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At least 559 records · Page 31

Extreme elevational migration spurred cryptic speciation in giant hummingbirds

The ecoevolutionary drivers of species niche expansion or contraction are critical for biodiversity but challenging to infer. Niche expansion may be promoted by local adaptation or constrained by physiological performance trade-offs. For birds, evolutionary shifts in migratory behavior permit the broadening of the climatic niche by expansion into varied, seasonal environments. Broader niches can be short-lived if diversifying selection and geography promote speciation and niche subdivision across climatic gradients. To illuminate niche breadth dynamics, we can ask how “outlier” species defy constraints. Of the 363 hummingbird species, the giant hummingbird (Patagona gigas) has the broadest climatic niche by a large margin. To test the roles of migratory behavior, performance trade-offs, and genetic structure in maintaining its exceptional niche breadth, we studied its movements, respiratory traits, and population genomics. Satellite and light-level geolocator tracks revealed an >8,300-km loop migration over the Central Andean Plateau. This migration included a 3-wk, ~4,100-m ascent punctuated by upward bursts and pauses, resembling the acclimatization routines of human mountain climbers, and accompanied by surging blood-hemoglobin concentrations. Extreme migration was accompanied by deep genomic divergence from high-elevation resident populations, with decisive postzygotic barriers to gene flow. The two forms occur side-by-side but differ almost imperceptibly in size, plumage, and respiratory traits. The high-elevation resident taxon is the world’s largest hummingbird, a previously undiscovered species that we describe and name here. The giant hummingbirds demonstrate evolutionary limits on niche breadth: when the ancestral niche expanded due to evolution (or loss) of an extreme migratory behavior, speciation followed.

Science & Technology - Other Topics↗

LAMP Diagnostics at the Point-of-Care: Emerging Trends and Perspectives for the Developer Community

Over the past decade, loop-mediated isothermal amplification (LAMP) technology has played an important role in molecular diagnostics. Amongst numerous nucleic acid amplification assays, LAMP stands out in terms of sample-to-answer time, sensitivity, specificity, cost, robustness, and accessibility, making it ideal for field-deployable diagnostics in resource-limited regions. In this review, we outline the front-end LAMP design practices for point-of-care (POC) applications, including sample handling and various signal readout methodologies. Next, we explore existing LAMP technologies that have been validated with clinical samples in the field. We summarize recent work that utilizes reverse transcription (RT) LAMP to rapidly detect SARS-CoV-2 as an alternative to standard PCR protocols. Finally, we describe challenges in translating LAMP from the benchtop to the field and opportunities for future LAMP assay development and performance reporting. Despite the popularity of LAMP in the academic research community and a recent surge in interest in LAMP due to the COVID-19 pandemic, there are numerous areas for improvement in the fundamental understanding of LAMP, which are needed to elevate the field of LAMP assay development and characterization.

60 APPLIED LIFE SCIENCES↗

Electromagnetic turbulence simulation of tokamak edge plasma dynamics and divertor heat load during thermal quench

Abstract The edge plasma turbulence and transport dynamics, as well as the divertor power loads during the thermal-quench phase of tokamak disruptions, are numerically investigated with BOUT++’s flux-driven six-field electromagnetic turbulence model. Here, transient yet intense particle and energy sources are applied at the pedestal top to mimic the plasma power drive at the edge induced by a core thermal collapse, which flattens the core temperature profile. Interesting features, such as surging of divertor heat load (up to 50 times) and broadening of heat-flux width (up to four times) on the outer-divertor target plate, are observed in the simulation, in qualitative agreement with experimental observations. The dramatic changes in divertor heat load and width are due to the enhanced plasma turbulence activities inside the separatrix. Two cross-field transport mechanisms, namely, the E × B turbulent convection and the stochastic parallel advection/conduction, are identified to play important roles in this process. First, an elevated edge pressure gradient drives instabilities and subsequent turbulence in the entire pedestal region. The enhanced turbulence not only transports particles and energy radially across the separatrix via the E × B convection, which causes the initial divertor heat-load burst, but it also induces amplified magnetic fluctuation B ˜ . Once themagnetic fluctuation is large enough to break the magnetic flux surface, magnetic flutter effect provides an additional radial transport channel. In the late stage of our simulation, | B ˜ r / B 0 | reaches to 10 −4 level that completely breaks magnetic flux surfaces such that stochastic field lines are directly connecting pedestal top plasma to the divertor target plates or first wall, further contributing to the divertor heat-flux width broadening.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Characterization of SOL profiles and turbulence in ICRF-heated plasmas in EAST

