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DOE OSTI2024

Nonphotochemical quenching kinetics GWAS in sorghum identifies genes that may play conserved roles in maize and Arabidopsis thaliana photoprotection

SUMMARY Photosynthetic organisms must cope with rapid fluctuations in light intensity. Nonphotochemical quenching (NPQ) enables the dissipation of excess light energy as heat under high light conditions, whereas its relaxation under low light maximizes photosynthetic productivity. We quantified variation in NPQ kinetics across a large sorghum ( Sorghum bicolor ) association panel in four environments, uncovering significant genetic control for NPQ. A genome‐wide association study (GWAS) confidently identified three unique regions in the sorghum genome associated with NPQ and suggestive associations in an additional 61 regions. We detected strong signals from the sorghum ortholog of Arabidopsis thaliana Suppressor Of Variegation 3 ( SVR3 ) involved in plastid–nucleus signaling. By integrating GWAS results for NPQ across maize ( Zea mays ) and sorghum‐association panels, we identified a second gene, Non‐yellowing 1 ( NYE1 ), originally studied by Gregor Mendel in pea ( Pisum sativum ) and involved in the degradation of photosynthetic pigments in light‐harvesting complexes. Analysis of nye1 insertion alleles in A. thaliana confirmed the effect of this gene on NPQ kinetics in eudicots. We extended our comparative genomics GWAS framework across the entire maize and sorghum genomes, identifying four additional loci involved in NPQ kinetics. These results provide a baseline for increasing the accuracy and speed of candidate gene identification for GWAS in species with high linkage disequilibrium.

Plant Sciences↗

DOE OSTI2018

The Homogeneous Cooling State as a Verification Test for Kinetic Theory-Based Continuum Models of Gas–Solid Flows

Granular and multiphase (gas–solids) kinetic theory-based models have emerged a leading modeling strategy for the simulation of particle flows. Similar to the Navier–Stokes equations of single-phase flow, although substantially more complex, kinetic theory-based continuum models are typically solved with computational fluid dynamic (CFD) codes. Under the assumptions of the so-called homogeneous cooling state (HCS), the governing equations simplify to an analytical solution describing the “cooling” of fluctuating particle velocity, or granular temperature. The HCS is used here to verify the implementation of a recent multiphase kinetic theory-based model in the open source mfix code. In this work, results from the partial verification test show that the available implicit (backward) Euler time integration scheme converges to the analytical solution with the expected first-order rate. A second-order accurate backward differentiation formula (BDF) is also implemented and observed to converge at a rate consistent with its formal accuracy.

Computational fluid dynamics↗

DOE OSTI2024

Magnetic resonance insights into the heterogeneous, fractal-like kinetics of chemically recyclable polymers

Moving toward a circular plastics economy is a vital aspect of global resource management. Chemical recycling of plastics ensures that high-value monomers can be recovered from depolymerized plastic waste, thus enabling circular manufacturing. However, to increase chemical recycling throughput in materials recovery facilities, the present understanding of polymer transport, diffusion, swelling, and heterogeneous deconstruction kinetics must be systematized to allow industrial-scale process design, spanning molecular to macroscopic regimes. To develop a framework for designing depolymerization processes, we examined acidolysis of circular polydiketoenamine elastomers. We used magnetic resonance to monitor spatially resolved observables in situ and then evaluated these data with a fractal method that treats nonlinear depolymerization kinetics. This approach delineated the roles played by network architecture and reaction medium on depolymerization outcomes, yielding parameters that facilitate comparisons between bulk processes. These streamlined methods to investigate polymer hydrolysis kinetics portend a general strategy for implementing chemical recycling on an industrial scale.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2020

