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48 records · Page 3

Outgrowth of erlotinib-resistant subpopulations recapitulated in patient-derived lung tumor spheroids and organoids

A model that recapitulates development of acquired therapeutic resistance is needed to improve oncology drug development and patient outcomes. To achieve this end, we established methods for the preparation and growth of spheroids from primary human lung adenocarcinomas, including methods to culture, passage, monitor growth, and evaluate changes in mutational profile over time. Primary lung tumor spheroids were cultured in Matrigel® with varying concentrations of erlotinib, a small molecule kinase inhibitor of epidermal growth factor receptor (EGFR) that is ineffective against KRAS mutant cells. Subtle changes in spheroid size and number were observed within the first two weeks of culture. Spheroids were cultured for up to 24 weeks, during which time interactions between different cell types, movement, and assembly into heterogeneous organoid structures were documented. Allele-specific competitive blocker PCR (ACB-PCR) was used to quantify low frequency BRAF V600E, KRAS G12D, KRAS G12V, and PIK3CA H1047R mutant subpopulations in tumor tissue residue (TR) samples and cultured spheroids. Mutant subpopulations, including multiple mutant subpopulations, were quite prevalent. Twelve examples of mutant enrichment were found in eight of the 14 tumors analyzed, based on the criteria that a statistically-significant increase in mutant fraction was observed relative to both the TR and the no-erlotinib control. Of the mutants quantified in erlotinib-treated cultures, PIK3CA H1047 mutant subpopulations increased most often (5/14 tumors), which is consistent with clinical observations. Thus, this ex vivo lung tumor spheroid model replicates the cellular and mutational tumor heterogeneity of human lung adenocarcinomas and can be used to assess the outgrowth of mutant subpopulations. Spheroid cultures with characterized mutant subpopulations could be used to investigate the efficacy of lung cancer combination therapies.

59 BASIC BIOLOGICAL SCIENCES↗

Ion Transport and Crystal Rotation in Plastic Crystal Electrolytes Under Applied Electric Fields

Organic ionic plastic crystal electrolytes, containing a plastic crystal and lithium salt, offer a potential balance between mechanical and electrochemical properties for solid state lithium-ion battery electrolytes. These electrolytes contain multiple mobile ionic species (three or four), resulting in complex transport mechanisms which have not yet been established. Plastic crystals are defined by long-range positional order and short-range rotational disorder. It is therefore necessary to quantify changes in the local crystal structure of the electrolyte as current flows through it. Herein, we examine the electrochemical properties of pyrrolidinium-based plastic crystal electrolytes containing lithium salt and zwitterion additives, including measurements of current fraction and limiting current. We obtain species-specific insight into electrolyte transport using pulsed-field gradient nuclear magnetic resonance spectroscopy and find that, while the zwitterion additive increases ionic conductivity, it decreases lithium diffusivity with respect to other ionic components. With operando spatiotemporally resolved wide-angle X-ray scattering we observe location-specific crystal rotations due to the passage of ionic current. In conclusion, we posit that reducing energy dissipation due to rotation is essential for using plastic crystal electrolytes in practical applications.

Yap, Kyra M. K. [University of California, Berkele↗

Behavioral patterns of bats at a wind turbine confirm seasonality of fatality risk

