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At least 829 records · Page 46

Integrating collapsible plasmonic gaps on near-field probes for polarization-resolved mapping of plasmon-enhanced emission in 2D material

Scanning near-field optical microscopy (SNOM) is an important technique used to study the optical properties of material systems at the nanoscale. In previous work, we reported on the use of nanoimprinting to improve the reproducibility and throughput of near-field probes including complicated optical antenna structures such as the ‘campanile’ probe. However, precise control over the plasmonic gap size, which determines the near-field enhancement and spatial resolution, remains a challenge. Here, we present a novel approach to fabricating a sub-20 nm plasmonic gap in a near-field plasmonic probe through the controlled collapse of imprinted nanostructures using atomic layer deposition (ALD) coatings to define the gap width. The resulting ultranarrow gap at the apex of the probe provides a strong polarization-sensitive near-field optical response, which results in an enhancement of the optical transmission in a broad wavelength range from 620 to 820 nm, enabling tip-enhanced photoluminescence (TEPL) mapping of 2-dimensional (2D) materials. We demonstrate the potential of this near-field probe by mapping a 2D exciton coupled to a linearly polarized plasmonic resonance with below 30 nm spatial resolution. This work proposes a novel approach for integrating a plasmonic antenna at the apex of the near-field probe, paving the way for the fundamental study of light-matter interactions at the nanoscale.

Zhou, Junze (ORCID:000000020682767X)↗

Heterophilic and homophilic cadherin interactions in intestinal intermicrovillar links are species dependent

Enterocytes are specialized epithelial cells lining the luminal surface of the small intestine that build densely packed arrays of microvilli known as brush borders. These microvilli drive nutrient absorption and are arranged in a hexagonal pattern maintained by intermicrovillar links formed by 2 nonclassical members of the cadherin superfamily of calcium-dependent cell adhesion proteins: protocadherin-24 (PCDH24, also known as CDHR2) and the mucin-like protocadherin (CDHR5). The extracellular domains of these proteins are involved in heterophilic and homophilic interactions important for intermicrovillar function, yet the structural determinants of these interactions remain unresolved. Here, we present X-ray crystal structures of the PCDH24 and CDHR5 extracellular tips and analyze their species-specific features relevant for adhesive interactions. In parallel, we use binding assays to identify the PCDH24 and CDHR5 domains involved in both heterophilic and homophilic adhesion for human and mouse proteins. Our results suggest that homophilic and heterophilic interactions involving PCDH24 and CDHR5 are species dependent with unique and distinct minimal adhesive units.

59 BASIC BIOLOGICAL SCIENCES↗

Study of impacts of two types of cellular aging on the yeast bud morphogenesis

Understanding the mechanisms of the cellular aging processes is crucial for attempting to extend organismal lifespan and for studying age-related degenerative diseases. Yeast cells divide through budding, providing a classical biological model for studying cellular aging. With their powerful genetics, relatively short cell cycle, and well-established signaling pathways also found in animals, yeast cells offer valuable insights into the aging process. Recent experiments suggested the existence of two aging modes in yeast characterized by nucleolar and mitochondrial declines, respectively. By analyzing experimental data, this study shows that cells evolving into those two aging modes behave differently when they are young. While buds grow linearly in both modes, cells that consistently generate spherical buds throughout their lifespan demonstrate greater efficacy in controlling bud size and growth rate at young ages. A three-dimensional multiscale chemical-mechanical model was developed and used to suggest and test hypothesized impacts of aging on bud morphogenesis. Experimentally calibrated model simulations showed that during the early stage of budding, tubular bud shape in one aging mode could be generated by locally inserting new materials at the bud tip, a process guided by the polarized Cdc42 signal. Furthermore, the aspect ratio of the tubular bud could be stabilized during the late stage as observed in experiments in this work. The model simulation results suggest that the localization of new cell surface material insertion, regulated by chemical signal polarization, could be weakened due to cellular aging in yeast and other cell types, leading to the change and stabilization of the bud aspect ratio.

