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At least 1,297 records · Page 72

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DOE OSTI2025

Gene network centrality analysis identifies key regulators coordinating day-night metabolic transitions in Synechococcus elongatus PCC 7942 despite limited accuracy in predicting direct regulator-gene interactions

Synechococcus elongatus PCC 7942 is a model organism for studying circadian regulation and bioproduction, where precise temporal control of metabolism significantly impacts photosynthetic efficiency and CO 2 -to-bioproduct conversion. Despite extensive research on core clock components, our understanding of the broader regulatory network orchestrating genome-wide metabolic transitions remains incomplete. We address this gap by applying machine learning tools and network analysis to investigate the transcriptional architecture governing circadian-controlled gene expression. While our approach showed moderate accuracy in predicting individual transcription factor-gene interactions - a common challenge with real expression data - network-level topological analysis successfully revealed the organizational principles of circadian regulation. Our analysis identified distinct regulatory modules coordinating day-night metabolic transitions, with photosynthesis and carbon/nitrogen metabolism controlled by day-phase regulators, while nighttime modules orchestrate glycogen mobilization and redox metabolism. Through network centrality analysis, we identified potentially significant but previously understudied transcriptional regulators: HimA as a putative DNA architecture regulator, and TetR and SrrB as potential coordinators of nighttime metabolism, working alongside established global regulators RpaA and RpaB. This work demonstrates how network-level analysis can extract biologically meaningful insights despite limitations in predicting direct regulatory interactions. The regulatory principles uncovered here advance our understanding of how cyanobacteria coordinate complex metabolic transitions and may inform metabolic engineering strategies for enhanced photosynthetic bioproduction from CO 2 .

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2024

Precise micromotion compensation of a tilted ion chain

Excess micromotion can be a substantial source of errors in trapped-ion based quantum processors and clocks due to the sensitivity of the internal states of the ion to external fields and motion. This problem can be fixed by compensating background electric fields in order to position ions at the RF node and minimize their driven micromotion. Here we describe techniques for compensating ion chains in scalable surface ion traps. These traps are capable of cancelling stray electric fields with fine spatial resolution in order to compensate multiple closely spaced ions due to their large number of relatively small control electrodes. We demonstrate a technique that compensates an ion chain to better than 5 V/m and within 0.1 degrees of chain rotation.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2024

c-HAND: near real-time coastal flood mapping

The Texas Gulf Coast region contains significant centers of population, infrastructure, and economy and is threatened by intensifying tropical storms. The flooding from these tropical storms often has multiple compounding drivers. This characteristic presents a complex numerical problem where a simulation must consider multiple hydrologic forcings. While several procedures exist for addressing this problem numerically, they tend to be resource-intensive and cannot be conducted in near real-time. We extend GeoFlood, a reduced physics approach for fluvial flood forecasting, to rapidly predict coastal and compound fluvial-coastal inundation. This method is validated against a numerical ocean circulation model (ADCIRC) simulation of Hurricane Ike, a major coastal flooding event that happened on the Texas Gulf Coast in 2008. We show that the inundation map generated by coastal HAND (c-HAND) has reasonable agreement with the ADCIRC simulation while taking about 1.7% of the time currently needed to run ADCIRC on a supercomputer. While our model correctly predicts 99% of ADCIRC-inundated DEM cells, it also overpredicts inundated area by a factor of approximately 27%. We combine c-HAND with the GeoFlood framework for fluvial flood forecasting to create a compound fluvial-coastal inundation mapping workflow that can be run in near real-time. c-HAND's fast wall-clock time and low CPU requirements can support decision making by first response personnel. The method provides timely and convenient access to crucial information, such as the locations of flooded roads and inundated coastal areas.

