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At least 919 records · Page 51

Optimizing the quality factor of InP nanobeam cavities using atomic layer deposition

Photonic crystal nanobeam cavities are valued for their small mode volume, CMOS compatibility, and high coupling efficiency-crucial features for various low-power photonic applications and quantum information processing. However, despite their potential, nanobeam cavities often suffer from low quality factors due to fabrication imperfections that create surface states and optical absorption. In this work, we demonstrate InP nanobeam cavities with up to 140% higher quality factors by applying a coating of Al 2 O 3 via atomic layer deposition to terminate dangling bonds and reduce surface absorption. Additionally, changing the deposition thickness allows precise tuning of the cavity mode wavelength without compromising the quality factor. This Al 2 O 3 atomic layer deposition approach holds great promise for optimizing nanobeam cavities that are well-suited for integration with a wide range of photonic applications.

42 ENGINEERING↗

Crystal structure of the DNA binding domain of the transcription factor T-bet suggests simultaneous recognition of distant genome sites

The transcription factor T-bet (Tbox protein expressed in T cells) is one of the master regulators of both the innate and adaptive immune responses. It plays a central role in T-cell lineage commitment, where it controls the T H 1 response, and in gene regulation in plasma B-cells and dendritic cells. T-bet is a member of the Tbox family of transcription factors; however, T-bet coordinately regulates the expression of many more genes than other Tbox proteins. A central unresolved question is how T-bet is able to simultaneously recognize distant Tbox binding sites, which may be located thousands of base pairs away. We have determined the crystal structure of the Tbox DNA binding domain (DBD) of T-bet in complex with a palindromic DNA. The structure shows a quaternary structure in which the T-bet dimer has its DNA binding regions splayed far apart, making it impossible for a single dimer to bind both sites of the DNA palindrome. In contrast to most other Tbox proteins, a single T-bet DBD dimer binds simultaneously to identical half-sites on two independent DNA. A fluorescence-based assay confirms that T-bet dimers are able to bring two independent DNA molecules into close juxtaposition. Furthermore, chromosome conformation capture assays confirm that T-bet functions in the direct formation of chromatin loops in vitro and in vivo. Here, the data are consistent with a looping/synapsing model for transcriptional regulation by T-bet in which a single dimer of the transcription factor can recognize and coalesce distinct genetic elements, either a promoter plus a distant regulatory element, or promoters on two different genes.

59 BASIC BIOLOGICAL SCIENCES↗

Anomalous relaxation and the high-temperature structure factor of XXZ spin chains

We compute the spin-structure factor of XXZ spin chains in the Heisenberg and gapped (Ising) regimes in the high-temperature limit for nonzero magnetization, within the framework of generalized hydrodynamics, including diffusive corrections. The structure factor shows a hierarchy of timescales in the gapped phase, owing to s-spin magnon bound states (“strings”) of various sizes. Although short strings move ballistically, long strings move primarily diffusively as a result of their collisions with short strings. The interplay between these effects gives rise to anomalous power-law decay of the spin-structure factor, with continuously varying exponents, at any fixed separation in the late-time limit. We elucidate the cross-over to diffusion (in the gapped phase) and to superdiffusion (at the isotropic point) in the half-filling limit. We verify our results via extensive matrix product operator calculations.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Development of control quality factor for HVAC control loop performance assessment—II: Field testing and results (ASHRAE RP-1587)

This article is the third paper from the research project RP-1587, focusing on presenting a comprehensive field test of the proposed control quality factors (CQFs; i.e., CQF-Harris and CQF-exponentially weighted moving average [EWMA]) and testing results. Firstly, the simulated control loops and real control loops are evaluated for offline assessment. Then, the field experiment implemented for different HVAC control loops is assessed online using the proposed CQFs. Test results show that the proposed CQFs are capable of adequately and effectively assessing the HVAC control loop performance. The methodology of obtaining those CQFs is provided in the companion paper: Development of Control Quality Factor for HVAC Control Loop Performance Assessment I - Methodology (ASHRAE RP-1587) (Li et al. 2019 Li, Y., Z. D. O'Neill, and X. Zhou. 2019. Development of control quality factor for HVAC control loop performance assessment I - Methodology (ASHRAE RP-1587).

