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At least 1,621 records · Page 90

From dynamics to kinetics for the dissociation of •QOOH radicals derived from isopentane

Thermal dissociation rates for hydroperoxyalkyl (•QOOH) radicals are challenging to measure due to their inherent instability. Recent dynamics experiments have demonstrated that in situ synthesis of •QOOH radicals in a supersonic expansion in combination with IR action spectroscopy provides an effective route to accurately map their energy-resolved dissociation rates. Collaborative theoretical analyses provide a route for converting from those microcanonical rates to accurate temperature- and pressure-dependent thermal rate constants. Here, we present the results of this conversion for the dissociation of two isopentyl β-QOOH isomers of relevance to isopentane oxidation. The results are compared with existing literature values, as well as with results obtained in a similar fashion for related •QOOH systems. Extrapolations from benchmark calculations of barrier properties for smaller systems to accurate predictions for larger systems and multidimensional hindered rotor treatments are both shown to be important components of the theoretical analysis. For completeness, we extend the theoretical analysis to a treatment of the full RO 2 /QOOH system for isopentyl (1,1-dimethyl-propyl) radical.

Ab initio kinetics↗

Characterizing model uncertainties in simulated coast-to-offshore wind over the northeast U.S. using multi-platform measurements from the TCAP field campaign

Numerical weather prediction (NWP) models, such as the Weather Research and Forecasting (WRF) model, are widely used to provide estimates of the offshore wind energy resource owing to their large spatial coverage compared to available observations. Nevertheless, spatiotemporal distribution of model biases is highly dependent on factors including model configuration, location, and the interplay of multi-scale physical processes. Here, in this study, we focus on the characterization of model uncertainties in simulated coast-to-offshore winds over the northeast U.S., by varying sea surface temperature (SST) forcings, surface layer (SL) and planetary boundary layer (PBL) parameterizations, as well as identifying biases that may be directly passed from initial and boundary conditions. Multiple measurements, including aircraft data collected during the U.S. Department of Energy's Two-Column Aerosol Project (TCAP) experiment, are used to constrain the model results and facilitate quantitative comparisons. Our analysis indicates while SST forcing has notable impacts on simulated air temperature and moisture within PBL, the modeled winds are in general more sensitive to the choices of SL and PBL physics than to SST. The model’s forcing data not only controls the vertical dependence of wind speed errors, but also alters regional variability in wind speed’s spatial correlation. Bias comparisons between ERA5 reanalysis and ensemble simulations revealed significant similarity, particularly in wind speed biases during winter, underscoring their dependency on initial and boundary conditions. Coastal and offshore near-surface wind speed biases tend to exhibit much higher similarity in winter than in summer due to the presence of much stronger and more persistent synoptic wind conditions. This study highlights the importance of accurate atmospheric forcing and parameterization choices in improving wind forecasts and suggests the potential for extrapolating coastal wind biases to offshore locations, aiding wind energy forecasting and informing the Wind Forecast Improvement Project-3 (WFIP3).

17 WIND ENERGY↗

Generating high-resolution total canopy SIF emission from TROPOMI data: Algorithm and application

Solar-induced chlorophyll fluorescence (SIF) is a rapidly advancing front in modeling global terrestrial gross primary production (GPP). Canopy total SIF emissions (SIF total ) are mechanistically linked to the plant photosynthesis, and can be estimated from satellite observed SIF (SIF obs ) through radiative transfer modeling. However, the current satellite SIF obs and thus SIF total are available only at coarse spatial resolutions from several kilometers to tens of kilometers, inhibiting the application at fine spatial scales. Here, in this work, we proposed an algorithm to generate both global high-resolution SIF total (HSIF total ) and high-resolution SIF obs (HSIF obs ) at 1 km from low-resolution SIF obs (LSIF obs ) from the TROPOspheric Monitoring Instrument (TROPOMI), which has a spatial resolution at nadir of 3.5 km by 5.6–7 km. Our statistical method is based on the law of energy conservation and uses satellite derived fraction of absorbed photosynthetically active radiation, fluorescence efficiency, and the escape probability of fluorescence. We evaluated the accuracy of our HSIF total using the Orbiting Carbon Observatory-2 SIF (R 2 = 0.78). We found that the spatial resolution had clear effects on the relationship between HSIF total and GPP. We also compared HSIF total to 8-day averaged tower GPP from 135 flux sites and found that they were better correlated when HSIF total was averaged over a 1-km radius around the tower than when averaged over a larger radius. Our study provided a unique high-resolution HSIF total product, which will advance the estimation of GPP by extrapolating site-level relationships to the global scale.

