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At least 757 records · Page 42

Structure and function of aerotolerant, multiple-turnover THI4 thiazole synthases

Plant and fungal THI4 thiazole synthases produce the thiamin thiazole moiety in aerobic conditions via a single-turnover suicide reaction that uses an active-site Cys residue as sulfur donor. Multiple-turnover (i.e. catalytic) THI4s lacking an active-site Cys (non-Cys THI4s) that use sulfide as sulfur donor have been biochemically characterized -- but only from archaeal methanogens that are anaerobic, O 2 -sensitive hyperthermophiles from sulfide-rich habitats. These THI4s prefer iron as cofactor. A survey of prokaryote genomes uncovered non-Cys THI4s in aerobic mesophiles from sulfide-poor habitats, suggesting that multiple-turnover THI4 operation is possible in aerobic, mild, low-sulfide conditions. This was confirmed by testing 23 representative non-Cys THI4s for complementation of an Escherichia coli ΔthiG thiazole auxotroph in aerobic conditions. Sixteen were clearly active, and more so when intracellular sulfide level was raised by supplying Cys, demonstrating catalytic function in the presence of O 2 at mild temperatures and indicating use of sulfide or a sulfide metabolite as sulfur donor. Comparative genomic evidence linked non-Cys THI4s with proteins from families that bind, transport, or metabolize cobalt or other heavy metals. The crystal structure of the aerotolerant bacterial Thermovibrio ammonificans THI4 was determined to probe the molecular basis of aerotolerance. The structure suggested no large deviations compared with the structures of THI4s from O 2 -sensitive methanogens, but is consistent with an alternative catalytic metal. Together with complementation data, use of cobalt rather than iron was supported. We conclude that catalytic THI4s can indeed operate aerobically and that the metal cofactor inserted is a likely natural determinant of aerotolerance.

59 BASIC BIOLOGICAL SCIENCES↗

Multi-modal surface analysis of porous films under operando conditions

Practical catalysts with a porous framework, such as zeolites, host catalytic reactions at active sites engrained in the pores and channels of the scaffold. The mechanism of interaction at these active sites, defining catalyst performance, remains elusive, in large part, due to the lack of surface characterization methods available for thick films or powders. Here, we present thin film analogs of practical catalysts that allow for the implementation of surface characterization tools, including advanced microscopy and operando spectroscopy methodologies. Specifically, we investigated bilayer silica, MFI nanosheets, and UiO-66 thin films using a multi-modal approach addressing film growth, characterization, and gas adsorption aimed at understanding catalytic activity, reactivity, and selectivity properties, as defined by molecular-level changes in the reaction mechanism.

36 MATERIALS SCIENCE↗

Characterizing warm atmospheric boundary layer over land by combining Raman and Doppler lidar measurements

PBL plays a critical role in the atmosphere by transferring heat, moisture, and momentum. The warm PBL has a distinct diurnal cycle including daytime convective mixing layer (ML) and nighttime residual layer developments. Thus, for PBL characterization and process study, simultaneous determinations of PBL height (PBLH) and ML height (MLH) are necessary. Here, new approaches are developed to provide reliable PBLH and MLH to characterize warm PBL evolution. The approaches use Raman lidar (RL) water vapor mixing ratio (WVMR) and Doppler lidar (DL) vertical velocity measurements at the Southern Great Plains (SGP) atmospheric observatory, which was established by the Atmospheric Radiation Measurement (ARM) user facility. Compared with widely used lidar aerosol measurements for PBLH, WVMR is a better trace for PBL vertical mixing. For PBLH, the approach classifies PBL water vapor structures into a few general patterns, then uses a slope method and dynamic threshold method to determine PBLH. For MLH, wavelet analysis is used to re-construct 2-D variance from DL vertical wind velocity measurements according to the turbulence eddy size to minimize the impacts of gravity wave and eddy size on variance calculations; then, a dynamic threshold method is used to determine MLH. Remotely-sensed PBLHs and MLHs are compared with radiosonde measurements based on the Richardson number method. Good agreements between them confirm that the proposed new algorithms are reliable for PBLH and MLH characterization. The algorithms are applied to warm seasons’ RL and ML measurements at the SGP site for five years to study warm season PBL structure and processes. The weekly composited diurnal evolutions of PBLHs and MLHs in warm climate were provided to illustrate diurnal and seasonal PBL evolutions. This reliable PBLH and MLH dataset will be valuable for PBL process study, model evolution, and PBL parameterization improvement.

