\%$ . Parallel magnetic fluctuations are strongly correlated with density fluctuations and the two are observed to be out of phase. The relative magnitude of and cross-phase between density and parallel magnetic field fluctuations are consistent with the dynamic pressure balance ( $P+{B_{0}^2}/{2\mu _0} = \textrm {constant}$ ). A local slab model theory for electromagnetic, modified drift Alfvén waves, including parallel magnetic fluctuations, shows partial agreement with experimental observations.

Physics↗

DOE OSTI2025

Development of a Flow Stabilization Algorithm Enabling Measurement of Low Oxygen Concentrations in Liquid Sodium

To enhance the automated control of the plugging meter (PM) and thereby enhance detection fidelity in ultralow oxygen environments [≤1 parts per million by weight (wppm)], a novel proportional derivative controller has been implemented with conventional PM hardware. This ramp sign stabilized flow (RSSF) controller manipulates the sign (heating or cooling direction) at a fixed rate, enabling precise temperature adjustment around the saturation temperature of the bulk sodium. This adjustment helps maintain flow stability in a partially formed sodium oxide plug, thus greatly reducing the temperature amplitude in the plugging cycle and promoting simple and accurate oxygen determinations in addition to an increased sampling rate. Rather than relying on the subjective nature of indexing the time when the flow rate changes due to the plugging or unplugging onset to the PM temperature, a running average of the correlated oxygen concentration with time over multiple plugging events can provide oxygen readings ranging from an absolute uncertainty of 500 wppb in real time to less than 50 wppb for a 24-h sampling window. Finally, the RSSF controller was tested at 508 ± 7 wppb with measured oxygen of 542 ± 179 wppb, further reducing the variance between the saturation temperature and the plugging temperature.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