Kinetic pathways of ionic transport in fast-charging lithium titanate

Fast-charging batteries typically use electrodes capable of accommodating lithium continuously by means of solid-solution transformation because they have few kinetic barriers apart from ionic diffusion. One exception is lithium titanate (Li 4 Ti 5 O 12 ), an anode exhibiting extraordinary rate capability apparently inconsistent with its two-phase reaction and slow Li diffusion in both phases. Through real-time tracking of Li+ migration using operando electron energy-loss spectroscopy, we reveal that facile transport in Li 4+x Ti 5 O 12 is enabled by kinetic pathways comprising distorted Li polyhedra in metastable intermediates along two-phase boundaries. Our work demonstrates that high-rate capability may be enabled by accessing the energy landscape above the ground state, which may have fundamentally different kinetic mechanisms from the ground-state macroscopic phases. This insight should present new opportunities in searching for high-rate electrode materials.

25 ENERGY STORAGE↗

DOE OSTI2017

Non-isothermal crystallization kinetics of Fe{sub 2}O{sub 3}–CaO–SiO{sub 2} glass containing nucleation agent P{sub 2}O{sub 5}/TiO{sub 2}

Fe{sub 2}O{sub 3}–CaO–SiO{sub 2} glass ceramics containing nucleation agent P{sub 2}O{sub 5}/TiO{sub 2} were prepared by sol-gel method. The samples were characterized by X-ray diffraction (XRD) and differential scanning calorimetry (DSC). The activation energy and kinetic parameters for crystallization of the samples were calculated by the Johnson-Mehi-Avrami (JMA) model and Augis-Bennett method according to the results of DSC. The results showed that the crystallization mechanism of Fe{sub 2}O{sub 3}–CaO–SiO{sub 2} glass, whose non-isothermal kinetic parameter n = 2.3, was consistent with surface crystallization of the JMA model. The kinetics model function of Fe{sub 2}O{sub 3}–CaO–SiO{sub 2} glass, f(α) = 2.3(1–α)[–ln(1–α)]{sup 0.57}, was also obtained. The addition of nucleation agent P{sub 2}O{sub 5}/TiO{sub 2} could reduce the activation energy, which made the crystal growth modes change from onedimensional to three-dimensional.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

DOE OSTI2018

Temperature-Dependent Kinetic Study of Ammonia Oxidation Reaction on Gas Diffusion Electrodes in NH 3 -Saturated 1 M KOH Solutions

Ammonia oxidation reaction (AOR) is sluggish, especially at ambient temperature. To make kinetic study in electrochemical cell more informative and relevant to the catalysts’ performance in direct ammonia fuel cells (DAFCs) operating at about 100°C, it is desirable to study the AOR kinetics at elevated temperatures. However, ammonia evaporation accelerates with increasing temperature causing decrease of ammonia concentration with time. Here, we show a feasible solution to this issue - let argon gas bubble through concentrated ammonia before entering the electrochemical cell so that the solution can be kept ammonia saturated and oxygen free. Repeatable AOR polarization curves were obtained at temperatures up to 60°C. The AOR activities are characterized by the average currents at 0.5 V versus RHE measured at 20 mV s-1 in potential cycles below the potential of peak current. For PtIr/C, the PGM mass activities are 25 A g-1 at 25°C and 225 A g -1 at 60°C. The results for Pt/C and Ir/C and discussion of the causes for their distinct kinetic behavior will be presented at the meeting.

25 ENERGY STORAGE↗

DOE OSTI2021

Impact of Nickel Ions on the Oxygen Reduction Reaction Kinetics of Pt and on Oxygen Diffusion through Ionomer Thin Films