Tsai, Kevin↗

Uptake and speciation of zinc in edible plants grown in smelter contaminated soils

Heavy metal accumulation in edible plants grown in contaminated soils poses a major environmental risk to humans and grazing animals. This study focused on the concentration and speciation of Zn in different edible plants grown in soils contaminated with smelter wastes (Spelter, WV, USA) containing high levels of the metals Zn, Cu, Pb, Cd. Their accumulation was examined in different parts (roots, stem, and leaves) of plants and as a function of growth stage (dry seed, sprouting seed, cotyledon, and leaves) in the root vegetables radish, the leafy vegetable spinach and the legume clover. Although the accumulation of metals varied significantly with plant species, the average metal concentrations were [Zn] > [Pb] > [Cu] > [Cd]. Metal uptake studies were complemented with bulk and micro X-ray absorption spectroscopy (XAS) at Zn K-edge and micro X-ray fluorescence (μXRF) measurements to evaluate the speciation and distribution of Zn in these plant species. Dynamic interplay between the histidine and malate complexation of Zn was observed in all plant species. XRF mapping of spinach leaves at micron spatial resolution demonstrated the accumulation of Zn in vacuoles and leaf tips. Radish root showed accumulation of Zn in root hairs, likely as ZnS nanoparticles. At locations of high Zn concentration in spinach leaves, μXANES suggests Zn complexation with histidine, as opposed to malate in the bulk leaf. These findings shed new light on the dynamic nature of Zn speciation in plants.

59 BASIC BIOLOGICAL SCIENCES↗

An investigation into the potential for wind turbines to cause barotrauma in bats

The high rates of bat mortality caused by operating wind turbines is a concern for wind energy and wildlife stakeholders. One theory that explains the mortality is that bats are not only killed by impact trauma, but also by barotrauma that results from exposure to the pressure variations caused by rotating turbine blades. To date, no published research has calculated the pressure changes that bats may be exposed to when flying near wind turbines and then used these data to estimate the likelihood that turbines cause barotrauma in bats. To address this shortcoming, we performed computational fluid dynamics simulations of a wind turbine and analytical calculations of blade-tip vortices to estimate the characteristics of the sudden pressure changes bats may experience when flying near a utility-scale wind turbine. Because there are no data available that characterize the pressure changes that cause barotrauma in bats, we compared our results to changes in pressure levels that cause barotrauma and mortality in other mammals of similar size. This comparison shows that the magnitude of the low-pressures bats experience when flying near wind turbines is approximately 8 times smaller than the pressure that causes mortality in rats, the smallest mammal for which data are available. The magnitude of the high-pressures that bats may experience are approximately 80 times smaller than the exposure level that causes 50% mortality in mice, which have a body mass similar to several bat species that are killed by wind turbines. Further, our results show that for a bat to experience the largest possible magnitude of low- and high-pressures, they must take very specific and improbable flight paths that skim the surface of the blades. Even a small change in the flight path results in the bat being hit by the blade or experiencing a much smaller pressure change. Accordingly, if bats have a physiological response to rapid low- and high-pressure exposure that is similar to other mammals, we conclude that it is unlikely that barotrauma is responsible for a significant number of turbine-related bat fatalities, and that impact trauma is the likely cause of the majority of wind-turbine-related bat fatalities.

17 WIND ENERGY↗

Alkaline-SDS cell lysis of microbes with acetone protein precipitation for proteomic sample preparation in 96-well plate format

Plate-based proteomic sample preparation offers a solution to the large sample throughput demands in the biotechnology field where hundreds or thousands of engineered microbes are constructed for testing is routine. Meanwhile, sample preparation methods that work efficiently on broader microbial groups are desirable for new applications of proteomics in other fields, such as microbial communities. Here, we detail a step-by-step protocol that consists of cell lysis in an alkaline chemical buffer (NaOH/SDS) followed by protein precipitation with high-ionic strength acetone in 96-well format. The protocol works for a broad range of microbes ( e . g ., Gram-negative bacteria, Gram-positive bacteria, non-filamentous fungi) and the resulting proteins are ready for tryptic digestion for bottom-up quantitative proteomic analysis without the need for desalting column cleanup. The yield of protein using this protocol increases linearly with respect to the amount of starting biomass from 0.5–2.0 OD*mL of cells. By using a bench-top automated liquid dispenser, a cost-effective and environmentally-friendly option to eliminating pipette tips and reducing reagent waste, the protocol takes approximately 30 minutes to extract protein from 96 samples. Tests on mock mixtures showed expected results that the biomass composition structure is in close agreement with the experimental design. Lastly, we applied the protocol for the composition analysis of a synthetic community of environmental isolates grown on two different media. This protocol has been developed to facilitate rapid, low-variance sample preparation of hundreds of samples and allow flexibility for future protocol development.

