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NASA NTRS2017

Developing Model Benchtop Systems for Microbial Experimental Evolution

Understanding how microbes impact an ecosystem has improved through advances of molecular and genetic tools, but creating complex systems that emulate natural biology goes beyond current technology. In fact, many chemical, biological, and metabolic pathways of even model organisms are still poorly characterized. Even then, standard laboratory techniques for testing microbial impact on environmental change can have many drawbacks; they are time-consuming, labor intensive, and are at risk of contamination. By having an automated process, many of these problems can be reduced or even eliminated. We are developing a benchtop system that can run for long periods of time without the need for human intervention, involve multiple environmental stressors at once, perform real-time adjustments of stressor exposure based on current state of the population, and minimize contamination risks. Our prototype device allows operators to generate an analogue of real world micro-scale ecosystems that can be used to model the effects of disruptive environmental change on microbial ecosystems. It comprises of electronics, mechatronics, and fluidics based systems to control, measure, and evaluate the before and after state of microbial cultures from exposure to environmental stressors. Currently, it uses four parallel growth chambers to perform tests on liquid cultures. To measure the population state, optical sensors (LED/photodiode) are used. Its primary selection pressure is UV-C radiation, a well-studied stressor known for its cell- and DNA-damaging effects and as a mutagen. Future work will involve improving the current growth chambers, as well as implementing additional sensors and environmental stressors into the system. Full integration of multiple culture testing will allow inter-culture comparisons. Besides the temperature and OD sensors, other types of sensors can be integrated such as conductivity, biomass, pH, and dissolved gasses such as CO and O. Additional environmental stressor systems like temperature (extreme heat or cold), metal toxicity, and other forms of radiation will increase the scale and testing range.

Developing↗

DOE OSTI2024

Implementation and Exploration of Parameterizations of Large-Scale Dynamics in NCAR's Single Column Atmosphere Model SCAM6

A single column model with parameterized large-scale (LS) dynamics is used to better understand the response of steady-state tropical precipitation to relative sea surface temperature under various representations of radiation, convection, and circulation. The large-scale dynamics are parametrized via the weak temperature gradient (WTG), damped gravity wave (DGW), and spectral weak temperature gradient (Spectral WTG) method in NCAR's Single Column Atmosphere Model (SCAM6). Radiative cooling is either specified or interactive, and the convective parameterization is run using two different values of a parameter that controls the degree of convective inhibition. Results are interpreted in the context of the Global Atmospheric System Studies -Weak Temperature Gradient (GASS-WTG) Intercomparison project. Using the same parameter settings and simulation configuration as in the GASS-WTG Intercomparison project, SCAM6 under the WTG and DGW methods produces erratic results, suggestive of numerical instability. However, when key parameters are changed to weaken the large-scale circulation's damping of tropospheric temperature variations, SCAM6 performs comparably to single column models in the GASS-WTG Intercomparison project. The Spectral WTG method is less sensitive to changes in convection and radiation than are the other two methods, performing qualitatively similarly across all configurations considered. Under all three methods, circulation strength, represented in 1D by grid-scale vertical velocity, is decreased when barriers to convection are reduced. This effect is most extreme under specified radiative cooling, and is shown to come from increased static stability in the column's reference radiative-convective equilibrium profile. This argument can be extended to interactive radiation cases as well, though perhaps less conclusively.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS2016

Stellar Echo Imaging of Exoplanets

All stars exhibit intensity fluctuations over several timescales, from nanoseconds to years. These intensity fluctuations echo off bodies and structures in the star system. We posit that it is possible to take advantage of these echoes to detect, and possibly image, Earth-scale exoplanets. Unlike direct imaging techniques, temporal measurements do not require fringe tracking, maintaining an optically-perfect baseline, or utilizing ultra-contrast coronagraphs. Unlike transit or radial velocity techniques, stellar echo detection is not constrained to any specific orbital inclination. Current results suggest that existing and emerging technology can already enable stellar echo techniques at flare stars, such as Proxima Centauri, including detection, spectroscopic interrogation, and possibly even continent-level imaging of exoplanets in a variety of orbits. Detection of Earth-like planets around Sun-like stars appears to be extremely challenging, but cannot be fully quantified without additional data on micro- and millisecond-scale intensity fluctuations of the Sun. We consider survey missions in the mold of Kepler and place preliminary constraints on the feasibility of producing 3D tomographic maps of other structures in star systems, such as accretion disks. In this report we discuss the theory, limitations, models, and future opportunities for stellar echo imaging.