The effects of dissolved nickel on the oxygen reduction reaction (ORR) kinetics and oxygen transport properties of perfluorosulfonic acid (PFSA) thin films were investigated using rotating disk electrode (RDE) measurements of ORR on a PFSA-coated platinum electrode. The electrochemical characterization in 0.1 M perchloric acid (HClO 4 ) with and without added Ni 2+ quantitatively measured the impact of ionic interactions between the Ni 2+ cations and sulfonate (SO 3 - ) anions on oxygen transport through the PFSA thin film. Cyclic voltammetry (CV) curves in deaerated electrolyte showed that Ni 2+ cations diffusing through the PFSA thin film interact with the Pt surface altering the hydrogen underpotential deposition and stripping processes and decreasing ORR kinetics. The RDE limiting current results point to reduced permeability of oxygen through PFSA-Ni 2+ compared to PFSA-H + . Furthermore, the results indicate that transition metals leached from Pt alloy catalyst may be detrimental not only to the intrinsic ORR kinetics of the PEFC cathode catalyst through loss of the ORR-enhancing transition metal, but may also inhibit the diffusion of oxygen to the catalytic sites and poison the ORR.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2023

Platinum Surface Oxide and Oxygen Reduction Reaction Kinetics during Transient Fuel Cell Operation

Pt surface oxide coverage (POC) and Oxygen Reduction Reaction (ORR) were measured under a range of operating conditions in a Proton Exchange Membrane Fuel Cell (PEMFC). Sensitivity analysis suggests that adsorption of sulfonate groups of the ionomer on the Pt surface plays an important role in POC and ORR kinetics. Although both Pt oxide growth and ORR activity decay follow a logarithm of time behavior, it is found that ORR kinetics are affected by at least two different types of Pt oxide. A semi-empirical ORR kinetic model is proposed taking into account the effect of ionomer and Pt oxide types. The model is capable of providing a quantitative prediction of POC and ORR activity over a range of potential, temperature, relative humidity, and time that is relevant to normal PEMFC operation.

Electrochemistry↗

DOE OSTI2019

Understanding the Role of Complexation in the Charge-Transfer Kinetics of the Cu 2+ + e ↔ Cu 1+ Redox Reaction in Ethaline Deep Eutectic Solvent

Deep eutectic solvent (DES) based electrolytes are gaining attention for electrochemical applications. As such, knowledge of the charge transfer kinetics in DES and its dependence on electrolyte composition and temperature is important. Using Cu 2+ + e ↔ Cu 1+ as a model system, we demonstrate that metal redox reactions in chloride-containing DES media suffer from sluggish charge transfer kinetics. The exchange current density, i 0 , displayed a peculiar inverse relationship with the bulk chloride concentration, [Cl – ] b . The i 0 decreased from 7.9 to 3.0 mA/cm 2 when [Cl – ] b increased from 2.8 to 4.6 M at 30°C. Such dependence is shown to originate from Cl – complexation with reactant and product species. Furthermore, i 0 increased with an increase in Cu n + bulk concentration in the 50–200 mM range. Also, increase in temperature elevated i 0 . The charge transfer coefficient α c , however, remained constant (~0.5) and was unaffected by Cu n + or Cl – concentrations or by temperature. To explain how charge transfer kinetics depend on the various system parameters, a model incorporating complexation phenomena was developed and its predictions were compared to experiments.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2017

Influence of Hydrogen Bonding on the Kinetic Stability of Vapor Deposited Glasses of Triazine Derivatives

