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At least 199 records · Page 11

A Unified Tracer Analysis of DESI DR2 Baryon Acoustic Oscillations

We improve upon previous efforts to optimally combine overlapping galaxy samples in the DESI baryon acoustic oscillation analysis. By weighting each galaxy by its linear bias, overlapping galaxies are combined into a single, unified catalog, naturally avoiding double counting of cosmic volume and including all auto- and cross- information at the catalog level. Improvements over the previous effort include the addition of QSO out to $z=1.6$ to account for all overlapping DR2 tracers and redshift-dependent bias treatment to improve reconstruction. We report distance measurements using this unified tracer, and find them to be highly consistent with the baseline DR2 BAO analysis. We also test for tracer-dependent systematics within the DESI data, and find no evidence of tracer-dependent systematics within $0.8

Sanders, N. [Ohio U., Athens] (ORCID:0009000800202↗

Photon Reconstruction in the Belle II Calorimeter Using Graph Neural Networks

We present the study of a fuzzy clustering algorithm for the Belle II electromagnetic calorimeter using Graph Neural Networks. We use a realistic detector simulation including simulated beam backgrounds and focus on the reconstruction of both isolated and overlapping photons. We find significant improvements of the energy resolution compared to the currently used reconstruction algorithm for both isolated and overlapping photons of more than 30% for photons with energies E γ < 0.5 GeV and high levels of beam backgrounds. Overall, the GNN reconstruction improves the resolution and reduces the tails of the reconstructed energy distribution and therefore is a promising option for the upcoming high luminosity running of Belle II.

Calorimeter↗

Co-occurrence of native white-tailed deer and invasive wild pigs: Evidence for competition?

Understanding whether invasive and native species compete for shared resources where they co-occur is essential for mitigating the negative impacts of invasive species on native ecosystems. Here, we examined how the presence and density of an invasive species, wild pigs (Sus scrofa), affect native white-tailed deer (Odocoileus virginianus; hereafter, deer) on the Savannah River Site, SC, USA. We examined potential changes in deer areas of use, temporal overlap, and occupancy to evaluate the effects of wild pig occurrence and density on deer space use, diel activity, and co-occurrence with wild pigs across 9 months during 2018 and 2019. Wild pig density had the strongest effect on deer space use in high- and moderate-use areas. Declines in deer space use in response to wild pig density were most pronounced in March and October 2018 and April 2019 for females, while male space use declined in response to wild pig density in October and December 2018. Both species were largely nocturnal with high overlap in diel activity across months. Deer occupancy responses to wild pig density varied across months, with negative responses in May and October 2018 and positive responses in July 2018 and April 2019. Deer and wild pigs co-occurred at 30%–59% of camera stations across months, with broadscale co-occurrence patterns being unaffected by changes in shared cover or wild pig occurrence. Overall, our results suggest that deer make fine-scale behavioral adjustments to avoid wild pigs, providing evidence that competition is likely occurring even where wild pig density is relatively low. Such fine-scale behavioral plasticity in deer appears to mitigate the costs of competition with wild pigs and may be a mechanism enabling long-term co-existence of deer and wild pigs. Our study provides novel insight on the complexities of spatiotemporal relationships between invasive wild pigs and native deer and suggests that the negative effects of interactions between deer and wild pigs may be more pronounced when deer life history needs are particularly demanding. In areas where eradication of invasive wild pigs may be impossible, maintaining low wild pig densities may help mitigate, but may not eliminate, the negative effects of wild pigs on deer.

resource partitioning↗

A Fundamentally New Coupled Approach to Contact Mechanics via the Dirichlet‐Neumann Schwarz Alternating Method