42 ENGINEERING↗

DOE OSTI2023

Vibronic Relaxation Pathways in Molecular Spin Qubit Na 9 [Ho(W 5 O 18 ) 2 ]·35H 2 O under Pressure

In order to explore how spectral sparsity and vibronic decoherence pathways can be controlled in a model qubit system with atomic clock transitions, we combined diamond anvil cell techniques with synchrotron-based far infrared spectroscopy and first-principles calculations to reveal the vibrational response of Na 9 [Ho(W 5 O 18 ) 2 ]·35H 2 O under compression. Because the hole in the phonon density of states acts to reduce the overlap between the phonons and f manifold excitations in this system, we postulated that pressure might move the HoO 4 rocking, bending, and asymmetric stretching modes that couple with the M J = ±5, ±2, and ±7 levels out of resonance, reducing their interactions and minimizing decoherence processes, while a potentially beneficial strategy for some molecular qubits, pressure slightly hardens the phonons in Na 9 [Ho(W 5 O 18 ) 2 ]·35H 2 O and systematically fills in the transparency window in the phonon response. The net result is that the vibrational spectrum becomes less sparse and the overlap with the various M J levels of the Ho 3+ ion actually increases. These findings suggest that negative pressure, achieved using chemical means or elongational strain, could further open the transparency window in this rare earth-containing spin qubit system, thus paving the way for the use of device surfaces and interface elongational/compressive strains to better manage decoherence pathways.

36 MATERIALS SCIENCE↗

DOE OSTI2021

CFD-Guided Evaluation of Spark-Assisted Gasoline Compression Ignition for Cold Idle Operation

A closed-cycle, three-dimensional (3D) computational fluid dynamics (CFD) analysis campaign was conducted to evaluate the performance of using spark plugs to assist gasoline compression ignition (GCI) combustion during cold idle operations. A conventional spark plug using single-sided J-strap design was put at a location on the cylinder head to facilitate spray-guided spark assistance. Ignition was modeled with an L-type energy distribution to depict the breakdown and the arc-to-glow phases during the energy discharge process. Several key design parameters were investigated, including injector clocking, number of nozzle holes, spray inclusion angle, number of fuel injections, fuel split ratio, and fuel injection timings. The study emphasized the region around the spark gap, focusing on flame kernel formation and development and local equivalence ratio distribution. Flame kernel development and the ignition process were found to correlate strongly with the fuel stratification and the flow velocity near the spark gap. The analysis results showed that the flame kernel development followed the direction of the local flow field. In addition, the local fuel stratification notably influenced early-stage flame kernel development due to varying injection spray patterns and the fuel injection strategies. Among these design parameters, the number of nozzle holes and fuel injection timing had the most significant effects on the engine combustion performance.

42 ENGINEERING↗

DOE OSTI2021

A Synoptic VLBI Technique for Localizing Nonrepeating Fast Radio Bursts with CHIME/FRB

We demonstrate the blind interferometric detection and localization of two fast radio bursts (FRBs) with subarcminute precision on the 400 m baseline between the Canadian Hydrogen Intensity Mapping Experiment (CHIME) and the CHIME Pathfinder. In the same spirit as Very Long Baseline Interferometry (VLBI), the telescopes were synchronized to separate clocks, and the channelized voltage (herein referred to as baseband) data were saved to a disk with correlation performed offline. The simultaneous wide field of view and high sensitivity required for blind FRB searches implies a high data rate—6.5 terabits per second (Tb/s) for CHIME and 0.8 Tb s{sup −1} for the Pathfinder. Since such high data rates cannot be continuously saved, we buffer data from both telescopes locally in memory for ≈40 s, and write to the disk upon receipt of a low-latency trigger from the CHIME Fast Radio Burst Instrument (CHIME/FRB). The ≈200 deg{sup 2} field of view of the two telescopes allows us to use in-field calibrators to synchronize the two telescopes without needing either separate calibrator observations or an atomic timing standard. In addition to our FRB observations, we analyze bright single pulses from the pulsars B0329+54 and B0355+54 to characterize systematic localization errors. Our results demonstrate the successful implementation of key software, triggering, and calibration challenges for CHIME/FRB Outriggers: cylindrical VLBI outrigger telescopes which, along with the CHIME telescope, will localize thousands of single FRB events with sufficient precision to unambiguously associate a host galaxy with each burst.

