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At least 37 records · Page 2

Structural and functional analyses explain Pea KAI2 receptor diversity and reveal stereoselective catalysis during signal perception

KAI2 proteins are plant α/β hydrolase receptors which perceive smoke-derived butenolide signals and endogenous, yet unidentified KAI2-ligands (KLs). The number of functional KAI2 receptors varies among species and KAI2 gene duplication and sub-functionalization likely plays an adaptative role by altering specificity towards different KLs. Legumes represent one of the largest families of flowering plants and contain many agronomic crops. Prior to their diversification, KAI2 underwent duplication resulting in KAI2A and KAI2B. Here we demonstrate that Pisum sativum KAI2A and KAI2B are active receptors and enzymes with divergent ligand stereoselectivity. KAI2B has a higher affinity for and hydrolyses a broader range of substrates including strigolactone-like stereoisomers. We determine the crystal structures of PsKAI2B in apo and butenolide-bound states. The biochemical, structural, and mass spectra analyses of KAI2s reveal a transient intermediate on the catalytic serine and a stable adduct on the catalytic histidine, confirming its role as a bona fide enzyme. Our work uncovers the stereoselectivity of ligand perception and catalysis by diverged KAI2 receptors and proposes adaptive sensitivity to KAR/KL and strigolactones by KAI2B.

59 BASIC BIOLOGICAL SCIENCES↗

The metallicity distribution in the core of the Sagittarius dwarf spheroidal: Minimising the metallicity biases

We present the metallicity and radial velocity for 450 bona fide members of the Sagittarius dwarf spheroidal (Sgr dSph) galaxy, measured from high-resolution spectra (R ≃ 18 000) obtained with FLAMES at the VLT. The targets were carefully selected (a) to sample the core of the main body of Sgr dSph while avoiding contamination from the central stellar nucleus, and (b) to prevent any bias on the metallicity distribution by selecting targets based on their Gaia parallax and proper motions. All the targets selected in this way were confirmed as radial velocity members. We used this sample to derive the first metallicity distribution of the core of Sgr dSph, which is virtually unaffected by metallicity biases. The observed distribution ranges from [Fe/H] ≃ -2.3 to [Fe/H] ≃ 0.0, with a strong, symmetric, and relatively narrow peak around [Fe/H] ≃ -0.5 and a weak and extended metal-poor tail, in which only 13.8 ± 1.9% of the stars have [Fe/H] < -1.0. We confirm previous evidence of correlations between chemical and kinematical properties of stars in the core of Sgr. In our sample, stars with [Fe/H] ≥ -0.6 display a lower velocity dispersion and a higher rotation amplitude than those with [Fe/H] < - 0.6, confirming previous suggestions of disk/halo structure for the progenitor of the system.

79 ASTRONOMY AND ASTROPHYSICS↗

Molecular hydrodynamic theory of the velocity autocorrelation function

The velocity autocorrelation function (VACF) encapsulates extensive information about a fluid’s molecular-structural and hydrodynamic properties. We address the following fundamental question: How well can a purely hydrodynamic description recover the molecular features of a fluid as exhibited by the VACF? To this end, we formulate a bona fide hydrodynamic theory of the tagged-particle VACF for simple fluids. Our approach is distinguished from previous efforts in two key ways: collective hydrodynamic modes and tagged-particle self-motion are modeled by linear hydrodynamic equations; the fluid’s spatial velocity power spectrum is identified as a necessary initial condition for the momentum current correlation. This formulation leads to a natural physical interpretation of the VACF as a superposition of products of quasinormal hydrodynamic modes weighted commensurately with the spatial velocity power spectrum, the latter of which appears to physically bridge continuum hydrodynamical behavior and discrete-particle kinetics. The methodology yields VACF calculations quantitatively on par with existing approaches for liquid noble gases and alkali metals. Furthermore, we obtain a new, hydrodynamic form of the self-intermediate scattering function whose description has been extended to low densities where the Schmidt number is of order unity; various calculations are performed for gaseous and supercritical argon to support the general validity of the theory. Excellent quantitative agreement is obtained with recent MD calculations for a dense supercritical Lennard-Jones fluid.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Diagnostic diagrams for ram pressure stripped candidates