Contact phenomena are crucial for understanding the behavior of mechanical systems. However, existing computational approaches for simulating mechanical contact often face numerical challenges, such as inaccurate physical predictions, energy conservation errors, and unwanted oscillations. Here, we introduce an alternative technique for simulating dynamic contact based on the non‐overlapping Schwarz alternating method, originally developed for domain decomposition. In multibody contact scenarios, this method treats each body as a separate, non‐overlapping domain and prevents interpenetration using an alternating Dirichlet–Neumann iterative process. This approach has a strong theoretical foundation, eliminates the need for contact constraints, and offers flexibility, making it ideal for multiscale and multiphysics applications. We conducted a numerical comparison between the Schwarz method and traditional methods, such as the Lagrange multiplier and penalty methods, focusing on a benchmark impact problem. Our results indicate that the Schwarz alternating method outperforms traditional methods in several key areas: it provides more accurate predictions for various measurable quantities and demonstrates exceptional energy conservation capabilities. To address unwanted oscillations in contact velocities and forces, we explored various algorithms and stabilization techniques, ultimately opting for the naïve‐stabilized Newmark scheme for its simplicity and effectiveness. Additionally, we validated the efficiency of the Schwarz method in a three‐dimensional impact problem, highlighting its inherent capacity to accommodate different mesh topologies, time‐integration schemes, and time steps for each interacting body.

Schwarz alternating method↗

Human IgE monoclonal antibodies define two unusual epitopes trapping dog allergen Can f 1 in different conformations

Abstract Molecular analysis of interactions between IgE antibody and allergen allows the structural basis of IgE recognition to be defined. Human IgE (hIgE) epitopes of respiratory lipocalin allergens, including Can f 1, remain elusive due to a lack of IgE‐allergen complexes. This study aims to map the structure of allergenic epitopes on Can f 1. The fragment antigen‐binding (Fab) regions of Can f 1 specific human IgE monoclonal antibodies (hIgE mAb) were used to determine the structures of IgE epitopes. Epitope mutants were designed to target Can f 1 epitopes. Immunoassays and a human FcεRIαtransgenic mouse model of passive anaphylaxis in vivo were used to assess the functional activity of epitope mutants. Crystal structures of natural or recombinant Can f 1 complexed with two hIgE mAb 1J11 and 12F3 Fabs, respectively, were determined. The hIgE mAb bound to two partially overlapping epitopes and recognized two different Can f 1 conformations. The hIgE mAb 12F3 showed an unusual mode of binding by protruding its heavy chain CDR3 inside the Can f 1 calyx. Epitope mutants generated based on the structural analyses displayed a 64%–89% reduction in IgE antibody binding and failed to induce passive anaphylaxis in a human FcεRIαtransgenic mouse model. In summary, the structures of Can f 1‐hIgE Fab complexes revealed two unique and partially overlapping epitopes on Can f 1. The modification of the identified IgE epitopes provides a pathway for the design of hypoallergens to treat dog allergies.

Biochemistry & Molecular Biology↗

Pairwise‐Parallel Entangling Gates on Orthogonal Modes in a Trapped‐Ion Chain

Abstract Parallel operations are important for both near‐term quantum computers and larger‐scale fault‐tolerant machines because they reduce execution time and qubit idling. This study proposes and implements a pairwise‐parallel gate scheme on a trapped‐ion quantum computer. The gates are driven simultaneously on different sets of orthogonal motional modes of a trapped‐ion chain. This work demonstrates the utility of this scheme by creating a Greenberger‐Horne‐Zeilinger (GHZ) state in one step using parallel gates with one overlapping qubit. It also shows its advantage for circuits by implementing a digital quantum simulation of the dynamics of an interacting spin system, the transverse‐field Ising model. This method effectively extends the available gate depth by up to two times with no overhead when no overlapping qubit is involved, apart from additional initial cooling. This scheme can be easily applied to different trapped‐ion qubits and gate schemes, broadly enhancing the capabilities of trapped‐ion quantum computers.