Scrape-off layer (SOL) profiles and turbulence in ion cyclotron range of frequency (ICRF)-heated plasmas are investigated by the reciprocating probe diagnostic system (FRPs) and gas puff imaging (GPI) diagnostic in EAST. A radio-frequency (RF) sheath potential reaching up to 100 V is identified proximate to the ICRF antennas. Notably, the amplitude of this RF sheath potential escalates in response to rising ICRF power and inversely with plasma density. When a RF sheath is present in the far SOL, a pronounced density ‘shoulder’ forms in front of the ICRF antennas, while the ‘shoulder’ fade away as the antenna and associated RF sheath shift outwards. A strong E r shear is revealed by measurements from both FRPs and GPI. Analysis of the poloidal wave number-frequency spectrum reveals suppression of high-frequency turbulence in the far SOL due to the RF sheath. This effect is manifested in the reduced autocorrelation time τ c and reduced average blob size δ blob of the SOL plasma. Intriguingly, the poloidal propagation direction of the low-frequency turbulence reverses from the electron to the ion diamagnetic drift direction at the RF sheath location. A surge of tungsten impurity is potentially attributed to the heightened interaction between the SOL plasmas and the wall material. Shifting the ICRF antennas outward, to alleviate heat spots, results in the relocation of the RF sheath to the shaded region of the main limiter. This shift amplifies the radial velocity of blobs in the far SOL and concurrently diminishes the SOL density when compared to conditions without ICRF injection. The properties of ion saturation current fluctuations are consistent with the stochastic model predictions.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Radiation-front position control with scenario adjustments during the first tungsten divertor operation on KSTAR

This study reports the first experimental demonstration of a radiation front-based detachment control system during the initial tungsten divertor campaign in KSTAR. The system employs real-time infrared video bolometry with tomographic reconstruction to track the inboard radiation-front position, which served as a feedback variable for impurity seeding. In a baseline scenario without pre-D 2 fueling, tungsten accumulation triggered core radiation surges and repetitive H–L back transitions. In contrast, with pre-D 2 fueling, detachment was stabilized by maintaining higher edge-localized mode frequency, suppressing core tungsten buildup, and reducing sputtering, thereby enabling sustained feedback control. The suitability of the inboard front position as a detachment control metric was confirmed by its correlation with the degree of detachment: with D 2 fueling the relation exhibited a broad hysteresis loop characteristic of momentum-loss-dominated detachment, whereas with N 2 fueling, it became narrow and nearly vertical, consistent with radiation-loss-dominated pinning. These results provide a proof-of-principle for radiation-front-based detachment control, demonstrating its viability as a control approach. At the same time, these results clarify that the detachment outcomes were further conditioned by impurity transport characteristics of tungsten divertor operation in KSTAR, providing guidance for future scenario optimization and controller development in tungsten devices.

KSTAR↗

Optimization-based calibration of hydrodynamic drag coefficients for a semisubmersible platform using experimental data of an irregular sea state

For the simulation of the coupled dynamic response of floating offshore wind turbines, it is crucial to calibrate the hydrodynamic damping with experimental data. The aim of this work is to find a set of hydrodynamic drag coefficients for the semisubmersible platform of the Offshore Code Comparison Collaboration, Continuation, with Correlation and unCertainity (OC6) project which provides suitable results for an irregular sea state. Due to the complex interaction of several degrees of freedom (DOF), it is common to calibrate drag coefficients with the time series of decay tests. However, applying these drag coefficients for the simulation of an irregular sea state results in misprediction of the motions. By using numerical optimization, it is possible to calibrate multiple drag coefficients simultaneously and effectively, while also considering several DOF. This work considers time series of structural displacements from wave tank tests of the OC6 project and from simulations of the same load cases in OpenFAST. Results are transferred into the frequency domain and the deviation between power spectral densities of surge, pitch and heave from experiment and numerical simulation is used as an objective function to obtain the best fitting drag coefficients. This novel numerical optimization approach enables finding one set of drag coefficients for different load cases, which is a major improvement compared to decay-test-tuned drag coefficients.

