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At least 19 records

Limits on the evolutionary rates of biological traits

Abstract This paper focuses on the maximum speed at which biological evolution can occur. I derive inequalities that limit the rate of evolutionary processes driven by natural selection, mutations, or genetic drift. These rate limits link the variability in a population to evolutionary rates. In particular, high variances in the fitness of a population and of a quantitative trait allow for fast changes in the trait’s average. In contrast, low variability makes a trait less susceptible to random changes due to genetic drift. The results in this article generalize Fisher’s fundamental theorem of natural selection to dynamics that allow for mutations and genetic drift, via trade-off relations that constrain the evolutionary rates of arbitrary traits. The rate limits can be used to probe questions in various evolutionary biology and ecology settings. They apply, for instance, to trait dynamics within or across species or to the evolution of bacteria strains. They apply to any quantitative trait, e.g., from species’ weights to the lengths of DNA strands.

59 BASIC BIOLOGICAL SCIENCES

Limits on the Evolutionary Rates of Biological Traits

This paper focuses on the maximum speed at which biological evolution can occur. I derive inequalities that limit the rate of evolutionary processes driven by natural selection, mutations, or genetic drift. These rate limits link the variability in a population to evolutionary rates. In particular, high variances in the fitness of a population and of a quantitative trait allow for fast changes in the trait’s average. In contrast, low variability makes a trait less susceptible to random changes due to genetic drift. The results in this article generalize Fisher’s fundamental theorem of natural selection to dynamics that allow for mutations and genetic drift, via trade-of relations that constrain the evolutionary rates of arbitrary traits. The rate limits can be used to probe questions in various evolutionary biology and ecology settings. They apply, for instance, to trait dynamics within or across species or to the evolution of bacteria strains. They apply to any quantitative trait, e.g., from species’ weights to the lengths of DNA strands.

59 BASIC BIOLOGICAL SCIENCES

Model validation and error attribution for a drifting qubit

Qubit performance is often reported in terms of a variety of single-value metrics, each providing a facet of the underlying noise mechanism limiting performance. However, the value of these metrics may drift over long timescales, and reporting a single number for qubit performance fails to account for the low-frequency noise processes that give rise to this drift. Here, in this work, we demonstrate how we can use the distribution of these values to validate or invalidate candidate noise models. We focus on the case of randomized benchmarking (RB), where typically a single error rate is reported but this error rate can drift over time when multiple passes of RB are performed. We show that using a statistical test as simple as the Kolmogorov-Smirnov statistic on the distribution of RB error rates can be used to rule out noise models, assuming the experiment is performed over a long enough time interval to capture relevant low frequency noise. With confidence in a noise model, we show how care must be exercised when performing error attribution using the distribution of drifting RB error rate.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND

Modeling a divertor with mid-leg pumping for high-power H-mode scenarios in DIII-D considering E x B drift flows

Edge-plasma simulations of a baffled, long-legged divertor in DIII-D, performed using the multi-fluid code UEDGE, indicate that the position of the detachment front is constrained to the location of the pump duct along the low-field side (LFS) baffle. Simulations including magnetic and E x B drifts were performed for 12.5 MW deuterium plasmas including intrinsic carbon and seeded neon to assess the optimal location of the LFS divertor pump to create a stable detachment front between the target and the X-point. The radiation front position in the simulations, taken to be indicative of the detachment front, can be controlled between the pump and X-point in the favorable magnetic field direction for H-mode access by moving the pump duct location upstream of the target along the LFS baffle. In the unfavorable magnetic field direction, the radial E θ x B drift flows are directed towards the pumping surface, efficiently removing the injected deuterium gas and limiting the sensitivity of the radiation front location to the gas injection rate. The role of pumping rate and drift direction on the pumping efficiency are also found to affect the divertor plasma conditions and detachment front location in UEDGE simulations.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY

Understanding the formation of a low-pressure pedestal in the presence of a strong internal transport barrier in DIII-D high β p plasmas