54 ENVIRONMENTAL SCIENCES↗

Future integrated mobility-energy systems: A modeling perspective

After over a century of petroleum dominance, the transportation sector is on the verge of radical transformations driven by rapid technology advancement of alternative fuels, automation, information technologies that create new mobility options and business models, and policies at all levels of government. While the technologies and fuels that will move people and goods in the future remain uncertain, the future transportation system will be more integrated with smart buildings, the electric grid, renewables, and information ecosystems, allowing for great opportunities to exploit these interconnections. Modeling tools for analyzing integrated mobility-energy systems require a deep understanding of these interconnections, of the infrastructure required to support alternative fuel vehicles, and a more nuanced understanding of transportation energy needs across multiple segments and spatiotemporal scales. In this paper, we assess the landscape of existing tools used to represent and model future mobility systems and their interactions with other energy systems. Here, we conclude that (a) out-of-sample extrapolation of emerging trends and future anticipated developments is more important than ever due to the plethora of factors driving disruptive change in mobility systems; (b) understanding adoption opportunities for alternative fuel light-duty vehicles requires modeling intra-household decisions affecting travel demand and mode choice; (c) mobility and energy systems need to be modeled as an integrated continuum, breaking the traditional approach in which dynamic energy supply models use relatively simple transportation demand and vice-versa; and (d) increased spatiotemporal fidelity and scalability are required to dynamically couple transportation/mobility and energy supply models and capitalize on these unprecedented interconnection opportunities.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

Getting lost tracking the carbon footprint of hydropower

In the transition to low-carbon electricity, well-quantified estimates of carbon dynamics are needed to ensure that emissions reduction targets are achieved. Here we review the state of the science on carbon accounting for hydropower reservoirs and identify limitations and future solutions. Nearly all research on reservoir greenhouse-gas (GHG) emissions has focused on individual reservoirs in isolation without considering their position in a freshwater network draining organic matter from upstream watersheds or the coordinated operation of reservoir cascades. Second, carbon inventories have extrapolated from a small, non-probabilistic sample of highly variable measurements of GHG emissions to unsampled reservoirs. A stronger statistical foundation is needed to estimate a global inventory and its uncertainty. Third, attribution to hydropower is based on ranks assigned to reservoir purpose. Instead, the physical influence of hydropower on carbon dynamics could be directly measured. Fourth, current carbon-accounting practices neglect time. A time-varying approach would quantify variation in emissions for electricity portfolios from changes in the fuel mix at different times and account for ancillary services, i.e., the ability to support the grid when variable renewables are not available without using natural gas. Reservoirs also sequester a significant portion of inflowing carbon in sediments and slow the carbon cycle by delaying the return of carbon to the atmosphere for decades to centuries. Together, these refinements would help to illuminate pathways toward meeting energy demand with the longest-possible delay in returning carbon to the atmosphere and without adding ancient sources to the pool of carbon cycling through aquatic ecosystems.

13 HYDRO ENERGY↗

Considerations for realistic atmospheric environments: An application to corrosion testing

Measured salt compositions in dust collected over roughly the last decade from surfaces of in-service stainless-steel alloys at four locations around the United States are presented, along with the predicted brine compositions that would result from deliquescence of these salts. The salt compositions vary greatly from ASTM seawater and from laboratory salts (i.e., NaCl or MgCl 2 ) commonly used on corrosion testing. The salts contained relatively high amounts of sulfates and nitrates, evolved to basic pH values, and exhibited deliquescence relative humidity values (RH) higher than seawater. Additionally, inert dust in components were quantified and considerations for laboratory testing are presented. The observed dust compositions are discussed in terms of the potential corrosion behavior and are compared to commonly used accelerated testing protocols. Finally, ambient weather conditions and their influence on diurnal fluctuations in temperature (T) and RH on heated metal surfaces are evaluated and a relevant diurnal cycle for laboratory testing a heated surface has been developed. Suggestions for future accelerated tests are proposed that include exploration of the effects of inert dust particles on atmospheric corrosion, chemistry considerations, and realistic diurnal fluctuations in T and RH. Understanding mechanisms in both realistic and accelerated environments will allow development of a corrosion factor (i.e., scaling factor) for the extrapolation of laboratory-scale test results to real world applications.