Optics↗

High-throughput mass spectrometry analysis using immediate drop-on-demand technology coupled with an open port sampling interface

Rationale: The sampling throughput of immediate drop-on-demand technology (I.DOT) coupled with an open port sampling interface (OPSI) is limited by software communication. To enable much-needed high-throughput mass spectrometry (MS) analysis capabilities, a novel software was developed that allows for flexible sample selection from a 96-well plate and for maximized analysis throughput using I.DOT/OPSI-MS coupling. Methods: Wells of a 96-well I.DOT plate were filled with propranolol solution and were used to test maximum sampling throughput strategies to minimize analysis time. Demonstration of chemical reaction monitoring was done using acid-catalyzed ring closure of 2,3-diaminonaphthalene (DAN) with nitrite to form 2,3-naphthotriazole (NAT). Analytes were detected in positive electrospray ionization mode using selected reaction monitoring. Results: A maximum throughput of 1.54 s/sample (7.41 min/96-well plate with three technical replicates) was achieved, and it was limited by the peak width of the MS signal resulting in an occasional slight overlap between the peaks. Further, relative standard deviation was 10 ± 1% with all tested sampling strategies. Chemical reaction monitoring of DAN to NAT using nitrite was successfully accomplished with 2 s/sample throughout showing almost complete transformation in 10 min with no signal overlap. Conclusions: This work illustrates the development of a noncontact, automated I.DOT/OPSI-MS system with improved throughput achieved through an optimized software interface. Its achievable analysis time and precision make it a viable approach for drug discovery and in situ reaction monitoring studies.

47 OTHER INSTRUMENTATION↗

Monitoring water quality in the lower Kansas River using remote sensing

Abstract We demonstrate how to combine remote sensing data from satellite imagery (Sentinel‐2) with in situ water quality gauging (USGS Super Gages and the Gybe hyperspectral radiometer) to create spatially dense maps of water quality parameters (chlorophyll‐a concentration, turbidity, and nitrate plus nitrite concentration) along the lower Kansas River. The water quality maps are created using locally tuned models of the target water quality parameters, and this study describes the steps used to design, calibrate, and validate the empirical correlations. Water quality parameters such as chlorophyll‐a concentration are correlated with well‐studied absorption and scattering features in the visible spectrum (roughly 400–700 nm). Nutrients (such as nitrate plus nitrite concentration) lack strong absorption features in the visible spectrum, and in those cases we describe a novel surrogate data modeling approach that identifies overlapping water parcels between the in situ gauging and the remote sensing imagery. Measurements from the overlapping water parcels yield excellent correlations () for the target water quality parameters for limited windows of time (or limited sections of river reaches). Examples are provided illustrating how the water quality maps can be used to track river inputs from ungauged sources (such as creeks), or reveal the mixing patterns at the confluences.

Tufillaro, Nicholas↗

Three-point functions in $\mathrm{ABJM}$ and Bethe Ansatz

We develop an integrability-based framework to compute structure constants of two sub-determinant operators and a single-trace non-BPS operator in ABJM theory in the planar limit. In this first paper, we study them at weak coupling using a relation to an integrable spin chain. We first develop a nested Bethe ansatz for an alternating SU(4) spin chain that describes single-trace operators made out of scalar fields. We then apply it to the computation of the structure constants and show that they are given by overlaps between a Bethe eigenstate and a matrix product state. We conjecture that the determinant operator corresponds to an integrable matrix product state and present a closed-form expression for the overlap, which resembles the so-called Gaudin determinant. We also provide evidence for the integrability of general sub-determinant operators. The techniques developed in this paper can be applied to other quantities in ABJM theory including three-point functions of single-trace operators.