54 ENVIRONMENTAL SCIENCES↗

Time-domain reflectometer survey across the East River Watershed, Colorado

Lawrence Berkeley National Laboratory (LBNL) collected near-surface point-measurements of soil temperature (file variable TDR_T(C)), volumetric water content (file variable TDR_SM(VWC%)), and soil electrical conductivity (file variable TDR_EC(mS/m)) using a time-domain reflectometer (TDR) at a depth of 25 cm. The survey aimed to characterize the spatial heterogeneity of near-surface hydrological properties at the hillslope scale considering sites with different aspects and elevation within the watershed. The East River is part of the Watershed Function Scientific Focus Area (WFSFA) located in the Upper Colorado River Basin, United States. These data were collected in early July 2019 over four hillslope sites: Pumphouse (north-east facing slope), Bradley (west and east-facing slopes), and Snodgrass (east-facing slope) within the East River watershed. Part of this survey was used to investigate soil-plant interactions at the hillslope scale in Jashvina et al. 2020.

54 ENVIRONMENTAL SCIENCES↗

AmeriFlux US-PLo Plum Island Oligohaline Marsh

This is the AmeriFlux version of the carbon flux data for the site US-PLo Plum Island Oligohaline Marsh. Site Description - The site is a tidal oligohaline marsh located within the Plum Island Sound estuary, which is characterized by a tidal range of 2.5-3m and a vegetation cover of Typha angustifolia. Porewater salinity changes seasonally as influenced by freshwater discharge. Elevation is about 1.4m NAVD88.

Forbrich, Inke [University of Toledo]↗

AmeriFlux FLUXNET-1F US-PLo Plum Island Oligohaline Marsh

This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site US-PLo Plum Island Oligohaline Marsh. This is the FLUXNET version of the carbon flux data for the site US-PLo Plum Island Oligohaline Marsh produced by applying the standard ONEFlux (1F) software. Site Description - The site is a tidal oligohaline marsh located within the Plum Island Sound estuary, which is characterized by a tidal range of 2.5-3m and a vegetation cover of Typha angustifolia. Porewater salinity changes seasonally as influenced by freshwater discharge. Elevation is about 1.4m NAVD88.

Forbrich, Inke [University of Toledo]↗

Examining the Ice-Nucleating Particles from the Southern Great Plains Field Campaign Report

The recent U.S. Department of Energy (DOE) Atmospheric Radiation Measurement (ARM) user facility field campaign, named Examining the Ice-Nucleating Particles from Southern Great Plains (ExINP-SGP), targeted experimentally characterizing abundance and other properties of ambient ice-nucleating particles (INPs) at the SGP site in Oklahoma (36° 36' 18" N, 97° 29' 6" W) during the period of October 1 to November 14, 2019. This campaign was funded through the DOE Office of Science Early Career Research Program (DE-SC0018979) as one of three major campaigns to be conducted at three ARM observatories, including the Eastern North Atlantic (ENA) station in 2020–2021 and North Slope of Alaska (NSA) site in 2021–2023, besides SGP. Different INP episodes were assessed to develop an SGP-relevant ice nucleation parameterization that would help understand convective and mixed-phase cloud systems typically observed in this region.