stellar↗

DOE OSTI2025

All hard X-ray transient grating spectroscopy

Optical-domain transient grating (TG) spectroscopy is the ideal tool to investigate transport phenomena in gases, liquids and solids, but it is limited to typically micron-size grating periods. Extreme-Ultraviolet TG has represented a major leap forward to access the mesoscopic scales. Hard X-ray TGs open access in principle to the nanoscale. Hard X-ray TGs were recently generated using the Talbot effect and probed by optical pulses, but these hinder exploiting the advantages of the nanoscale gratings. Here, we present an all-X-ray TG study, in which few-femtosecond hard X-ray pulses are used both for excitation and probing. Our experiment was performed on an amorphous film of an FeGd alloy and on a thin silicon single crystal. The results show a manifestation of the TG induced by the X-ray pump and probe pulses in the form of Talbot carpets, as well as temporal evolution of the grating in crystalline silicon showing coherent optical phonons. Ultrafast all-X-ray TG spectroscopy has the potential to study fundamental excitations with femtosecond time resolution and nanometer spatial sensitivity.

Ferrari, Eugenio [Deutsches Elektronen-Synchrotron↗

DOE OSTI2021

Variational quantum algorithms

Applications such as simulating complicated quantum systems or solving large-scale linear algebra problems are very challenging for classical computers, owing to the extremely high computational cost. Quantum computers promise a solution, although fault-tolerant quantum computers will probably not be available in the near future. Current quantum devices have serious constraints, including limited numbers of qubits and noise processes that limit circuit depth. Variational quantum algorithms (VQAs), which use a classical optimizer to train a parameterized quantum circuit, have emerged as a leading strategy to address these constraints. VQAs have now been proposed for essentially all applications that researchers have envisaged for quantum computers, and they appear to be the best hope for obtaining quantum advantage. Nevertheless, challenges remain, including the trainability, accuracy and efficiency of VQAs. Here we overview the field of VQAs, discuss strategies to overcome their challenges and finally, we highlight the exciting prospects for using them to obtain quantum advantage.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2025

Loosely bound composite dark matter

We investigate loosely bound composite states made of dark matter, where the binding energy for constituent particles is considerably less than the constituent mass. We focus on models of nuclear and molecular dark matter, where constituents are separated by length scales larger than the inverse constituent mass, just like nuclei and atoms in the Standard Model. The cosmology, structure, and interactions at underground experiments are described. We find that loosely bound composites can have a very large cross section for scattering with nuclei that scales with nucleon number like ∼ A 4 . For some couplings, these composites produce extremely soft (≪ keV) individual atomic recoils while depositing a large amount of total recoil energy (≫ keV) in a single passage through a detector, implying an interesting new class of signatures for low threshold direct detection.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2021

Leveraging Structured Biological Knowledge for Counterfactual Inference: A Case Study of Viral Pathogenesis

Counterfactual inference is a useful tool for comparing outcomes of interventions on complex systems. It requires us to represent the system in form of a structural causal model, complete with a causal diagram, probabilistic assumptions on exogenous variables, and functional assignments. Specifying such models can be extremely difficult in practice. The process requires substantial domain expertise, and does not scale easily to large systems, multiple systems, or novel system modifications. At the same time, many application domains, such as molecular biology, are rich in structured causal knowledge that is qualitative in nature. This manuscript proposes a general approach for querying a causal knowledge graph with a causal question and converting the qualitative result into a quantitative structural causal model that can learn from data to answer the question. Here, we demonstrate the feasibility, accuracy and versatility of this approach using two case studies in systems biology. The first demonstrates the appropriateness of the underlying assumptions and the accuracy of the results. The second demonstrates the versatility of the approach by querying a knowledge base for the molecular determinants of a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2)-induced cytokine storm and performing counterfactual inference to predict the causal effect of medical countermeasures for severely ill COVID-19 patients.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2021

Scaling plant responses to high temperature from cell to ecosystem

Plant survival and productivity decrease with exposure to less favourable environments. The negative effects of environmental factors such as water-deficit and salinity stress on vegetation are relatively well studied, primarily due to the large losses in crop yield and forest biomass caused by these stresses. Although the impact of combined heat and drought on plants has received considerable interest in recent years due to climate change, there has been less focus on ascertaining the impact of heat stress alone at a range of temporal and spatial scales. The steady increase in global mean temperatures and (more importantly) variability in extreme temperatures is translating into more frequent and extreme heat stress episodes, which in turn reduce plant productivity. Further, projected increases in both day and night temperatures and the predicted impact of these changes on agricultural and forest productivity have drawn attention to the need to better address the direct effects of heat on plants. In particular, there has been tremendous interest in understanding the short- and long-term effects of heat at the cellular and whole-plant levels, including work on crops of agricultural importance and species from less managed ecosystems. Hence, we made a concerted effort in this Special Issue to capture recent progress in our ability to quantify the impact of heat stress, and identify new tools and approaches that have been developed and implemented to capture a wide range of responses in plants. The series of reviews and research articles presented here captures our current understanding of plant physiological and molecular responses to heat stress, as well as covering phenotyping methods, genetic diversity and potential routes through which plants can acclimate and adapt to warming climates.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2021