59 BASIC BIOLOGICAL SCIENCES↗

Monitoring the impact of confinement on hyphal penetration and fungal behavior

Through their expansive mycelium network, soil fungi alter the physical arrangement and chemical composition of their local environment. This can significantly impact bacterial distribution and nutrient transport and can play a dramatic role in shaping the rhizosphere around a developing plant. However, direct observation and quantitation of such behaviors is extremely difficult due to the opacity and complex porosity of the soil microenvironment. In this study, we demonstrate the development and use of an engineered microhabitat to visualize fungal growth in response to varied levels of confinement. Microfluidics were fabricated using photolithography and conventional soft lithography, assembled onto glass slides, and prepared to accommodate fungal cultures. Selected fungal strains across three phyla (Ascomycota: Morchella sextalata , Fusarium falciforme ; Mucoromycota: Linnemannia elongata , Podila minutissima , Benniella ; Basidiomycota: Laccaria bicolor , and Serendipita sp.) were cultured within microhabitats and imaged using time-lapse microscopy to visualize development at the mycelial level. Fungal hyphae of each strain were imaged as they penetrated through microchannels with well-defined pore dimensions. The hyphal penetration rates through the microchannels were quantified via image analysis. Other behaviors, including differences in the degree of branching, peer movement, and tip strength were also recorded for each strain. Our results provide a repeatable and easy-to-use approach for culturing fungi within a microfluidics platform and for visualizing the impact of confinement on hyphal growth and other fungal behaviors pertinent to their remodeling of the underground environment.

Guo, Yi-Syuan (ORCID:0000000340142225)↗

Exploiting bacterial effector proteins to uncover evolutionarily conserved antiviral host machinery

Arboviruses are a diverse group of insect-transmitted pathogens that pose global public health challenges. Identifying evolutionarily conserved host factors that combat arbovirus replication in disparate eukaryotic hosts is important as they may tip the balance between productive and abortive viral replication, and thus determine virus host range. Here, we exploit naturally abortive arbovirus infections that we identified in lepidopteran cells and use bacterial effector proteins to uncover host factors restricting arbovirus replication. Bacterial effectors are proteins secreted by pathogenic bacteria into eukaryotic hosts cells that can inhibit antimicrobial defenses. Since bacteria and viruses can encounter common host defenses, we hypothesized that some bacterial effectors may inhibit host factors that restrict arbovirus replication in lepidopteran cells. Thus, we used bacterial effectors as molecular tools to identify host factors that restrict four distinct arboviruses in lepidopteran cells. By screening 210 effectors encoded by seven different bacterial pathogens, we identify several effectors that individually rescue the replication of all four arboviruses. We show that these effectors encode diverse enzymatic activities that are required to break arbovirus restriction. We further characterize Shigella flexneri-encoded IpaH4 as an E3 ubiquitin ligase that directly ubiquitinates two evolutionarily conserved proteins, SHOC2 and PSMC1, promoting their degradation in insect and human cells. We show that depletion of either SHOC2 or PSMC1 in insect or human cells promotes arbovirus replication, indicating that these are ancient virus restriction factors conserved across invertebrate and vertebrate hosts. Collectively, our study reveals a novel pathogen-guided approach to identify conserved antimicrobial machinery, new effector functions, and conserved roles for SHOC2 and PSMC1 in virus restriction.

59 BASIC BIOLOGICAL SCIENCES↗

Utah FORGE: Microseismic Monitoring Geophone Data from Well 78-32

This submission includes geophone data collected by Schlumberger from Utah FORGE Phase 2C seismic monitoring well 78-32 during stimulation testing of well 58-32. The data are hosted by the Center for High Performance Computing (CHPC) at the University of Utah, and a script for downloading the data is attached. Additional survey info and tips for running the script are included in the document below.