Abstract Bat fatalities at wind energy facilities in North America are predominantly comprised of migratory, tree‐dependent species, but it is unclear why these bats are at higher risk. Factors influencing bat susceptibility to wind turbines might be revealed by temporal patterns in their behaviors around these dynamic landscape structures. In northern temperate zones, fatalities occur mostly from July through October, but whether this reflects seasonally variable behaviors, passage of migrants, or some combination of factors remains unknown. In this study, we examined video imagery spanning one year in the state of Colorado in the United States, to characterize patterns of seasonal and nightly variability in bat behavior at a wind turbine. We detected bats on 177 of 306 nights representing approximately 3,800 hr of video and > 2,000 discrete bat events. We observed bats approaching the turbine throughout the night across all months during which bats were observed. Two distinct seasonal peaks of bat activity occurred in July and September, representing 30% and 42% increases in discrete bat events from the preceding months June and August, respectively. Bats exhibited behaviors around the turbine that increased in both diversity and duration in July and September. The peaks in bat events were reflected in chasing and turbine approach behaviors. Many of the bat events involved multiple approaches to the turbine, including when bats were displaced through the air by moving blades. The seasonal and nightly patterns we observed were consistent with the possibility that wind turbines invoke investigative behaviors in bats in late summer and autumn coincident with migration and that bats may return and fly close to wind turbines even after experiencing potentially disruptive stimuli like moving blades. Our results point to the need for a deeper understanding of the seasonality, drivers, and characteristics of bat movement across spatial scales.

17 WIND ENERGY↗

Nonadiabatic Dynamics of Photoexcited cis-Stilbene Using Ab Initio Multiple Spawning

The photochemistry of cis-stilbene proceeds through two pathways: cis-trans isomerization and ring closure to 4a,4b-dihydrophenanthrene (DHP). Despite serving for many decades as a model system for photoisomerization, the photodynamics of cis-stilbene is still not fully understood. In this work, we use ab initio multiple spawning on a SA-2-CASSCF(2,2) potential energy surface to simulate the nonadiabatic dynamics of isolated cis-stilbene. We find the cyclization (to DHP and cis-stilbene) and isomerization (to trans- and cis-stilbene) reaction coordinates to be orthogonal; branching between the two pathways is determined on the S1 excited state within 150 fs of photoexcitation. Furthermore ,trajectory basis functions (TBFs) undergoing cyclization decay rapidly to the ground state in 250 fs, while TBFs moving along the isomerization coordinate remain on the excited state longer, with the majority decaying between 300 and 500 fs. We observe three avoided crossing regions in the dynamics: two along the isomerization coordinate (displaying pyramidalization and migration of an ethylenic hydrogen or phenyl group), and one DHP-like conical intersection along the cyclization coordinate. The isomeric form of the vibrationally hot photoproducts (as determined by measurement 2 ps after photoexcitation) is determined within less than 50 fs of decay to the ground state mediated by passage through a conical intersection. Excess vibrational energy of ground state cis- and trans-stilbene is channelled into phenyl torsions (with mostly opposing directionality). Finally, our simulations are validated by direct comparison to experiment for the absorption spectrum, branching ratio of the three photoproducts (44:52:4 cis-stilbene:trans-stilbene:DHP), and excited state lifetime (520 ± 40 fs).

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Measurement of directed flow in Au + Au collisions at $\sqrt{s{NN}}$ = 19.6 and 27 GeV with the STAR event plane detector

In heavy-ion collision experiments, the global collectivity of final-state particles can be quantified by anisotropic flow coefficients (𝑣 𝑛 ) . The first-order flow coefficient, also referred to as the directed flow (𝑣 1 ), describes the collective sideward motion of produced particles and nuclear fragments in heavy-ion collisions. It carries information on the very early stage of the collision, especially at large pseudorapidity (𝜂), where it is believed to be generated during the nuclear passage time. Directed flow therefore probes the onset of bulk collective dynamics during thermalization, providing valuable experimental guidance to models of the pre-equilibrium stage. In 2018, the Event Plane Detector (EPD) was installed in STAR and used for the Beam Energy Scan phase-II (BES-II) data taking. The combination of EPD (2.1 < |𝜂| < 5.1) and high-statistics BES-II data enables us to extend the 𝑣 1 measurement to the forward and backward 𝜂 regions. In this paper, we present the measurement of 𝑣 1 over a wide 𝜂 range in Au + Au collisions at $\sqrt{s_{NN}}$ = 19.6 and 27 GeV using the STAR EPD. The results of the analysis at $\sqrt{s_{NN}}$ = 19.6 GeV exhibit excellent consistency with the previous PHOBOS measurement, while elevating the precision of the overall measurement. The increased precision of the measurement also revealed finer structures in heavy-ion collisions, including a potential observation of the first-order event-plane decorrelation. Multiple physics models were compared to the experimental results. Only a transport model and a three-fluid hybrid model can reproduce a sizable 𝑣 1 at large 𝜂 as was observed experimentally. The model comparison also indicates 𝑣 1 at large 𝜂 might be sensitive to the QGP phase transition.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