54 ENVIRONMENTAL SCIENCES↗

Molecular shifts in dissolved organic matter along a burn severity continuum for common land cover types in the Pacific Northwest, USA

Increasing wildfire severity is of growing concern in the western United States, with consequences for the production, composition, and mobilization of dissolved organic matter (DOM) from terrestrial to aquatic systems. Our current understanding of wildfire impacted DOM (often termed pyrogenic DOM) composition is largely built from temperature-based studies that can be difficult to extrapolate to field conditions, which are often defined by ‘burn severity’, or the post-wildfire impact observed at a site. Thus, burn severity can encapsulate a broader range of fire and environmental conditions not exclusive to temperature. Biogeochemical studies that describe DOM along burn severity continuums remain limited but are needed to better link DOM composition with field conditions post-fire. Here, in this study, we addressed this need with an experimental open air burn simulation that generated chars from vegetation representative of major land cover types in the western United States. The chars were leached to simulate DOM mobilization potential. The DOM composition was characterized by ultra-high resolution mass spectrometry (HR-MS) and UV/VIS absorbance and fluorescence. Our results indicated that the shifts of DOM production and composition along a burn-severity gradient depends on the land cover type that was burned, with the degree of change dependent on the composition of the starting parent vegetation material. Fluorescence signatures indicated a strong convergence across land cover types to more aromatic DOM with increasing severity, while HR-MS indicated an increase in the production of aromatic nitrogen containing DOM with increasing severity. Results from this study enhance our ability to describe DOM composition in a framework that can be more directly related with field and remote-sensing based metrics.

54 ENVIRONMENTAL SCIENCES↗

A Universal Machine Learning Model for Elemental Grain Boundary Energies

The grain boundary (GB) energy has a profound influence on the grain growth and properties of polycrystalline metals. Here, we show that the energy of a GB, normalized by the bulk cohesive energy, can be described purely by four geometric features. By machine learning on a large computed database of 361 small Σ (Σ<10) GBs of more than 50 metals, we develop a model that can predict the grain boundary energies to within a mean absolute error of 0.13 J m –2 . More importantly, this universal GB energy model can be extrapolated to the energies of high Σ GBs without loss in accuracy. These results highlight the importance of capturing fundamental scaling physics and domain knowledge in the design of interpretable, extrapolatable machine learning models for materials science.

36 MATERIALS SCIENCE↗

Challenges in spatial metabolomics and proteomics for functional tissue unit and single-cell resolution

While transcriptomics is the most broadly applied technology for global spatial and single cell measurements in healthy and diseased tissues. Transcripts are often used as a proxy for protein and even metabolite measurements, but it has become commonly accepted that extrapolating this kind of information is a poor proxy and not a substitute for direct measurement. Within the last decade advanced developments of mass spectrometry-based assays have made these direct measurements not only possible, but routine. Where mass spectrometry has become an enabling technology, and various methods can now detect hundreds of metabolites and thousands of proteins from samples. Not only can this be performed within bulk measurements, but much effort has been directed into translating these measurements to single cells and tissues at cellular resolution. The information obtained from mass spectrometry is now able to trace metabolic events and decipher feedback loops across anatomical regions, connecting genetic and metabolic networks that define phenotypes. Herein, we will broadly overview developments in the field over the past decade, leading into several case studies which highlight the direct measurement of metabolites, proteins, and proteoforms from thinly sliced tissues. Much of this work is feasible due to multidisciplinary team science, and we offer brief perspective on paths forward and the challenges that persist with adoption and application of spatial omics.