54 ENVIRONMENTAL SCIENCES↗

Understanding Phase and Interfacial Effects of Spall Fracture in Additively Manufactured Ti-5Al-5V-5Mo-3Cr

Additive manufactured Ti-5Al-5V-5Mo-3Cr (Ti-5553) is being considered as an AM repair material for engineering applications because of its superior strength properties compared to other titanium alloys. Here, we describe the failure mechanisms observed through computed tomography, electron backscatter diffraction (EBSD), and scanning electron microscopy (SEM) of spall damage as a result of tensile failure in as-built and annealed Ti-5553. We also investigate the phase stability in native powder, as-built and annealed Ti-5553 through diamond anvil cell (DAC) and ramp compression experiments. We then explore the effect of tensile loading on a sample containing an interface between a Ti-6Al-V4 (Ti-64) baseplate and additively manufactured Ti-5553 layer. Post-mortem materials characterization showed spallation occurred in regions of initial porosity and the interface provides a nucleation site for spall damage below the spall strength of Ti-5553. Preliminary peridynamics modeling of the dynamic experiments is described. Finally, we discuss further development of Stochastic Parallel PARticle Kinteic Simulator (SPPARKS) Monte Carlo (MC) capabilities to include the integration of alpha (α)-phase and microstructural simulations for this multiphase titanium alloy.

36 MATERIALS SCIENCE↗

Physical and Flow Properties of Glass-Forming Chemicals (V 2 O 5 , SnO, SnO 2 , Cr 2 O 3 , FeCr 2 O 4 , and ZrSiO 4 ) and Mixtures

For an efficient nuclear waste vitrification process at the Waste Treatment and Immobilization Plant (WTP) on the Hanford Site, proper selection and consistent supply of glass-forming chemicals (GFCs) are crucial. Thorough characterization of the GFCs is required to reduce risks in operation of the vitrification facility. Low-activity waste (LAW) will be blended with GFCs to form slurry feeds and then fed to melters and vitrified. To enhance properties of waste glasses, new chemicals are being introduced to the current GFC mixture. In this study, three new GFCs were evaluated for enhanced LAW glass formulations: chromium oxide (Cr 2 O 3 ), vanadium oxide (V 2 O 5 ), and stannic oxide (SnO 2 ). These three oxide components are included in enhanced waste glass formulations, and GFCs with the appropriate physical and flow properties are needed. As a starting point, single metal oxide GFCs, Cr 2 O 3 , V 2 O 5 , and SnO 2 , were sourced and tested. Then, alternative sources of Sn and Cr (SnO and FeCr 2 O 4 ) were tested along with an alternative zircon source (ZrSiO 4 ). This report documents the work performed to collect physical and flow property data on these new GFCs and melter feed slurries generated using these GFCs and simulated low-activity wastes.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Helium recovery system at IB3a

The increasing need for optimal and sustainable use of cryogenic resources to support Fermilab’s scientific mission has highlighted the necessity of improving the Laboratory’s helium management practices. An assessment of cryogenic test facilities identified the Technical Division’s Industrial Building 3a (IB3A) as a key site requiring upgrades to integrate a helium recovery system. The IB3A facility is essential for characterizing and testing superconductors, cables, and coils for various R&D projects, including the US High-Luminosity LHC Accelerator Upgrade Project (AUP), Mu2e, and other external collaborations. Currently, the facility relies on 500 L helium Dewars and vents the vaporized helium directly into the atmosphere, leading to significant helium loss. Given the non-renewable nature of helium, recovering and reusing this resource is critical for the sustainability of Fermilab’s operations. To address this challenge, a project has been initiated to connect IB3A to an existing helium purification station and refrigeration system located in another building via a dedicated pipeline pass over the roof of several buildings. This solution will enable the efficient capture of vented helium, its transfer to the purification station, and subsequent liquefaction for reuse in future operations. The project includes a detailed design phase, specifying the pipeline route, flow control mechanisms, and integration with the existing cryogenic infrastructure, followed by phased implementation and commissioning. By implementing this pipeline connection and upgrading IB3A, Fermilab aims to significantly reduce helium waste, lower operational costs, and align with its commitment to sustainability. This initiative provides a model for resource-efficient cryogenic operations and reinforces the Laboratory’s capacity to support its science mission for the long term.