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

THE solar wind charge-exchange production factor for hydrogen

The mean production factor, or broadband averaged cross-section, for solar wind charge-exchange (SWCX) with hydrogen producing emission in the ROSAT (1/4) keV (R12) band is (3.8±0.2)×10{sup −20} count degree{sup −2} cm{sup 4}. The production factor is expected to be temporally variable, and that variation is roughly 15%. These values are derived from a comparison of the long-term (background) enhancements in the ROSAT All-Sky Survey with magnetohysdrodynamic simulations of the magnetosheath. This value is 1.8–4.5 times higher than values derived from limited atomic data, suggesting that those values may be missing a large number of faint lines. This production factor is important for deriving the exact amount of (1/4) keV band flux that is due to the Local Hot Bubble, for planning future observations in the (1/4) keV band, and for evaluating proposals for remote sensing of the magnetosheath. The same method cannot be applied to the (3/4) keV band as that band, being composed primarily of the oxygen lines, is far more sensitive to the detailed abundances and ionization balance in the solar wind. We also show, incidentally, that recent efforts to correlate XMM-Newton observing geometry with magnetosheath SWCX emission in the oxygen lines have been, quite literally, misguided. Simulations of the inner heliosphere show that broader efforts to correlate heliospheric SWCX with local solar wind parameters are unlikely to produce useful results.

79 ASTRONOMY AND ASTROPHYSICS↗

COSMIC REIONIZATION ON COMPUTERS. III. THE CLUMPING FACTOR

We use fully self-consistent numerical simulations of cosmic reionization, completed under the Cosmic Reionization On Computers project, to explore how well the recombinations in the ionized intergalactic medium (IGM) can be quantified by the effective “clumping factor.” The density distribution in the simulations (and, presumably, in a real universe) is highly inhomogeneous and more-or-less smoothly varying in space. However, even in highly complex and dynamic environments, the concept of the IGM remains reasonably well-defined; the largest ambiguity comes from the unvirialized regions around galaxies that are over-ionized by the local enhancement in the radiation field (“proximity zones”). That ambiguity precludes computing the IGM clumping factor to better than about 20%. We also discuss a “local clumping factor,” defined over a particular spatial scale, and quantify its scatter on a given scale and its variation as a function of scale.

79 ASTRONOMY AND ASTROPHYSICS↗

Limits to forests-based mitigation in integrated assessment modelling: global potentials and impacts under constraining factors

Forests-based measures such as afforestation/reforestation (A/R) and reducing deforestation (RDF) are considered promising options to mitigate climate change, yet their mitigation potentials are limited by economic and biophysical factors that are largely uncertain. The range of mitigation potential estimates from integrated assessment models raises concerns about the capacity of land systems to provide realistic, cost-effective and permanent land-based mitigation. We use the Global Change Analysis Model to quantify the economic mitigation potential of forests-based measures by simulating a climate policy including a tax on greenhouse gas emissions from agriculture, forestry, and other land uses. In addition, we assess how constraining unused arable land (UAL) availability, forestland expansion rates, and global bioenergy demand may influence the forests-based mitigation potential by simulating scenarios with alternative combinations of constraints. Results show that the average forests-based mitigation potential in 2020–2050 increases from 738 MtCO 2 .yr -1 through a forestland increase of 86 Mha in the fully constrained scenario to 1394 MtCO 2 .yr -1 through a forestland increase of 146 Mha when all constraints are relaxed. Regional potentials in terms of A/R and RDF differ strongly between scenarios: unconstrained forest expansion rates mostly increase A/R potentials in northern regions (e.g., +120 MtCO 2 .yr -1 in North America); while unconstrained UAL conversion and low bioenergy demand mostly increase RDF potentials in tropical regions (e.g., +76 and +68 MtCO 2 .yr -1 in Southeast Asia, respectively). This study shows that forests-based mitigation is limited by many factors that constrain the rates of land use change across regions. These factors, often overlooked in modelling exercises, should be carefully addressed for understanding the role of forests in global climate mitigation and defining pledges towards the Paris Agreement.