59 BASIC BIOLOGICAL SCIENCES↗

Assessing the concept of structure sensitivity or insensitivity for sub-nanometer catalyst materials

In this report the nature of the nano-catalyzed hydrogenation of ethylene, yielding benchmark information pertaining to the concept of structure sensitivity/insensitivity and its applicability at the bottom of the catalyst particle size-range, is explored with experiments on size-selected Ptn (n = 7–40) clusters soft-landed on MgO, in conjunction with first-principles simulations. As in the case of larger particles both the direct ethylene hydrogenation channel and the parallel hydrogenation–dehydrogenation ethylidyne-producing route must be considered, with the fundamental uncovering that at the < 1 nm size-scale the reaction exhibits characteristics consistent with structure sensitivity, in contrast to the structure insensitivity found for larger particles. In this size-regime, the chemical properties can be modulated and tuned by a single atom, reflected by the onset of low temperature hydrogenation at T > 150 K catalyzed by Pt n (n ≥ 10) clusters, with maximum room temperature reactivity observed for Pt 13 using a pulsed molecular beam technique. Structure insensitive behavior, inherent for specific cluster sizes at ambient temperatures, can be induced in the more active sizes, e.g. Pt 13 , by a temperature increase, up to 400 K, which opens dehydrogenation channels leading to ethylidyne formation. This reaction channel was, however found to be attenuated on Pt 20 , as catalyst activity remained elevated after the 400 K step. Pt 30 displayed behavior which can be understood from extrapolating bulk properties to this size range; in particular the calculated d-band center. In the non-scalable sub-nanometer size regime, however, precise control of particle size may be used for atom-by-atom tuning and manipulation of catalyzed hydrogenation activity and selectivity.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Enzyme sequence similarity improves the reaction alignment method for cross-species pathway comparison

Pathway-based information has become an important source of information for both establishing evolutionary relationships and understanding the mode of action of a chemical or pharmaceutical among species. Cross-species comparison of pathways can address two broad questions: comparison in order to inform evolutionary relationships and to extrapolate species differences used in a number of different applications including drug and toxicity testing. Cross-species comparison of metabolic pathways is complex as there are multiple features of a pathway that can be modeled and compared. Among the various methods that have been proposed, reaction alignment has emerged as the most successful at predicting phylogenetic relationships based on NCBI taxonomy. We propose an improvement of the reaction alignment method by accounting for sequence similarity in addition to reaction alignment method. Using nine species, including human and some model organisms and test species, we evaluate the standard and improved comparison methods by analyzing glycolysis and citrate cycle pathways conservation. In addition, we demonstrate how organism comparison can be conducted by accounting for the cumulative information retrieved from nine pathways in central metabolism as well as a more complete study involving 36 pathways common in all nine species. Our results indicate that reaction alignment with enzyme sequence similarity results in a more accurate representation of pathway specific cross-species similarities and differences based on NCBI taxonomy.

60 APPLIED LIFE SCIENCES↗

Structure–inhibition relationship of ginsenosides towards UDP-glucuronosyltransferases (UGTs)

The wide utilization of ginseng provides the high risk of herb–drug interaction (HDI) with many clinical drugs. The inhibition of ginsenosides towards drug-metabolizing enzymes (DMEs) has been regarded as an important reason for herb–drug interaction (HDI). Compared with the deep studies on the ginsenosides' inhibition towards cytochrome P450 (CYP), the inhibition of ginsenosides towards the important phase II enzymes UDP-glucuronosyltransferases (UGTs) remains to be unclear. The present study aims to evaluate the inhibition behavior of ginsenosides towards important UGT isoforms located in the liver and intestine using in vitro methods. The recombinant UGT isoform-catalyzed 4-methylumbelliferone (4-MU) glucuronidation reaction was employed as in vitro probe reaction. The results showed that structure-dependent inhibition existed for the inhibition of ginsenosides towards UGT isoforms. To clarify the possibility of in vivo herb–drug interaction induced by this kind of inhibition, the ginsenoside Rg{sub 3} was selected as an example, and the inhibition kinetic type and parameters (K{sub i}) were determined. Rg{sub 3} competitively inhibited UGT1A7, 2B7 and 2B15-catalyzed 4-MU glucuronidation reaction, and exerted noncompetitive inhibition towards UGT1A8-catalyzed 4-MU glucuronidation. The inhibition parameters (K{sub i} values) were calculated to be 22.6, 7.9, 1.9, and 2.0 μM for UGT1A7, 1A8, 2B7 and 2B15. Using human maximum plasma concentration of Rg{sub 3} (400 ng/ml (0.5 μM)) after intramuscular injection of 60 mg Rg{sub 3}, the area under the plasma concentration-time curve (AUC) was extrapolated to increase by 2.2%, 6.3%, 26.3%, and 25% for the co-administered drugs completely undergoing the metabolism catalyzed by UGT1A7, 1A8, 2B7 and 2B15, respectively. All these results indicated that the ginsenosides' inhibition towards UGT isoforms might be an important reason for ginseng–drug interaction. - Highlights: ► Structure-dependent inhibition of ginsenoside towards UDP-glucuronosyltransferases. ► Rg{sub 3}′ inhibition towards UGT isoforms can induce in vivo drug–drug interaction. ► Broadening knowledge on ginsenosides' inhibition towards drug-metabolizing enzymes.