42 ENGINEERING↗

An outlook into the flat land of 2D materials beyond graphene: synthesis, properties and device applications

Abstract The field of two-dimensional (2D) and layered materials continues to excite many researchers around the world who are eager to advance and innovate viable routes for large scale synthesis, doping and integration of monolayers and the development of unique characterization approaches for studying and harnessing exotic properties that will enable novel device applications. There has been a large interest in 2D materials beyond graphene, with particular emphasis on monoelemental materials (phosphorene, silicene, tellurene, etc. ), 2D compounds (MXenes, oxides, nitrides, carbides and chalcogenides), their alloys and layered van der Waals heterostructures. This is not only indicated by the significant increase in the number of peer reviewed publications each year in this area of research, but also by the surging number of conference sessions focusing on 2D materials beyond graphene. This Perspective article highlights some of the recent advances in the field from a diverse international community of theoretical and experimental researchers who participated in the symposium ‘Beyond Graphene 2D Materials—Synthesis, Properties and Device Applications’ at the Materials Research Society (MRS) Fall 2019 meeting.

McCreary, Amber (ORCID:0000000299885800)↗

Hybrid MEMS-CMOS ion traps for NISQ computing

Surging interest in engineering quantum computers has stimulated significant and focused research on technologies needed to make them manufacturable and scalable. In the ion trap realm this has led to a transition from bulk three-dimensional macro-scale traps to chip-based ion traps and included important demonstrations of passive and active electronics, waveguides, detectors, and other integrated components. At the same time as these technologies are being developed the system sizes are demanding more ions to run noisy intermediate scale quantum (NISQ) algorithms, growing from around ten ions today to potentially a hundred or more in the near future. To realize the size and features needed for this growth, the geometric and material design space of microfabricated ion traps must expand. In this paper we describe present limitations and the approaches needed to overcome them, including how geometric complexity drives the number of metal levels, why routing congestion affects the size and location of shunting capacitors, and how RF power dissipation can limit the size of the trap array. Finally, we also give recommendations for future research needed to accommodate the demands of NISQ scale ion traps that are integrated with additional technologies.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Differentiable physics-enabled closure modeling for Burgers’ turbulence

Abstract Data-driven turbulence modeling is experiencing a surge in interest following algorithmic and hardware developments in the data sciences. We discuss an approach using the differentiable physics paradigm that combines known physics with machine learning to develop closure models for Burgers’ turbulence. We consider the one-dimensional Burgers system as a prototypical test problem for modeling the unresolved terms in advection-dominated turbulence problems. We train a series of models that incorporate varying degrees of physical assumptions on an a posteriori loss function to test the efficacy of models across a range of system parameters, including viscosity, time, and grid resolution. We find that constraining models with inductive biases in the form of partial differential equations that contain known physics or existing closure approaches produces highly data-efficient, accurate, and generalizable models, outperforming state-of-the-art baselines. Addition of structure in the form of physics information also brings a level of interpretability to the models, potentially offering a stepping stone to the future of closure modeling.

97 MATHEMATICS AND COMPUTING↗

nf-core/proteinfamilies: a scalable pipeline for the generation of protein families

The growth of metagenomics-derived amino acid sequence data has transformed our understanding of protein function, microbial diversity, and evolutionary relationships. However, the vast majority of these proteins remain functionally uncharacterized. Grouping the millions of such uncharacterized sequences with the few experimentally characterized ones allows the transfer of annotations, while the inspection of conserved residues with multiple sequence alignments can provide clues to function, even in the absence of existing functional information. To address the challenges associated with this data surge and the need to group sequences, we present a scalable, open-source, parametrizable Nextflow pipeline (nf-core/proteinfamilies) that generates nascent protein families or assigns new proteins to existing families. The computational benchmarks demonstrated that resource usage scales approximately linearly with input size, and the biological benchmarks showed that the generated protein families closely resemble manually curated families in widely used databases.

