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A Method to estimate the economy-wide consequences of widespread, long duration electric power interruptions
Not provided.
Causes and consequences of experimental variation in Nicotiana benthamiana transient expression
Infiltration of Agrobacterium tumefaciens into Nicotiana benthamiana has become a foundational technique in plant biology, enabling efficient delivery of transgenes in planta with technical ease, robust signal, and relatively high throughput. Despite transient expression’s prevalence in disciplines such as synthetic biology, little work has been done to describe and address the variability inherent in this system, a concern for experiments that rely on highly quantitative readouts. In a comprehensive analysis of N. benthamiana agroinfiltration experiments, we model sources of variability that affect transient expression. Our findings emphasize the need to validate normalization methods under the specific conditions of each study, as distinct normalization schemes do not always reduce variation either within or between experiments. Using a dataset of 1915 plants collected over three years, we develop a model of variation in N. benthamiana transient expression, using power analysis to determine the number of individual plants required for a given effect size. Drawing on our longitudinal data, these findings inform practical guidelines for minimizing variability through strategic experimental design and power analysis, providing a foundation for more robust and reproducible use of N. benthamiana in quantitative plant biology and synthetic biology applications.
Fine-scale contemporary recombination variation and its fitness consequences in adaptively diverging stickleback fish
Despite deep evolutionary conservation, recombination rates vary greatly across the genome and among individuals, sexes and populations. Yet the impact of this variation on adaptively diverging populations is not well understood. Here we characterized fine-scale recombination landscapes in an adaptively divergent pair of marine and freshwater populations of threespine stickleback from River Tyne, Scotland. Through whole-genome sequencing of large nuclear families, we identified the genomic locations of almost 50,000 crossovers and built recombination maps for marine, freshwater and hybrid individuals at a resolution of 3.8 kb. We used these maps to quantify the factors driving variation in recombination rates. We found strong heterochiasmy between sexes but also differences in recombination rates among ecotypes. Hybrids showed evidence of significant recombination suppression in overall map length and in individual loci. Recombination rates were lower not only within individual marine–freshwater-adaptive loci, but also between loci on the same chromosome, suggesting selection on linked gene ‘cassettes’. Through temporal sampling along a natural hybrid zone, we found that recombinants showed traits associated with reduced fitness. Our results support predictions that divergence in cis-acting recombination modifiers, whose functions are disrupted in hybrids, may play an important role in maintaining differences among adaptively diverging populations.
Consequences of the failure of equipartition for the p – V behavior of liquid water and the hydration free energy components of a small protein
Earlier we showed that in the molecular dynamics simulation of a rigid model of water it is necessary to use an integration time-step δ t ≤ 0.5 fs to ensure equipartition between translational and rotational modes. Here we extend that study in the NVT ensemble to NpT conditions and to an aqueous protein. We study neat liquid water with the rigid, SPC/E model and the protein BBA (PDB ID: 1FME) solvated in the rigid, TIP3P model. We examine integration time-steps ranging from 0.5 fs to 4.0 fs for various thermostat plus barostat combinations. We find that a small δ t is necessary to ensure consistent prediction of the simulation volume. Hydrogen mass repartitioning alleviates the problem somewhat, but is ineffective for the typical time-step used with this approach. The compressibility, a measure of volume fluctuations, and the dielectric constant, a measure of dipole moment fluctuations, are also seen to be sensitive to δ t . Using the mean volume estimated from the NpT simulation, we examine the electrostatic and van der Waals contribution to the hydration free energy of the protein in the NVT ensemble. These contributions are also sensitive to δ t . In going from δ t = 2 fs to δ t = 0.5 fs, the change in the net electrostatic plus van der Waals contribution to the hydration of BBA is already in excess of the folding free energy reported for this protein.
Sprain energy consequences for damage localization and fracture mechanics
The 2023 smooth Lagrangian Crack-Band Model (slCBM), inspired by the 2020 invention of the gap test, prevented spurious damage localization during fracture growth by introducing the second gradient of the displacement field vector, named the “sprain,” as the localization limiter. The key idea was that, in the finite element implementation, the displacement vector and its gradient should be treated as independent fields with the lowest ( C 0 ) continuity, constrained by a second-order Lagrange multiplier tensor. Coupled with a realistic constitutive law for triaxial softening damage, such as microplane model M7, the known limitations of the classical Crack Band Model were eliminated. Here, we show that the slCBM closely reproduces the size effect revealed by the gap test at various crack-parallel stresses. To describe it, we present an approximate corrective formula, although a strong loading-path dependence limits its applicability. Except for the rare case of zero crack-parallel stresses, the fracture predictions of the line crack models (linear elastic fracture mechanics, phase-field, extended finite element method (XFEM), cohesive crack models) can be as much as 100% in error. We argue that the localization limiter concept must be extended by including the resistance to material rotation gradients. We also show that, without this resistance, the existing strain-gradient damage theories may predict a wrong fracture pattern and have, for Mode II and III fractures, a load capacity error as much as 55%. Finally, we argue that the crack-parallel stress effect must occur in all materials, ranging from concrete to atomistically sharp cracks in crystals.