CFD Evaluation of Pressure Change Along Coolant Passages in Sodium-Cooled Fast Reactor with Nek5000

To support the design efforts of advanced sodium-cooled fast reactors (SFRs), a series of computational fluid dynamics (CFD) simulations are performed to investigate the pressure change along various flow passages in the proposed SFR system. The simulations are carried out with the state-of-the-art spectral element flow solver, Nek5000. Two specific case studies are presented in this paper: the flow exiting the axial neutron reflector channels and the flow entering the fuel pin bundle. Due to the high Reynolds numbers expected, a Reynolds-averaged Navier-Stokes (RANS) approach is necessary to model the turbulence. A newly developed regularized k-omega RANS model is adopted in the related CFD calculations. The first case study explores the effect of Reynolds number on the pressure change when flow exits the reflector channels. The pressure change in this case has two major contributors: the change due to wall friction and the Bernoulli effect. It is noted that the nondimensional pressure loss follows a log-linear trend up to Re = 10 5 , and then the trend is flattened. In the second case study, the advanced NekNek coupling capability is tested where an integral domain can be divided into multiple subdomains with coupling interfaces, which would greatly ease the meshing process of complex engineering geometries and potentially save computational resources. The preliminary results obtained so far confirm the consistency between the NekNek results and those produced by regular Nek5000 simulation. The presented work demonstrates the readiness and flexibility of the related CFD techniques, which is part of the broader effort to leverage cutting-edge CFD to inform the advanced nuclear reactor designs.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

Single-Molecule Kinetics of Styrene Hydrogenation on Silica-Supported Vanadium: The Role of Disorder for Single-Atom Catalysts

We report a theoretical approach for the study of supported atom catalysis is developed based on recent advances in the study of single-molecule kinetics. This view is particularly useful in exhibiting the role of disorder in single-atom and single-site catalysts on amorphous supports. The distribution of passage times (or waiting times) through a complex catalytic network originating from a set of coupled active sites is described by a probability distribution function (PDF), f(t), that reflects the local environment of the reaction center. An efficient algorithm is developed based on the linear algebra of the Markov transition matrix that produces f(t) or its moments. The kinetics of the hydrogenation reaction of styrene on an organovanadium(III) catalyst supported on amorphous silica is studied. A kinetic model consisting of three intertwined catalytic cycles emanating from three chemically distinct active sites is proposed to describe the chemistry. Density functional theory (DFT) calculations are employed to determine the free energy barriers of the reactions, which are used to construct the rate coefficient matrix. The disorder induced by the amorphous support material is divided into a low-dimensional short-range component reflecting the covalent structures near the reaction center and a weaker long-range component modeling the bulk randomness. The results are computed and analyzed for a wide range of concentration values and disorder scenarios. The unusual structure in the f(t) PDF is found to occur for certain cases that reveal the contribution of multiple catalytic pathways acting in concert.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Deep Learning for Automated Identification of Eels in Sonar Data

