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At least 253 records · Page 14

Improved two–stage protein expression and purification via autoinduction of both autolysis and auto DNA/RNA hydrolysis conferred by phage lysozyme and DNA/RNA endonuclease

We report improved release of recombinant proteins in Escherichia coli, which relies on combined cellular autolysis and DNA/RNA autohydrolysis, conferred by the tightly controlled autoinduction of both phage lysozyme and the nonspecific DNA/RNA endonuclease from Serratia marcescens. Autoinduction occurs in a two–stage process wherein heterologous protein expression and autolysis enzymes are induced upon entry into stationary phase by phosphate depletion. Cytoplasmic lysozyme and periplasmic endonuclease are kept from inducing lysis until membrane integrity is disrupted. After cell harvest, the addition of detergent (0.1% Triton X–100) and a single 30 min freeze–thaw cycle results in >90% release of protein, green fluorescent protein. Here, this cellular lysis is accompanied by complete oligonucleotide hydrolysis. The approach has been validated for shake flask cultures, high–throughput cultivation in microtiter plates, and larger scale stirred–tank bioreactors. This tightly controlled system enables robust growth and resistance to lysis in routine media when cells are propagated and autolysis/hydrolysis genes are only induced upon phosphate depletion

59 BASIC BIOLOGICAL SCIENCES↗

Hydrolysis of lignocellulose by anaerobic fungi produces free sugars and organic acids for two–stage fine chemical production with Kluyveromyces marxianus

Development of the bioeconomy is driven by our ability to access the energy-rich carbon trapped in recalcitrant plant materials. Current strategies to release this carbon rely on expensive enzyme cocktails and physicochemical pretreatment, producing inhibitory compounds that hinder subsequent microbial bioproduction. Anaerobic fungi are an appealing solution as they hydrolyze crude, untreated biomass at ambient conditions into sugars that can be converted into value-added products by partner organisms. However, some carbon is lost to anaerobic fungal fermentation products. To improve efficiency and recapture this lost carbon, we built a two-stage bioprocessing system pairing the anaerobic fungus Piromyces indianae with the yeast Kluyveromyces marxianus, which grows on a wide range of sugars and fermentation products. In doing so we produce fine and commodity chemicals directly from untreated lignocellulose. P. indianae efficiently hydrolyzed substrates such as corn stover and poplar to generate sugars, fermentation acids, and ethanol, which K. marxianus consumed while producing 2.4 g/L ethyl acetate. An engineered strain of K. marxianus was also able to produce 550 mg/L 2-phenylethanol and 150 mg/L isoamyl alcohol from P. indianae hydrolyzed lignocellulosic biomass. Despite the use of crude untreated plant material, production yields were comparable to optimized rich yeast media due to the use of all available carbon including organic acids, which formed up to 97% of free carbon in the fungal hydrolysate. Furthermore, this work demonstrates that anaerobic fungal pretreatment of lignocellulose can sustain the production of fine chemicals at high efficiency by partnering organisms with broad substrate versatility.

59 BASIC BIOLOGICAL SCIENCES↗

The Effect of Surface Terminations on the Initial Stages of TiO 2 Deposition on Functionalized Silicon

As atomic layer deposition (ALD) emerges as a method to fabricate architectures with atomic precision, emphasis is placed on understanding surface reactions and nucleation mechanisms. ALD of titanium dioxide with TiCl 4 and water has been used to investigate deposition processes in general, but the effect of surface termination on the initial TiO 2 nucleation lacks needed mechanistic insights. Here, this work examines the adsorption of TiCl 4 on Cl–, H–, and HO– terminated Si(100) and Si(111) surfaces to elucidate the general role of different surface structures and defect types in manipulating surface reactivity of growth and non-growth substrates. The surface sites and their role in the initial stages of deposition are examined by X-ray photoelectron spectroscopy (XPS) and atomic force microscopy (AFM). Density functional theory (DFT) computations of the local functionalized silicon surfaces suggest oxygen-containing defects are primary drivers of selectivity loss on these surfaces.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Pacific Lamprey Translocations to the Snake River Boost Abundance of All Life Stages