1/N Expansion↗

Spectrum of end of the world branes in holographic BCFTs

We study overlaps between two regularized boundary states in conformal field theories. Regularized boundary states are dual to end of the world branes in an AdS black hole via the AdS/BCFT. Thus they can be regarded as microstates of a single sided black hole. Owing to the open-closed duality, such an overlap between two different regularized boundary states is exponentially suppressed as $\langle$ψ a |ψ b $\rangle$~e -O (h$^{(min)}_{ab}$) , where h$^{(min)}_{ab}$ is the lowest energy of open strings which connect two different boundaries a and b. Our gravity dual analysis leads to h$^{(min)}_{ab}$ = c/24 for a pure AdS 3 gravity. This shows that a holographic boundary state is a random vector among all left-right symmetric states, whose number is given by a square root of the number of all black hole microstates. We also perform a similar computation in higher dimensions, and find that h$^{(min)}_{ab}$ depends on the tensions of the branes. In our analysis of holographic boundary states, the off diagonal elements of the inner products can be computed directly from on-shell gravity actions, as opposed to earlier calculations of inner products of microstates in two dimensional gravity.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

The LPM effect in sequential bremsstrahlung: nearly complete results for QCD

The splitting processes of bremsstrahlung and pair production in a medium are coherent over large distances in the very high energy limit, which leads to a suppression known as the Landau-Pomeranchuk-Migdal (LPM) effect. We continue study of the case when the coherence lengths of two consecutive splitting processes overlap (which is important for understanding corrections to standard treatments of the LPM effect in QCD), avoiding soft-emission approximations. Previous work has computed overlap effects for double splitting g → gg → ggg. To make use of those results, one also needs calculations of related virtual loop corrections to single splitting g → gg in order to cancel severe (power-law) infrared (IR) divergences. This paper provides calculations of nearly all such processes involving gluons and discusses how to organize the results to demonstrate the cancellation. In the soft emission limit, our results reproduce the known double-log behavior of earlier authors who worked in leading-log approximation. We also present a first (albeit numerical and not yet analytic) investigation of sub-leading, single IR logarithms. Ultraviolet divergences appearing in our calculations correctly renormalize the coupling αs in the usual LPM result for leading-order g → gg.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

The LPM effect in sequential bremsstrahlung: incorporation of “instantaneous” interactions for QCD

The splitting processes of bremsstrahlung and pair production in a medium are coherent over large distances in the very high energy limit, which leads to a suppression known as the Landau-Pomeranchuk-Migdal (LPM) effect. We continue study of the case when the coherence lengths (formation lengths) of two consecutive splitting processes overlap, avoiding soft-emission approximations. Previous work made a “nearly-complete” calculation of the effect of overlapping formation times on gluonic splittings such as g → gg → ggg (with simplifying assumptions such as an infinite QCD medium and the large-N c limit). In this paper, we extend those previous rate calculations from nearly-complete to complete by including processes involving the exchange of longitudinally-polarized gluons. In the context of Lightcone Pertubation Theory, used earlier for the “nearly-complete” calculation, such exchanges are instantaneous in lightcone time and have their own diagrammatic representation.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Effects of weave path parameters on the geometry of wire arc additive manufactured features

Here, the present work investigates the effect of process parameters on the geometry of wire arc additive manufactured parts. The geometric accuracy of features produced with a weaving strategy is compared to what can be accomplished with a typical overlapping bead strategy. In this work, single-layer and multi-layer geometries were deposited under varying process and path parameters. The wavelength, amplitude, and torch speed of the weaving path were varied, while the power, wire feed speed, and contact tip to work distance remained constant. The geometric deposition efficiencies of several samples produced with a weave strategy are directly compared to samples generated with two parallel overlapping beads with torch speeds defined to match the deposition rate of the weave samples. Feature geometries were characterized using optical microscopy and laser scanning data. The results indicate that implementing a weave path strategy can improve the geometric accuracy of wire arc additive features, thus increasing the effective volumetric deposition rate of the process. It is shown that the most consistent improvements resulted from the combination of low wavelength and high amplitude, which correlate to wider and taller printed layers.