54 ENVIRONMENTAL SCIENCES↗

Structure, substrate binding and activity of a unique AAA+ protein: the BrxL phage restriction factor

Abstract Bacteriophage exclusion (‘BREX’) systems are multi-protein complexes encoded by a variety of bacteria and archaea that restrict phage by an unknown mechanism. One BREX factor, termed BrxL, has been noted to display sequence similarity to various AAA+ protein factors including Lon protease. In this study we describe multiple CryoEM structures of BrxL that demonstrate it to be a chambered, ATP-dependent DNA binding protein. The largest BrxL assemblage corresponds to a dimer of heptamers in the absence of bound DNA, versus a dimer of hexamers when DNA is bound in its central pore. The protein displays DNA-dependent ATPase activity, and ATP binding promotes assembly of the complex on DNA. Point mutations within several regions of the protein-DNA complex alter one or more in vitro behaviors and activities, including ATPase activity and ATP-dependent association with DNA. However, only the disruption of the ATPase active site fully eliminates phage restriction, indicating that other mutations can still complement BrxL function within the context of an otherwise intact BREX system. BrxL displays significant structural homology to MCM subunits (the replicative helicase in archaea and eukaryotes), implying that it and other BREX factors may collaborate to disrupt initiation of phage DNA replication.

59 BASIC BIOLOGICAL SCIENCES↗

Machine Learning in Infectious Disease for Risk Factor Identification and Hypothesis Generation: Proof of Concept Using Invasive Candidiasis

Machine learning (ML) models can handle large data sets without assuming underlying relationships and can be useful for evaluating disease characteristics, yet they are more commonly used for predicting individual disease risk than for identifying factors at the population level. We offer a proof of concept applying random forest (RF) algorithms to Candida-positive hospital encounters in an electronic health record database of patients in the United States. Candida-positive encounters were extracted from the Cerner HealthFacts database; invasive infections were laboratory-positive sterile site Candida infections. Features included demographics, admission source, care setting, physician specialty, diagnostic and procedure codes, and medications received before the first positive Candida culture. We used RF to assess risk factors for 3 outcomes: any invasive candidiasis (IC) vs non-IC, within-species IC vs non-IC (eg, invasive C. glabrata vs noninvasive C. glabrata), and between-species IC (eg, invasive C. glabrata vs all other IC). Fourteen of 169 (8%) variables were consistently identified as important features in the ML models. When evaluating within-species IC, for example, invasive C. glabrata vs non-invasive C. glabrata, we identified known features like central venous catheters, intensive care unit stay, and gastrointestinal operations. In contrast, important variables for invasive C. glabrata vs all other IC included renal disease and medications like diabetes therapeutics, cholesterol medications, and antiarrhythmics. Known and novel risk factors for IC were identified using ML, demonstrating the hypothesis-generating utility of this approach for infectious disease conditions about which less is known, specifically at the species level or for rarer diseases.

60 APPLIED LIFE SCIENCES↗

Arabidopsis bZIP11 Is a Susceptibility Factor During Pseudomonas syringae Infection

The induction of plant nutrient secretion systems is critical for successful pathogen infection. Some bacterial pathogens (e.g., Xanthomonas spp.) use transcription activator-like (TAL) effectors to induce transcription of SWEET sucrose efflux transporters. Pseudomonas syringae pv. tomato strain DC3000 lacks TAL effectors yet is able to induce multiple SWEETs in Arabidopsis thaliana by unknown mechanisms. Because bacteria require other nutrients in addition to sugars for efficient reproduction, we hypothesized that Pseudomonas spp. may depend on host transcription factors involved in secretory programs to increase access to essential nutrients. Bioinformatic analyses identified the Arabidopsis basic-leucine zipper transcription factor bZIP11 as a potential regulator of nutrient transporters, including SWEETs and UmamiT amino acid transporters. Inducible downregulation of bZIP11 expression in Arabidopsis resulted in reduced growth of P. syringae pv. tomato strain DC3000, whereas inducible overexpression of bZIP11 resulted in increased bacterial growth, supporting the hypothesis that bZIP11-regulated transcription programs are essential for maximal pathogen titer in leaves. Our data are consistent with a model in which a pathogen alters host transcription factor expression upstream of secretory transcription networks to promote nutrient efflux from host cells. [Formula: see text] Copyright © 2021 The Author(s). This is an open access article distributed under the CC BY-NC-ND 4.0 International license .