Ring Model Development and Validation for Prismatic HTGR Core Thermal-hydraulics and Safety Analysis

Because of the complex core geometry, prismatic high temperature gas-cooled reactors (prismatic HTGRs) often exhibit complex thermal fluid behaviors during both normal operating and transient conditions. Most HTGR designs rely on passive safety system for decay heat removal, such as the reactor cavity cooling system (RCCS). During postulated accidents like Pressurized Conduction Cooldown (PCC) event, the decay heat is first radially transferred from the core region to the reactor vessel outer surface, then to the RCCS cooling panels. The peak fuel temperature is controlled by heat transfer mechanisms with two distinctive characteristic length scales, i.e., the core-wise effective heat conduction and local heat conduction in the fuel pellet scale. As both length scales are essential to determine the fuel temperature, from the modeling perspective, computer codes must be able to capture heat transfer in both scales. This is challenging for both computational fluid dynamics (CFD) tools because of extremely large amount of computation resources required, and for system analysis codes because of the challenge to model the complex core geometry. Under the support of DOE-NE’s Nuclear Energy Advanced Modeling and Simulation (NEAMS) program, efforts have been pursued to support HTGR technology development and its modeling and simulation needs. There is a particular need for advanced modeling and simulation tools to predict thermal-fluid behavior during safety-related transients. In our previous studies, the ring model was adopted in SAM and further developed to simulate the normal operating condition and a PCC event using the MHTGR-350 design of General Atomics as the reference design. This current work represents a continuation of these previous efforts, and the focus is to critically review and examine simplifications and assumptions made to develop the ring model, and to perform code validation using experimental data from an integral-effect test facility, the High Temperature Test Facility (HTTF) at the Oregon State University. In this study, the test PG-27 from the HTTF test suite was selected for code validation purpose. The test PG-27 is a transient test designed to simulate the PCC event of the MHTGR design. Very good agreements between SAM prediction and experimental measurements were found in both coolant and solid structure temperatures during the transient.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

DOE OSTI2023

A glimpse of stars the size of dust particles

The Nuclear Imaging System (NIS) is an important diagnostic tool used to study nuclear fusion implosions at a research facility in California. There a capsule the size of a flea is compressed until it reaches the size of a speck of dust. As the capsule collapses on itself and ignites under extreme temperature and pressure, NIS detects particles emitted from that process at a scale that would correspond to watching a 32-inch TV screen from 100 miles away. My work involves taking snapshots of one of the most minuscule, fleeting and amazing experiments on Earth in order to ensure the safety and reliability of the US nuclear stockpile and get closer to developing a new form of clean energy.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

DOE OSTI2022

Investigation of the 176 Yb Interference Correction during Determination of the 176 Hf/ 177 Hf Ratio by Laser Ablation and Solution Analysis on the Neoma MC-ICP-MS

We utilized the Neoma™, a recently released MC-ICP-MS platform offered by ThermoFisher Scientific, to assess the behavior of the Lu-Yb-Hf system during laser ablation analyses of various zircon standards as well as solution-based analyses of the JMC-475 Hf standard doped with varying quantities of Yb and Lu. The primary goal of this work was to characterize the behavior of the Yb interference correction on the Neoma™ platform since this is one of the biggest issues in the Hf isotope analysis community and because the Neoma™ platform will supplant the Neptune™ series instrument. During laser ablation analysis, we found that the overall data quality scales proportionally with the total Hf signal intensity, with higher signal analyses producing extremely accurate (within 1 ε Hf unit) and precise (sub ε Hf unit within-run standard errors) data. At low Yb signals (<0.1 V 173 Yb), we were not able to produce an accurate internal Yb mass bias factor. However, utilizing an empirical approach allows for the application of session-specific relationships between the Yb and Hf mass bias factors, determined by analysis of standards of varying Yb content, to produce accurate ε Hf values from zircons with higher Yb/Hf ratios even where the total Hf signal intensity is relatively low. Similar behavior was observed in the solution analyses. Lastly, while the behavior of the Yb interference correction on the Neoma™ platform appears comparable to the Neptune™ series MC-ICP-MS, further work will help refine the understanding of the controls on mass bias behavior, oxide formation, session-to-session stability, etc.