ABSTRACT This paper presents a method for finding ram pressure stripped (RPS) galaxy candidates by performing a morphological analysis of galaxy images obtained from the Legacy survey. We consider a sample of about 600 galaxies located in different environments such as groups and clusters, tidally interacting pairs and the field. The sample includes 160 RPS previously classified in the literature into classes from J1 to J5, based on the increasing level of disturbances. Our morphological analysis was done using the astromorphlib software followed by the inspection of diagnostic diagrams involving combinations of different parameters like the asymmetry (A), concentration (C), Sérsic index (n), and bulge strength parameters $F(G,\, M_{20})$. We found that some of those diagrams display a distinct region in which galaxies classified as J3, J4, and J5 decouples from isolated galaxies. We call this region as the morphological transition zone and we also found that tidally interacting galaxies in pairs are predominant within this zone. Nevertheless, after visually inspecting the objects in the morphological transition zone to discard obvious contaminants, we ended up with 33 bona fide new RPS candidates in the studied nearby groups and clusters (Hydra, Fornax, and CLoGS sample), of which one-third show clear evidence of unwinding arms. Future works may potentially further increase significantly the samples of known RPS using such method.

Astronomy & Astrophysics↗

AT 2018dyk: tidal disruption event or active galactic nucleus? Follow-up observations of an extreme coronal line emitter with the Dark Energy Spectroscopic Instrument

We present fresh insights into the nature of the tidal disruption event (TDE) candidate AT 2018dyk. AT 2018dyk has sparked a debate in the literature around its classification as either a bona-fide TDE or as an active galactic nucleus (AGN) turn-on state change. A new follow-up spectrum taken with the Dark Energy Spectroscopic Instrument, in combination with host-galaxy analysis using archival SDSS–MaNGA data, supports the identification of AT 2018dyk as a TDE. Specifically, we classify this object as a TDE that occurred within a gas-rich environment, which was responsible for both its mid-infrared (MIR) outburst and development of Fe coronal emission lines. Comparison with the known sample of TDE-linked extreme coronal line emitters (TDE-ECLEs) and other TDEs displaying coronal emission lines (CrL-TDEs) reveals similar characteristics and shared properties. For example, the MIR properties of both groups appear to form a continuum with links to the content and density of the material in their local environments. This includes evidence for a MIR colour–luminosity relationship in TDEs occurring within such gas-rich environments, with those with larger MIR outbursts also exhibiting redder peaks.

79 ASTRONOMY AND ASTROPHYSICS↗

Exact quantum scars in the chiral nonlinear Luttinger liquid

While the chiral linear Luttinger liquid is integrable via bosonization, its nonlinear counterpart does not admit for an analytic solution. In this work, we find a subextensive number of exact eigenstates for a large family of density-density interaction terms. These states are embedded in a continuum of strongly correlated excited states. The real-space entanglement entropy of some exact states scales logarithmically with system size while that of others has volume-law scaling. We introduce momentum-space entanglement as an unambiguous differentiator between these exact states and the remaining excited states. With regard to momentum space, the exact states behave as bona fide quantum many-body scars: they exhibit identically zero momentum-space entanglement, while typical eigenstates behave thermally. We corroborate this finding by a level statistics analysis. Here we detail the general formalism for systematically finding all interaction terms and associated exact states, and present a number of infinite exact state sequences extending to arbitrarily high energies. Unlike many previous examples of quantum many-body scars, the exact states uncovered here do not lie at equidistant energies and do not follow from a special operator algebra. Instead, they are uniquely enabled by the interplay of Fermi statistics and chirality.