Abstract The Pacific Lamprey Entosphenus tridentatus is an anadromous fish that has severely declined in the Snake River basin. In 2007, the Nez Perce Tribe initiated translocation of adults to this region from the main‐stem Columbia River and has continued the translocations to this day. These actions are aimed at restoring larval abundance along with holistic habitat improvements. We performed parentage and sibship analyses with 260 single‐nucleotide polymorphism loci to monitor productivity of translocated lamprey over a decade (2007–2018). These results provide the first direct evidence that translocations boosted larval abundance, increased juvenile production in the interior Columbia River (~3% in 2017 and 2018), and demonstrated successful migration to the Pacific Ocean. Per capita juvenile production from Snake River adult lamprey translocations out‐performed that of their volitionally migrating counterparts in the interior Columbia River, demonstrating that translocating adults to suitable habitats increased overall productivity. We projected that the translocations may eventually return enough adult offspring to the Columbia River to replace the annual take of adults for translocations, despite many adults likely returning to other basins. These translocations are also restoring Pacific Lamprey to historical areas where they had been nearly extirpated, which has impactful benefits both culturally and ecologically. Further, this study provided an unprecedented volume of data that has redefined key biological attributes, including timing of life stage transformation (average of 6.7‐year‐old juveniles), larval growth rates (~22 mm/year for the first 4 years), ocean duration (average of 5.1 years), dispersal (~3% of Snake River‐origin adults that return to the Columbia River will divert to the Willamette River), and life span (median age of postspawn adults was 12.9 years). We even quantified a new biological phenomenon of delayed spawning, which occurs at low rates (~9%) in nature. These data provide an opportunity to monitor ongoing translocation efforts and inform adaptive management to aid species recovery.

Hess, Jon E.↗

Pre-equilibrium photons from the early stages of heavy-ion collisions

Abstract We use QCD kinetic theory to compute photon production in the chemically equilibrating Quark-Gluon Plasma created in the early stages of high-energy heavy-ion collisions. We do a detailed comparison of pre-equilibrium photon rates to the thermal photon production. We show that the photon spectrum radiated from a hydrodynamic attractor evolution satisfies a simple scaling form in terms of the specific shear viscosityη/sand entropy densitydS/dζ∼ (Tτ 1/3 ) 3/2 ∞ . We confirm the analytical predictions with numerical kinetic theory simulations. We use the extracted scaling function to compute the pre-equilibrium photon contribution in$$ \sqrt{s_{NN}} $$ s NN = 2.76 TeV 0–20% PbPb collisions. We demonstrate that our matching procedure allows for a smooth switching from pre-equilibrium kinetic to thermal hydrodynamic photon production. Finally, our publicly available implementation can be straightforwardly added to existing heavy ion models.

Physics↗

Conceptual design of BabyIAXO, the intermediate stage towards the International Axion Observatory

This article describes BabyIAXO, an intermediate experimental stage of the International Axion Observatory (IAXO), proposed to be sited at DESY. IAXO is a large-scale axion helioscope that will look for axions and axion-like particles (ALPs), produced in the Sun, with unprecedented sensitivity. BabyIAXO is conceived to test all IAXO subsystems (magnet, optics and detectors) at a relevant scale for the final system and thus serve as prototype for IAXO, but at the same time as a fully-fledged helioscope with relevant physics reach itself, and with potential for discovery. The BabyIAXO magnet will feature two 10 m long, 70 cm diameter bores, and will host two detection lines (optics and detector) of dimensions similar to the final ones foreseen for IAXO. BabyIAXO will detect or reject solar axions or ALPs with axion-photon couplings down to g aγ ~ 1 . 5 × 10 -11 GeV -1 , and masses up to m a ~ 0.25 eV. BabyIAXO will offer additional opportunities for axion research in view of IAXO, like the development of precision x-ray detectors to identify particular spectral features in the solar axion spectrum, and the implementation of radiofrequency-cavity-based axion dark matter setups.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Temperature Dependent Early-Stage Oxidation Dynamics of Cu(100) Film with Faceted Holes