GMAW↗

The Epidermal Microbiome Within an Aggregation of Leopard Sharks ( Triakis semifasciata ) Has Taxonomic Flexibility with Gene Functional Stability Across Three Time-points

The epidermis of Chondrichthyan fishes consists of dermal denticles with production of minimal but protein-rich mucus that collectively, influence the attachment and biofilm development of microbes, facilitating a unique epidermal microbiome. Here, we use metagenomics to provide the taxonomic and functional characterization of the epidermal microbiome of the Triakis semifasciata (leopard shark) at three time-points collected across 4 years to identify links between microbial groups and host metabolism. Our aims include (1) describing the variation of microbiome taxa over time and identifying recurrent microbiome members (present across all time-points); (2) investigating the relationship between the recurrent and flexible taxa (those which are not found consistently across time-points); (3) describing the functional compositions of the microbiome which may suggest links with the host metabolism; and (4) identifying whether metabolic processes are shared across microbial genera or are unique to specific taxa. Microbial members of the microbiome showed high similarity between all individuals (Bray–Curtis similarity index = 82.7, where 0 = no overlap, 100 = total overlap) with the relative abundance of those members varying across sampling time-points, suggesting flexibility of taxa in the microbiome. One hundred and eighty-eight genera were identified as recurrent, including Pseudomonas, Erythrobacter, Alcanivorax, Marinobacter, and Sphingopxis being consistently abundant across time-points, while Limnobacter and Xyella exhibited switching patterns with high relative abundance in 2013, Sphingobium and Sphingomona in 2015, and Altermonas, Leeuwenhoekiella, Gramella, and Maribacter in 2017. Of the 188 genera identified as recurrent, the top 19 relatively abundant genera formed three recurrent groups. The microbiome also displayed high functional similarity between individuals (Bray–Curtis similarity index = 97.6) with gene function composition remaining consistent across all time-points. These results show that while the presence of microbial genera exhibits consistency across time-points, their abundances do fluctuate. Microbial functions however remain stable across time-points; thus, we suggest the leopard shark microbiomes exhibit functional redundancy. We show coexistence of microbes hosted in elasmobranch microbiomes that encode genes involved in utilizing nitrogen, but not fixing nitrogen, degrading urea, and resistant to heavy metal.

59 BASIC BIOLOGICAL SCIENCES↗

D-Band EPR and ENDOR Spectroscopy of 15 N-Labeled Photosystem I

For billions of years, nature has optimized the photosynthetic machinery that converts light energy into chemical energy. Key primary reactions of photosynthesis occur in large membrane protein-cofactor complexes. The light-induced sequential electron transfer reactions occur through a chain of donor/acceptor cofactors embedded in the protein matrix resulting in a long-lived transmembrane charge-separated state. EPR is the method of choice to study electron transfer and the interaction of protein environment with redox-active cofactors. However, the spectra of organic cofactor radicals typically are not fully resolved and severely overlap at conventional X-band EPR. Even at Q-band EPR, this overlap is present and often a serious problem. As a result, there is a large variation of the reported EPR data and limited understanding of electronic structures of several redox-active cofactors. These serious problems can often be overcome by the excellent spectral resolution provided by high-frequency EPR (HF EPR). In this work, we study the electronic structure of the primary electron donor P 700 and the secondary electron acceptor A 1 of Photosystem I (PSI) using 130 GHz (D-band) EPR and Electron-Nuclear-Double-Resonance (ENDOR) spectroscopy. PSI was isotopically labeled with 15 N (I = $\frac{1/2}$) to avoid quadrupolar interactions in the most abundant nitrogen isotope 14 N (I = 1) and simplify the ENDOR spectra. ENDOR spectroscopy is central for determining the hyperfine coupling of nitrogen atoms of the two chlorophyll molecules comprising oxidized P 700 and the involvement of protein nitrogen atoms with reduced A 1 . While HF ENDOR of A 1 - allows identification of two nitrogen atoms, HF ENDOR of P 700 + still does not permit unique assignment of the recorded hyperfine couplings.