As a promising scenario for fusion reactors, the high poloidal-beta (β P ) scenario is characterized by a strong large radius internal transport barrier (ITB), which significantly enhances the overall confinement quality and the bootstrap current fraction for fully non-inductive operation. It is frequently observed that in the presence of a strong ITB, the pedestal height is lower and is accompanied by small edge localized modes (ELMs), which further improves the compatibility of a high performance core with an edge solution. A mechanism for the formation of the low pedestal is proposed in this paper. It is found that the strong ITB creates an off-axis bootstrap current to clamp the local safety factor q, and thus the magnetic shear in the outer core/pedestal region is increased. Gyrokinetic simulations with the CGYRO code show that the higher magnetic shear brings the experimental profiles into the range where the growth rate of drift-wave instabilities and thus transport is higher, and therefore a lower pedestal gradient is expected. Here, the combination of low pedestal and high magnetic shear further enhances the turbulent transport across the whole pedestal, consistent with power balance analysis. Such a positive feedback mechanism ultimately results in a lower pressure pedestal as observed in experiments. Under such a low pedestal, linear simulations with BOUT++ predict the growth rates of peeling–ballooning modes to be lower across the whole toroidal mode number spectra, and the nonlinear BOUT++ simulation exhibits lower saturated fluctuation intensity as well, consistent with the experimentally observed lower ELM size.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY

Sheath constraints on turbulent magnetised plasmas

Abstract A solid target in contact with a plasma charges (negatively) to reflect the more mobile species (electrons) and thus keep the bulk plasma quasineutral. To shield the bulk plasma from the charged target, there is an oppositely (positively) charged sheath with a sharp electrostatic potential variation on the Debye length scale λ D . In magnetised plasmas where the magnetic field is inclined at an oblique angle α with the target, some of the sheath potential variation occurs also on the ion sound gyroradius length scale ρ S cos ⁡ α , caused by finite ion gyro-orbit distortion and losses. We consider a collisionless and steady-state magnetised plasma sheath whose thickness l ms ∼ max ( λ D , ρ S cos ⁡ α ) is smaller than the characteristic length scale L of spatial fluctuations in the bulk plasma, such that the limit l ms / L → 0 is appropriate. Spatial structures are assumed to be magnetic field-aligned. In the case of small magnetic field angle α ∼ δ ≡ ρ S / L ≪ 1 , electric fields tangential to the target transport ions towards the target via E × B drifts at a rate comparable to the one from parallel streaming. A generalised form of the kinetic Bohm–Chodura criterion at the sheath entrance is derived by requiring that the sheath electric field have a monotonic spatial decay far from the target. The criterion depends on tangential gradients of potential and ion distribution function, with additional nontrivial conditions.

kinetic Bohm–Chodura condition

Energy resolution and gain measurements in Argon-based gas mixtures: Exploring Ar:CF 4 for low energy measurements with TPCs

Time Projection Chambers (TPCs) are among the most advanced charged-particle detectors. Gas-filled TPCs have tracking capabilities that provide 3D-imaging of charged particles with a good energy resolution for spectroscopy. Different gas mixtures have different properties that determine the energy resolution as well as the spatial resolution. Therefore, optimization of operating conditions is required to simultaneously obtain adequate gain, energy resolution, spatial/track resolution, as well as higher drift velocities for high counting rates applications. Ar:CF 4 gas mixture has higher electron drift velocities and lower electron diffusion, which makes it an attractive candidate for TPC filling gas for low energy nuclear physics applications as compared to commonly used Ar:CH 4 and Ar:CO 2 gas mixtures, namely when tracking information is needed. However, other properties, including energy resolution and gain, remain largely unexplored in Ar:CF 4 especially at pressures and other operating conditions relevant for low-energy nuclear physics applications. Here, in this paper we report on gain and energy resolution measurements, using Gas Electron Multipliers (GEMs), in the less explored Ar:CF 4 mixture (Alfonsi et al., 2006), as well as in the more commonly used gas mixtures Ar:CH 4 and Ar:CO 2 . In addition to obtaining energy resolution and gain, we provide results from Garfield++ simulations for gain fluctuations, and their impact on energy resolution is discussed.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND

The role of ion-scale micro-turbulence in pedestal width of the DIII-D wide-pedestal QH mode

The low-edge rotation, intrinsically ELM-free, and improved confinement wide-pedestal quiescent H-mode (QH-mode), discovered in DIII-D tokamak, has pedestal widths exceeding the EPED-kinetic-ballooning mode (KBM) model scaling typically by at least 25%. Ion-scale ($k_yp_s$ < 1) microturbulence and its role in setting the pedestal structure is investigated using the radially local δ$f$ gyrokinetic code CGYRO. The electromagnetic trapped electron mode (TEM) is unstable at the pedestal top, while plasma beta (β$_e$) is ∼60% below the KBM onset threshold and the electron temperature gradient mode is found to be unstable in the peak gradient region. Nonlinear simulation reveals that the ion-scale turbulence could produce electron energy flux consistent with the flux inferred from power balance at the pedestal top, with a reasonable variation of the local shearing rate; and the local neoclassical transport from NEO is dominant over the simulated turbulent transport in the ion energy flux channel. The simulated ion-scale turbulence produces much lower electron energy flux than inferred from experiment in the pedestal peak gradient region. A correction to the EPED-KBM pedestal width scaling is obtained based on the two-dimensional scan of pedestal top plasma beta (β$_e$) and normalized electron density and temperature scale lengths,${a}$/${L_n}_e$, ${a}$/${L_T}_n$using CGYRO linear simulations. Mode transitions among TEM, micro-tearing mode, ion-temperature gradient mode and KBM, are observed in the 2D scan at the pedestal top. A fixed normalized growth rate for these drift-type modes is taken to determine the pedestal width scaling, which shows good consistency with the QH experimental database on pedestal heights and widths. The onset of KBM instabilities and the local E × B shear suppression criterion set the lower and upper limit for the pedestal width of standard QH-mode, wide-pedestal QH-mode and type-I ELMy H mode. A potentially higher and wider pedestal is expected from the new scaling of pedestal width. This work presents an improved understanding of the ion-scale micro-turbulence of wide-pedestal QH-mode and sheds light on a promising scenario for future reactors, including ITER and beyond.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY

Toroidal Alfvén mode instability driven by plasma current in low-density Ohmic plasmas of the spherical tori

Due to intrinsically low magnetic fields, at low density the drift speed of the current-carrying electrons in spherical tokamaks can exceed fraction of the Alfvén speed sufficient for the excitation of the Alfvén gap modes. A particular case of the toroidal mode, observed during minor disruptions in Ohmic shots on SUNIST [Liu et al., Phys. Plasmas 23, 120706 (2016)], is considered in the present communication. Due to the negligible effect of the electron pressure gradient, the growth rate scales linearly with the drift speed, with slope inversely proportional to electron thermal velocity. In the absence of continuum damping, the threshold value of the drift speed for TAE excitation is independent of electron temperature.

Marchenko, V. S. (ORCID:0000000261480533)

Planet Formation by Gas-assisted Accretion of Small Solids

We compute the accretion efficiency of small solids, with radii 1 cm ≤ R s ≤ 10 m, on planets embedded in gaseous disks. Planets have masses 3 ≤ M p ≤ 20 Earth masses (M ⊕ ) and orbit within 10 au of a solar mass star. Disk thermodynamics is modeled via 3D radiation-hydrodynamics calculations that typically resolve the planetary envelopes. Both icy and rocky solids are considered, explicitly modeling their thermodynamic evolution. The maximum efficiencies of 1 ≤ R s ≤ 100 cm particles are generally ≲10%, whereas 10 m solids tend to accrete efficiently or be segregated beyond the planet’s orbit. A simplified approach is applied to compute the accretion efficiency of small cores, with masses M p ≤ 1 M ⊕ and without envelopes, for which efficiencies are approximately proportional to $M^{2/3}_{p}$. The mass flux of solids, estimated from unperturbed drag-induced drift velocities, provides typical accretion rates dM p /dt ≲ 10 -5 M ⊕ yr -1 . In representative disk models with an initial gas-to-dust mass ratio of 70–100 and total mass of 0.05–0.06 M ⊙ , the solids’ accretion falls below 10 -6 M ⊕ yr -1 after 1–1.5 Myr. The derived accretion rates, as functions of time and planet mass, are applied to formation calculations that compute dust opacity self-consistently with the delivery of solids to the envelope. Assuming dust-to-solid coagulation times of ≈0.3 Myr and disk lifetimes of ≈3.5 Myr, heavy-element inventories in the range 3–7 M ⊕ require that ≈90–150 M ⊕ of solids cross the planet’s orbit. The formation calculations encompass a variety of outcomes, from planets a few times M ⊕ , predominantly composed of heavy elements, to giant planets. The peak luminosities during the epoch of the solids’ accretion range from ≈10 -7 to ≈10 -6 L ⊙ .