Intraspecific Reaction Norm Variation Controls the Eco-Evolutionary Consequences of Environmental Change
As environmental change accelerates globally, understanding concurrent organismal, species, and community responses is increasingly vital. Here, we examine these collective responses by incorporating genotype-specific thermal reaction norms into an eco-evolutionary predator-prey model, allowing us to track simultaneous phenotypic, ecological, and evolutionary responses to environmental change within ecological communities. We show that the reaction norms expressed by genotypes within a population determine how a community switches between different eco-evolutionary outcomes with changes in temperature. We identify how different components of phenotypic variation in thermal reaction norms—environmental (E), additive environmental and genetic (E + G), and gene-by-environment interactions (G × E)—influence eco-evolutionary dynamics and outcomes as temperature changes. Furthermore, our findings underscore how complex eco-evolutionary responses to environmental change ultimately emerge from variation in reaction norms among genotypes, offering new mechanistic insights into environmental impacts on adaptation, the maintenance of phenotypic and genetic variation, and ecological stability, which is crucial for understanding and predicting eco-evolutionary effects of rapid environmental change in the future.
Error field predictability and consequences for ITER
Abstract ITER coil tolerances are re-evaluated using the modern understanding of coupling to least-stable plasma modes and an updated center-line-traced model of ITER’s coil windings. This reassessment finds the tolerances to be conservative through a statistical, linear study of n = 1 error fields (EFs) due to tilted, shifted misplacements and nominal windings of central solenoid and poloidal field coils within tolerance. We also show that a model-based correction scheme remains effective even when metrology quality is sub-optimal, and compare this to projected empirical correction schemes. We begin with an analysis of the necessity of error field correction (EFC) for daily operation in ITER using scalign laws for the EF penetration threshold. We then consider the predictability of EF dominant mode overlap across early planned ITER scenarios and, as measuring EFs in high power scenarios can pose risks to the device, the potential for extrapolation to the ITER Baseline Scenario (IBS). We find that carefully designing a scenario matching currents proportionally to those of the IBS is far more important than plasma shape or profiles in accurately measuring an optimal correction current set.
Consequences of minimal entanglement in bosonic field theories
In this paper, we study a recently discovered connection between scattering that minimally entangles and emergent symmetries. In a perturbative expansion, we have generalized the constraints of minimal entanglement scattering, beyond qubits, to general qudits of dimension d . Interestingly, projecting on any qubit subspaces, the constraints factorize, so that it is consistent to analyze minimal entanglement by looking at all such subspaces. We start by looking at toy models with two scalar fields, finding that minimal entanglement only allows quartic couplings which have instabilities at large field values and no symmetries. For the two Higgs doublet model, by considering H + H − → H + H − scattering, we show that minimal entanglement in this channel does not allow an interacting parameter point with enhanced symmetries. These results show that the connection between minimal entanglement and symmetries depends strongly on the scattering channels analyzed and we speculate on the potential resolutions. Published by the American Physical Society 2024
BICEP/ Keck XVIII: Measurement of BICEP3 polarization angles and consequences for constraining cosmic birefringence and inflation
We use a custom-made calibrator to measure individual detectors’ polarization angles of BICEP3, a small aperture telescope observing the cosmic microwave background (CMB) at 95 GHz from the South Pole. We describe our calibration strategy and the statistical and systematic uncertainties associated with the measurement. We reach an unprecedented precision for such measurement on a CMB experiment, with a repeatability for each detector pair of 0.02°. Here, we show that the relative angles measured using this method are in excellent agreement with those extracted from CMB data. Because the absolute measurement is currently limited by a systematic uncertainty, we do not derive cosmic birefringence constraints from BICEP3 data in this work. Rather, we forecast the sensitivity of BICEP3 sky maps for such analysis. We investigate the relative contributions of instrument noise, lensing, and dust, as well as astrophysical and instrumental systematics. We also explore the constraining power of different angle estimators, depending on analysis choices. We establish that the BICEP3 2-year dataset (2017–2018) has an on-sky sensitivity to the cosmic birefringence angle of 𝜎 𝛼 = 0.078°, which could be improved to 𝜎 𝛼 = 0.055° by adding all of the existing BICEP3 data (through 2023). Furthermore, we emphasize the possibility of using the BICEP3 sky patch as a polarization calibration source for CMB experiments, which with the present data could reach a precision of 0.035°. Finally, in the context of inflation searches, we investigate the impact of detector-to-detector variations in polarization angles as they may bias the tensor-to-scalar ratio 𝑟. We show that while the effect is expected to remain subdominant to other sources of systematic uncertainty, it can be reliably calibrated using polarization angle measurements such as the ones we present in this paper.
