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At least 73 records · Page 4

Investigation and Expression Analysis of R2R3-MYBs and Anthocyanin Biosynthesis-Related Genes during Seed Color Development of Common Bean ( Phaseolus vulgaris )

Anthocyanins are responsible for the coloration of common bean seeds, and their accumulation is positively correlated with the expression level of anthocyanin biosynthetic genes. The MBW (MYB-bHLH-WD40) complex is thought to regulate the expression of these genes, and MYB proteins, which are a key factor in activating anthocyanin pathway genes, have been identified in several plants. This study demonstrated gene structures, chromosomal placements, gene duplications of R2R3-MYBs, miRNAs associated with R2R3-MYBs, and the interaction of these genes with other flavonoid regulatory genes. qRT-PCR was used to investigate the role of specific R2R3-MYBs and flavonoid genes in common bean seed color development. As a result of a comprehensive analysis with the help of in silico tools, we identified 160 R2R3-MYB genes in the common bean genome. We divided these genes into 16 classes on the basis of their intron-exon and motif structures. Except for three, the rest of the common bean R2R3-MYB members were distributed to all chromosomes with different densities, primarily located on chromosomes 3 and 8. We identified a total of 44 duplicated gene pairs dispersed across 11 chromosomes and evolved under purifying selection (Ka/Ks < 1), 19 of which were derived from a whole-genome duplication. Our research uncovered 25 putative repressor PvMYB proteins that contain the EAR motif. Additionally, fifty different cis-regulatory elements regulated by light, stress, and hormone were identified. Within the genome of the common bean, we discovered a total of 36 microRNAs that target a total of 72 R2R3-MYB transcripts. The effect of 16 R2R3-MYB genes and 16 phenylpropanoid pathway genes, selected on the basis of their interaction in the protein-protein interaction map, playing role in the regulation of seed coat color development was evaluated using qRT-PCR in 5 different tissues at different developmental stages. The results revealed that these specific genes have different expression levels during different developmental periods, with higher levels in the pod filling and early pod stages than in the rest of the developmental periods. Furthermore, it was shown that PvTT8 (bHLH), PvTT2 (PvMYB42), PvMYB113, PvTTG1, and PvWD68 genes have effects on the regulation of seed coat color. The findings of this study, which is the first to use whole-genome analysis to identify and characterize the R2R3-MYB genes in common bean, may serve as a reference for future functional research in the legume.

59 BASIC BIOLOGICAL SCIENCES↗

Self-consistent Color–Stellar Mass-to-light Ratio Relations for Low Surface Brightness Galaxies

The color–stellar mass-to-light ratio relation (CMLR) is a widely accepted tool for estimating the stellar mass (M {sub *}) of a galaxy. However, an individual CMLR tends to give distinct M {sub *} for a same galaxy when it is applied in different bands. Examining five representative CMLRs from the literature, we find that the difference in M {sub *} predicted in different bands from optical to near-infrared by a CMLR is 0.1 ∼ 0.3 dex. Based on a sample of low surface brightness galaxies that covers a wide range of color and luminosity, we therefore recalibrated each original CMLR in r, i, z, J, H, and K bands to give internally self-consistent M {sub *} for a same galaxy. The g–r is the primary color indicator in the recalibrated relations, which show little dependence on red (r–z) or near-infrared (J–K) colors. Additionally, the external discrepancies in the originally predicted γ {sub *} by the five independent CMLRs have been greatly reduced after recalibration, especially in the near-infrared bands, implying that the near-infrared luminosities are more robust in predicting γ {sub *}. For each CMLR, the recalibrated relations provided in this work could produce internally self-consistent M {sub *} from divergent photometric bands, and are extensions of the recalibrations from the Johnson–Cousin filter system by the pioneering work of McGaugh & Schombert to the filter system of the Sloan Digital Sky Survey.

79 ASTRONOMY AND ASTROPHYSICS↗

On the importance of color in mass spectrometry imaging

Mass spectrometry imaging (MSI) data visualization relies on heatmaps to show the spatial distribution and measured abundances of molecules within a sample. Non-uniform color gradients such as jet are still commonly used to visualize MSI data, increasing the probability of data misinterpretation and false conclusions. Also, the use of non-uniform color gradients and the combination of hues used in common colormaps makes it challenging for people with color vision deficiencies (CVDs) to visualize and accurately interpret data. Here we present best practices for choosing a colormap to accurately display MSI data, improve readability, and accommodate all CVDs. We also provide other resources on the misuse of color in the scientific field and resources on scientifically derived colormaps presented herein.