47 OTHER INSTRUMENTATION↗

DOE OSTI2022

The Open Cluster Chemical Abundances and Mapping Survey. VII. APOGEE DR17 [C/N]–Age Calibration

Large-scale surveys open the possibility to investigate Galactic evolution both chemically and kinematically; however, reliable stellar ages remain a major challenge. Detailed chemical information provided by high-resolution spectroscopic surveys of the stars in clusters can be used as a means to calibrate recently developed chemical tools for age-dating field stars. Using data from the Open Cluster Abundances and Mapping survey, based on the Sloan Digital Sky Survey/Apache Point Observatory Galactic Evolution Experiment 2 survey, we derive a new empirical relationship between open cluster stellar ages and the carbon-to-nitrogen ([C/N]) abundance ratios for evolved stars, primarily those on the red giant branch. With this calibration, [C/N] can be used as a chemical clock for evolved field stars to investigate the formation and evolution of different parts of our Galaxy. We explore how mixing effects at different stellar evolutionary phases, like the red clump, affect the derived calibration. We have established the [C/N]–age calibration for APOGEE Data Release 17 (DR17) giant star abundances to be $\mathrm{log}{[\mathrm{Age}(\mathrm{yr})]}_{\mathrm{DR}17}=10.14\,(\pm 0.08)+2.23(\pm 0.19)\,[{\rm{C}}/{\rm{N}}]$, usable for $8.62\leqslant \mathrm{log}(\mathrm{Age}[\mathrm{yr}])\leqslant 9.82$, derived from a uniform sample of 49 clusters observed as part of APOGEE DR17 applicable primarily to metal-rich, thin- and thick-disk giant stars. This measured [C/N]–age APOGEE DR17 calibration is also shown to be consistent with asteroseismic ages derived from Kepler photometry.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2022

Exploring the S-process History in the Galactic Disk: Cerium Abundances and Gradients in Open Clusters from the OCCAM/APOGEE Sample

The APOGEE Open Cluster Chemical Abundances and Mapping survey is used to probe the chemical evolution of the s-process element cerium in the Galactic disk. Cerium abundances were derived from measurements of Ce ii lines in the APOGEE spectra using the Brussels Automatic Code for Characterizing High Accuracy Spectra in 218 stars belonging to 42 open clusters. Our results indicate that, in general, for ages < 4 Gyr, younger open clusters have higher [Ce/Fe] and [Ce/α-element] ratios than older clusters. In addition, metallicity segregates open clusters in the [Ce/X]–age plane (where X can be H, Fe, or the α-elements O, Mg, Si, or Ca). These metallicity-dependent relations result in [Ce/Fe] and [Ce/α] ratios with ages that are not universal clocks. Radial gradients of [Ce/H] and [Ce/Fe] ratios in open clusters, binned by age, were derived for the first time, with d[Ce/H]/dR GC being negative, while d[Ce/Fe]/dR GC is positive. [Ce/H] and [Ce/Fe] gradients are approximately constant over time, with the [Ce/Fe] gradient becoming slightly steeper, changing by ~+0.009 dex kpc -1 Gyr -1 . Both the [Ce/H] and [Ce/Fe] gradients are shifted to lower values of [Ce/H] and [Ce/Fe] for older open clusters. The chemical pattern of Ce in open clusters across the Galactic disk is discussed within the context of s-process yields from asymptotic giant branch (AGB) stars, gigayear time delays in Ce enrichment of the interstellar medium, and the strong dependence of Ce nucleosynthesis on the metallicity of its AGB stellar sources.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2023