79 ASTRONOMY AND ASTROPHYSICS

Performance of the Fermilab Linac Injector

The Fermilab Linac injection line consists of a 35 keV magnetron-type H- ion source, two-solenoid Low Energy Beam Transport (LEBT), 201 MHz 4-rod 750 keV Radio Frequency Quadrupole (RFQ), and a Medium Energy Transport (MEBT) containing 4 quadrupoles and a bunching cavity. The injector delivers 25 mA, 48 s pulses to drift-tube Linac at a repetition rate of 15Hz. The transmission efficiency has been lower than expected since commissioning. Recent beam current measurements suggest that the beam is primarily lost upstream of the RFQ exit. Numerical simulations indicate that ions passing through the non-linear field region of the solenoids could produce a beam with an increased emittance resulting in up to 50 % of the LEBT beam current failing to meet the RFQ acceptance. An aperture restriction was installed upstream of the first solenoid to remove these ions. This report describes the results of measurements and simulations as well as the LEBT tuning.

Jones, Daniel C.

Performance of the Fermilab Linac Injector

The Fermilab Linac injection line consists of a 35 keV magnetron-type H- ion source, two-solenoid Low Energy Beam Transport (LEBT), 201 MHz 4-rod 750 keV Radio Frequency Quadrupole (RFQ), and a Medium Energy Transport (MEBT) containing 4 quadrupoles and a bunching cavity. The injector delivers 25 mA, 48 s pulses to drift-tube Linac at a repetition rate of 15Hz. The transmission efficiency has been lower than expected since commissioning. Recent beam current measurements suggest that the beam is primarily lost upstream of the RFQ exit. Numerical simulations indicate that ions passing through the non-linear field region of the solenoids could produce a beam with an increased emittance resulting in up to 50 % of the LEBT beam current failing to meet the RFQ acceptance. An aperture restriction was installed upstream of the first solenoid to remove these ions. This report describes the results of measurements and simulations as well as the LEBT tuning.

Jones, Daniel C.

Performance of the Fermilab Linac Injector

The Fermilab Linac injection line consists of a 35 keV magnetron-type H\textsuperscript{-} ion source, two-solenoid Low Energy Beam Transport (LEBT), 201 MHz 4-rod 750 keV Radio Frequency Quadrupole (RFQ), and a Medium Energy Transport (MEBT) containing 4 quadrupoles and a bunching cavity. The injector delivers 25 mA, 48 µs pulses to the drift-tube Linac at a repetition rate of 15Hz. The transmission efficiency of the injector has been lower than expected since commissioning. Recent beam current measurements suggest that the beam is primarily lost upstream of the RFQ exit. Numerical simulations indicate that ions passing through the non-linear field region of the solenoids could produce a beam with an increased emittance resulting in up to 50\% of the LEBT beam current failing to meet the RFQ acceptance. An aperture restriction was installed upstream of the first solenoid to remove these ions. This report describes the results of measurements and simulations as well as the LEBT tuning.

