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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 55 records · Page 3
All sourcesNASA NTRSDOE OSTI
DOE OSTI2021

Kinetic and temperature sensitivity properties of soil exoenzymes through the soil profile down to one-meter depth at a temperate coniferous forest (Blodgett, CA)

This dataset contains data on kinetic and temperature sensitivity parameters of the exoenzymes β-glucosidase (BG), leucine/leucyl aminopeptidase (LAP) and acid phosphatase (AP) across a soil profile down to 90 cm depth at Blodgett forest, CA, USA. These data were generated to determine if kinetic and thermal properties of microbial exoenzymes involved in organic matter decomposition varied with soil depth, following variation in soil properties and microbial communities, as part of the study: Alves et al. (2021). Kinetic Properties of Microbial Exoenzymes Vary with Soil Depth but Have Similar Temperature Sensitivities Through the Soil Profile. Frontiers in Microbiology 12:3618. https://doi.org/10.3389/fmicb.2021.735282. This research was performed within the framework of the TES Belowground Biogeochemistry SFA project, in particular association with a long-term field warming experiment of the whole soil profile at Blodgett forest. Samples for this work were collected from locations representative of the field experimental plots. Potential enzyme activity rates were measured using laboratory fluorometric assays with soils collected at 0-10, 10-20, 30-40, 50-60, 60-70 and 80-90 cm deep in biological triplicates (i.e., three soil cores collected at different representative locations). Assays with each soil were conducted over a gradient of eight substrate concentrations per enzyme, and incubated at 4, 10, 16, 25, 35 or 50°C. Enzyme Michaelis-Menten kinetics were modeled over the eight substrate concentrations at each temperature, and the temperature sensitivity of the kinetic parameters was modeled over the six temperatures using linear Arrhenius/Q10 and non-linear Macromolecular Rate Theory (MMRT) models. The dataset includes the fully processed enzyme activity rate data used to model Michaelis-Menten kinetics, calculated kinetic and temperature sensitivity parameters, and basic soil and microbial biomass chemistry for each sample. All data is provided for each individual biological replicate, and kinetic and temperature sensitivity parameters are also provided as means of the biological replicates. The dataset also includes all raw measurement data and code used to parse, combine and perform the analyses described by Alves et al. (2021). For file descriptions, see the file-level metadata files: “enzymes_dataProcessed_flmd.xlsx” (processed data); “enzymes_dataRaw_flmd.xlsx” (compressed raw data and metadata); and “enzymes_code_flmd.xlsx” (compressed code). The experimental design, list of parameters measured, soil and microbial biomass chemistry data, and means of biological replicates for kinetic and temperature sensitivity parameters are also provided as human-readable tables in file “enzymeTraits_design_results_tables.xlsx”.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Spin and Accretion Rate Dependence of Black Hole X-Ray Spectra

We present a survey of how the spectral features of black hole X-ray binary systems depend on spin, accretion rate, viewing angle, and Fe abundance when predicted on the basis of first-principles physical calculations. The power-law component hardens with increasing spin. The thermal component strengthens with increasing accretion rate. The Compton bump is enhanced by higher accretion rate and lower spin. The Fe Kα equivalent width grows sublinearly with Fe abundance. Strikingly, the Kα profile is more sensitive to accretion rate than to spin because its radial surface brightness profile is relatively flat, and higher accretion rate extends the production region to smaller radii. The overall radiative efficiency is at least 30%–100% greater than as predicted by the Novikov–Thorne model.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2020

Pressurized Gas Beam Monitor for Extremely High Intensities – Phase II

A novel pressurized gas-filled multi-RF-cavity beam profile monitor has been studied that is simple and robust in high-radiation environments. Charged particles passing through each RF-cavity in the monitor produce intensity-dependent ionized plasma, which changes the gas permittivity. Standard RF techniques to measure the change in quality factor (Q) and frequency (f) as a function of time are then used to determine the change in permittivity and corresponding beam intensity in each cavity in the profile monitor. The sensitivity to beam intensity is adjustable using gas pressure and RF gradient. The performance of the gas-filled beam profile monitor has been numerically simulated to evaluate the sensitivity of permittivity measurements and the effectiveness of calibration strategies. An entire multi-RF-cavity system has been designed and a demonstration test has been prepared.

