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All sourcesNASA NTRSDOE OSTI
DOE OSTI2023

A large area 100-channel PICOSEC Micromegas detector with time resolution at the 20 ps level

Abstract The PICOSEC Micromegas precise timing detector is based on a Cherenkov radiator coupled to a photocathode operating in a semi-transparent mode and a Micromegas amplification structure. The first proof of concept single-channel prototype was able to achieve a time resolution below 25 ps. One of the crucial aspects in the development of precise timing gaseous detectors applicable in high-energy physics experiments is a modular design that enables large area coverage. The first 19-channel multi-pad prototype with an active area of approximately 10 cm 2 suffered from degraded timing resolution due to the non-uniformity of the preamplification gap thickness. A new 100 cm 2 detector module with 100 channels based on a rigid hybrid ceramic/FR4 Micromegas board for improved drift gap uniformity was developed. Initial measurements with 80 GeV/c muons showed improvements in timing response over the measured pads and a time resolution below 25 ps. More recent measurements with a thinner drift gap detector module and newly developed RF pulse amplifiers show that the pad centre resolution can be enhanced to the level of 17 ps. This work will present the development of the detector from structural simulations, design, and beam test commissioning with a focus on the timing performance of a thinner drift gap detector module in combination with new electronics using an automated timing scan method.

Utrobicic, A.↗
DOE OSTI2025

The structure and migration of twin boundaries in tetragonal β -Sn: An application of machine learning based interatomic potentials

Although atomistic simulations have contributed significantly to our understanding of twin boundary structure and migration in metals and alloys with hexagonal close packed (HCP) crystal structures, few direct atomistic studies of twinning have been conducted for other types of low symmetry materials, in large part due to a lack of reliable interatomic potentials. In this work, we examine twin boundary structure and migration in a tetragonal material, β-Sn, comparing high resolution Transmission Electron Microscopy (TEM) images of deformation twins in β-Sn to the results of direct atomistic simulations using multiple interatomic potentials. ML-based potentials developed in this work are found to give results consistent with our experimental data, revealing faceted twin boundary structures formed by the nucleation and motion of twinning disconnections. We use bicrystallographic methods in combination with atomistic simulations to analyze the structure, energy and shear coupled migration of observed twin facets in β-Sn. In analogy to Prismatic-Basal (PB/BP) interfaces in HCP metals, we discover low energy asymmetric Prismatic-A-plane (PA/AP) interfaces important to twin growth in β-Sn. Finally, a Moment Tensor Potential (MTP) and Rapid Artificial Neural Network (RANN) interatomic potential suitable for studying twinning and phase transformations in Sn are made publicly available as part of this work.

36 MATERIALS SCIENCE↗
DOE OSTI2023

The interactive indoor-outdoor building energy modeling for enhancing the predictions of urban microclimates and building energy demands

There is a lack of an urban building energy modeling framework that considers the influence of surrounding buildings and local urban climate on building thermal performance. This can lead to inaccurate results since the thermal performance of individual buildings is heavily influenced by their surrounding built and climatic environment. This study establishes an interactive indoor-outdoor building energy modeling method to enhance the predictions of urban microclimates and building energy demands by coupling an urban physics model with a physics-based building energy model. Validation of the interactive coupling scheme uses field measurement datasets. Parametric simulation and analysis are conducted to understand the influence of the roof-to-canyon width ratio, canyon orientation, and ground vegetation fraction on canyon temperature, building energy consumption, and energy demand. Furthermore, the impacts of building energy model complexity (e.g., detailed vs. simplified building models) and coupling approaches on canyon temperature and building energy profiles are demonstrated using two case study buildings. In comparison with the one-way coupling approach, cooling energy consumption predicted with the dynamic two-way coupling approach varies by 3.5% and 0.5% for the detailed medium office building model and high-rise building model, respectively, and peak cooling demand varies by 8.4% and 7.0% for the detailed medium office building model and high-rise building model, respectively. Here this study also suggests that adopting a complex two-way coupling approach with environmental data exchange at various elevations is necessary for modeling tall buildings at the urban scale.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗
DOE OSTI2022

Identification of Novel Microcystins Using High-Resolution MS and MS n with Python Code