A Tale of Two Disks: Mapping the Milky Way with the Final Data Release of APOGEE

We present new maps of the Milky Way disk showing the distribution of metallicity ([Fe/H]), α-element abundances ([Mg/Fe]), and stellar age, using a sample of 66,496 red giant stars from the final data release (DR17) of the Apache Point Observatory Galactic Evolution Experiment survey. We measure radial and vertical gradients, quantify the distribution functions for age and metallicity, and explore chemical clock relations across the Milky Way for the low-α disk, high-α disk, and total population independently. The low-α disk exhibits a negative radial metallicity gradient of -0.06 ± 0.001 dex kpc -1 , which flattens with distance from the midplane. The high-α disk shows a flat radial gradient in metallicity and age across nearly all locations of the disk. The age and metallicity distribution functions shift from negatively skewed in the inner Galaxy to positively skewed at large radius. Significant bimodality in the [Mg/Fe]–[Fe/H] plane and in the [Mg/Fe]–age relation persist across the entire disk. The age estimates have typical uncertainties of ~0.15 in log(age) and may be subject to additional systematic errors, which impose limitations on conclusions drawn from this sample. Nevertheless, these results act as critical constraints on galactic evolution models, constraining which physical processes played a dominant role in the formation of the Milky Way disk. We discuss how radial migration predicts many of the observed trends near the solar neighborhood and in the outer disk, but an additional more dramatic evolution history, such as the multi-infall model or a merger event, is needed to explain the chemical and age bimodality elsewhere in the Galaxy.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2025

Neutron-capture Element Abundances of 491 Stars in Milky Way Dwarf Satellite Galaxies from Medium-resolution Spectra

The chemical compositions of evolved stars in Local Group dwarf spheroidal galaxies (dSphs) provide insight into the galaxy’s past star formation and nucleosynthesis. Neutron-capture element abundances are especially interesting. In particular, s-process elements can provide a third chemical clock for resolving star formation histories in addition to core-collapse and Type Ia supernovae. Likewise, the primary sites of the r-process are still areas of extensive research. Until now, the number of stars with neutron-capture element abundances in dSphs has been limited by the need for stars bright enough for high-resolution spectroscopy. We present abundance measurements of the neutron-capture elements Sr, Y, Ba, and Eu with errors <0.4 dex—as well as new measurements of Mg—in 491 stars in Sculptor, Fornax, Draco, Sextans, and Ursa Minor. The large number of stars in our sample is possible because we used medium-resolution spectra from the DEIMOS spectrograph, assembling the largest homogeneous set of neutron-capture abundances in dSphs to date. By utilizing the abundances of both s- and r-process elements, we find evidence of an s-process contribution at early times in Sculptor from our measurements of [Ba/Fe]. This is a potential signature of s-process nucleosynthesis in fast-rotating massive stars. By comparing our measurements of [Eu/Fe] with [Mg/Fe], we show the need for an r-process source that has a short delay time to enrich stars in the dSphs. Thus, neutron star mergers are likely not the sole source of r-process material in dSphs.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2023

The NANOGrav 15 yr Data Set: Search for Signals from New Physics

The 15 yr pulsar timing data set collected by the North American Nanohertz Observatory for Gravitational Waves (NANOGrav) shows positive evidence for the presence of a low-frequency gravitational-wave (GW) background. In this paper, we investigate potential cosmological interpretations of this signal, specifically cosmic inflation, scalar-induced GWs, first-order phase transitions, cosmic strings, and domain walls. We find that, with the exception of stable cosmic strings of field theory origin, all these models can reproduce the observed signal. When compared to the standard interpretation in terms of inspiraling supermassive black hole binaries (SMBHBs), many cosmological models seem to provide a better fit resulting in Bayes factors in the range from 10 to 100. However, these results strongly depend on modeling assumptions about the cosmic SMBHB population and, at this stage, should not be regarded as evidence for new physics. Furthermore, we identify excluded parameter regions where the predicted GW signal from cosmological sources significantly exceeds the NANOGrav signal. These parameter constraints are independent of the origin of the NANOGrav signal and illustrate how pulsar timing data provide a new way to constrain the parameter space of these models. Finally, we search for deterministic signals produced by models of ultralight dark matter (ULDM) and dark matter substructures in the Milky Way. We find no evidence for either of these signals and thus report updated constraints on these models. In the case of ULDM, these constraints outperform torsion balance and atomic clock constraints for ULDM coupled to electrons, muons, or gluons.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2025

Spin-squeezed vector atomic magnetometry

Atomic magnetometers based on Zeeman shift measurement have the potential for high sensitivity and long-term stability. Like other atomic sensors, including atomic clocks and atom interferometers, the atomic magnetometer could, in principle, be augmented with spin squeezing for further sensitivity enhancement. However, existing atomic magnetometers are not compatible with spin squeezing because the atoms can hardly be in a pure quantum state during operation. Moreover, a natural challenge faced by an atomic magnetometer is the arbitrary direction of the magnetic field. In this paper, we propose a cold-atom-based magnetometer with spin squeezing that can measure both the magnitude and the direction of an arbitrary magnetic field. For experimentally accessible parameters, we show that the technique described above could potentially achieve a sensitivity nearly two orders of magnitude higher than that of the best existing magnetometers.