15N↗

Coupling Approaches with Non-matching Grids for Classical Linear Elasticity and Bond-based Peridynamic Models in 1D

Local-nonlocal coupling approaches provide a means to combine the computational efficiency of local models and the accuracy of nonlocal models. To facilitate the coupling of the two models, non-matching grids are often desirable as nonlocal grids usually require a finer resolution than local grids. In that case, it is often convenient to resort to interpolation operators so that models can exchange information in the overlap regions when nodes from the two grids do not coincide. This paper studies three existing coupling approaches, namely 1) a method that enforces matching displacements in an overlap region, 2) a variant that enforces a constraint on the stresses instead, and 3) a method that considers a variable horizon in the vicinity of the interfaces. Further, the effect of the interpolation order and of the grid ratio on the performance of the three coupling methods with non-matching grids is carefully studied on one-dimensional examples using polynomial manufactured solutions. The numerical results show that the degree of the interpolants should be chosen with care to avoid introducing additional modeling errors, or simply minimize these errors, in the coupling approach.

97 MATHEMATICS AND COMPUTING↗

Unraveling Hydrogen Induced Geochemical Reaction Mechanisms through Coupled Geochemical Modeling and Machine Learning

Underground hydrogen storage (UHS) provides a promising large-scale, long-term energy storage solution. A reasonable recovery of stored hydrogen is critical for a successful storage scheme. However, in subsurface reservoirs hydrogen is subject to active geochemical reactions that might result in hydrogen loss. In this study, we implemented a geochemical modeling approach coupled with an unsupervised machine learning technique called non-negative matrix factorization (NMF) to unravel the complex brine-rock-H 2 geochemical processes responsible for hydrogen losses, with particular focus on sulfate reduction reactions. NMF is applied to modeled mineral evolution and fluid component profiles to retrieve profiles that can be interpreted to more easily assess competing processes. NMF decouples simulated competing equilibrium reactions. This facilitates separation of overlapping reaction profiles from redox processes, dissolution fronts, and secondary precipitation while considering the effects of simulation parameters such as salinity, temperature, and total H 2 pressure. NMF successfully discriminates these competing effects in nonlinear ways, allowing robust interpretation. In addition, NMF reveals subtle coupled mineral associations and reaction fronts that are invisible to conventional model analysis. This integrated approach strengthens the conceptual understanding of complex nonlinear hydrogen-brine-rock interactions and advances geochemical research on UHS systems to resolve complexities in modeled geochemical systems without the need for direct experiments or prior knowledge. Furthermore, this study highlights the efficacy of combining geochemical modeling with machine learning techniques to enhance the interpretability of the intricate geochemical simulation output through deciphering the overlapping reaction path that cannot be achieved only using conventional analysis of geochemical models alone.

08 HYDROGEN↗

The flux ratio of the [N II] λ λ 6548, 6583 Å lines in sample of Active Galactic Nuclei Type 2

In spectra of the Active Galactic Nuclei (AGNs), the [N II]λλ 6548, 6583 Å lines are commonly fitted using the fixed intensity ratio of these two lines (R [NII] = I 6583 /I 6548 ). However, the used values for fixed intensity ratio are slightly different through literature. There are several theoretical calculations of the transition probabilities which can be used for the line ratio estimation, but there are no experimental measurements of this ratio, since the [N II] lines are extremely weak in laboratory plasma. Therefore, the intensity ratio of [N II] lines can be measured only in the spectra of astrophysical objects. However, precise and systematic measurements have not be done so far, because of difficulties in measurement of the [N II] ratio in various spectra (overlapping with Hα, weak intensity of [N II], influence of the continuum noise and outflow contribution, etc.). Here we present the measurements of the flux ratio of the [N II] λλ 6548, 6583 Å emission lines for a sample of 250 Type 2 AGNs spectra taken form Sloan Digital Sky Survey (SDSS) data base. Further, the spectra are chosen to have high signal-to-noise ratio and to [N II] and Hα lines do not overlap. The obtained mean flux ratio from measurements is 3.049 ± 0.021. Our result is in agreement with theoretical result obtained by taking into account the relativistic corrections to the magnetic dipole operator.

79 ASTRONOMY AND ASTROPHYSICS↗