Biochemistry & Molecular Biology↗

$Ξ$ 𝑏 → $Ξ$ form factors from lattice QCD and standard-model predictions for $Ξ$ 𝑏 → $Ξ$⁢𝜇 + ⁢𝜇 − and $Ξ$ 𝑏 → $Ξ$⁢𝛾 decays

We present the first lattice QCD determination of the $Ξ$ 𝑏 → $Ξ$ vector, axial-vector, and tensor form factors, which are relevant for the theory of rare decays including $Ξ$ 𝑏 → $Ξ$⁢ℓ + ⁢ℓ − and $Ξ$ 𝑏 → $Ξ$⁢𝛾. The calculation is performed with 2+1 flavors of domain-wall fermions at three different lattice spacings and pion masses in the range from approximately 430 to 230 MeV. The bottom quark is implemented using an anisotropic clover action. Three-point functions with a wide range of source-sink separations and model averaging are used to extract the ground-state contributions. We fit the dependence of the form factors on the momentum transfer, the pion mass, and the lattice spacing using modified 𝑧 expansions that account for subthreshold branch cuts, and apply dispersive bounds and asymptotic behavior constraints to achieve controlled uncertainties in the full semileptonic kinematic region. Using our form factor results, we present standard model predictions for the $Ξ$$^{−}_{𝑏}$ → $Ξ$ − ⁢𝛾 and $Ξ$$^{−}_{𝑏}$ → $Ξ$ − ⁢𝜇 + ⁢𝜇 − branching fractions and two angular observables.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Weak-charge form-factor determination at the electron-ion collider

Determining the weak charge form factor, 𝐹 𝑊 ⁡(𝑄 2 ), of nuclei over a continuous range of momentum transfers, 0 ≲ 𝑄 2 ≲ 0.1 GeV 2 , is essential for mapping out the distribution of neutrons in nuclei. The neutron density distribution has significant implications for a broad range of areas, including studies of nuclear structure, neutron stars, and physics beyond the Standard Model. Currently, our knowledge of 𝐹 𝑊 ⁡(𝑄 2 ) comes primarily from fixed target experiments that measure the parity-violating asymmetry in coherent elastic electron-ion scattering. Fixed target experiments, such as CREX and PREX-1,2, have provided high-precision weak charge form factor extractions for the 48 Ca and 208 Pb nuclei, respectively. However, a major limitation of fixed target experiments is that they each provide data only at a single value of 𝑄 2 . With the proposed electron-ion collider (EIC) on the horizon, we explore its potential to impact the determination of the weak charge form factor. While it cannot compete with the precision of fixed target experiments, it can provide data over a wide and continuous range of 𝑄 2 values, and for a wide variety of nuclei. We show that with data corresponding to an integrated luminosity of ℒ ∼ 500/𝐴 fb −1 , where 𝐴 is the nucleus atomic weight, the EIC can significantly impact constraints by lifting degeneracies in theoretical models of the neutron density distribution. Ensuring EIC detector coverage at low 𝑄 2 and large negative pseudorapidities will be essential for such 𝐹 𝑊 ⁡(𝑄 2 ) measurements.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Comment on “QCD factorization with multihadron fragmentation functions”

We make several comments on the recent work in Rogers et al. [Phys. Rev. D 111, 056001 (2025)] while also reaffirming and adding to the work in Pitonyak et al. [Phys. Rev. Lett. 132, 011902 (2024)]. We show that the factorization formula for 𝑒 + ⁢𝑒 − → (ℎ 1 ⋯ ℎ 𝑛 )⁢𝑋 in Rogers et al. is equivalent to a version one can derive using the definition of a 𝑛-hadron fragmentation function (FF) introduced in Pitonyak et al.. In addition, we scrutinize how to generalize the number density definition of a single-hadron FF to a 𝑛-hadron FF, arguing that the definition given in Pitonyak et al. should be considered the standard one while the definition in Rogers et al. has no clear interpretation. We also emphasize that the evolution equations for dihadron FFs (DiFFs) in Pitonyak et al. have the same splitting functions as those for single-hadron FFs. Therefore, the DiFF (and 𝑛-hadron FF) definitions in Pitonyak et al. have a natural number density interpretation and, contrary to what is stated in Rogers et al., are consistent with collinear factorization using the standard hard factors and evolution kernels.

Pitonyak, D. [Lebanon Valley College, Annville, PA↗

Efficient phase-factor evaluation in quantum signal processing

Quantum signal processing (QSP) is a powerful quantum algorithm to exactly implement matrix polynomials on quantum computers. Asymptotic analysis of quantum algorithms based on QSP has shown that asymptotically optimal results can in principle be obtained for a range of tasks, such as Hamiltonian simulation and the quantum linear system problem. A further benefit of QSP is that it uses a minimal number of ancilla qubits, which facilitates its implementation on near-to-intermediate term quantum architectures. However, there is so far no classically stable algorithm allowing computation of the phase factors that are needed to build QSP circuits. Existing methods require the use of variable precision arithmetic and can only be applied to polynomials of a relatively low degree. We present here an optimization-based method that can accurately compute the phase factors using standard double precision arithmetic operations. We demonstrate the performance of this approach with applications to Hamiltonian simulation, eigenvalue filtering, and quantum linear system problems. Furthermore, our numerical results show that the optimization algorithm can find phase factors to accurately approximate polynomials of a degree larger than 10000 with errors below 10 -12 .