47 OTHER INSTRUMENTATION↗

Photophysics of O-band and transition metal color centers in monolithic silicon for quantum communications

Color centers in the O-band (1260–1360 nm) are crucial for realizing long-coherence quantum network nodes in memory-assisted quantum communications. However, only a limited number of O-band color centers have been thoroughly explored in silicon hosts as spin-photon interfaces. This study explores and compares two promising O-band color centers in silicon for high-fidelity spin-photon interfaces: T and *Cu (transition metal) centers. During T center generation process, we observed the formation and dissolution of other color centers, including the copper-silver related centers with a doublet line around 1312 nm (*Cu$^0_n$), near the optical fiber zero dispersion wavelength (around 1310 nm). We then investigated the photophysics of both T and *Cu centers, focusing on their emission spectra and spin properties. The *Cu$^0_0$ line under a 0.5 T magnetic field demonstrated a 25% broadening, potentially due to spin degeneracy, suggesting that this center can be a promising alternative to T centers.

42 ENGINEERING↗

Electric field sensitivity of molecular color centers

Molecular color centers with S=1 ground states are promising candidates for quantum sensing of electric fields. These molecules have an electronic structure similar to solid state color centers, but they allow for processing modalities that permit direct interfacing with an analyte. Currently, it is unknown how sensitive these molecules are to electric fields and what molecular properties affect their sensitivity. We perform density functional theory calculations to understand the impact of electric fields on the electronic structure of five nominally tetrahedral molecular color centers exhibiting variable transition metal chemistry and ligand densities. We then extract the Stark parameters from each of these molecules and compare them to molecular properties such as the dipole moment and inner shell stiffness and find that the dipole moment of the molecule largely governs sensitivity. We predict that polar heteroleptic molecules may have electric field sensitivities comparable to solid state color centers such as nitrogen-vacancy centers in diamond.

Physics↗

Unraveling sources of emission heterogeneity in Silicon Vacancy color centers with cryo-cathodoluminescence microscopy

Diamond color centers have proven to be versatile quantum emitters and exquisite sensors of stress, temperature, electric and magnetic fields, and biochemical processes. Among color centers, the silicon-vacancy (SiV - ) defect exhibits high brightness, minimal phonon coupling, narrow optical linewidths, and high degrees of photon indistinguishability. Yet the creation of reliable and scalable SiV - -based color centers has been hampered by heterogeneous emission, theorized to originate from surface imperfections, crystal lattice strain, defect symmetry, or other lattice impurities. Here, we advance high-resolution cryo-electron microscopy combined with cathodolumines cence spectroscopy and 4D scanning transmission electron microscopy (STEM) to elucidate the structural sources of heterogeneity in SiV - emission from nanodiamond with sub-nanometer-scale resolution. Our diamond nanoparticles are grown directly on TEM membranes from molecular-level seedings, representing the natural formation conditions of color centers in diamond. We show that individual subcrystallites within a single nanodiamond exhibit distinct zero-phonon line (ZPL) energies and differences in brightness that can vary by 0.1 meV in energy and over 70% in brightness. These changes are correlated with the atomic-scale lattice structure. We find that ZPL blue shifts result from tensile strain, while ZPL red shifts are due to compressive strain. We also find that distinct crystallites host distinct densities of SiV - emitters and that grain boundaries impact SiV - emission significantly. Finally, we interrogate nanodiamonds as small as 40 nm in diameter and show that these diamonds exhibit no spatial change to their ZPL energy. Our work provides a foundation for atomic-scale structure-emission correlation, e.g., of single atomic defects in a range of quantum and two-dimensional materials.