Li, Jinyang [Northwestern U.] (ORCID:0000000194328↗

DOE OSTI2025

In-situ mid-circuit qubit measurement and reset in a single-species trapped-ion quantum computing system

We implement in-situ mid-circuit measurement and reset (MCMR) operations on a trapped-ion quantum computing system by using metastable qubit states in $^{171}\textrm{Yb}^+$ ions. We introduce and compare two methods for isolating data qubits from measured qubits: one shelves the data qubit into the metastable state and the other drives the measured qubit to the metastable state without disturbing the other qubits. We experimentally demonstrate both methods on a crystal of two $^{171}\textrm{Yb}^+$ ions using both the $S_{1/2}$ ground state hyperfine clock qubit and the $S_{1/2}$-$D_{3/2}$ optical qubit. These MCMR methods result in errors on the data qubit of about $2\%$ without degrading the measurement fidelity. With straightforward reductions in laser noise, these errors can be suppressed to less than $0.1\%$. The demonstrated method allows MCMR to be performed in a single-species ion chain without shuttling or additional qubit-addressing optics, greatly simplifying the architecture.

Atomic Physics (physics.atom-ph)↗

DOE OSTI2026

Identification and mitigation of memory block timing issue in ITk ABCStar during ASIC production

The ABCStar is a mixed-signal front-end readout ASIC for the strips sensor portion of the ATLAS ITk detector being developed as part of the High-Luminosity LHC upgrade. In pre-production testing, a subtle design flaw was uncovered in the ABCStar that was reducing wafer yields in some manufactured lots from the expected 90% to as low as 2%. The root cause was determined to be a timing issue in the logic synthesized to control previously silicon proven memory blocks re-used for this ASIC. The solutions proposed included manufacturing process changes by the wafer foundry, changes to the operating parameters for the ABCStar in the detector, and the possibility that a redesign might be required. The two mitigation efforts were undertaken in parallel, with the process modification route a less desirable solution since already manufactured wafers would need to be scrapped in favour of the new ones. Based on a knowledge of the existing process, and testing done on the worst performing wafers, it was proposed that raising the core operating voltage of the ABCStar from 1.20V to 1.25V could address the timing issue by sufficiently speeding up its transistors. An extensive testing program that included the effects of temperature and radiation expected over the lifetime of the ITk detector was conducted to validate that approach. Those tests and studies proved that even the worst performing wafers would have yields over 80% with the 1.25V core voltage, and neither the modified process nor redesign would be required for ensuring reliable operation of the ITk. Based on testing, a further timing mitigation was implemented to provide an additional margin of reliability by increasing the duty cycle of the clock to the ABCStar. Testing of all ABCStar wafers has been completed and the production of the detector modules using these ASICs is now well underway as a result of the efforts detailed herein.

FOS: Physical sciences↗

DOE OSTI2026

Zooming in: SCREAM at 100 m using regional refinement over the San Francisco Bay Area

Pushing global climate models to large-eddy simulation (LES) scales over complex terrain has remained a major challenge. This study presents the first known implementation of a global model – SCREAM (Simple Cloud-Resolving E3SM Atmosphere Model) – at 100 m horizontal resolution using a regionally refined mesh (RRM) over the San Francisco Bay Area. Two hindcast simulations were conducted to test performance under both strong synoptic forcing and weak, boundary-layer-driven conditions. We demonstrate that SCREAM can stably run at LES scales while realistically capturing topography, surface heterogeneity, and coastal processes. The 100 m SCREAM-RRM substantially improves near-surface wind speed, temperature, humidity, and pressure biases compared to the baseline 3.25 km simulation, and better reproduces fine-scale wind oscillations and boundary-layer structures. These advances leverage SCREAM's scale-aware SHOC turbulence parameterization, which transitions smoothly across scales without tuning. Performance tests show that while CPU-only simulations remain costly, GPU acceleration with SCREAMv1 on NERSC's Perlmutter system enables two-day hindcasts to complete in under two wall-clock days. Our results open the door to LES-scale studies of orographic flows, boundary-layer turbulence, and coastal clouds within a fully comprehensive global modeling framework.