36 MATERIALS SCIENCE↗

Demonstration of Algorithmic Quantum Speedup

Despite the development of increasingly capable quantum computers, an experimental demonstration of a provable algorithmic quantum speedup employing today’s non-fault-tolerant devices has remained elusive. Here, in this study, we unequivocally demonstrate such a speedup within the oracular model, quantified in terms of the scaling with the problem size of the time-to-solution metric. We implement the single-shot Bernstein-Vazirani algorithm, which solves the problem of identifying a hidden bitstring that changes after every oracle query, using two different 27-qubit IBM Quantum superconducting processors. The speedup is observed on only one of the two processors when the quantum computation is protected by dynamical decoupling but not without it. The quantum speedup reported here does not rely on any additional assumptions or complexity-theoretic conjectures and solves a bona fide computational problem in the setting of a game with an oracle and a verifier.

97 MATHEMATICS AND COMPUTING↗

Demonstration of Algorithmic Quantum Speedup for an Abelian Hidden Subgroup Problem

Simon’s problem is to find a hidden period (a bitstring) encoded into an unknown 2-to-1 function. It is one of the earliest problems for which an exponential quantum speedup was proven for ideal, noiseless quantum computers, albeit in the oracle model. Here, using two different 127-qubit IBM Quantum superconducting processors, we demonstrate an algorithmic quantum speedup for a variant of Simon’s problem where the hidden period has a restricted Hamming weight 𝑤. For sufficiently small values of 𝑤 and for circuits involving up to 58 qubits, we demonstrate an exponential speedup, albeit of a lower quality than the speedup predicted for the noiseless algorithm. The speedup exponent and the range of 𝑤 values for which an exponential speedup exists are significantly enhanced when the computation is protected by dynamical decoupling. Further enhancement is achieved with measurement error mitigation. This case constitutes a demonstration of a bona fide quantum advantage for an Abelian hidden subgroup problem.

computation↗

Structures of artificially designed discrete RNA nanoarchitectures at near-atomic resolution

Although advances in nanotechnology have enabled the construction of complex and functional synthetic nucleic acid–based nanoarchitectures, high-resolution discrete structures are lacking because of the difficulty in obtaining good diffracting crystals. Here, we report the design and construction of RNA nanostructures based on homooligomerizable one-stranded tiles for x-ray crystallographic determination. We solved three structures to near-atomic resolution: a 2D parallelogram, a 3D nanobracelet unexpectedly formed from an RNA designed for a nanocage, and, eventually, a bona fide 3D nanocage designed with the guidance of the two previous structures. Structural details of their constituent motifs, such as kissing loops, branched kissing loops, and T-junctions, that resemble natural RNA motifs and resisted x-ray determination are revealed, providing insights into those natural motifs. This work unveils the largely unexplored potential of crystallography in gaining high-resolution feedback for nanoarchitectural design and suggests a route to investigate RNA motif structures by configuring them into nanoarchitectures.

59 BASIC BIOLOGICAL SCIENCES↗

A dynamic protein interactome drives energy conservation and electron flux in Thermococcus kodakarensis

ABSTRACT Life is supported by energy gains fueled by catabolism of a wide range of substrates, each reliant on the selective partitioning of electrons through redox ( red uction and ox idation) reactions. Electron flux through tunable and regulated protein interactions provides dynamic routes for energy conservation, but how electron flux is regulated in vivo , particularly for archaeal metabolisms that support rapid growth at the thermodynamic limits of life, is poorly understood. Identification of bona fide in vivo protein assemblies and how such assemblies dictate the totality of electron flux is critical to our understanding of the regulation imposed on metabolism, energy production, and energy conservation. Here, 25 key proteins in central metabolic redox pathways in the model, genetically accessible, hyperthermophilic archaeon Thermococcus kodakarensis , were purified to reveal an extensive, dynamic, and tightly interconnected network of protein interactions that responds to environmental cues (such as the availability of various reductive sinks) to direct electron flux to maximize energetic gains. Interactions connecting disparate functions suggest many catabolic and anabolic activities occur in spatial proximity in vivo , and while protein complexes have been historically defined under optimal conditions, many of these complexes appear to maintain alternative partnerships in changing conditions. The totality of the results obtained redefines our understanding of in vivo assemblies driving ancient metabolic strategies supporting the growth of modern Archaea. IMPORTANCE Given the potential for rational genetic manipulations of biofuel- and biotech-promising archaea to yield transformative results for major markets, it is a priority to define how the metabolisms of such species are controlled, at least in part, by in vivo protein assemblies, and from such, define routes of energy flux that can be most efficiently altered toward biofuel or biotechnological gains. Proteinaceous electron carriers (PECs, such as ferredoxins) offer the potential for specific protein–protein interactions to coordinate selective reductive flow. Employing the model, genetically accessible, hyperthermophilic archaeon, Thermococcus kodakarensis , we establish the metabolic protein interactome of 25 key redox proteins, revealing that each redox active protein has a dynamic partnership profile, suggesting catabolic and anabolic activities may occur in concert and in temporal and spatial proximity in vivo . These results reveal critical importance in evaluating the newly identified partnerships and their role and utility in providing regulated redox flux in T. kodakarensis .