Freshwater eels, such as the American eel (Anguilla rostrata) present numerous challenges related to safe downstream fish passage at hydroelectric facilities. One of those challenges is effective monitoring of their abundance, movements, and behavior to facilitate design and operation of eel protection and passage facilities. A previous EPRI study documented the ability of human analysts to reliably identify American eels in data obtained with a 1100/1800 kHz, multibeam sonar. This report describes a project to develop deep learning (a subset of artificial intelligence) tools to automate the time-consuming, subjective process of eel identification in multibeam sonar data. The project exploited new data collected in the laboratory and the existing data from the prior EPRI field study to develop and test deep learning and other data analytic tools, including wavelet filtering, differencing for static object removal, and convolutional neural network analysis. The analysis of the laboratory data demonstrated feasibility of the approach, revealed object characteristics observed with the sonar that distinguish eels from similarly sized and shaped acoustic targets, and provided additional data for algorithm selection and training. Deep learning algorithms trained and tested on the laboratory data alone achieved accuracy rates of greater than 98% when classifying acoustic images of eels and similar-sized neutrally buoyant sticks. The algorithm trained and tested on the pre-existing field data alone, and yielded classification accuracy of 9.3% false positives and 13.3% false negatives when distinguishing between eels and sticks/PVC pipes based on video clips (i.e., multiple, consecutive images). This performance is comparable to the classification accuracy achieved by human analysts in the prior study. The deep learning algorithm trained on a combination of video clips obtained in the laboratory and the field and tested on video clips from the field, was able to distinguish eels from sticks and PVC pipes (a river debris analog) of similar size with 100% accuracy. Outreach to the hardware, software, and end-user communities early in the project helped to identify needs and specify the application space. Outreach to those communities at the end of the project communicated project results and opportunities for further development. The project achieved proof of concept for automated identification of eel in multibeam sonar data. Future work should focus on acquisition of additional data for more robust algorithm training and testing; modification of the software tools to accommodate multiple acoustic targets in the acoustic field at a given time; identification of additional object classes; incorporation of motion in the object identification and classification algorithms; operationalizing the software tools, including integration with other existing sonar data analysis tools; and partnering with hardware and software providers for distribution of the software tools with their commercial products.

13 HYDRO ENERGY↗

Air-sea interactions yielding rapid Beaufort Sea ice losses during the 2021 ONR THINICE Pilot Field Campaign

Seasonal sea ice coverage has declined in the Pacific Arctic region. Losses of the ice cover have modified the region’s surface heat and momentum fluxes providing weather systems more direct interaction with the upper ocean. For example, recent cyclones that have passed over these waters have initiated multiple air-sea interactions and have impacted mixed layer depth, wave properties, and sea ice mass budgets due to diabatic and/or advective processes. As a United States Office of Naval Research (ONR) Departmental Research initiative, one key component of the ONR THINICE program was to advance knowledge on Arctic cyclone coupling with the ocean surface, its ice cover, and understand how such coupling can lead to rapid ice loss. Leading up to the primary field campaign in August 2022, a pilot field campaign from 19 August to 13 September 2021 focused in Utqiagvik, Alaska and Longyearbyen, Svalbard was carried out. This period was marked by frequent Arctic cyclones, periods of strong low-level winds, and stints of extreme short-term Beaufort Sea ice area losses. Cyclones traversed these waters much more frequently than usual during this 26-day period, but did not exhibit extreme central pressures indicative of high intensity and impactful storms. Using ERA5 atmospheric reanalysis fields, CERES and AIRS surface flux retrievals, and in situ sensor data collected from ice-tethered profilers and ice mass balance buoys, we highlight air-sea-ice interactions in the Beaufort Sea during and between these cyclones leading up to extreme ice loss events. Our case study analysis is aimed at understanding how Arctic cyclones, including air-sea interactions prompted by their passage over the marginal ice zone, influence the end-of-summer ice conditions and ice loss events. This study provides an example where frequent, yet weak storms drive rather large marginal sea-scale losses albeit with heterogenous sea ice effects at local scales.