Cyanotoxins called microcystins (MCs) are highly toxic and can be present in drinking water sources. Determining the structure of MCs is paramount because of its effect on toxicity. Though over 300 MC congeners have been discovered, many remain unidentified. In this work, a method is described for the putative identification of MCs using liquid chromatography (LC) coupled with high-resolution (HR) Orbitrap mass spectrometry (MS) and a new bottom-up sequencing strategy. Maumee River water samples were collected during a harmful algal bloom and analyzed by LC–MS with simultaneous HRMS and MS/MS. Unidentified ions with characteristic MC fragments (135 and 213 m/z) were recognized as possible novel MC congeners. An innovative workflow was developed for the putative identification of these ions. Python code was written to generate the potential structures of unidentified MCs and to assign ions after the fragmentation for structural confirmation. The workflow enabled the putative identification of eight previously reported MCs for which standards are not available and two newly discovered congeners, MC-HarR and MC-E(OMe)R.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Analytic Gradients for Equation-of-Motion Coupled Cluster with Single, Double, and Perturbative Triple Excitations

Understanding the process of molecular photoexcitation is crucial in various fields, including drug development, materials science, photovoltaics, and more. The electronic vertical excitation energy is a critical property, for example in determining the singlet-triplet gap of chromophores. However, a full understanding of excited-state processes requires additional explorations of the excited-state potential energy surface and electronic properties, which is greatly aided by the availability of analytic energy gradients. Owing to its robust high accuracy over a wide range of chemical problems, equation-of-motion coupled-cluster with single and double excitations (EOM-CCSD) is a powerful method for predicting excited state properties, and the implementation of analytic gradients of many EOM-CCSD (excitation energies, ionization potentials, electron attachment energies, etc.) along with numerous successful applications high- lights the flexibility of the method. In specific cases where a higher level of accuracy is needed or in more complex electronic structures, the inclusion of triple excitations becomes essential, for example, in the EOM-CCSD* approach of Saeh and Stanton. In this work, we derive and implement for the first time the analytic gradients of EOMEE-CCSD*, which also provides a template for analytic gradients of related ex- cited state methods with perturbative triple excitations. Here, the capabilities of analytic EOMEE-CCSD* gradients are illustrated by several representative examples.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2024

Selective Detection of Intermediate-Amplitude Motion by Solid-State NMR

The coexistence of rigid and mobile molecules or molecular segments abounds in biomolecular assemblies. Examples include the carbohydrate-rich cell walls of plants and intrinsically disordered proteins that contain rigid β-sheet cores. In solid-state nuclear magnetic resonance (NMR) spectroscopy, dipolar polarization transfer experiments are well suited for detecting rigid components, whereas scalar-coupling experiments are well suited for detecting highly mobile components. However, few NMR methods are available to detect the segments that undergo intermediate-amplitude fast motion. Here, we introduce two NMR experiments, a two-dimensional T 2H -filtered CP-hCH correlation and a three-dimensional J-INADEQUATE CCH correlation, to observe this intermediate-amplitude motion. Both experiments involve 1 H detection under fast magic-angle spinning (MAS). By combining 1 H transverse relaxation (T 2H ) filters with dipolar polarization transfer, we suppress the signals of both highly rigid and highly mobile species, thus revealing the signals of intermediate mobile species. 1 H detection under fast MAS is crucial for distinguishing the different motional amplitudes. Here, we demonstrate these techniques on several plant cell wall samples and show that they allow the selective detection and resolution of certain hemicellulose and pectin signals, which are usually masked by the signals of the rigid cellulose and the highly dynamic pectins in purely dipolar and scalar NMR spectra.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Identification of Brillouin Zones by In-Plane Lasing from Light-Cone Surface Lattice Resonances

Periodic optical structures can control the flow of light, which has facilitated applications in optical fibers, laser cavities, and biochemical sensors. The first Brillouin zone (BZ) in reciprocal space can describe all the electromagnetic fields localized inside a photonic lattice. However, photonic lattices also exhibit radiative losses from light scattering, but the radiated fields are not captured by the first BZ. In a two-dimensional lattice, the in-plane wavevectors of photonic modes are limited by the so-called light cone, which depicts free-photon dispersion relations in the surrounding medium. Here we show that projection of the light cone on extended BZs provides a geometric method to observe radiated electromagnetic fields of photonic lattice modes. We developed a coupled dipole radiation theory to reveal how lattice geometry and dipole orientation affect the angular distributions of the radiated fields. Using dye molecules as local dipole emitters to excite and probe the optical modes, we experimentally identified high-order BZ edges through directional, in-plane lasing emission.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
DOE OSTI2020

Seismicity and Stress Associated With a Fluid-Driven Fracture: Estimating the Evolving Geometry