60 APPLIED LIFE SCIENCES↗

Prediction and evaluation of route dependent dosimetry of BPA in rats at different life stages using a physiologically based pharmacokinetic model

Bisphenol A (BPA) has received considerable attention throughout the last decade due to its widespread use in consumer products. For the first time a physiologically based pharmacokinetic (PBPK) model was developed in neonatal and adult rats to quantitatively evaluate age-dependent pharmacokinetics of BPA and its phase II metabolites. The PBPK model was calibrated in adult rats using studies on BPA metabolism and excretion in the liver and gastrointestinal tract, and pharmacokinetic data with BPA in adult rats. For immature rats the hepatic and gastrointestinal metabolism of BPA was inferred from studies on the maturation of phase II enzymes coupled with serum time course data in pups. The calibrated model predicted the measured serum concentrations of BPA and BPA conjugates after administration of 100 μg/kg of d6-BPA in adult rats (oral gavage and intravenous administration) and postnatal days 3, 10, and 21 pups (oral gavage). The observed age-dependent BPA serum concentrations were partially attributed to the immature metabolic capacity of pups. A comparison of the dosimetry of BPA across immature rats and monkeys suggests that dose adjustments would be necessary to extrapolate toxicity studies from neonatal rats to infant humans. - Highlights: • A PBPK model predicts the kinetics of bisphenol A (BPA) in young and adult rats. • BPA metabolism within enterocytes is required for fitting of oral BPA kinetic data. • BPA dosimetry in young rats is different than adult rats and young monkeys.

60 APPLIED LIFE SCIENCES↗

Estimation of placental and lactational transfer and tissue distribution of atrazine and its main metabolites in rodent dams, fetuses, and neonates with physiologically based pharmacokinetic modeling

Atrazine (ATR) is a widely used chlorotriazine herbicide, a ubiquitous environmental contaminant, and a potential developmental toxicant. To quantitatively evaluate placental/lactational transfer and fetal/neonatal tissue dosimetry of ATR and its major metabolites, physiologically based pharmacokinetic models were developed for rat dams, fetuses and neonates. These models were calibrated using pharmacokinetic data from rat dams repeatedly exposed (oral gavage; 5 mg/kg) to ATR followed by model evaluation against other available rat data. Model simulations corresponded well to the majority of available experimental data and suggest that: (1) the fetus is exposed to both ATR and its major metabolite didealkylatrazine (DACT) at levels similar to maternal plasma levels, (2) the neonate is exposed mostly to DACT at levels two-thirds lower than maternal plasma or fetal levels, while lactational exposure to ATR is minimal, and (3) gestational carryover of DACT greatly affects its neonatal dosimetry up until mid-lactation. To test the model's cross-species extrapolation capability, a pharmacokinetic study was conducted with pregnant C57BL/6 mice exposed (oral gavage; 5 mg/kg) to ATR from gestational day 12 to 18. By using mouse-specific parameters, the model predictions fitted well with the measured data, including placental ATR/DACT levels. However, fetal concentrations of DACT were overestimated by the model (10-fold). This overestimation suggests that only around 10% of the DACT that reaches the fetus is tissue-bound. These rodent models could be used in fetal/neonatal tissue dosimetry predictions to help design/interpret early life toxicity/pharmacokinetic studies with ATR and as a foundation for scaling to humans. - Highlights: • We developed PBPK models for atrazine in rat dams, fetuses, and neonates. • We conducted pharmacokinetic (PK) study with atrazine in pregnant mice. • Model predictions were in good agreement with experimental rat and mouse PK data. • The fetus is exposed to atrazine/its main metabolite at levels similar to the dam. • The nursing neonate is exposed primarily to atrazine's main metabolite DACT.