15 GEOTHERMAL ENERGY↗

Single-particle scattering spectroscopy: fundamentals and applications

Metallic nanoparticles supporting a localized surface plasmon resonance have emerged as promising platforms for nanoscopic labels, sensors, and (photo-) catalysts. To use nanoparticles in these capacities, and to gain mechanistic insight into the reactivity of inherently heterogeneous nanoparticles, single-particle characterization approaches are needed. Single-particle scattering spectroscopy has become an important, highly sensitive tool for localizing single plasmonic nanoparticles and studying their optical properties, local environment, and reactivity. In this review, we discuss approaches taken for collecting the scattered light from single particles, their advantages and disadvantages, and present some recent applications. We introduce techniques for the excitation and detection of single-particle scattering such as high-angle dark-field excitation, total internal reflection dark-field excitation, scanning near-field microscopy, and interferometric scattering. We also describe methods to achieve polarization-resolved excitation and detection. We then discuss different approaches for scanning, ratiometric, snapshot, and interferometric hyperspectral imaging techniques used to extract spectral information. Finally, we provide a brief overview of specialized setups for in situ measurements of nanoparticles in liquid systems and setups coupled to scanning tip microscopes.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Evaluation of WSR-88D Level III and MRMS Rainfall Estimates Against Rain Gauge Observations at the Savannah River Site

Rainfall data for the Savannah River Site (SRS) has been historically measured by rain gauges. These instruments serve as ground truth for most climatological and weather applications; however, gauge measurements are prone to errors or biases under certain weather conditions. Rainfall estimates from radar reflectivity values have been developed and improved over the years and serve as an alternative or supplement for gauge measurements. This study compares measurements from tipping bucket rain gauges with rainfall estimates from the NOAA NWS WSR-88D Level III hourly rainfall product and the Multi-Radar Multi-Sensor (MRMS) gauge-corrected precipitation estimate. Results show good agreement between radar derived amounts and ground measurements, with MRMS values showing correlation coefficients of 0.60-0.95 and RMSE values of less than 1.0 cm (0.4 in). The WSR-88D Level III estimates result in correlation coefficients of 0.46-0.86 and RMSE values of less than 1.3 cm (0.5 in). Few outliers are observed for each data pair and are evaluated against precipitation classification products (WSR-88D Hybrid Hydrometeor Classification product and MRMS Precipitation Flag product). The rain gauges used in this study are not part of the Hydrometeorological Automated Data System (HADS) network used to correct the MRMS estimates and therefore, results of this work provide an independent validation of the MRMS gauge correction scheme.

54 ENVIRONMENTAL SCIENCES↗

Design of high-deflection foils MHK applications - CFD models - Helical turbines

The Ocean Renewable Power Company's (ORPC's) goal is to design, develop, and test hydrofoils with large deflections. The effects of the deflections on cross-flow turbine performance would be evaluated in order to inform design considerations for full-scale water turbines and other marine hydrokinetic devices. CFD models of helical model scale turbines tested at UNH OpenFOAM v1912 Tip Speed Ratio (TSR) = 3.00 Different strut configurations

16 TIDAL AND WAVE POWER↗

Design of high deflection foils for MHK applications - CFD files

The Ocean Renewable Power Company's (ORPC's) goal is to design, develop, and test hydrofoils with large deflections. The effects of the deflections on cross-flow turbine performance would be evaluated in order to inform design considerations for full-scale water turbines and other marine hydrokinetic devices. OpenFOAM V1912 files for straight foil model scale turbines in the University of New Hampshire tow tank. Strut Locations = (0.13, 0.225, 0.450, 0.675, 0.900) [m] Tip speed ratio = 2.40

16 TIDAL AND WAVE POWER↗

RITE Gen5 KHPS Levelized Cost of Energy

Levelized Cost of Energy analysis for Verdant Power Gen5 KHPS utilizing annualized AEP based on actual energy generation at the RITE Project during 2020-21. The WEC devices analyzed include attenuator, point absorber, oscillating wave surge converter, oscillating water column, overtopping/terminator device, submerged pressure differential, bulge wave, and rotating mass type wave energy converter devices. The CEC devices analyzed include horizontal axis turbine, vertical axis turbine, oscillating hydrofoil, enclosed tips (Venturi), Archimedes screw, and tidal kite type current energy converter devices.