Porwisiak, D. [Fermilab]↗

Morphological and Genomic Features of the New Klosneuvirinae Isolate Fadolivirus IHUMI-VV54

Since the discovery of Mimivirus, viruses with large genomes encoding components of the translation machinery and other cellular processes have been described as belonging to the nucleocytoplasmic large DNA viruses. Recently, genome-resolved metagenomics led to the discovery of more than 40 viruses that have been grouped together in a proposed viral subfamily named Klosneuvirinae. Members of this group had genomes of up to 2.4Mb in size and featured an expanded array of translation system genes. Yet, despite the large diversity of the Klosneuvirinae in metagenomic data, there are currently only two isolates available. Here, we report the isolation of a novel giant virus known as Fadolivirus from an Algerian sewage site and provide morphological data throughout its replication cycle in amoeba and a detailed genomic characterization. The Fadolivirus genome, which is more than 1.5Mb in size, encodes 1,452 predicted proteins and phylogenetic analyses place this viral isolate as a near relative of the metagenome assembled Klosneuvirus and Indivirus. The genome encodes for 66 tRNAs, 23 aminoacyl-tRNA synthetases and a wide range of transcription factors, surpassing Klosneuvirus and other giant viruses. The Fadolivirus genome also encodes putative vacuolar-type proton pumps with the domains D and A, potentially constituting a virus-derived system for energy generation. The successful isolation of Fadolivirus will enable future hypothesis-driven experimental studies providing deeper insights into the biology of the Klosneuvirinae.

59 BASIC BIOLOGICAL SCIENCES↗

Validation of Streaklines as Recorders of Synoptic Flow Direction in a Deltaic Setting

Knowledge of the flow patterns within distributary systems is key for understanding deltaic hydro- and morpho-dynamics, yet synoptic measurements of flow fields remain virtually nonexistent. As a means of overcoming this problem, a small number of studies have used biogenic surface films as synoptic flow tracers, under the assumption that biofilm streaklines are tangent to the local flow direction. Here we rigorously test this assumption and show that, despite flow patterns that change severely in space and time (over a range >270°), streaklines are relatively accurate synoptic flow tracers for the Wax Lake Delta, in Louisiana. When the incoming discharge was greater than 2400 m3/s with stable or falling tides, the streakline-derived flow direction departed from near bed flow direction measurements of 22.8° (root mean square). When the discharge was greater than 2400 m3/s and the tides were rising greater than 0.03 m/hr, they were accurate within 28.0°. Under conditions of discharge less than 2400 m3/s and tidal change less than a positive 0.03 m/hr, they were accurate within 33.3°, while during low discharge and rising tides they were accurate within 58.9°. Accuracy varied with distance from the delta, with proximal sites having greater precision. Our results demonstrate that a streakline-derived flow direction can characterize the spatiotemporal variability in the flow directions, but that the accuracy is significantly influenced by the hydrodynamic conditions and location within the network.

58 GEOSCIENCES↗

Sensors with Intelligent Measurement Platform and Low-cost Equipment (SIMPLE) – Performance Characterization

Design and performance of a digital signal processing platform for enhancing off-the-shelf voltage and current sensors are presented. The platform was developed for enabling advanced distribution grid applications with existing low-cost sensors. This digital sensor system leverages a variety of off-the-shelf voltage and current sensing technologies, analog-to-digital conversion, and sensor correction algorithms to yield more accurate and reliable digital measurements that support a multitude of applications and use cases. Sample performance and accuracy results are provided, including measurements at power frequency and higher harmonics. The system extends the native performance of the medium voltage sensors used in the system, for example, broadening measurement bandwidth beyond a few kHz, appropriate for measuring switching surges and harmonics on medium voltage distribution systems. The digital sensor system is installed and characterized in the field with a high-bandwidth optical calibration system to determine site-dependent calibration and performance issues.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Quantifying Uncertainties in Modeling Wind Resource Data from Different PBL Schemes in the WRF Model: A Case Study Over the Puerto Rico Region