Ballinger, Thomas [International Arctic Research C↗

Implications of Sea Breeze Circulations on boundary layer aerosols in the southern coastal Texas region

The Sea Breeze Circulation (SBC) influences atmospheric processes at multiple scales in coastal regions. Understanding how SBCs impact the aerosol number budget and aerosol–cloud interaction processes is essential. This study investigates sea breeze–aerosol interactions (SAIs) during 46 summertime SBC events using data from the TRacking Aerosol Convection Interactions Experiment (TRACER) field campaign across urban (main) and rural (supplemental) coastal sites in southern Texas. Weather Research and Forecasting model coupled with Chemistry (WRF-Chem) simulations complement observations to explore spatio-temporal meteorological controls on boundary layer aerosols. During the summertime, Sea Breeze Fronts (SBF) penetrating inland transported cool, moist air over the land, introducing air masses with distinct properties compared to the preexisting continental air. These SAIs cause variability in number concentrations of up to a factor of two, with events typically lasting ∼ 5 h before returning to background conditions. SAI impact on aerosols varies with site proximity to water and the preceding sea breeze (SB) history, primarily affecting the marine-influenced accumulation mode. The main site, influenced by both Galveston Bay and the Gulf of Mexico, reflects a stronger marine influence. In contrast, a supplemental site, at a similar shoreline distance but exposed only to the Gulf of Mexico and typically upstream of the urban core, samples SB air that has traversed land and partially regained continental characteristics. Simulations show that the regional SAIs extend ∼ 50 km inland and reach up to the boundary layer height. SAIs further decrease cloud condensation nuclei relevant aerosol number concentrations in ∼ 20 % of events during SBF passage.

54 ENVIRONMENTAL SCIENCES↗

Ice nucleation measurements from DRUM impactors during TRACER campaign in the Houston TX region from July to September 2022