A coupled approach, combining the theory of rate- and state-dependent friction and methods from poroelasticity, forms the basis for a quantitative relationship between displacements and fluid leak-off from a growing fracture and changes in the rate of seismic events in the region surrounding the fracture. Poroelastic Green's functions link fracture aperture changes and fluid flow from the fracture to changes in the stress field and pore pressure in the adjacent formation. The theory of rate- and state-dependent friction provides a connection between Coulomb stress changes and variations in the rate of seismic events. Numerical modeling indicates that the Coulomb stress changes can vary significantly between formations with differing properties. The relationship between the seismicity rate changes and the changes in the formation stresses and fluid pressure is nonlinear, but a transformation produces a quantity that is linearly related to the aperture changes and fluid leak-off from the fracture. The methodology provides a means for mapping changes in seismicity into fracture aperture changes and to image an evolving fracture. An application to observed microseismicity associated with a hydrofracture reveals asymmetric fracture propagation within two main zones, with extended propagation in the upper zone. Furthermore, the time-varying volume of the fracture agrees with the injected volume, given by the integration of rate changes at the injection well, providing validation of the estimated aperture changes.

58 GEOSCIENCES↗
DOE OSTI2021

nn-PINNs: Non-Newtonian physics-informed neural networks for complex fluid modeling

Time- and rate-dependent material functions in non-Newtonian fluids in response to different deformation fields pose a challenge in integrating different constitutive models into conventional computational fluid dynamic platforms. Considering their relevance in many industrial and natural settings alike, robust data-driven frameworks that enable accurate modeling of these complex fluids are of great interest. The main goal is to solve the coupled Partial Differential Equations (PDEs) consisting of the constitutive equations that relate the shear stress to the deformation and fully capture the behavior of the fluid under various flow protocols with different boundary conditions. Here, in this work, we present non-Newtonian physics-informed neural networks (nn-PINNs) for solving systems of coupled PDEs adopted for complex fluid flow modeling. The proposed nn-PINN method is employed to solve the constitutive models in conjunction with conservation of mass and momentum by benefiting from Automatic Differentiation (AD) in neural networks, hence avoiding the mesh generation step. nn-PINNs are tested for a number of different complex fluids with different constitutive models and for several flow protocols. These include a range of Generalized Newtonian Fluid (GNF) empirical constitutive models, as well as some phenomenological models with memory effects and thixotropic timescales. nn-PINNs are found to obtain the correct solution of complex fluids in spatiotemporal domains with good accuracy compared to the ground truth solution. We also present applications of nn-PINNs for complex fluid modeling problems with unknown boundary conditions on the surface, and show that our approach can successfully recover the velocity and stress fields across the domain, including the boundaries, given some sparse velocity measurements.

42 ENGINEERING↗
DOE OSTI2022

Correlated nanoelectronics and the second quantum revolution

The growing field of correlated nanoelectronics exists at the intersection of two established fields: correlated oxide electronics and semiconductor nanoelectronics. The development of quantum technologies that exploit quantum coherence and entanglement for the purposes of computation, simulation, and sensing will require complex material properties to be controlled at nanoscale dimensions. Heterostructures and nanostructures formed at the interface between LaAlO 3 and SrTiO 3 exhibit striking behavior that arises from the ability to program the conductive behavior at extreme nanoscale dimensions. The active electronic layer, SrTiO 3 , exhibits a wide range of gate-tunable phenomena such as ferroelectricity, ferroelasticity, magnetism, superconductivity, and spin–orbit coupling, all of which can be controlled at the nanoscale using two reversible methods: conductive atomic force microscope lithography and ultra-low-voltage electron beam lithography. Mesoscopic devices such as single-electron transistors and quasi-one-dimensional electron waveguides can be “sketched” using these techniques, and the properties of these devices differ significantly from those created from traditional semiconductors, such as Si or GaAs. The strongly correlated nature of the SrTiO 3 system is evident from superconducting behavior as well as a state in which electrons are paired outside the superconducting state. A highly exotic phase was discovered in which a degenerate quantum liquid is formed from bound states of n = 2, 3, 4, … electrons. Further development of correlated nanoelectronics based on the LaAlO 3 /SrTiO 3 system can potentially lead to a general platform for quantum simulation as well as a pathway for the development of highly entangled states of multiple photons.