Geosciences↗

DOE OSTI2023

Modeling the U.S. Western Electric Interconnection to Understand the Consequences of Hydrometeorological Extremes and Options for Risk Mitigation

Electricity grid operators around the world face a dual challenge; withstanding increasingly severe weather and the longer term impacts of climate change, while simultaneously decarbonizing. Extreme weather events such as heat waves and droughts are rising in both severity and frequency, which is threatening the reliability of electricity grids through increased demand, generation capacity losses, and equipment failures. Consequently, incorporating hydrometeorological stressors into computational power systems analysis is becoming an even more critical tool in long term planning and short term operations. However, there is a general lack of open-source customizable grid simulation software capable of exhaustively stress testing the grid under hydrometeorological uncertainty, and/or examining potential risk mitigation pathways. A related, persistent challenge for power system modelers is striking an appropriate balance between model fidelity (e.g. spatial scale and time resolution) and computational tractability (wall clock run-time). In this study, we are proposing a solution to this problem with open-source software that allows users to seamlessly customize the scale and track the accuracy of grid operations models. Our approach allows users to search over numerous model parameters (network topology, mathematical formulation, economic hurdle rates, and transmission line scaling) to identify model instantiations that accommodate experimental design. Further, we use this approach to demonstrate the importance of including extreme weather events in model validation and model selection. Focusing on the occurrence of heatwaves and droughts in the U.S. Western Interconnection, we examine role of extreme events in balancing tradeoffs between model fidelity and run-time at the model design stage.

Economics↗

DOE OSTI2023

Spin Squeezing as a Probe of Emergent Quantum Orders

Nuclear magnetic resonance (NMR) experiments can reveal local properties in materials, but are often limited by the low signal-to-noise ratio. Spin squeezed states have an improved resolution below the Heisenberg limit in one of the spin components, and have been extensively used to improve the sensitivity of atomic clocks, for example [1]. Interacting and entangled spin ensembles with non-linear coupling are a natural candidate for implementing squeezing. Furthermore, we propose measurement of the spin-squeezing parameter that itself can act as a local probe of emergent orders in quantum materials. In particular, we demonstrate how to investigate an anisotropic electric field gradient via its coupling to the nuclear quadrupole moment. While squeezed spin states are pure, the squeezing parameter can be estimated for both pure and mixed states. We evaluate the range of fields and temperatures for which a thermal-equilibrium state is sufficient to improve the resolution in an NMR experiment and probe relevant parameters of the quadrupole Hamiltonian, including its anisotropy.

36 MATERIALS SCIENCE↗

DOE OSTI2022

Towards Fast and Accurate Predictions of Radio Frequency Power Deposition and Current Profile via Data-driven Modeling

Three machine learning techniques (multilayer perceptron, random forest, and Gaussian process) provide fast surrogate models for lower hybrid current drive (LHCD) simulations. A single GENRAY/CQL3D simulation without radial diffusion of fast electrons requires several minutes of wall-clock time to complete, which is acceptable for many purposes, but too slow for integrated modeling and real-time control applications. The machine learning models use a database of 16,000+ GENRAY/CQL3D simulations for training, validation, and testing. Latin hypercube sampling methods ensure that the database covers the range of 9 input parameters ($n_{e0}$, $T_{e0}$, $I_p$, $B_t$, $R_0$, $n_{||}$, $Z_{eff}$, $V_{loop}$, $P_{LHCD}$) with sufficient density in all regions of parameter space. The surrogate models reduce the inference time from minutes to ~ms with high accuracy across the input parameter space.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