It has recently been established that physical vapor deposition (PVD) can produce organic glasses with enhanced kinetic stability, high density, and anisotropic packing, with the substrate temperature during deposition (Tsubstrate) as the key control parameter. The influence of hydrogen bonding on the formation of PVD glasses has not been fully explored. Herein, we use a high-throughput preparation method to vapor-deposit three triazine derivatives over a wide range of Tsubstrate, from 0.69 to 1.08Tg, where Tg is the glass transition temperature. These model systems are structural analogues containing a functional group with different H-bonding capability at the 2-position of a triazine ring: (1) 2-methylamino-4,6-bis(3,5-dimethyl-phenylamino)-1,3,5-triazine (NHMe) (H-bond donor), (2) 2-methoxy-4,6-bis(3,5-dimethyl-phenylamino)-1,3,5-triazine (OMe) (H-bond acceptor), and (3) 2-ethyl-4,6-bis(3,5-dimethyl-phenylamino)-1,3,5-triazine (Et) (none). Using spectroscopic ellipsometry, we find that the Et and OMe compounds form PVD glasses with relatively high kinetic stability, with the transformation time (scaled by the α-relaxation time) on the order of 103, comparable to other highly stable glasses formed by PVD. In contrast, PVD glasses of NHMe are only slightly more stable than the corresponding liquid-cooled glass. Using IR spectroscopy, we find that both the supercooled liquid and the PVD glasses of the NHMe derivative show a higher average number of bonded NH per molecule than that in the other two compounds. These results suggest that H-bonds hinder the formation of stable glasses, perhaps by limiting the surface mobility. Interestingly, despite this difference in kinetic stability, all three compounds show properties typically observed in highly stable glasses prepared by PVD, including a higher density and anisotropic molecular packing (as characterized by IR and wide-angle X-ray scattering).

36 MATERIALS SCIENCE↗

DOE OSTI2017

A Reduced Resistive Wall Mode Kinetic Stability Model for Disruption Forecasting

Kinetic modification of ideal stability theory from stabilizing resonances of mode-particle interaction has had success in explaining resistive wall mode (RWM) stability limits in tokamaks. With the goal of real-time stability forecasting, a reduced kinetic stability model has been implemented in the new Disruption Event Characterization and Forecasting (DECAF) code, which has been written to analyze disruptions in tokamaks. The reduced model incorporates parameterized models for ideal limits on beta, a ratio of plasma pressure to magnetic pressure, which are shown to be in good agreement with DCON code calculations. Increased beta between these ideal limits causes a shift in the unstable region of delta W_K space, where delta W_K is the change in potential energy due to kinetic effects that is solved for by the reduced model, such that it is possible for plasmas to be unstable at intermediate beta but stable at higher beta. Gaussian functions for delta W_K are defined as functions of E cross B frequency and collisionality, with parameters reflecting the experience of the National Spherical Torus Experiment (NSTX). The reduced model was tested on a database of discharges from NSTX and experimentally stable and unstable discharges were separated noticeably on a stability map in E cross B frequency, collisionality space. The reduced model only failed to predict an unstable RWM in 15.6% of cases with an experimentally unstable RWM and performed well on predicting stability for experimentally stable discharges as well.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

DOE OSTI2017

Drift kinetic effects on the plasma response in high beta spherical tokamak experiments

High $\beta$ plasma response to the rotating n=1 external magnetic perturbations is numerically studied and compared with National Spherical Torus eXperiment (NSTX). The hybrid magnetohydrodynamic(MHD)-kinetic modeling shows the drift kinetic effects are important to resolve the disagreement of plasma response between the ideal MHD prediction and the NSTX experimental observation when plasma pressure reaches and exceeds the no-wall limit [F. Troyon et al., Plasma Phys. Control. Fusion \textbf{26}, 209 (1984)]. Since the external rotating fields and high plasma rotation are presented in NSTX experiments, the importance of resistive wall effect and plasma rotation on determining the plasma response is also identified, where the resistive wall suppresses the plasma response through the wall eddy current. The inertial energy, due to plasma rotation, destabilizes the plasma. The complexity of plasma response, in this study, indicates that MHD modeling, including comprehensive physics e.g. the drift kinetic effects, resistive wall and plasma rotation, is essential to reliably predict the plasma behavior in high beta spherical tokamak device.