16 TIDAL AND WAVE POWER↗

Performance data for an axial-flow turbine with passive adaptive blades

To support the development of simulation tools for passive adaptive turbine rotors, an experimental data set from a laboratory-scale axial-flow turbine with passive adaptive blades is provided. The 0.45-meter diameter turbine was tested in the Alice C. Tyler Flume at the University of Washington. Blade and rotor loads were measured at 1 kHz using six-axis force/torque sensors while deflection and twist at the blade tip were tracked using a high-speed camera. This data submission includes a technical report, the raw and processed experimental data, and a README file explaining the file/folder structure and where to find the processing/plotting scripts used to produce the figures in the technical report.

16 TIDAL AND WAVE POWER↗

PA-BCI Meteorological dataset 1985-2018

This data package contains a QA/QC-ed meteorological time series dataset from 1985 to 2018, including relative humidity, temperature, solar radiation, rainfall, wind speed, and barometric pressure at Barro Colorado Island (PA-BCI) in Panama. The data were collected at the elevations of 42 m and 48 m at the BCI Lutz station, except for rainfall that was collected at the BCI Clearing station at the elevation of 1 m. Individual time series datasets were collected using electro-mechanical (electronic sensors, data loggers, chart recorders, etc.). The rainfall dataset was collected using the tipping bucket method, and the data could have been underestimated by 13-17% (likely the large values). The data is included as a single CSV file.

54 ENVIRONMENTAL SCIENCES↗

Observations and Modeling of Fiber-Optics Strain on Hydraulic Fracture Height Growth in HFTS-2

Understanding fracture height growth can be of great significance to optimizing field development and improving recovery. The Hydraulic Fracturing Test Site 2 (HFTS-2) has provided a unique opportunity and an advanced dataset to allow us to observe and understand fracture geometries rigorously. Low frequency distributed acoustic sensing (LF-DAS) data from a vertical well in HFTS-2 showed three key observations: (i) excessive upward height growth (>1000 ft) and limited downward growth of the hydraulic fractures during pumping, (ii) considerable additional upward fracture height growth (~300 ft) after well shut in, and (iii) very complex LF-DAS strain rate patterns for a small fiber-to-stage offset. Advanced geomechanical modeling was performed to simulate the hydraulic fracture propagation and the resulting strain responses in the vertical direction. The modeling results demonstrated asymmetric upward and downward fracture height growths as observed in HFTS-2 with a similar upward height growth rate. Simulated waterfall plots of vertical strain rate showed distinct patterns for different fiber-to-fracture distances. The upward-growing fracture tip can be clearly identified by the interfaces between compressing and extending zones. It was also found that the complex strain rate patterns observed in HFTS-2 for small fiber-stage offsets were not caused by the mechanical layering but possibly result from the simultaneous propagation of multiple hydraulic fractures at different rates. Furthermore, the simulation results improved the understating of the HFTS-2 LF-DAS data and the simulated strain rate patterns could also serve as templates for fracture height interpretation from LF-DAS data in future.

58 GEOSCIENCES↗

Materials for electrification of everything: Moving toward sustainability

We report society is at a unique tipping point in a move from conventional fossil fuel based technologies to renewable sourced electrified technologies which can enable creating a carbon neutral or carbon negative energy economy. Many of the key approaches to achieving this transition in the critical areas of transportation, buildings and manufacturing depend on new materials and new approaches to rapidly increase electrification. This article reviews the overall energy landscape and highlights specific areas where new materials are critical to enabling transitions in energy storage, hydrogen utilization, transportation, buildings and the chemical industry and the articles on these topics that follow. How these transitions can be best integrated and the global societal impact of these transitions is also discussed. The development of new materials is instrumental in accelerating the move to a cleaner electrified society. The "electrification of everything" is increasingly important if we are to mitigate the adverse effects of climate change and materials will play a critical role realizing this goal.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