43 PARTICLE ACCELERATORS↗
DOE OSTI2021

Hierarchical Data Format for Nuclear Data Sensitivities

The SCALE code system includes capabilities for sensitivity and uncertainty (S/U) analysis as part of its TSUNAMI code suite. The sensitivity of a quantity of interest (for example, an application’s $k_{eff}$) to nuclear data is stored as a profile in a text-based file, which is known as a sensitivity data file (SDF). The sensitivity profile can be used to calculate uncertainties, correlation coefficients, and similarity indices. One of the goals of the present work was to seek general performance improvements in the TSUNAMI code suite, starting with the TSUNAMI-IP code for calculating similarity indices. Through profiling, it was found that reading the text-based sensitivity files was a performance bottleneck in the TSUNAMI-IP code. In a typical TSUNAMI-IP calculation, an application might be compared to thousands of benchmarks, thus requiring the reading of thousands of SDFs. Reading of binary-based data is generally faster than reading text-based data. Hierarchical Data Format 5 (HDF5) is a binary-based format that also benefits from being portable, and it can be inspected with nonproprietary tools. This paper describes an HDF5-based file format that has been introduced for SDFs.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2024

On the Departure from Monin–Obukhov Surface Similarity and Transition to the Convective Mixed Layer

Large-eddy simulations are used to evaluate mean profile similarity in the convective boundary layer (CBL). Particular care is taken regarding the grid sensitivity of the profiles and the mitigation of inertial oscillations in the simulation spin-up. The nondimensional gradients Φ for wind speed and air temperature generally align with Monin–Obukhov similarity across cases but have a steeper slope than predicted within each profile. The same trend has been noted in several other recent studies. The Businger-Dyer relations are modified here with an exponential cutoff term to account for the decay in Φ to first-order approximation, yielding improved similarity from approximately 0.05z i to above 0.3z i , where z i is the CBL depth. The necessity for the exponential correction is attributed to an extended transition from surface scaling to zero gradient in the mixed layer, where the departure from Monin–Obukhov similarity may be negligible at the surface but becomes substantial well below the conventional surface layer height of 0.1 z i .

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Modeling electron temperature profiles in the pedestal with simple formulas for ETG transport

Abstract This paper reports on the refinement (building on (Hatch D.R. et al 2022 Phys. Plasmas 29 062501)) and application of simple formulas for electron heat transport from electron temperature gradient (ETG) driven turbulence in the pedestal. The formulas are improved by (1) improving the parameterization for certain key parameters and (2) carefully accounting for the impact of geometry and shaping in the underlying gyrokinetic simulation database. Comparisons with nonlinear gyrokinetic simulations of ETG transport in the MAST pedestal demonstrate the model’s applicability to spherical tokamaks in addition to standard aspect ratio tokamaks. We identify bounds for model applicability: the model is accurate in the steep gradient region, where the ETG turbulence is largely slab-like, but accuracy decreases as the temperature gradient becomes weaker in the pedestal top. We use the formula to model the electron temperature profile in the pedestal for four experimental scenarios while extensively varying input parameters to represent uncertainties. In all cases, the predicted electron temperature profile exhibits extreme sensitivity to separatrix temperature and density, which has implications for core-edge integration. The model reproduces the electron temperature profile for high η e = L n e / L T e scenarios but not for low η e scenarios in which microtearing modes (MTMs) have been identified. We develop a proof-of-concept model for MTM transport and explore the relative roles of ETG and MTM in setting the electron temperature profile.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2021

Environmental sensitivities of shallow-cumulus dilution – Part 2: Vertical wind profile

This second part of a numerical study on shallow-cumulus dilution focuses on the sensitivity of cloud dilution to changes in the vertical wind profile. Insights are obtained through large-eddy simulations of maritime and continental cloud fields. In these simulations, the speed of the initially uniform geostrophic wind and the strength of geostrophic vertical wind shear in the cloud and subcloud layer are varied. Increases in the cloud-layer vertical wind shear (up to 9 ms -1 km -1 ) lead to 40%–50% larger cloud-core dilution rates compared to their respective unsheared counterparts. When the background wind speed, on the other hand, is enhanced by up to 10 ms -1 and subcloud-layer vertical wind shear develops or is initially prescribed, the dilution rate decreases by up to 25%. The sensitivities of the dilution rate are linked to the updraft strength and the properties of the entrained air. Increases in the wind speed or vertical wind shear result in lower vertical velocities across all sets of experiments with stronger reductions in the cloud-layer wind shear simulation (27%–47%). Weaker updrafts are exposed to mixing with the drier surrounding air for a longer time period, allowing more entrainment to occur (i.e., the “core-exposure effect”). However, reduced vertical velocities, in concert with increased cloud-layer turbulence, also assist in widening the humid shell surrounding the cloud cores, leading to entrainment of more humid air (i.e., the “core–shell dilution effect”). In the experiments with cloud-layer vertical wind shear, the core-exposure effect dominates and the cloud-core dilution increases with increasing shear. Conversely, when the wind speed is increased and subcloud-layer vertical wind shear develops or is imposed, the core–shell dilution effect dominates to induce a buffering effect. The sensitivities are generally stronger in the maritime simulations, where weaker sensible heat fluxes lead to narrower, more tilted, and, therefore, more suppressed cumuli when cloud-layer shear is imposed. Moreover, in the experiments with subcloud wind shear, the weaker baseline turbulence in the maritime case allows for a larger turbulence enhancement, resulting in a widening of the transition zones between the cores and their environment, leading to the entrainment of more humid air.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2026