Fundamental understanding of surface oxidation dynamics is critical for rational corrosion protection and advanced manufacturing of nanostructured oxides. In situ environmental TEM (ETEM) provides high spatial (nano- to atomic- scale) and temporal (< 0.1 s) resolution to investigate the early-stage oxidation/corrosion dynamics of metals and alloys. Thin samples with facets are widely used to enable cross-sectional observation of the oxidation dynamics in ETEM. However, how different facet orientations oxidize under the same conditions, and how these facets change the oxidation process, has not been investigated before. Here, using in situ ETEM, we systematically compare the oxidation dynamics of Cu(001) thin films, with faceted holes exposing {100} and {110} facets at temperatures ranging from 250–600 °C under 0.03 Pa O 2 . Oxidation preference is observed to change, from Cu(110) facets at lower temperatures to Cu(100) facets at ~ 500 °C. Oxide growth mechanisms change from outward growth on Cu 2 O surfaces at low temperatures, to inward growth on Cu-Cu 2 O interfaces at high temperatures. At high temperatures (500–600 °C), a rod-like Cu 2 O morphology is observed, with side facets of ~ {024} and top facets of {100} on Cu(100). This differs from the square-shaped Cu 2 O exposing {110} facets formed on Cu(001) surfaces. Rod-like oxides exhibit directional growth along their lengths with linear growth rates, regardless of rod length and width. This suggests that O from Cu(001) surfaces, rather than Cu(100) facets, serves as an O source for oxide growth. These results show a direct comparison of oxidation at different orientations with temperature, underscoring the temperature dependence of oxidation preference. Our results also suggest future in situ ETEM experiments viewing oxidation corrosion cross-sectionally should be cautious when oxide size is comparable with sample thickness, as the oxidizing mechanism may change due to sample thickness.

36 MATERIALS SCIENCE↗

Low soil phosphorus availability triggers maize growth stage specific rhizosphere processes leading to mineralization of organic P

Phosphorus (P) is one of the essential nutrients for all living organisms. High-quality mineral P fertilizer is a finite resource with only an estimated 80-100 years of reserves remaining globally. Both plants and microbes have developed several mechanisms such as secretion of organic acids, acidification of the rhizosphere, and production of extracellular enzymes to enhance the acquisition of P from soils. Increased activity of phosphatase occurs in response to P deficiency as part of P starvation responses which catalyze the hydrolysis of P o from soil organic matter (SOM) and release inorganic P (P i ). However, the specific interactions between plants and microbial communities in the rhizosphere soil triggered by P deficiency are largely unknown. In a greenhouse study we grew maize plants in low and high P containing soils and examined the role of rhizosphere processes on mineralization of organic P (P o ) in soils with low and high P availability and different P speciation 23 (Po dominated versus P i dominated) and determine its effect on plant growth. Plant biomass was determined and rhizosphere soils, and soil samples from pots with and without plants were collected at key vegetative growth stages (VGS). A variety of biogeochemical parameters (e.g. microbial biomass C and P, potential phosphatase activities, plant biomass P, soil P species etc.) were determined using both conventional (sequential chemical extraction) and advanced (e.g. high resolution mass spectrometry (FTICR-MS) and 3129 P solution NMR) techniques. Here, we used phospholipid fatty acid (PLFA) and DNA based microbial community analysis to track changes in microbial community structure and diversity. Low P availability induced changes in biogeochemical processes and microbial community composition in the rhizosphere soils of plants grown in low P containing soil. At early VGS, the plants in low P soil were visually struggling which correlated with greater rhizosphere potential acid phosphatase activity and a reduction in P o fractions. At late VGS, the plants appeared to recover which correlated with a decrease in Meh (III) extractable P, an increase in microbial biomass C and P and greater total P in the plant biomass (roots, shoots and leaves). In high P containing soil, on the other hand, greater P availability masked these rhizosphere processes. Our results confirmed the degradation of SOM and Po mineralization in rhizosphere soils driven by microbe and plant need for P. P deficiency may have favored the abundance of fungi which utilized easily degradable root exudates for the production of extracellular enzymes responsible for the mineralize of SOM P o . This study highlights the intertwined mechanisms involved, and emphasizes the importance of, P o sources for plant nutrition and survival in marginal soils.