This study examines the modeling uncertainty of wind resource data stemming from the use of various planetary boundary layer (PBL) parameterizations available in the Weather Research and Forecasting (WRF) model. WRF-based wind simulations spanning 20 years at 3-km resolution using 11 different PBL schemes are used to objectively investigate the uncertainty in modeling wind speed for land-based wind (LBW) and offshore wind (OSW) locations in Puerto Rico. The uncertainty in the wind modeling for the 20-year dataset is quantified using the spread index (SI) and standard deviation (SD). For virtual LBW and OSW sites, the SI and SD values are analyzed as calculated across various spatial and temporal scales. Because the PBL's atmospheric stability conditions can be characterized into two dominant categories, the study focuses on analyzing the SI and SD for daytime (mainly unstable PBL conditions) and nighttime (mainly stable PBL conditions). For wind shear (10 m-200 m) at the OSW and LBW sites, WRF-based numerical experiments indicate the following SI (or SD) ranges: 39%-94% (0.74 m/s-1.44 m/s) during the daytime for OSW, 50%-75% (0.68 m/s-1.19 m/s) during the daytime for LBW, 37%-60% (0.73 m/s-1.12 m/s) during the nighttime for OSW, and 57%-143 % (0.65 m/s-1.43 m/s) during the nighttime for LBW. While a high SI is observed when modeling LBW during the nighttime, there are notable modeling uncertainties during the daytime on the leeward side of the orographic barriers for Puerto Rico.

17 WIND ENERGY↗

In-Situ Blade Strain Measurements and Fatigue Analysis of a Cross-Flow Turbine Operating in a Tidal Flow

Cross-flow turbines (CFTs) are inherently unsteady devices with regards to operating principle and loading. By improving our understanding of the dynamic loading on these turbines, we hope to better inform CFT design, improve survivability, and reduce overall costs. The University of New Hampshire (UNH) and the National Renewable Energy Laboratory (NREL) collaborated on a project to instrument and test a four-bladed New Energy Corp. vertical axis cross-flow turbine in a real tidal flow. One blade from the 3.2 m diameter x 1.7 m height turbine was instrumented with eight full-bridge strain gauges along the span of the blade. The turbine was then deployed at the UNH-Atlantic Marine Energy Center (AMEC) Tidal Energy Test Site in Portsmouth, NH. Time-synchronized measurements of blade strain, inflow, thrust, rotational speed, and electrical output were obtained to characterize blade loading under various conditions. The blade strain was examined to assess the dynamic loading and conduct a fatigue analysis on the device.

blade strain↗

Accumulation mechanisms for contaminants on weak-base hybrid ion exchange resins

Mechanism of hexavalent chromium removal (Cr(VI) as CrO 4 2- ) by the weak-base ion exchange (IX) resin ResinTech® SIR-700-HP (SIR-700) from simulated groundwater is assessed in the presence of radioactive contaminants iodine-129 (as IO 3 - ), uranium (U as uranyl UO 2 2+ ), and technetium-99 (as TcO 4 - ), and common environmental anions sulfate (SO 4 2- ) and chloride (Cl-). Batch tests using the acid sulfate form of SIR-700 demonstrated Cr(VI) and U(VI) removal exceeded 97%, except in the presence of high SO 4 2- concentrations (536 mg/L) where Cr(VI) and U(VI) removal decreased to ≥ 80%. However, Cr(VI) removal notably improved with co-mingled U(VI) that complexes with SO 4 2- at the protonated amine sites. These U–SO 4 2- complexes are integral to U(VI) removal, as confirmed by the decrease in U(VI) removal (<40%) when the acid chloride form of SIR-700 was used instead. Solid phase characterization revealed that CrO 4 2- is removed by IX with SO 4 2- complexes and/or reduced to amorphous Cr(III)(OH) 3 at secondary alcohol sites. Tc(VII)O 4 - and I(V)O 3 - also undergo chemical reduction, following a similar removal mechanism. Oxyanion removal preference is determined by the anion reduction potential (CrO 4 2 - >TcO 4 - >IO 3 - ), geometry, and charge density. For these reasons, 39% and 69% of TcO 4 - and 17% and 39% of IO 3 - are removed in the presence and absence of Cr(VI), respectively.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Simulated Adhesive Response to Aging (CRADA 453 Final Report)