36 MATERIALS SCIENCE↗

Entire four-graviton EFT from the duality between color and kinematics

The Bern-Carrasco-Johansson (BCJ) double-copy construction reveals a fundamental structural connection between gauge and gravity theories. At its core, the BCJ double copy is directly due to a duality between the algebraic relations of a color root and those of a kinematic root. We generalize this principle beyond the conventional Lie algebra structure of tree-level Yang-Mills theory. By demanding color-kinematics duality for the complete basis of four-point color structures—including those involving the symmetric 𝑑 𝑎⁢𝑏⁢𝑐 constants—we define the universal double copy. We systematically classify the bases of all such parity-even generalized gauge-theory numerators and, independently, the space of all parity-even four-graviton higher-derivative operators. We demonstrate that our universal double-copy construction precisely spans the entire tower of parity-even four-graviton amplitudes in any dimension, except for the Lovelock 𝑅 3 contribution in 𝐷 > 6 which we can express in terms of a particularly simple universal triple-copy involving gauge theories coupled to scalars. Explicit machine-readable expressions for the complete basis of gauge-theory numerators and fundamental gravitational building blocks are provided in the Supplemental Material. This establishes that all possible four-point gravitational interactions can be factorized into products of gauge-theory building blocks governed by this universal notion of color-kinematics duality.

Carrasco, John Joseph M. [Northwestern Univ., Evan↗

Color transparency and the proton form factor: Evidence for the Feynman mechanism

A recent experiment by D. Bhetuwal et al. [Phys. Rev. Lett. 126, 082301 (2021)] used the (e,e'p) reaction on 12 C to search for the effects of color transparency (the absence of final-state interactions). Color transparency was said to be ruled out. Observing the effects of color transparency depends on the ability of a putative point-like-configuration (PLC), formed in a high-momentum transfer coherent reaction, to escape the nucleus without expanding its size. Here, we study the expansion aspect of color transparency using superconformal baryon-meson symmetry and light-front holographic QCD. A new formalism is obtained and used to analyze the recent experiment. The resulting conclusion is that effects of expansion would not be sufficiently significant in causing final-state interactions to occur. Therefore, we conclude that a PLC was not formed. In conclusion, this means that the Feynman mechanism involving virtual photon absorption on a single high-momentum quark is responsible for the high-momentum electromagnetic form factor of the proton.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

coloring v.1.0

SAND2024-02435O The software coloring allows applications written in the C++ language to generate publication-quality 2D plots. Its functionality is similar to Microsoft Excel's chart functionality or the Python language's matplotlib package. The value of coloring is that it is written purely in C++ and thus can be compiled on systems where Python is not available and linked into high performance computing software. For drawing shapes onto an image, coloring uses the mathematical definition of quadratic Bezier splines and uses Newton's method to search for the closest point on a spline to a given query point. This is then used to do accurate sub-pixel sampling to get clean, non-pixelated images. For working with the actual plot data, coloring has basic statistical methods such as finding maxima and minima as well as axis scaling such as logarithms. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525.

Ibanez, Daniel↗

A multi-terawatt two-color beam for high-power field-controlled nonlinear optics

Two-color laser beams are instrumental in light-field control and enhancement of high-order harmonic, spectral supercontinuum, and terahertz radiation generated in gases, plasmas, and solids. Here we demonstrate a multi-terawatt two-color beam produced using a relativistic plasma mirror, with 110 mJ at 800 nm and 30 mJ at 400 nm. Both color components have high spatial quality and can be simultaneously focused, provided that the plasma mirror lies within a Rayleigh range of the driving fundamental beam. Favorable scaling of second-harmonic generation by plasma mirrors at relativistic intensities suggests them as an excellent tool for multi-color waveform synthesis beyond the petawatt level.

42 ENGINEERING↗

Ruling out Color Transparency in quasi-elastic 12C(e,e′p) up to Q2=14 (GeV/c)2*

Color transparency (CT) is a fundamental phenomenon of QCD postulating that at high momentum transfer, one can preferentially measure hadrons that fluctuate to a small color neutral transverse size in the nucleus, and final state interactions within the nuclear medium are suppressed. This talk will discuss the recent quasi-elastic 12C(?,???) scattering measurement in Hall C at momentum transfer squared ?2=8,9.4,11.4, and 14.2 (GeV/c)2, the highest ever achieved to date. Nuclear transparency for this reaction was extracted by comparing the measured yield to that expected from a plane-wave impulse approximation calculation without any final state interactions. The measured transparency was observed to be independent of ?2, ruling out the quantum chromodynamics effect of color transparency at such momentum scales. These new results impose strict constraints on models of color transparency for protons.