59 BASIC BIOLOGICAL SCIENCES↗

A staged deep learning approach to spatial refinement in 3D temporal atmospheric transport

High-resolution spatiotemporal simulations effectively capture the complexities of atmospheric plume dispersion in complex terrain. However, their high computational cost makes them impractical for applications requiring rapid responses or iterative processes, such as optimization, uncertainty quantification, or inverse modeling. To address this challenge, this work introduces the Dual-Stage Temporal Three-dimensional UNet Super-resolution (DST3D-UNet-SR) model, a highly efficient deep learning model for plume dispersion predictions. DST3D-UNet-SR is composed of two sequential modules: the temporal module (TM), which predicts the transient evolution of a plume in complex terrain from low-resolution temporal data, and the spatial refinement module (SRM), which subsequently enhances the spatial resolution of the TM predictions. We train DST3D-UNet-SR using a comprehensive dataset derived from high-resolution large eddy simulations (LES) of plume transport. We propose the DST3D-UNet-SR model to significantly accelerate LES of three-dimensional (3D) plume dispersion by three orders of magnitude. Additionally, the model demonstrates the ability to dynamically adapt to evolving conditions through the incorporation of new observational data, substantially improving prediction accuracy in high-concentration regions near the source.

3D temporal sequences↗

Assessment of multi-stage telescopic control rods in a pebble bed reactor. Part II: corrosion and wear performance

To support High-Temperature Gas-Cooled Reactor designs, the effects of corrosion and wear on a SS316L telescopic control rod prototype were investigated in helium at 775 °C with up to 5 ppm oxygen for durations up to 500 h. Three deployment conditions were tested to assess their impact on wear and oxide formation: severe cycles, daily cycles, and gravity-driven deployments. Here, a chromium-rich oxide layer developed on regions exposed to the helium flow, reaching up to 2 µm in the most affected areas. No carburization or decarburization was observed. Oxide breakthrough occurred mainly at grooves and contact points during severe cycling of the telescopic rod, while in the other tests it was limited to contact points. Friction forces increased due to oxide growth and thermal expansion, the latter being the dominant factor, but never enough to hinder rod deployment significantly. Coaxial misalignment of stages was identified as the main potential risk to reliable operation under normal conditions.

Control rod↗

Adaptive cold-load pickup considerations in 2-stage microgrid unit commitment for enhancing microgrid resilience

In an extended main grid outage spanning multiple days, load shedding serves as a critical mechanism for islanded microgrids to maintain essential power and energy reserves that are indispensable for fulfilling reliability and resiliency mandates. However, using load shedding for such purposes leads to increasing occurrence of cold load pickup (CLPU) events. Here, this study presents an innovative adaptive CLPU model that introduces a method for determining and incorporating parameters related to CLPU power and energy requirements into a two-stage microgrid unit commitment (MGUC) algorithm. In contrast to the traditional fixed-CLPU-curve approach, this model calculates CLPU duration, power, and energy demands by considering outage durations and ambient temperature variations within the MGUC process. By integrating the adaptive CLPU model into the MGUC problem formulation, it allows for the optimal allocation of energy resources throughout the entire scheduling horizon to fulfill the CLPU requirements when scheduling multiple CLPU events. The performance of the enhanced MGUC algorithm considering CLPU needs is assessed using actual load and photovoltaic (PV) data. Simulation results demonstrate significant improvements in dispatch optimality evaluated by the amount of load served, customer comfort, energy storage operation, and adherence to energy schedules. These enhancements collectively contribute to reliable and resilient microgrid operation.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Probing the initial stages of iron surface corrosion: Effect of O 2 and H 2 O on surface carbonation