Tokamak↗

DOE OSTI2021

Multi-Fluid and Kinetic Models of Partially Ionized Magnetic Reconnection

Magnetic reconnection in partially ionized plasmas is a ubiquitous and important phenomena in both laboratory and astrophysical systems. Here, simulations of partially ionized magnetic reconnection with well-matched initial conditions are performed using both multi-fluid and fully-kinetic approaches. Despite similar initial conditions, the time-dependent evolution differs between the two models. In multi-fluid models, the reconnection rate locally obeys either a decoupled Sweet-Parker scaling, where neutrals are unimportant, or a fully coupled Sweet-Parker scaling, where neutrals and ions are strongly coupled, depending on the resistivity. In contrast, kinetic models show a faster reconnection rate that is proportional to the fully-coupled, bulk Alfv\'en speed, $v_A^\star$. These differences are interpreted as the result of operating in different collisional regimes. Multi-fluid simulations are found to maintain $\nu_{ni}L/v_A^\star \gtrsim 1$, where $\nu_{ni}$ is the neutral-ion collision frequency and $L$ is the time-dependent current sheet half-length. This strongly couples neutrals to the reconnection outflow, while kinetic simulations evolve to allow $\nu_{ni}L/v_A^\star < 1$, decoupling neutrals from the reconnection outflow. Differences in the way reconnection is triggered may explain these discrepancies.

Magnetic reconnection↗

DOE OSTI2026

Data for Selective Oxidation of 3-Hydroxypropionic Acid to Malonic Acid over Pd/C: Mechanistic and Kinetic Study

Malonic acid (MA) is a high-value dicarboxylic acid with strong industrial demand, yet its current production heavily relies on petrochemical feedstocks. Here, we report the first systematic study for the sustainable production of MA via oxidation of 3-hydroxypropionic acid (3-HP) with a Pd/Carbon catalyst. The effects of oxidant type (O2 and H2O2), pH, and temperature on the reaction chemistry were comprehensively evaluated. Guided by experimental observation and DFT-calculated thermochemical energetics, reaction networks for 3-HP oxidation with both oxidants are proposed and validated through kinetic modeling. MA was identified as the primary oxidation product, while further oxidation yields acetic acid and oxalic acid. The kinetic model validated the network, displaying excellent agreement (R2 > 0.95). Kinetic observations also enabled a direct comparison between O2 and H2O2 and revealed their distinct behaviors. The model was further developed into a temperature-time map, providing insight into conditions that maximize MA production. Malonic acid selectivity of 56.9 % and yield of 50.5 % were achieved at 3 bar oxygen, equimolar NaOH:3-HP ratio, and 50 °C.

Bioproducts↗

DOE OSTI2023

Modeling suggests that virion production cycles within individual cells is key to understanding acute hepatitis B virus infection kinetics

Hepatitis B virus (HBV) infection kinetics in immunodeficient mice reconstituted with humanized livers from inoculation to steady state is highly dynamic despite the absence of an adaptive immune response. To recapitulate the multiphasic viral kinetic patterns, we developed an agent-based model that includes intracellular virion production cycles reflecting the cyclic nature of each individual virus lifecycle. The model fits the data well predicting an increase in production cycles initially starting with a long production cycle of 1 virion per 20 hours that gradually reaches 1 virion per hour after approximately 3–4 days before virion production increases dramatically to reach to a steady state rate of 4 virions per hour per cell. Together, modeling suggests that it is the cyclic nature of the virus lifecycle combined with an initial slow but increasing rate of HBV production from each cell that plays a role in generating the observed multiphasic HBV kinetic patterns in humanized mice.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2026

A standardized workflow for kinetic metabolic model curation and dissemination

Kinetic metabolic models provide invaluable insights into cellular metabolism, supporting applications in synthetic biology, metabolic engineering, and systems biology. However, reproducibility and utility of these models hinge on clear and rigorous documentation, standardized annotation, and accessible visualization. This paper presents a workflow for building, annotating, visualizing, and sharing kinetic metabolic models. Our method integrates community standards and open-source tools to ensure reproducibility, interoperability, and user accessibility. This procedure enables researchers to produce reusable and well-documented kinetic models, advancing their role as powerful tools in metabolic research.