Williams, Sere A. (ORCID:0000000235509590)↗

High-burnup Experiments in Reactivity Initiated Accidents (HERA)

High-burnup Experiments in Reactivity-initiated Accidents (HERA) is a joint experimental program (JEEP) operating within the United States (U.S.) Nuclear Energy Agency’s (NEA’s) framework for irradiation experiments (FIDES). HERA is dedicated to the understanding of light water reactor (LWR) fuel performance at high burnup under reactivity-initiated accidents (RIA). In-pile RIA experiments have been performed on high-burnup fuels (e.g., above 60 gigawatt days per metric ton of uranium [GWd/MTU]) in the CABRI reactor at the Cadarache site in southern France, and the Nuclear Safety Research Reactor (NSRR) in Japan. However, most of these experiments have taken place with heavily corroded Zircaloy claddings with pulse widths that are narrower (e.g., 5 ms – 30 ms full-width-half-max [FWHM]) than what would be likely in a commercial LWR (e.g., 30 ms – 80 ms FWHM). A few tests were performed in the CABRI facility with FWHM up to 76 ms, though only one “blistered” rod experienced cladding failure. Heavy waterside corrosion and narrow pulse widths are both known to increase the vulnerability of LWR fuel to pellet cladding mechanical interaction (PCMI). The HERA proposal is designed to: (1) quantify the impact of pulse width on fuel performance, offering new insight into the applicability of existing data; (2) generate new data on high burnup fuel under pulse conditions prototypic of LWRs; (3) quantify the additional margin provided by modern cladding alloys to PCMI failure limits; and (4) offer improved data for modelers using specially designed tests that eliminate key uncertainties in high-burnup fuel tests.

(HERA)↗

NA-22 Quarterly Report - Q3

Department of Energy (DOE) scientists have long enjoyed technical collaboration with Japanese colleagues ─ valuing their technical and scientific prowess in materials science and engineering, large-scale, scientific computing, and many other areas. In particular, NNSA’s laboratories are attractive partners for this effort because they have a heritage of performing high quality, basic research; they work with an awareness of the dual use nature of emerging science and technology; and, importantly, they work with deep national security sensibilities through engagement with NNSA and other national security mission responsibilities. Other DOE laboratories with significant national security bona fides are also significant collaborators.

36 MATERIALS SCIENCE↗

IST for Extended Deterrence

Department of Energy (DOE) scientists have long enjoyed technical collaboration with Japanese colleagues ₋ valuing their technical and scientific prowess in materials science and engineering, large-scale, scientific computing, and many other areas. In particular, NNSA’s laboratories are attractive partners for this effort because they have a heritage of performing high quality, basic research; they work with an awareness of the dual use nature of emerging science and technology; and, importantly, they work with deep national security sensibilities through engagement with NNSA and other national security mission responsibilities. Other DOE laboratories with significant national security bona fides are also significant collaborators.

99 GENERAL AND MISCELLANEOUS↗

IST for Extended Deterrence: NA-22 Quarterly Report, Q3FY23

Department of Energy (DOE) scientists have long enjoyed technical collaboration with Japanese colleagues — valuing their technical and scientific prowess in materials science and engineering, large-scale, scientific computing, and many other areas. In particular, NNSA’s laboratories are attractive partners for this effort because they have a heritage of performing high quality, basic research; they work with an awareness of the rapid and dynamic growth of emerging science and technology; and, importantly, they work with deep national science sensibilities through engagement with NNSA and in concert with other national laboratories with significant technical bona fides, who act as significant collaborators.