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

High Thermoelectric Power Factor and Efficiency from a Highly Dispersive Band in Ba 2 BiAu

With first-principles calculations based on density-functional theory, we predict the potential for the unprecedentedly high thermoelectric figure of merit zT = 5 at 800 K in an n-type Ba 2 BiAu full-Heusler compound. Such a high efficiency arises from an intrinsically ultralow lattice thermal conductivity coupled with a very high power factor reaching 7 mW m –1 K –2 at 500 K. The high n-type power factor originates from a light, sixfold degenerate conduction-band pocket along the Γ-X direction. Weak acoustic phonon scattering and sixfold multiplicity combine to yield both high mobility and a high Seebeck coefficient. In contrast, the flat-and-dispersive (or low-dimensional) valence band of Ba 2 BiAu fails to generate such high power factors due to strong acoustic phonon scattering. We note the Lorenz numbers at optimal doping are smaller than theWiedemann-Franz value, an integral feature for zT enhancement as electrons are the majority heat carriers.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Integer quantum Hall effect and enhanced g factor in quantum-confined Cd 3 As 2 films

Here, we investigate the integer quantum Hall effect in Cd 3 ⁢As 2 thin films under conditions of strong to moderate quantum confinement (thicknesses of 10, 12, and 15 nm). In all the films, we observe the integer quantum Hall effect in the spin-polarized lowest Landau level (filling factor v = 1) and at spin-degenerate higher index Landau levels with even filling factors (v = 2,4,6). With increasing quantum confinement, we also observe a lifting of the Landau-level spin degeneracy at v = 3, manifest as the emergence of an anomaly in the longitudinal and Hall resistivities. Tight-binding calculations show that the enhanced g factor likely arises from a combination of quantum confinement and corrections from nearby subbands.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Covariant spectator theory of n p scattering: Deuteron form factors

The deuteron form factors are calculated using two model wave functions obtained from the 2007 CST high precision fits to $np$ scattering data. Included in the calculation are a new class of isoscalar $np$ interaction currents which are automatically generated by the nuclear force model used in these fits. If the nuclear model WJC2 is used, a precision fit ($\chi^2$/datum $\eqsim1$) to the Sick Global Analysis (GA) of all $ed$ elastic scattering data can be obtained by adjusting the unknown off-shell nucleon form factors $F_3(Q^2)$ (discussed before) and $F_4(Q^2)$ (introduced in this paper), and predicting the high $Q^2$ behavior of the neutron charge form factor $G_{En}(Q^2)$ well beyond the region where it has been measured directly. Relativistic corrections, isoscalar interaction currents, and off-shell effects are defined, discussed, and their size displayed. A rationale for extending $ed$ elastic scattering measurements to higher $Q^2$ is presented.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Separated kaon electroproduction cross section and the kaon form factor from 6 GeV JLab data

The 1 H(e,e ' K + )Λ reaction was studied as a function of the Mandelstam variable -t using data from the E01-004 (FPI-2) and E93-018 experiments that were carried out in Hall C at the 6 GeV Jefferson Laboratory. The cross section was fully separated into longitudinal and transverse components, and two interference terms at four-momentum transfers Q 2 of 1.00, 1.36, and 2.07 GeV 2 . The kaon form factor was extracted from the longitudinal cross section using the Regge model by Vanderhaeghen et al. [Phys. Rev. C 57, 1454 (1998)]. Here, the results establish the method, previously used successfully for pion analyses, for extracting the kaon form factor. Data from 12 GeV Jefferson Laboratory experiments are expected to have sufficient precision to distinguish between theoretical predictions, for example, recent perturbative QCD calculations with modern parton distribution amplitudes. The leading-twist behavior for light mesons is predicted to set in for values of Q 2 between 5 and 10 GeV 2 , which makes data in the few-GeV regime particularly interesting. Finally, the Q 2 dependence at fixed x and -t of the longitudinal cross section that we extracted seems consistent with the QCD factorization prediction within the experimental uncertainty.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