43 PARTICLE ACCELERATORS

DRiFT current mode, trigger settings and flexible detector specifications applied to scintillator arrays

MCNP radiation transport output is post-processed by DRiFT, a Detector Response Function Toolkit to simulate detailed nuclear instrumentation response. DRiFT can be used to assess the performance and potential limitations of scintillator, gas, and semiconductor detectors under a variety of simulated conditions not easily achievable in a laboratory setting. This work describes new updates in DRiFT for scintillator simulations which focus on the capability to simulate scintillators in current mode, an expansion of trigger options, and the ability to customize individual detector properties in a simulation. These improvements are designed to facilitate the ability to model large arrays of scintillator detectors with higher fidelity than was previously possible and are demonstrated in three examples. The first shows the difference between operating DRiFT in current and pulse mode. In the second example, which is intended to demonstrate deviations in individual detector performance, each detector has properties (PMT gain, optical transport, scintillation yield, etc.) that vary between detectors and are specified in DRiFT. A final example examines how DRiFT could be used to optimize digitizer settings in high rate measurements with split signals using the new common trigger option.

38 RADIATION CHEMISTRY, RADIOCHEMISTRY, AND NUCLEA

Simultaneous Observation of Ion-scale Wave Packets with Opposite Polarizations and Their Implications on the Generation Region in the Inner Heliosphere

This paper reports a dispersion analysis of two wave packets simultaneously observed near the local proton gyrofrequency by the Parker Solar Probe. The observed wave event exhibits clear two-banded wave packets both propagating along the magnetic field, characterized by left-handed (L-mode) and right-handed (R-mode) polarizations simultaneously. By incorporating the Doppler shift effect into a linear dispersion analysis, we find two possible scenarios that explain these simultaneous opposite polarizations: (1) Two inherently L-mode waves in the plasma frame, propagate parallel and antiparallel to the solar wind velocity, with similar wave frequencies and wave numbers. The polarization of the antiparallel propagating wave reverses as it moves sunward in the plasma frame while still comoving with the solar wind in the stationary frame. This reversal manifests the polarization of the wave as an R-mode in the spacecraft frame. (2) Simultaneous L-mode and R-mode waves propagate parallel to the solar wind velocity, with different wave frequencies and wave numbers. Concurrent proton observations during the wave event reveal a dominant anisotropic ($T$⟂/$T$ ∥ > 1) core distribution with a drifting beam population. Estimation of the linear growth rate for both L-mode and R-mode waves suggests that both scenarios are plausible, indicating that the observation is near the wave-generation region. We explore the potential impact of these simultaneous waves on solar wind heating and scattering effects, hypothesizing that such waves might enhance efficiency compared to waves with a single wave packet, contingent upon the statistical significance of such waves.

79 ASTRONOMY AND ASTROPHYSICS

Identification of Carbonyl Species on Palladium Supported on Ceria in Complex Microenvironments

Herein, we present a systematic comparison between Pd carbonyl (Pd-CO) species, specifically over Pd/CeO 2 based catalysts, observed during isothermal adsorption and in several prototypical catalytic reactions to identify and understand CO adsorption on palladium-ceria based catalysts. Pd-CO is observed via DRIFTS to probe the gas-solid conditions, while ATR-IR is used to probe the affinity of Pd-CO under more complex solvated gas-solid-liquid conditions to discern the influence of the microenvironments for carbonyl adsorption. Here, we explore the presence of Pd-CO under several reactive environments, including CO adsorption, CO 2 + H 2 , CO + H 2 , CH 4 + CO 2 and CO under gas-solid-liquid media, highlighting reactions with notable Pd-CO formation. The differences between palladium carbonyls and carbonate species show that carbonyl species are much more affected via a shifting of the peak position than carbonates, which remain static irrespective of the immediate chemical environment. By following the rate of CO accumulation via K-M mode DRIFTS, we observe migration from linear, 2095 cm -1 , to bridge site, 1978 cm -1 , as a function of time under a static CO atmosphere. With the use of DFT, we discerned changes in Pd-carbonyl stretches due to both coverage effects of CO under simulated reaction conditions and temperature effects. Regardless of whether CO is formed as an intermediate or a reactant, the competitive adsorption of *H and *CO affects the binding strength of *CO at all temperatures, with low temperature favoring atop binding and high temperature favoring the more stable FCC Pd-CO site.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH

Turbulence and transport in mirror geometries in the Large Plasma Device

Thanks to advances in plasma science and enabling technology, mirror machines are being reconsidered for fusion power plants and as possible fusion volumetric neutron sources. However, cross-field transport and turbulence in mirrors remains relatively understudied compared with toroidal devices. Turbulence and transport in mirror configurations were studied utilizing the flexible magnetic geometry of the Large Plasma Device (LAPD). Multiple mirror ratios from $M=1$ to $M=2.68$ and three mirror-cell lengths from $L=3.51$ to $L=10.86$ m were examined. Langmuir and magnetic probes were used to measure profiles of density, temperature, potential and magnetic field. The electric field-fluctuation-driven ${\tilde {\boldsymbol{E}}} \times {\boldsymbol{B}}$ particle flux, where $\boldsymbol{B}$ is the background field, was calculated from these quantities. Two probe correlation techniques were used to infer wavenumbers and two-dimensional structure. Cross-field particle flux and density fluctuation power decreased with increased mirror ratio. Core density and temperatures remain similar with mirror ratio, but radial line-integrated density increased. The physical expansion of the plasma in the mirror cell by using a higher field in the source region may have led to reduced density fluctuation power through the increased gradient scale length. This increased scale length reduced the growth rate and saturation level of rotational interchange and drift-like instabilities. Despite the introduction of magnetic curvature, no evidence of mirror-driven instabilities – interchange, velocity space or otherwise – were observed. For curvature-induced interchange, many possible stabilization mechanisms were present, suppressing the visibility of the instability.

Travis, Phil (ORCID:0000000343170432)

Automatic Calibration and Health Monitoring of Infrastructure Sensors

Smart transportation infrastructure relies on networks of heterogeneous sensors - cameras, radars, and lidars - continuously monitoring traffic conditions. However, executing the initial spatial calibration of multiple sensors and the subsequent health monitoring presents significant operational challenges. Environmental factors, mechanical vibrations, and gradual drift cause spatial misalignment, degrading fusion performance and tracking accuracy. Traditional calibration approaches require manual intervention with specialized targets or survey equipment, resulting in service interruptions and high maintenance costs. This work presents an automated framework for initial calibration and continuous health monitoring without human intervention or service disruption. Our approach addresses two critical problems: (1) detecting when sensors become miscalibrated during operation, and (2) automatically re-establishing spatial alignment using only operational traffic data. The health monitoring component analyzes measurement innovations - differences between sensor observations and predicted object states - to detect systematic biases indicative of calibration drift. By computing bias magnitude, directional consistency, and rejection rates, the system identifies miscalibrations as small as 0.5 meters. Unlike traditional methods requiring known calibration targets, our diagnostic operates continuously on live traffic observations, enabling early detection before fusion quality degrades. The automatic recalibration algorithm leverages overlapping sensor fields-of-view and temporal correlation of vehicle observations. Using graph-based optimization, the system automatically discovers which sensor pairs observe common regions, estimates pairwise spatial transformations using RANSAC-based robust estimation, and jointly optimizes all sensor poses through bundle adjustment. The framework handles practical deployment challenges, including different sensor sampling rates (1-10 Hz), varying installation positions, unknown orientations, and limited overlap regions (>10%). When approximate sensor positions are available from installation surveys (+/-1m accuracy), the algorithm additionally estimates sensor orientations, refining both position and rotation to sub-meter and sub-degree accuracy. We validate the framework on multi-hour traffic datasets from six heterogeneous sensors with sampling rates ranging from 1 Hz to 10 Hz. Results demonstrate successful calibration even with sparse overlap (<20%) and automatic detection of miscalibrations exceeding 0.8 meters. This work enables a "deploy-and-forget" sensor infrastructure that maintains calibration autonomously, reducing maintenance costs while improving tracking accuracy. The techniques generalize beyond transportation to any multi-sensor monitoring application requiring robust spatial alignment, including smart cities, industrial monitoring, and surveillance systems.

24 POWER TRANSMISSION AND DISTRIBUTION