60 APPLIED LIFE SCIENCES↗

Model-based analysis of thromboxane B{sub 2} and prostaglandin E{sub 2} as biomarkers in the safety evaluation of naproxen

The assessment of safety in traditional toxicology protocols relies on evidence arising from observed adverse events (AEs) in animals and on establishing their correlation with different measures of drug exposure (e.g., C{sub max} and AUC). Such correlations, however, ignore the role of biomarkers, which can provide further insight into the underlying pharmacological mechanisms. Here we use naproxen as a paradigm drug to explore the feasibility of a biomarker-guided approach for the prediction of AEs in humans. A standard toxicology protocol was set up for the evaluation of effects of naproxen in rat, in which four doses were tested (7.5, 15, 40 and 80 mg/kg). In addition to sparse blood sampling for the assessment of exposure, thromboxane B{sub 2} and prostaglandin E{sub 2} were also collected in satellite groups. Nonlinear mixed effects modelling was used to evaluate the predictive performance of the approach. A one-compartmental model with first order absorption was found to best describe the pharmacokinetics of naproxen. A nonlinear relationship between dose and bioavailability was observed which leads to a less than proportional increase in naproxen concentrations with increasing doses. The pharmacodynamics of TXB{sub 2} and PGE{sub 2} was described by direct inhibition models with maximum pharmacological effects achieved at doses > 7.5 mg/kg. The predicted PKPD relationship in humans was within 10-fold of the values previously published. Moreover, our results indicate that biomarkers can be used to assess interspecies differences in PKPD and extrapolated data from animals to humans. Biomarker sampling should be used systematically in general toxicity studies. - Highlights: • Prediction of a drug's safety profile from preclinical protocols remains challenging. • Pharmacokinetic measures of safe exposure (e.g., AUC) ignore the role of biomarkers. • PKPD relationships enable the evaluation of adverse events in a mechanistic manner. • Major differences exist between rats and humans in the effects of naproxen on TXB{sub 2}. • A biomarker-guided approach may facilitate the prediction of adverse events in humans.

60 APPLIED LIFE SCIENCES↗

Metabolism and physiologically based pharmacokinetic modeling of flumioxazin in pregnant animals

A physiologically based pharmacokinetic (PBPK) model was developed to predict the concentration of flumioxazin, in the blood and fetus of pregnant humans during a theoretical accidental intake (1000 mg/kg). The data on flumioxazin concentration in pregnant rats (30 mg/kg po) was used to develop the PBPK model in pregnant rats using physiological parameters and chemical specific parameters. The rat PBPK model developed was extrapolated to a human model. Liver microsomes of female rats and a mixed gender of humans were used for the in vitro metabolism study. To determine the % of flumioxazin absorbed after administration at a dose of 1000 mg/kg assuming maximum accidental intake, the biliary excretion study of [phenyl-U-{sup 14}C]flumioxazin was conducted in bile duct-cannulated female rats (Crl:CD (SD)) to collect and analyze the bile, urine, feces, gastrointestinal tract, and residual carcass. The % of flumioxazin absorbed at a dose of 1000 mg/kg in rats was low (12.3%) by summing up {sup 14}C of the urine, bile, and residual carcass. The pregnant human model that was developed demonstrated that the maximum flumioxazin concentration in the blood and fetus of a pregnant human at a dose of 1000 mg/kg po was 0.86 μg/mL and 0.68 μg/mL, respectively, which is much lower than K{sub m} (202.4 μg/mL). Because the metabolism was not saturated and the absorption rate was low at a dose of 1000 mg/kg, the calculated flumioxazin concentration in pregnant humans was thought to be relatively low, considering the flumioxazin concentration in pregnant rats at a dose of 30 mg/kg. For the safety assessment of flumioxazin, these results would be useful for further in vitro toxicology experiments. - Highlights: • A PBPK model of flumioxazin in pregnant humans was developed. • Simulated flumioxazin concentration in pregnant humans was relatively low. • The results would be useful for further in vitro toxicology experiments.

60 APPLIED LIFE SCIENCES↗