Cook, Margaret [Univ. of Washington, Seattle, WA (↗

DOE OSTI2016

Development of Kinetics and Mathematical Models for High Pressure Gasification of Lignite-Switchgrass Blends

The overall objective of the current project was to investigate the high pressure gasification characteristics of a feed containing both coal and biomass. The two feed types differ in their ash contents and ash composition, particularly the alkali content. Gasification of a combined feed of coal and biomass has the potential for considerable synergies that might lead to a dramatic improvement in process economics and flexibility. The proposed study aimed to develop a detailed understanding of the chemistry, kinetics, and transport effects during high pressure gasification of coal-biomass blend feed. Specifically, we studied to develop: (a) an understanding of the catalytic effect of alkali and other inorganic species present in the biomass and coal, (b) an understanding of processing conditions under which synergistic effects of the blending of coal and biomass might be observed. This included the role of particle size, residence time, and proximity of the two feed types, (c) kinetics of high pressure gasification of individual feeds as well as the blends, and (d) development of mathematical models that incorporate kinetics and transport models to enable prediction of gasification rate at a given set of operating conditions, and (e) protocols to extend the results to other feed resources. The goal was to provide a fundamental understanding of the gasification process and guide in optimizing the configurations and design of the next generation of gasifiers. The approach undertaken was centered on two basic premises: (1) the gasification for small particles without internal mass transfer limitations can be treated as the sum of two processes in series (pyrolysis and char gasification) , and (2) the reactivity of the char generated during pyrolysis not only depends on the pressure and temperature but is also affected by the heating rates. Thus low heating rates (10-50 °C/min) typical of PTGA fail to produce char that would typically be formed at high heating rates (~10 4 °C/sec), encountered in entrained flow gasifiers. The char morphology, also a function of the heating rate, would influence the transport rates during the char gasification phase. Thus, heating rate plays a critical role through which both, pyrolysis and char gasification, are interconnected. We utilized two complementary gasification experiments: PEFR (pressurized entrained flow gasifier) and PTGA (pressurized thermo-gravimetric analyzer). The PEFR allowed us to study gasification at pressures, temperatures, and heating rates relevant for coal-biomass gasifiers. The PTGA work was useful in understanding the basic chemistry of the evolution of various gaseous species during pyrolysis. These results helped improved our understanding of the chemistry and chemical changes during pyrolysis. The role alkali metals and other inorganics in char gasification using steam and/or CO 2 was investigated. Finally, the mathematical models for char gasification without the transport effects were developed at commercial operating conditions.

09 BIOMASS FUELS↗

DOE OSTI2017

Mesoscale Modeling of Kinetic Phase Behaviors in Mg-B-H (Subcontract Report)

Storage of hydrogen on board vehicles is one of the critical enabling technologies for creating hydrogenfueled transportation systems that can reduce oil dependency and mitigate the long-term effects of fossil fuels on climate change. Stakeholders in developing hydrogen infrastructure are currently focused on highpressure storage at 350 bar and 700 bar, in part because no viable solid-phase storage material has emerged. Nevertheless, solid-state materials, including high-density hydrides, remain of interest because of their unique potential to meet all DOE targets and deliver hydrogen at lower pressures and higher on-board densities. A successful solution would significantly reduce costs and ensure the economic viability of a U.S. hydrogen infrastructure. The Mg(BH 4 ) 2 -MgB 2 system represents a highly promising solution because of its reasonable reaction enthalpy, high intrinsic capacity, and demonstrated reversibility, yet suffers from poor reaction kinetics. This subcontract aims to deliver a phase-field model for the kinetics of the evolution of the relevant phases within the Mg-B-H system during hydrogenation and dehydrogenation. This model will be used within a broader theory, synthesis, and characterization framework to study the properties of geometry-selected nanoparticles of pristine and doped MgB 2 /Mg(BH 4 ) 2 with two aims: (1) understand the intrinsic limitations in (de)hydrogenation; (2) devise strategies for improving thermodynamics and kinetics through nanostructuring.

08 HYDROGEN↗