Nextflow↗

Excess deaths reveal the true spatial, temporal and demographic impact of COVID-19 on mortality in Ecuador

Accepted Background In early 2020, Ecuador reported one of the highest surges of per capita deaths across the globe. Methods We collected a comprehensive dataset containing individual death records between 2015 and 2020, from the Ecuadorian National Institute of Statistics and Census and the Ecuadorian Ministry of Government. We computed the number of excess deaths across time, geographical locations and demographic groups using Poisson regression methods. Results Between 1 January and 23 September 2020, the number of excess deaths in Ecuador was 36 402 [95% confidence interval (CI): 35 762–36 827] or 208 per 100 000 people, which is 171% of the expected deaths in that period in a typical year. Only 20% of the excess deaths are attributable to confirmed COVID-19 deaths. Strikingly, in provinces that were most affected by COVID-19 such as Guayas and Santa Elena, the all-cause deaths are more than double the expected number of deaths that would have occurred in a normal year. The extent of excess deaths in men is higher than in women, and the number of excess deaths increases with age. Indigenous populations had the highest level of excess deaths among all ethnic groups. Conclusions Overall, the exceptionally high level of excess deaths in Ecuador highlights the enormous burden and heterogeneous impact of COVID-19 on mortality, especially in older age groups and Indigenous populations in Ecuador, which was not fully revealed by COVID-19 death counts. Together with the limited testing in Ecuador, our results suggest that the majority of the excess deaths were likely to be undocumented COVID-19 deaths.

60 APPLIED LIFE SCIENCES↗

Interface, bulk and surface structure of heteroepitaxial altermagnetic α-MnTe films grown on GaAs(111)

Epitaxial MnTe films have recently seen a surge in research into their altermagnetic semiconducting properties. However, those properties may be extremely sensitive to structural and chemical modifications. We report a detailed investigation of the synthesis of the altermagnet α-MnTe on GaAs(111), which reveals the bulk defect structure of this material, the mechanism by which it releases strain from the underlying substrate, and the impact of oxidation on its surface. X-ray diffraction measurements show that α-MnTe layers with thicknesses spanning 45 to 640 nm acquire lattice parameters different from bulk, mostly due to thermal strain caused by the substrate rather than strain from the lattice mismatch. Through high-resolution transmission electron microscopy (TEM) measurement, we then unveil a misfit dislocation array at the interface, revealing the mechanism by which lattice strain is relaxed. TEM also reveals a stacking fault in the bulk, occurring along a glide plane parallel to the interface. The combination of TEM with polarized neutron reflectometry measurements finally reveals the impact of oxidation on the chemistry of the surface of uncapped MnTe. Furthermore, or findings highlight the subtle role of epitaxy in altering the structure of α-MnTe, providing potential opportunities to tune the altermagnetic properties of this material.

Altermagnets↗

Drag viscosity of metals and its connection to Coulomb drag

Recent years have seen a surge of interest in studies of hydrodynamic transport in electronic systems. We investigate the electron viscosity of metals and find a component that is closely related to Coulomb drag. By using linear-response theory, viscosity, which is a transport coefficient for momentum, can be extracted from the retarded correlation function of the momentum flux, i.e., the stress tensor. There exists a previously overlooked contribution to the shear viscosity from the interacting part of the stress tensor which accounts for the momentum flow induced by interactions. This contribution, which we dub drag viscosity, is caused by the frictional drag force due to long-range interactions. It is therefore linked to Coulomb drag which also originates from the interaction-induced drag force. Starting from the Kubo formula and using the Keldysh technique, we compute the drag viscosity of two- and three-dimensional metals along with the drag resistivity of double-layer two-dimensional electronic systems. Both the drag resistivity and drag viscosity exhibit a crossover from quadratic-in-$\textit{T}$ behavior at low temperatures to a linear behavior at higher temperatures. Although the drag viscosity appears relatively small compared with the normal Drude component for the clean metals, it may dominate hydrodynamic transport in some systems, which are discussed in the conclusion.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Path integral approach to quantum anomalies in interacting models

The prediction and subsequent discovery of topological semimetal phases of matter in solid state systems has instigated a surge of activity investigating the exotic properties of these unusual materials. Among these are transport signatures which can be attributed to the chiral anomaly; the breaking of classical chiral symmetry in a quantum theory. This remarkable quantum phenomenon, first discovered in the context of particle physics has now found new life in condensed-matter physics, connecting topological quantum matter and band theory with effective field theoretic models. In this paper we investigate the interplay between interactions and the chiral anomaly in field theories inspired by semimetals using Fujikawa's path integral method. Starting from models in one spatial dimension we discuss how the presence of interactions can affect the consequences of the chiral anomaly leading to renormalization of excitations and their transport properties. This is then generalized to the three-dimensional case where we show that the anomalous response of the system, namely, the chiral magnetic and quantum Hall effects, are modified by the presence of interactions. These properties are investigated further through the identification of anomalous modes which exist within interacting Weyl semimetals. These massive excitations are nonperturbative in nature and are a direct consequence of the chiral anomaly. The effects of interactions on mixed axial-gravitational anomalies are then investigated and the conditions required for interaction effects to be observed are discussed.