Szumila-Vance, Holly↗

Bulk viscosity of two-flavor color superconducting quark matter in neutron star mergers

This work investigates the bulk viscosity of warm, dense, neutrino-transparent, color-superconducting quark matter, where damping of density oscillations in the kHz frequency range arises from weak-interaction-driven direct Urca processes involving quarks. We study the two-flavor red-green paired color-superconducting (2SC) phase, while allowing for the presence of unpaired strange quarks and blue color light quarks of all flavors. Our calculations are based on the SU(3) Nambu–Jona–Lasinio model, extended to include both vector interactions and the ‘t Hooft determinant term. The primary focus is on how variations in the NJL Lagrangian parameters—specifically, the diquark and vector coupling strengths—affect both the static properties of quark matter, such as its equation of state and composition, and its dynamical behavior, including bulk viscosity and associated damping timescales. We find that the bulk viscosity and corresponding damping timescale can change by more than an order of magnitude upon varying the vector coupling by a factor of two at high densities and by a lesser degree at lower densities. This sensitivity primarily arises from the susceptibility of 2SC matter, with a smaller contribution from modifications to the weak interaction rates. In comparison, changes in the diquark coupling have a more limited impact. The damping of density oscillations in 2SC matter is similar quantitatively to nucleonic matter and can be a leading mechanism of dissipation in merging hybrid stars containing color superconducting cores.

Gravitational Waves↗

On the Utility of Transmission Color Analysis i: Differentiating Super-Earths and Sub-Neptunes

The majority of exoplanets found to date have been discovered via the transit method, and transmission spectroscopy represents the primary method of studying these distant worlds. Currently, in-depth atmospheric characterization of transiting exoplanets entails the use of spectrographs on large telescopes, requiring significant observing time to study each planet. Previous studies have demonstrated trends for solar system worlds using color–color photometry of reflectance spectra, as well as trends within transmission spectra for hot Jupiters. Building on these concepts, we have investigated the use of transmission color photometric analysis for efficient, coarse categorization of exoplanets and for assessing the nature of these worlds, with a focus on resolving the bulk composition degeneracy to aid in discriminating super-Earths and sub-Neptunes. We present our methodology and first results, including spectrum models, model comparison frameworks, and wave band selection criteria. We present our results for different transmission “color” metrics, filter selection methods, and numbers of filters. Assuming noise-free spectra of isothermal atmospheres in chemical equilibrium, with our pipeline, we are able to constrain atmospheric mean molecular weight in order to distinguish between super-Earth and sub-Neptune atmospheres with >90% overall accuracy using specific low-resolution filter combinations, . We also found that increasing the number of filters does not substantially impact this performance. This method could allow for broad characterization of large numbers of planets much more efficiently than current methods permit, enabling population- and system-level studies. Additionally, data collected via this method could inform follow-up observing time by large telescopes for more detailed studies of worlds of interest.

47 OTHER INSTRUMENTATION↗

The SDSS-Gaia View of the Color–Magnitude Relation for Blue Horizontal-branch Stars

We present an updated sample of blue horizontal-branch (BHB) stars selected from the photometric and spectroscopic data from Sloan Digital Sky Survey and its associated project Sloan Extension for Galactic Understanding and Exploration (SEGUE). With these data, we selected candidates for A-type stars in the color–color space and then a mixture modeling technique was implemented in order to distinguish between BHB and main-sequence/blue-straggler stars based on their surface gravity values (log g) estimated by the SEGUE Stellar Parameter Pipeline. Our robust approach allows us to attribute individual probabilities of each star truly being in the BHB stage. Hence, our method is advantageous in comparison to previous SEGUE BHB selections that adopted simple log g cuts. We also revisit the color–magnitude relation for these stars and propose two calibrations, based on updated distances for Galactic globular clusters, to estimate absolute magnitudes with (g – r) 0 and (u – r) 0 colors.