36 MATERIALS SCIENCE↗
DOE OSTI2021

A Case Study on Pathogen Transport, Deposition, Evaporation and Transmission: Linking High-Fidelity Computational Fluid Dynamics Simulations to Probability of Infection

A high-fidelity, low-Mach computational fluid dynamics simulation tool that includes evaporating droplets and variable-density turbulent flow coupling is well-suited to ascertain transmission probability and supports risk mitigation methods development for airborne infectious diseases such as COVID-19. A multi-physics large-eddy simulation-based paradigm is used to explore droplet and aerosol pathogen transport from a synthetic cough emanating from a kneeling humanoid. For an outdoor configuration that mimics the recent open-space social distance strategy of San Francisco, maximum primary droplet deposition distances are shown to approach 8.1 m in a moderate wind configuration with the aerosol plume transported in excess of 15 m. In quiescent conditions, the aerosol plume extends to approximately 4 m before the emanating pulsed jet becomes neutrally buoyant. A dose–response model, which is based on previous SARS coronavirus (SARS-CoV) data, is exercised on the high-fidelity aerosol transport database to establish relative risk at eighteen virtual receptor probe locations.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2025

Targeted seed EMS mutagenesis reveals a basic helix–loop–helix transcription factor underlying male sterility in sorghum

Abstract Forward genetic screens of mutant populations are fundamental for functional genomics studies. However, isolating independent mutant alleles to molecularly identify causal genes is challenging in species recalcitrant to genetic manipulation. Here, we demonstrate that classic seed ethyl methanesulfonate (EMS) mutagenesis coupled with genome sequencing can overcome this limitation in sorghum. We used this method to generate new mutant alleles of sorghum MALE STERILE 8 (MS8) and identified the causal locus for the ms8 phenotype as Sobic.004G270900, which encodes the sorghum ortholog of maize bhlh122, a basic helix–loop–helix (bHLH) transcription factor required for male fertility in maize. Bulked segregant analysis mapped ms8-1 to a region on chromosome 4 containing Sobic.004G270900. Seeds from heterozygous MS8/ms8-1 plants were mutagenized and screened for chimeric inflorescences containing sectors with white, sterile anthers resembling the ms8-1 homozygous phenotype. DNA sequencing of sterile and fertile sectors from a single chimeric inflorescence revealed two mutations in Sobic.004G270900 within the sterile sector, but not the fertile sector. Isolation of this loss-of-function allele (ms8-2) established Sobic.004G270900 as the causative locus for male sterility in the ms8 mutant. We generated additional alleles of MS8 in a different genetic background using CRISPR/Cas9-based gene editing, where deletions in Sobic.004G270900 also resulted in male sterility. Our work identified a gene underlying male sterility in sorghum and provides a novel and straightforward genetic tool for researchers who lack access to advanced transformation facilities to validate gene candidates. Unlike gene editing, no prior knowledge of candidate genes is required for targeted seed EMS mutagenesis to aid identification of causal loci.

Genetics & Heredity↗
DOE OSTI2023

Attractive Su-Schrieffer-Heeger-Hubbard model on a square lattice away from half-filling

The Su-Schrieffer-Heeger (SSH) model, with bond phonons modulating electron tunneling, is a paradigmatic electron-phonon model that hosts an antiferromagnetic order to bond order transition at half-filling. In the presence of a repulsive Hubbard interaction, the antiferromagnetic phase is enhanced, but the phase transition remains first order. Here, we explore the physics of the SSH model with an attractive Hubbard interaction, which hosts an interesting interplay among charge order, s-wave pairing, and bond order. Using the numerically exact determinant quantum Monte Carlo method, we show that both charge order, present at weak electron-phonon coupling, and bond order, at large coupling, give way to s-wave pairing when the system is doped. Lastly, we demonstrate that the SSH electron-phonon interaction competes with the attractive Hubbard interaction and reduces the s-wave pairing correlation.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
DOE OSTI2022

Spectral function for 4 He using the Chebyshev expansion in coupled-cluster theory

Here, we compute spectral function for 4 He by combining coupled-cluster theory with an expansion of integral transforms into Chebyshev polynomials. Our method allows us to estimate the uncertainty of spectral reconstruction. The properties of the Chebyshev polynomials make the procedure numerically stable and considerably lower in memory usage than the typically employed Lanczos algorithm. We benchmark our predictions with other calculations in the literature and with electron-scattering data in the quasi-elastic peak. The spectral function formalism allows one to extend ab initio lepton-nucleus cross sections into the relativistic regime. This makes it a promising tool for modeling this process at higher-energy transfers. The results we present open the door for studies of heavier nuclei, important for the neutrino oscillation programs.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2024

Multi-Federate Co-Convergence with HELICS

In co-simulation studies, convergence refers to the ability of different simulation tools involved to achieve a consistent and stable solution. Convergence is a critical aspect of co-simulation as it determines the accuracy of the results obtained from the simulation. Convergence in co-simulation studies depends on several factors, this includes system complexity, the accuracy of the models used, and the numerical methods employed by the simulation tools. It is essential to ensure that the coupling interfaces between the different tools are designed to allow for data exchange in a consistent and accurate manner. Hierarchical Engine for Large-scale Infrastructure Co-Simulation (HELICS) is an open-source co-simulation framework developed for the energy domain. This paper explores the convergence performance of a set of co-simulation use cases. We further explore the use of a co-convergence helper federate to help with co-simulation convergence. The convergence efficacy of several algorithms (both gradient-based and gradient-free) is tested against these use cases. Finally, the sensitivity of these algorithms to several factors, such as system scaling and others, is tested and detailed in this paper. Our results show that for a subset of use cases, the co-convergence helper federate is able to improve co-simulation convergence significantly.