Anomalies↗

Micropinch formation dynamics in X pinches

High temporal resolution x-ray streak camera studies of micropinch formation in Cu hybrid x pinches reveal key plasma conditions. Analysis of Ne-like Cu lines indicate an average electron temperature of about 200 eV and 4.5×10 28 m -3 electron density. Here, the spectra suggest that the electron temperature jumps to about 1 keV, inferred from the continuum and the postcontinuum line emission that includes Li-like Cu lines. There is no sign of a rapid temperature change or a substantial surge in radiation emission during the 200 ps precontinuum x-ray burst, suggesting that the radiative collapse process does not play a major role in micropinch formation. Two-dimensional extended Magnetohydrodynamic (MHD) simulations, coupled to a collisional-radiative spectral analysis code, suggest the significance of the rapid radial implosion of high-temperature, low-density plasma, the axial outflow, and the dynamic plasma pressure in micropinch formation.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Synthesis of Yttrium Superhydride Superconductor with a Transition Temperature up to 262 K by Catalytic Hydrogenation at High Pressures

The recent observation of room-temperature superconductivity will undoubtedly lead to a surge in the discovery of new, dense, hydrogen-rich materials. The rare earth metal superhydrides are predicted to have very high-T c superconductivity that is tunable with changes in stoichiometry or doping. Here we report the synthesis of an yttrium superhydride that exhibits superconductivity at a critical temperature of 262 K at 182±8 GPa. A palladium thin film assists the synthesis by protecting the sputtered yttrium from oxidation and promoting subsequent hydrogenation. Phonon-mediated superconductivity is established by the observation of zero resistance, an isotope effect and the reduction of T c under an external magnetic field. Furthermore, the upper critical magnetic field is 103 T at zero temperature.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Hybrid Energy Management with Real-Time Control of a High-Power EV Charging Site

Decarbonization of transportation systems is driving higher capacity energy storage and faster charging power requirements in electric vehicles (EVs). Given the potential advantages - such as increased efficiency, reduced inverter capacity, and less total cable mass - there is a demand in the industry for more DC distribution for high-power charging (HPC) hubs. However, the cost-effective, adaptive, and robust operation of the DC-coupled HPC hub necessitates a robust site energy management system (SEMS). Validating SEMS operation using a digital twin of an HPC hub in a real-time simulator (RTS) platform is crucial before field deployment. In this study, we propose a hybrid energy management site controller designed to achieve high-level, long-term operational objectives while managing low-level power sharing control between hub assets. We develop a centralized model predictive controller (MPC) to optimize hub operating points and use these points to update the droop parameters of the site energy storage system (ESS). This approach ensures the hub follows an optimal operating point while maintaining the flexibility to respond to load surges. We tested and verified our proposed approach both offline and on a Controller Hardware-in-the-loop (C-HIL) simulation platform integrated with a SEMS framework, demonstrating real-time site operation and validating a cost-effective and robust site controller.

ADVANCED PROPULSION SYSTEMS↗

Entropy-Infused Deep Learning Loss Function for Capturing Extreme Values in Wind Power Forecasting

Extreme scenarios in wind power generation occur with higher frequency and larger magnitude in the recent years due to the ever-increasing extreme meteorological factors. Accurate forecasting of the occurrence of extreme values in wind power generation is of great concern to ensure reliable power system operation. Recently, deep learning models have surged in popularity for wind power forecasting, with the mean squared error (MSE) loss function being commonly used. However, the MSE loss function, being sensitive to extreme values, disproportionately penalizes larger errors, cannot adequately capture the extreme values present in wind energy data, and novel loss functions have seldom been tailored for wind power forecasting. To this end, in this paper, we introduce a novel loss function specifically crafted to capture extreme values in wind power forecasting. The experimental results with four fundamental deep learning methods on open source wind power dataset validate that the new loss function is efficient and superior in all cases compared to MSE in capturing extreme values while maintaining forecasting performance.

17 WIND ENERGY↗