During TRACER, three Davis Rotating Uniform size-cut Monitors (DRUM; DRUMAir 4-DRUM) were used to collect aerosols for ice nucleation measurements in the Brooks laboratory at Texas A&M University. The three instruments were located at AMF1 in La Porte, Ancillary site in Guy (ANC), and onboard the Texas A&M Rapid Onsite Atmospheric Measurements Van (ROAM-V). ROAM-V was deployed to capture airmasses behind (maritime) and ahead (continental) of the passage of the sea-breeze front through Houston. On select sampling days, ROAM-V sampled in the morning/mid-day on the coast and then transited to a second inland site for the afternoon/evening. The suite of instruments deployed on ROAM-V included a Condensation Particle Counter (CPC; GRIMM Model 5.403 CPC), Scanning Mobility Particle Sizer (SMPS; TSI 3750 detector, TSI 3082 classifier, TSI 3088 neutralizer, TSI 3081A Differential Mobility Analyzer), Cloud Condensation Nuclei counter (Droplet Measurement Technologies CCN Counter), micro pulse lidar (Droplet Measurement Technologies Micro Pulse LiDAR (miniMPL)), and one of the Davis Rotating Uniform size-cut Monitors (DRUM; DRUMAir 4-DRUM). Before sampling at each location, the latitude and longitude were recorded using the GPS on the phone application “My Altitude”. Each DRUM sampler was operated at a flow rate of 23 LPM. Each DRUM has four stages where the aerodynamic diameter size cuts are as follows: stage 1 larger than 3 μm, stage 2 from 3 to 1.2 μm, stage 3 from 1.2 to 0.34 μm, and stage 4 from 0.34 to 0.15 μm. Pretreated aluminum foil was used as a substrate on all stages. At AMF1 and ANC sites, the DRUMs were operated on the shared aerosol inlet, with generous support of the DOE ARM site staff. These instruments rotated 24 mm per day and only contained aluminum foil substrates. Substrates were changed weekly and transported to Texas A&M for storage in -80C freezer until analysis. The DRUM onboard ROAM-V was operated at a faster rotation rate of 150 mm per day to clearly separate the multiple deployment locations for ROAM-V. For the ROAM-V DRUM, substrates were changed every deployment and transported to Texas A&M for storage in -80C freezer until analysis. At Texas A&M, ice nucleation experiments were conducted to measure the ice nucleation temperature of the ambient aerosol samples collected from the three DRUMs using our previously established procedures (Alsante et al., 2023; Fornea et al., 2009; Matthews et al., 2023). For ice nucleation, only samples collected on stage 3 were analyzed, given that these are the most relevant size (1.2 to 0.34 μm diameter) for potential ice nucleating particles. For the AMF1 and ANC sites, we cut and analyzed 2 mm (2-hour) samples. We analyzed the time periods of the AMF1 site instrument when the ROAM-V was deployed. A 72-hour period from July 11th at 23:49 through July 15th at 1:49 was analyzed from the ANC site instrument. For the ROAM-V instrument, we separated the daily samples by site location. Between 1- and 6-hour independent samples were analyzed at each location. We also cut the ROAM-V samples in half to allow for compositional analysis of the aerosol on the other half of the substrate. All viable samples from the ROAM-V were analyzed. Analysis was done using a custom-built ice nucleation apparatus, recently updated to include an array of 16 individual samples (Matthews et al., 2023). On our experimental setup, we used 100 μL of Ultra-High-Performance Liquid Chromatography (UHPLC) water (Sigma Aldrich, >99.9% purity) to wash off the aerosol from the DRUM substrate. Then, we micropipetted 2 μL droplet samples into each of the 16 wells of the array, using hydrophobically coated microscope slides. Experiments would cycle 28 times from 10 C to -40C over a 20-hour period. During analysis of the TRACER samples, nine experiments were conducted with UHPLC water process blanks that followed an identical preparation procedure. The average freezing temperature and standard deviation for these process blanks is -27.7±2.4 C. This data was collected for ARM Field Campaign AFC07023 and supported by DOE ASR grant DE-SC0021047. For any further questions, please feel free to contact the instrument PI, Sarah D. Brooks, sbrooks@tamu.edu. Alsante, A. N., Thornton, D. C., & Brooks, S. D. (2023). Ice nucleation catalyzed by the photosynthesis enzyme RuBisCO and other abundant biomolecules. Communications Earth & Environment, 4(1), 51. Fornea, A. P., Brooks, S. D., Dooley, J. B., & Saha, A. (2009). Heterogeneous freezing of ice on atmospheric aerosols containing ash, soot, and soil. Journal of Geophysical Research: Atmospheres, 114(D13). DOI:10.1029/2009JD011958 Matthews, B. H., Alsante, A. N., & Brooks, S. D. (2023). Pollen Emissions of Subpollen Particles and Ice Nucleating Particles. ACS Earth and Space Chemistry.

54 ENVIRONMENTAL SCIENCES↗

State-of-the-art and evolution of UFSD sensors design at FBK

Over the past few years, there has been growing interest in the development of silicon sensors able to simultaneously measure accurately the time of passage and the position of impinging charged particles. In this contribution, a review of the progresses in the design of UFSD (Ultra-Fast Silicon Detectors) sensors, manufactured at the FBK (Fondazione Bruno Kessler) Foundry, aiming at tracking charged particles in 4 dimensions, is presented. The state-of-the-art UFSD sensors, with excellent timing capability, are planned to be used in both ATLAS and CMS experiments detector upgrade, in order to reduce the background due to the presence of overlapping events in the same bunch crossing. The latest results on sensors characterization including time resolution, radiation resistance and uniformity of the response are here summarized, pointing out the interplay between the design of the gain layer and the UFSD performances. The research is now focusing on the maximization of the sensor fill factor, to be able to reduce the pixel size, exploring the implementation of shallow trenches for the pixel isolation and the development of resistive AC-coupled UFSD sensors. In conclusion, a brief review on research paths tailored for detection of low energy X-rays or for low material budget applications is given.

47 OTHER INSTRUMENTATION↗