The goal of this project was to develop a suite of molecular models to investigate adhesive performance as a result of the presence of different levels of moisture. These different levels of moisture are accepted in the adhesives community to represent different states of aging. First, our team modeled the adhesive’s crosslinked structure. Next, we modeled adding water to the crosslinked structure and used high performance computing resources to simulate water diffusion through the bulk adhesive and possible sites for chain scission. Finally, we modeled the response of the simulated adhesive to tensile loads at various levels of moisture content. These simulations were validated by experimental characterization by the industry partner. We found that the Young’s modulus of the adhesive decreased by about 30% when the water content increased to 3 wt.%. Our simulations also identified the likely site where the polymer chain could break. Our integration of molecular level simulations and mechanical property predictions using high performance computing with experimental studies of a hydrated epoxy system has yielded fundamental insights that will help industry advance lightweight joining technologies.

36 MATERIALS SCIENCE↗

Measurement report: Molecular composition, optical properties, and radiative effects of water-soluble organic carbon in snowpack samples from northern Xinjiang, China

Abstract. Water-soluble organic carbon (WSOC) in the cryosphere has an important impact on the biogeochemistry cycling and snow–ice surface energy balance through changes in the surface albedo. This work reports on the chemical characterization of WSOC in 28 representative snowpack samples collected across a regional area of northern Xinjiang, northwestern China. We employed multimodal analytical chemistry techniques to investigate both bulk and molecular-level composition of WSOC and its optical properties, informing the follow-up radiative forcing (RF) modeling estimates. Based on the geographic differences and proximity of emission sources, the snowpack collection sites were grouped as urban/industrial (U), rural/remote (R), and soil-influenced (S) sites, for which average WSOC total mass loadings were measured as 1968 ± 953 ng g−1 (U), 885 ± 328 ng g−1 (R), and 2082 ± 1438 ng g−1 (S), respectively. The S sites showed the higher mass absorption coefficients at 365 nm (MAC365) of 0.94 ± 0.31 m2 g−1 compared to those of U and R sites (0.39 ± 0.11 m2 g−1 and 0.38 ± 0.12 m2 g−1, respectively). Bulk composition of WSOC in the snowpack samples and its basic source apportionment was inferred from the excitation–emission matrices and the parallel factor analysis featuring relative contributions of one protein-like (PRLIS) and two humic-like (HULIS-1 and HULIS-2) components with ratios specific to each of the S, U, and R sites. Additionally, a sample from site 120 showed unique pollutant concentrations and spectroscopic features remarkably different from all other U, R, and S samples. Molecular-level characterization of WSOC using high-resolution mass spectrometry (HRMS) provided further insights into chemical differences among four types of samples (U, R, S, and 120). Specifically, many reduced-sulfur-containing species with high degrees of unsaturation and aromaticity were uniquely identified in U samples, suggesting an anthropogenic source. Aliphatic/protein-like species showed the highest contribution in R samples, indicating their biogenic origin. The WSOC components from S samples showed high oxygenation and saturation levels. A few unique CHON and CHONS compounds with high unsaturation degree and molecular weight were detected in the 120 sample, which might be anthraquinone derivatives from plant debris. Modeling of the WSOC-induced RF values showed warming effects of 0.04 to 0.59 W m−2 among different groups of sites, which contribute up to 16 % of that caused by black carbon (BC), demonstrating the important influences of WSOC on the snow energy budget.

54 ENVIRONMENTAL SCIENCES↗