Astrophysical consequences of an electroweak 𝜂 𝑤 pseudoscalar
Recently, it has been suggested that the spectrum of physical states in the Standard Model may include an ultralight pseudoscalar, denoted by 𝜂 w , in analogy with the 𝜂′ state arising from the strong interactions. We find that typical expectations for the properties of 𝜂 w get challenged by astrophysical constraints on the couplings of ultralight bosons. Our strongest limit sets a lower bound of 𝒪(100 TeV) on the decay constant of the hypothesized pseudoscalar. We also briefly discuss whether 𝜂 w could be a dark matter candidate, or the origin of dark energy, but conclude that those identifications appear unlikely. Given the important implications of a potentially overlooked 𝜂 w state for a more complete understanding of the electroweak interactions and a fundamental description of nature, further theoretical and phenomenological investigations of this possibility and its associated physics are warranted.
Physiological Responses of C4 Perennial Bioenergy Grasses to Climate Change: Causes, Consequences, and Constraints
C 4 perennial bioenergy grasses are an economically and ecologically important group whose responses to climate change will be important to the future bioeconomy. These grasses are highly productive and frequently possess large geographic ranges and broad environmental tolerances, which may contribute to the evolution of ecotypes that differ in physiological acclimation capacity and the evolution of distinct functional strategies. C 4 perennial bioenergy grasses are predicted to thrive under climate change—C 4 photosynthesis likely evolved to enhance photosynthetic efficiency under stressful conditions of low [CO 2 ], high temperature, and drought—although few studies have examined how these species will respond to combined stresses or to extremes of temperature and precipitation. Important targets for C 4 perennial bioenergy production in a changing world, such as sustainability and resilience, can benefit from combining knowledge of C 4 physiology with recent advances in crop improvement, especially genomic selection.
Dataset for manuscript "Consequences of the failure of equipartition for the p-V behavior of liquid water and the hydration free energy components of a small protein"
Previously, we showed that in the molecular dynamics simulation of a rigid model of water it is necessary to use an integration time-step dt that is less than or equal to 0.5 fs to ensure equipartition between translational and rotational modes. We extended that study in the NVT ensemble to NpT conditions and to an aqueous protein. We study neat liquid water with the rigid, SPC/E model and the protein BBA (PDB ID: 1FME) solvated in the rigid, TIP3P model. We examined integration time-steps ranging from 0.5 fs to 4.0 fs for various thermostat plus barostat combinations. We find that a small time-step, dt, is necessary to ensure consistent prediction of the simulation volume. Hydrogen mass repartitioning alleviates the problem somewhat, but is ineffective for the typical time-step used with this approach. The compressibility, a measure of volume fluctuations, is seen to be sensitive to dt. Using the mean volume estimated from the NpT simulation, we examined the electrostatic and van der Waals contribution to the hydration free energy of the protein in the NVT ensemble. These contributions are also sensitive to dt. In going from a time-step of 2 fs to a time-step of 0.5 fs, the change in the net electrostatic plus van der Waals contribution to the hydration of BBA is already in excess of the folding free energy reported for this protein. The data-set contains the simulation metadata and log files that support the claims noted above.
Assessment of Fission Product Release in High-Temperature Gas-Cooled Reactors using TRISO Fuel for Radiological Consequence Assessment
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Autonomous Ground-based Robotic System for Preparatory Consequence Management Radiation Mapping and Forensic Studies
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CYBER SECURITY CONSEQUENCE PRIORITIZED DESIGN VIA SIMULATION
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Wildfire Electric Grid Security: Mitigate Electric Grid Ignitions and Major Wildfire Consequences [Slides]
Abstract not provided.
Verification of Digital Numerics for High Consequence Systems
Presentation given at FPTalks (https://fpbench.org/talks/fptalks24.html)