36 MATERIALS SCIENCE↗

DOE OSTI2023

Bridging Scales in Black Hole Accretion and Feedback: Magnetized Bondi Accretion in 3D GRMHD

Fueling and feedback couple supermassive black holes (SMBHs) to their host galaxies across many orders of magnitude in spatial and temporal scales, making this problem notoriously challenging to simulate. We use a multi-zone computational method based on the general relativistic magnetohydrodynamic (GRMHD) code KHARMA that allows us to span 7 orders of magnitude in spatial scale, to simulate accretion onto a non-spinning SMBH from an external medium with a Bondi radius of R B ≈ 2 × 10 5 GM•/c 2 , where M• is the SMBH mass. For the classic idealized Bondi problem, spherical gas accretion without magnetic fields, our simulation results agree very well with the general relativistic analytic solution. Meanwhile, when the accreting gas is magnetized, the SMBH magnetosphere becomes saturated with a strong magnetic field. The density profile varies as ~r -1 rather than r -3/2 and the accretion rate $\dot{M}$ is consequently suppressed by over 2 orders of magnitude below the Bondi rate $\dot{M}$ B . Here, we find continuous energy feedback from the accretion flow to the external medium at a level of $\thicksim$ 10 -2 $\dot{M}$c 2 $\thicksim$ 5 X 10 -5 $\dot{M}$ B c 2 . Energy transport across these widely disparate scales occurs via turbulent convection triggered by magnetic field reconnection near the SMBH. Thus, strong magnetic fields that accumulate on horizon scales transform the flow dynamics far from the SMBH and naturally explain observed extremely low accretion rates compared to the Bondi rate, as well as at least part of the energy feedback.

79 ASTRONOMY AND ASTROPHYSICS↗

DOE OSTI2026

Statistical imprints of wave-like dark matter on multiply-imaged galaxies in strong cluster lenses from JWST

Wave-like dark matter ($ψ$DM) is an elusive dark matter (DM) candidate. The model, often also called fuzzy or ultralight DM, proposes that DM is an extremely light ($m\sim10^{-22}$ eV) boson and thereby has a kpc-scale de Broglie wavelength. Hence, interference of DM gives rise to sub-galactic density fluctuations that can be studied with strong gravitational lensing. In this paper, we use the residual power spectrum, $\mathrm{P}_δ(k)$, as a probe of $ψ$DM, which quantifies deviations from smooth lensing predictions, measured from multiply-imaged galaxies in strong cluster lenses. The key idea is that imprinted in these deviations are lensing distortions from DM substructure, which can be harnessed statistically to distinguish among DM theories. We simulate JWST-quality mock observations of strong gravitational lensing in galaxy clusters, modeling line-of-sight DM substructure within $ψ$DM and the standard cold dark matter (CDM) paradigms. Using mock deep observations ($\sim$ 20 hours), we find that $\mathrm{P}_δ(k)$ is sensitive to both $ψ$DM particle mass and fluctuation amplitude, and can distinguish $ψ$DM fluctuations from CDM subhalos. We demonstrate that $\mathrm{P}_δ(k)$ can be measured directly from data by modeling the smooth lensing with a local Curved Arc Basis formalism. With realistic modeling systematics, we find a statistically significant separation between $ψ$DM and CDM across $1 \lesssim k \lesssim 11\,\mathrm{kpc}^{-1}$ -- offering an independent probe of the wave-like nature of DM complementary to existing constraints.

Cosmology and Nongalactic Astrophysics (astro-ph.C↗

NASA NTRS1988

Frequency stabilization of diode-laser-pumped solid state lasers

The goal of the NASA Sunlite program is to fly two diode-laser-pumped solid-state lasers on the space shuttle and while doing so to perform a measurement of their frequency stability and temporal coherence. These measurements will be made by combining the outputs of the two lasers on an optical radiation detector and spectrally analyzing the beat note. Diode-laser-pumped solid-state lasers have several characteristics that will make them useful in space borne experiments. First, this laser has high electrical efficiency. Second, it is of a technology that enables scaling to higher powers in the future. Third, the laser can be made extremely reliable, which is crucial for many space based applications. Fourth, they are frequency and amplitude stable and have high temporal coherence. Diode-laser-pumped solid-state lasers are inherently efficient. Recent results have shown 59 percent slope efficiency for a diode-laser-pumped solid-state laser. As for reliability, the laser proposed should be capable of continuous operation. This is possible because the diode lasers can be remote from the solid state gain medium by coupling through optical fibers. Diode lasers are constructed with optical detectors for monitoring their output power built into their mounting case. A computer can actively monitor the output of each diode laser. If it sees any variation in the output power that might indicate a problem, the computer can turn off that diode laser and turn on a backup diode laser. As for stability requirements, it is now generally believed that any laser can be stabilized if the laser has a frequency actuator capable of tuning the laser frequency as far as it is likely to drift in a measurement time.