co-convergence↗
DOE OSTI2023

PacBio high‐throughput multi‐locus sequencing reveals high genetic diversity in mushroom‐forming fungi

Abstract Multi‐locus sequence data are widely used in fungal systematic and taxonomic studies to delimit species and infer evolutionary relationships. We developed and assessed the efficacy of a multi‐locus pooled sequencing method using PacBio long‐read high‐throughput sequencing. Samples included fresh and dried voucher specimens, cultures and archival DNA extracts of Agaricomycetes with an emphasis on the order Cantharellales. Of the 283 specimens sequenced, 93.6% successfully amplified at one or more loci with a mean of 3.3 loci amplified. Our method recovered multiple sequence variants representing alleles of rDNA loci and single copy protein‐coding genesrpb1,rpb2 andtef1. Within‐sample genetic variation differed by locus and taxonomic group, with the greatest genetic divergence observed among sequence variants ofrpb2 andtef1 from corticioid Cantharellales. Our method is a cost‐effective approach for generating accurate multi‐locus sequence data coupled with recovery of alleles from polymorphic samples and multi‐organism specimens. These results have important implications for understanding intra‐individual genomic variation among genetic loci commonly used in species delimitation of fungi.

Biochemistry & Molecular Biology↗
DOE OSTI2021

Unified description of the coupled-channels and statistical Hauser-Feshbach nuclear reaction theories for low energy neutron incident reactions

We incorporate the coupled-channels optical model into the statistical Hauser-Feshbach nuclear reaction theory, where the scattering matrix is diagonalized by performing the Engelbrecht-Weidenmüller transformation. This technique has been implemented in the coupled-channels optical model code ECIS by J. Raynal, and we extend this method so that all the open channels in a nucleon-induced reaction on a deformed nucleus can be calculated consistently.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2023

Energy Exascale Earth System Model v2.1.0

First release of version 2.1 of the Energy Exascale Earth System Model. [ATM] The atmosphere component remains EAM. There are no major changes in the default configuration since 2.0. New features include: A semi-lagrangian tracer transport for theta-l dycore, a new algorithm for finding the tropopause, new RRM mesh configurations. Add and update SSP370 and SSP585 cases. Restore the FIDEAL case. [LAND] The land component is ELM. There are no major changes in the default configuration since 2.0. Several option features have been added including: implementation of topography-based subgrid structure (topounits) and accompanying parameterizations and atmospheric forcing downscaling methods; a new plant hydraulics scheme; two-way land-river hydrological coupling through the infiltration of floodplain water; an implementation of perennial crops; updates to the SNICAR-AD snow radiative transfer model; and implementation of soil erosion and sediment yield in ELM-Erosion. Each of these new changes is modular in design and can be turned on or off as the user specifies; they are currently being tested in different “BGC” configurations. [OCEAN] The ocean component remains MPAS-Ocean. Major change since version 2.0 include the addition of the Fox-Kemper et al. 2011 parameterization for submesocale eddies, a correction for barotropic thickness consistency that reduces divergence noise, and the addition of an ocean carbon conservation analysis member. [SEAICE] The sea-ice component remains MPAS-Seaice. Major changes since version 2.0 include: A correction to how shortwave parameters are interpolated in the snicar-ad 5-band radiation scheme, the addition of a sea ice carbon conservation analysis member, updates to the default sea ice biogeochemistry namelist parameters to be consistent with version 2.0 improvements to nitrogen cycling and a correction in the ice-ocean dissolved organic nitrogen coupling. [LAND ICE] The land-ice component remains MPAS-Albany-landIce (MALI). Major changes since 2.0 include an update to the MALI version and the Greenland mesh.[RIVER] The river model is MOSART. There are no major changes in the default configuration since 2.0. A major new optional feature is two-way river-ocean hydrological coupling between MOSART and MPAS-O. This change can be turned on or off as the user specifies, and is being tested in different configurations. [COUPLER] The coupler remains cpl7/MCT. Major changes since version 2.0 include: Carbon budget calculated when heat/water budgets active. Fix a bug in land-atm fluxes for tri-grid configurations. [OTHER] a small bug in the zenith angle calculation was fixed in the data models.

ECP↗