79 ASTRONOMY AND ASTROPHYSICS↗

Color symmetry and confinement as an underlying superconformal structure in holographic QCD

Dedicated to the memory of our colleague, Harald Fritzsch, who, together with Murray Gell-Mann, introduced the color quantum number as the exact symmetry responsible for the strong interaction, thus establishing quantum chromodynamics (QCD) as a fundamental non-Abelian gauge theory. A basic understanding of hadron properties, however, such as confinement and the emergence of a mass scale, from first principles QCD has remained elusive: Hadronic characteristics are not explicit properties of the QCD Lagrangian and perturbative QCD, so successful in the large transverse momentum domain, is not applicable at large distances. In this article, we shall examine how this daunting obstacle is overcome in holographic QCD with the introduction of a superconformal symmetry in anti de Sitter (AdS) space which is responsible for confinement and the introduction of a mass scale within the superconformal group. When mapped to light-front coordinates in physical spacetime, this approach incorporates supersymmetric relations between the Regge trajectories of meson, baryon and tetraquark states which can be visualized in terms of specific SU(3) C color representations of quarks. Finally, we will also briefly discuss here the implications of holographic models for QCD color transparency in view of the present experimental interest.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Searching for an Enhanced Signal of the Onset of Color Transparency in Baryons with D(e,e′p)n Scattering

Observation of the onset of color transparency in baryons would provide a new means of studying the nuclear strong force and would be the first clear evidence of baryons transforming into a color-neutral point-like size in the nucleus as predicted by quantum chromodynamics. Recent C(e,e′p) results from electron-scattering did not observe the onset of color transparency (CT) in protons up to spacelike four-momentum transfers squared, Q2=14.2 GeV2. The traditional methods of searching for CT in (e,e′p) scattering use heavy targets favoring kinematics with already initially reduced final state interactions (FSIs) such that any CT effect that further reduces FSIs will be small. The reasoning behind this choice is the difficulty in accounting for all FSIs. D(e,e′p)n, on the other hand, has well-understood FSI contributions from double scattering with a known dependence on the kinematics and can show an increased sensitivity to hadrons in point-like configurations. Double scattering is the square of the re-scattering amplitude in which the knocked-out nucleon interacts with the spectator nucleon, a process that is suppressed in the presence of point-like configurations and is particularly well-studied for the deuteron. This suppression yields a quadratic sensitivity to CT effects and is strongly dependent on the choice of kinematics. Here, we describe a possible Jefferson National Accelerator Facility (JLab) electron-scattering experiment that utilizes these kinematics and explores the potential signal for the onset of CT with enhanced sensitivity as compared to recent experiments.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Microwave-Absorbing Foams with Adjustable Absorption Frequency and Structural Coloration

Microwave-absorbing materials with regulatable absorption frequency and optical camouflage hold great significance in intelligent electronic devices and advanced stealth technology. Herein, we present an innovative microwave-absorbing foam that can dynamically tune microwave absorption frequencies via a simple mechanical compression while in parallel enabling optical camouflage over broad spectral ranges by adjusting the structural colors. In this study, the vivid colors spanning different color categories generated from thin-film interference can be precisely regulated by adjusting the thickness of the conformal TiO 2 coatings on Ni/melamine foam. Enhanced interfacial and defect-induced polarizations resulting from the introduction of TiO 2 coating synergistically contribute to the dielectric attenuation performance. Consequently, such a foam exhibits exceptional microwave absorption capabilities, and the absorption frequency can be dynamically tuned from the S band to the Ku band by manipulating its compression ratio. Additionally, simulation calculations validate the adjustable electromagnetic wave loss behavior, offering valuable insights for the development of next-generation intelligent electromagnetic devices across diverse fields.

36 MATERIALS SCIENCE↗

Modeling Structural Colors from Disordered One-Component Colloidal Nanoparticle-Based Supraballs Using Combined Experimental and Simulation Techniques

Bright, saturated structural colors in birds have inspired synthesis of self-assembled, disordered arrays of assembled nanoparticles with varied particle spacings and refractive indices. However, predicting colors of assembled nanoparticles, and thereby guiding their synthesis, remains challenging due to the effects of multiple scattering and strong absorption. In this work, we use a computational approach to first reconstruct the nanoparticles’ assembled structures from small-angle scattering measurements and then input the reconstructed structures to a finite-difference time-domain method to predict their color and reflectance. This computational approach is successfully validated by comparing its predictions against experimentally measured reflectance and provides a pathway for reverse engineering colloidal assemblies with desired optical and photothermal properties.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