36 MATERIALS SCIENCE↗

HERA M&S Exercise Problem Description Report

The Nuclear Energy Agency (NEA) Framework for Irradiation Experiments (FIDES) program includes the High burnup Experiments for Reactivity initiated Accident (HERA) Joint Experimental Program (JEEP). The HERA project is focused on studying Light Water Reactor (LWR) fuel behavior during Reactivity Initiated Accident (RIA) conditions. The HERA experiment plan includes analytical integral experiments using test specimens tailored to investigate specific conditions of relevance as well as prototypic integral experiments focused on irradiated fuel from prototypic origin. Modeling & simulation (M&S) is a key component of any experiment program, and the HERA JEEP is coordinating a M&S exercise. The purpose of this document is to provide problem descriptions to support the HERA M&S exercise based on fuel performance modeling. The HERA M&S exercise is expected to evolve into multiple efforts in outyears. This document may be revised and expanded to incorporate those evolutions.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

NA-22 Quarterly Report: IST for Extended Deterrence (Q4FY24)

Department of Energy (DOE) scientists have long enjoyed technical collaboration with Japanese colleagues – valuing their technical and scientific prowess in materials science and engineering, large-scale, scientific computing, and many other areas. In particular, NNSA’s laboratories are attractive partners for this effort because they have a heritage of performing high quality, basic research; they work with an awareness of the dual use nature of emerging science and technology; and, importantly, they work with deep national security sensibilities through engagement with NNSA and other national security mission responsibilities. Other DOE laboratories with significant national security bona fides are also significant collaborators. In FY23 a Trilateral Leaders Summit was convened at Camp David. The DOE was given responsibility for “Trilateral National Laboratories Cooperation: The United States, Japan, and the ROK will drive new trilateral cooperation between the U.S. Department of Energy’s National Laboratories and counterpart laboratories—supported by a budget of at least $6 million—to advance knowledge, strengthen scientific collaboration, and spearhead innovation in support of the three countries’ shared interests. Scientists and innovators from the three countries will advance collaborative projects on priority critical and emerging technology areas; potential areas of cooperation include advanced computing, artificial intelligence, materials research, and climate and earthquake modeling among other technology areas.”

36 MATERIALS SCIENCE↗

Identifying Missing Quasars from the DESI Bright Galaxy Survey

The Dark Energy Spectroscopic Instrument (DESI) cosmology survey includes a Bright Galaxy Survey (BGS), which will yield spectra for over 10 million bright galaxies (r < 20.2 AB mag). The resulting sample will be valuable for both cosmological and astrophysical studies. However, the star/galaxy separation criterion implemented in the nominal BGS target selection algorithm excludes quasar host galaxies in addition to bona fide stars. While this excluded population is comparatively rare (∼3–4 per square degrees), it may hold interesting clues regarding galaxy and quasar physics. Therefore, we present a target selection strategy that was implemented to recover these missing active galactic nuclei (AGN) from the BGS sample. The design of the selection criteria was both motivated and confirmed using spectroscopy. The resulting BGS-AGN sample is uniformly distributed over the entire DESI footprint. According to DESI survey validation data, the sample comprises 93% quasi-stellar objects (QSOs), 3% narrow-line AGN or blazars with a galaxy contamination rate of 2%, and a stellar contamination rate of 2%. Peaking around redshift z = 0.5, the BGS-AGN sample is intermediary between quasars from the rest of the BGS and those from the DESI QSO sample in terms of redshifts and AGN luminosities. The stacked spectrum is nearly identical to that of the DESI QSO targets, confirming that the sample is dominated by quasars. We highlight interesting small populations reaching z > 2, which are either faint quasars with nearby projected companions or very bright quasars with strong absorption features including the Lyα forest, metal absorbers, and/or broad absorption lines.

79 ASTRONOMY AND ASTROPHYSICS↗