Iron plays a vital role in natural processes such as water, mineral, iron, and nutrient cycles. Iron undergoes reduction-oxidation and catalytic reactions to produce various corrosion films depending on its chemical environment. Near ambient pressure X-ray photoelectron spectroscopy, polarized modulated infrared reflection absorption spectroscopy, and Auger electron spectroscopy were used to study the key reactants, from O 2 (g), H 2 O vapor, Na + and Cl – on the initial stages of iron surface corrosion. Here, with increasing the ratio of O 2 and H 2 O, surface hydrocarbons were shown to oxidize into carbonates, while the Cl – was found to migrate into the interface. The effect of each individual reactant was measured separately and water was shown to have a first order rate dependence on the carbonate growth at low pressures, with little dependence for O 2 . Near ambient pressures, both H 2 O and O 2 were found to increase the carbonate growth, which was estimated using the Langmuir isotherm model, yielding Gibbs energies between –9.8 to –8.5 kJ/mol. A mechanism is suggested to explain the oxidation is catalyzed by NaCl on iron surfaces and the adventitious hydrocarbons served as the source for surface carbonation. These findings have implications for understanding other surface catalytic and redox interface chemistry in complex environments.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Implicit–explicit multirate infinitesimal stage-restart methods

Implicit–Explicit (IMEX) methods are flexible numerical time integration methods which solve an initial-value problem (IVP) that is split into stiff and nonstiff processes with the goal of lower computational costs than a purely implicit or explicit approach. A complementary form of flexible IVP solvers are multirate infinitesimal methods for problems split into fast- and slow-changing dynamics, that solve a multirate IVP by evolving a sequence of “fast” IVPs using any suitably accurate algorithm. This article introduces a new class of high-order implicit–explicit multirate methods that are designed for multirate IVPs in which the slow-changing dynamics are further split in an IMEX fashion. This new class, which we call implicit–explicit multirate infinitesimal stage-restart (IMEX-MRI-SR), both improves upon the previous implicit–explicit multirate infinitesimal generalized-structure additive Runge Kutta (IMEX-MRI-GARK) methods by allowing for far easier creation of new embedded methods, and extends multirate exponential Runge Kutta (MERK) methods by allowing the fast-changing dynamics to be nonlinear and the methods to be implicit. We leverage GARK theory to derive conditions for orders of accuracy up to four, and we provide second- and third-order accurate example methods, which are the first known embedded MRI methods with IMEX structure. We then perform numerical simulations demonstrating convergence rates and computational performance in both fixed-step and adaptive-step settings.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

Physical model and experimental validation of a high temperature proton exchange membrane electrochemical hydrogen pump cell for efficient single-stage extraction of low concentration hydrogen gas

There is interest in valorization of existing natural gas infrastructure to facilitate the co-transportation of hydrogen via blending of hydrogen gas initially at limited concentrations of 1–20 vol% H2 and to subsequently extract hydrogen at fuel cell quality standards (SAE J2719/ISO14687-2). High temperature proton exchange membrane electrochemical hydrogen pump (HT-PEM EHP) based on phosphoric acid doped polybenzimidazole (PA-PBI) exhibits good performance at elevated temperatures (>120 °C), which provides desirable tolerance to non-methane natural gas constituents that are problematic for lower temperature based EHP. To better understand the suitability of the HT-PEM EHP for such gas separation processes, a two-dimensional model of EHP based on PA-PBI was developed. The model is validated for several relevant operating conditions and across cells with differing amounts of phosphoric acid content in the electrodes. Operando micro x-ray computed tomography (CT) imaging of an HT-PEM EHP was used to further validate physical parameters and assumptions of the model. The impacts of pressure, relative humidity of the anode feed, and concentration of feed gases on separation performance are investigated. This study shows that a specific energy of separation of 5.1 kWh/kg H2 at a hydrogen recovery factor (HRF) of 50 vol% can be achieved in a single stage with the EHP, producing fuel cell quality hydrogen purity of 99.99 vol% H2 from a 2 vol% H2/CH4 feed blend, while pressurizing the product H2 at a pressure ratio of 1.3 relative to feed pressure.