Byer, Robert L.↗

NASA NTRS2000

Short-Term Retrospective Land Data Assimilation Schemes

Subsurface moisture and temperature and snow/ice stores exhibit persistence on various time scales that has important implications for the extended prediction of climatic and hydrologic extremes. Hence, to improve their specification of the land surface, many numerical weather prediction (NWP) centers have incorporated complex land surface schemes in their forecast models. However, because land storages are integrated states, errors in NWP forcing accumulates in these stores, which leads to incorrect surface water and energy partitioning. This has motivated the development of Land Data Assimilation Schemes (LDAS) that can be used to constrain NWP surface storages. An LDAS is an uncoupled land surface scheme that is forced primarily by observations, and is therefore less affected by NWP forcing biases. The implementation of an LDAS also provides the opportunity to correct the model's trajectory using remotely-sensed observations of soil temperature, soil moisture, and snow using data assimilation methods. The inclusion of data assimilation in LDAS will greatly increase its predictive capacity, as well as provide high-quality land surface assimilated data.

Houser, P. R.↗

NASA NTRS1999

Corona Structure and Heating Constraints Determined from SERTS Observations

Intensities of the Extreme-ultraviolet (EUV) spectral lines were measured as a function of radius off the solar limb by two flights of the Goddard's Solar Extreme-ultraviolet Rocket Telescope and Spectrograph (SERTS) for three quiet sun regions. Density scale heights were determined for the different spectral lines. Limits on the filling factor were determined. In the one case where an upper limit was determined it was much less than unity. Coronal heating above 1.15 solar radii is required for all three regions studied. For reasonable filling factors, local heating is needed.

Falconer, D. A.↗

NASA NTRS2001

Satellite Observations of Tropospheric Chemistry

The troposphere is an essential component of the earth's life support system as well as the gateway for the exchange of chemicals between different geochemical reservoirs of the earth. The chemistry of the troposphere is sensitive to perturbation from a wide range of natural phenomena and human activities. The societal concern has been greatly enhanced in recent decades due to ever increasing pressures of population growth and industrialization. Chemical changes within the troposphere control a vast array of processes that impact human health, the biosphere, and climate. A main goal of tropospheric chemistry research is to measure and understand the response of atmospheric composition to natural and anthropogenic perturbations, and to develop the capability to predict future change. Atmospheric chemistry measurements are extremely challenging due to the low concentrations of critical species and the vast scales over which the observations must be made. Available tropospheric data are mainly from surface sites and aircraft missions. Because of the limited temporal extent of aircraft observations, we have very limited information on tropospheric composition above the surface. This situation can be contrasted to the stratosphere, where satellites have provided critical and detailed chemical data on the global distribution of key trace gases.

Singh, Hanwant B.↗

NASA NTRS2002

Variability and Predictability of Land-Atmosphere Interactions: Observational and Modeling Studies

The overall goal of this project is to increase our understanding of seasonal to interannual variability and predictability of atmosphere-land interactions. The project objectives are to: 1. Document the low frequency variability in land surface features and associated water and energy cycles from general circulation models (GCMs), observations and reanalysis products. 2. Determine what relatively wet and dry years have in common on a region-by-region basis and then examine the physical mechanisms that may account for a significant portion of the variability. 3. Develop GCM experiments to examine the hypothesis that better knowledge of the land surface enhances long range predictability. This investigation is aimed at evaluating and predicting seasonal to interannual variability for selected regions emphasizing the role of land-atmosphere interactions. Of particular interest are the relationships between large, regional and local scales and how they interact to account for seasonal and interannual variability, including extreme events such as droughts and floods. North and South America, including the Global Energy and Water Cycle Experiment Continental International Project (GEWEX GCIP), MacKenzie, and LBA basins, are currently being emphasized. We plan to ultimately generalize and synthesize to other land regions across the globe, especially those pertinent to other GEWEX projects.

Roads, John↗