Stansberry, John M↗

Detailed in situ ATR-FTIR spectroscopy study of the early stages of C-S-H formation during hydration of monoclinic C3S

The early stages of tricalcium silicate hydration has been studied by in situ ATR-FTIR spectroscopy. A method for data reduction based on background correction and subtraction of spectra of pure components is presented, which makes it possible to describe the kinetic evolution of the calcium silicate hydrate phase upon hydration with great detail. The results obtained are in full agreement with recently reported, detailed solid-state NMR spectroscopy measurements. As ATR-FTIR spectroscopy does not require any isotope enrichment in order to increase the signal intensities and is a widely available technique, we suggest that our study opens up an avenue towards detailed in situ characterization of hydrating cementitious systems and hydrating systems in general.

36 MATERIALS SCIENCE↗

Exploring stages of resilience maturity as communities confront climate risks

Coastal communities are facing increased risks due to climate change, as evidenced by heightened shocks such as hurricanes and wildfires, and stressors including sea-level rise and drought. To confront these risks, many coastal communities are planning and designing their built environments in new ways, with the overall goal of increasing their resilience. However, resilience practices have been widely guided by an event-based timeframe, which may not be sufficient to confront the multiple and overlapping threats expected over the coming decades. To address this concern, this study investigated a long-term perspective on resilience progression, termed resilience maturity. To better understand resilience maturity in practice, this study drew directly on community perspectives, thereby identifying common challenges. Furthermore, variation in resilience maturity across communities provided an opportunity to identify existing successful strategies. Inductive qualitative analysis was used to examine perspectives from 15 interviews with local practitioners across 12 coastal communities. The analysis revealed that communities in early stages of resilience maturity often struggle with local stakeholder alignment and minimal dedicated resilience resources. In contrast, those further along the maturity path often face technology barriers and challenges in aligning regional stakeholders. Few examples of a fully mature resilience culture were found within the communities studied, underscoring systemic barriers to achieving advanced resilience maturity. Overall, these findings supported development of a practical framework for classifying community resilience efforts, identifying common obstacles, and informing localized resilience advancement.

Resilience maturity↗

A two-stage optical fusion framework for wildfire severity mapping across the conterminous United States

Accurate wildfire severity mapping (WSM) is essential for post-fire recovery planning, erosion risk assessment, ecosystem monitoring, and disaster risk reduction. Although Landsat and Sentinel optical imagery have been widely used for burn severity assessment, the added value of fusing multiple optical sensors has not been sufficiently quantified across diverse fire events, particularly since the launch of Landsat-9. This study evaluates whether multisensor optical fusion improves wildfire severity mapping relative to single-sensor baselines using Sentinel-2, Landsat-8, and Landsat-9 imagery across 40 wildfire events in the conterminous United States. We tested a two-stage fusion framework that combines feature-level fusion with pixel-level dimensionality reduction. First, feature-level fused datasets were created through early fusion by combining standardized post-fire bands from each sensor into a single predictor stack. Both raw reflectance bands and pairwise spectral transforms were retained to capture within- and cross-sensor spectral interactions. Second, Linear Discriminant Analysis was applied to both single-sensor and fused datasets to produce comparable low-dimensional feature spaces. Six machine-learning classifiers were then used to benchmark model performance with repeated spatially buffered train–test splits. Results show that Landsat-9 was the strongest single-sensor baseline. Among the fusion strategies, Sentinel-2 + Landsat-9 produced the most consistent improvement and reduced performance variability. Landscape-condition analysis further showed that this fusion was most beneficial in shrubland-dominated and high-terrain fires, where it achieved the highest overall mean accuracy and the fewest failures. In contrast, its benefits were less reliable in evergreen forests, mixed vegetation, and low- to moderate-elevation terrain. In operational settings, the Sentinel-2 + Landsat-9 configuration offers a practical solution for post-fire recovery planning, erosion-risk assessment, watershed management, and ecological monitoring when field observations are available and timely satellite-based information is needed.

Landsat↗