Probabilistic Inference of Low-Surface-Brightness Galaxy Morphological Parameters Using Simulation-Based Inference

Low-surface-brightness galaxies (LSBGs) are diffuse, often dark-matter-dominated systems whose faintness makes their structural parameters difficult to measure reliably in wide-field imaging surveys. Robust parameter inference, including uncertainty quantification, is important for population studies and for comparisons with models of galaxy formation, as future surveys are expected to produce increasingly large samples of diffuse galaxies. In practice, LSBG profile modeling is sensitive to sky- background errors, masking choices, contaminating background sources, and the computational cost of obtaining posterior-level uncertainties for large samples. Motivated by these questions, we develop a simulation-based inference (SBI) framework for estimating posterior distributions of LSBG morphological parameters from simulated galaxy images. Using PyImfit, we generate DES-like single-Sersic profile LSBG images with known position angle, ellipticity, Sersic index, effective surface brightness, and effective radius. We then train a normalizing-flow-based neural posterior estimator using the sbi package to infer these parameters from the simulated images. For isolated simulated galaxies, the SBI posterior recovers the true input parameters, produces posterior predictive residuals consistent with the assumed noise model, and shows good empirical calibration in a DES-motivated test regime. We also compare SBI with PyImfit-based MCMC inference and find broadly comparable posterior constraints, while SBI enables substantially faster posterior sampling after training. Finally, we test robustness to compact background contaminants. A model trained only on isolated galaxies produces undercovered posteriors on contaminated images, whereas training on simulations with variable contaminant positions and fluxes improves calibration across contaminated test sets. These results demonstrate the promise of SBI for scalable, uncertainty-aware LSBG morphology inference, while emphasizing that posterior reliability strongly depends on whether training simulations include relevant observational complications.

Batbayar, Bilguun [U. Chicago (main)]↗
DOE OSTI2021

Sensitivity of the Cherenkov Telescope Array to a dark matter signal from the Galactic centre

We provide an updated assessment of the power of the Cherenkov Telescope Array (CTA) to search for thermally produced dark matter at the TeV scale, via the associated gamma-ray signal from pair-annihilating dark matter particles in the region around the Galactic centre. We find that CTA will open a new window of discovery potential, significantly extending the range of robustly testable models given a standard cuspy profile of the dark matter density distribution. Importantly, even for a cored profile, the projected sensitivity of CTA will be sufficient to probe various well-motivated models of thermally produced dark matter at the TeV scale. This is due to CTA's unprecedented sensitivity, angular and energy resolutions, and the planned observational strategy. The survey of the inner Galaxy will cover a much larger region than corresponding previous observational campaigns with imaging atmospheric Cherenkov telescopes. CTA will map with unprecedented precision the large-scale diffuse emission in high-energy gamma rays, constituting a background for dark matter searches for which we adopt state-of-the-art models based on current data. Throughout our analysis, we use up-to-date event reconstruction Monte Carlo tools developed by the CTA consortium, and pay special attention to quantifying the level of instrumental systematic uncertainties, as well as background template systematic errors, required to probe thermally produced dark matter at these energies.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2021

Engineering well-expressed, V2-immunofocusing HIV-1 envelope glycoprotein membrane trimers for use in heterologous prime-boost vaccine regimens

HIV-1 vaccine immunofocusing strategies may be able to induce broadly-reactive neutralizing antibodies (NAbs). Here, we engineered a panel of diverse, membrane-resident native HIV-1 trimers vulnerable to two broad targets—the V2 apex and fusion peptide (FP). Selection criteria included i) high expression and ii) infectious function, so that trimer neutralization sensitivity can be profiled in pseudovirus (PV) assays. Initially, we boosted the expression of 17 candidate trimers by truncating gp41 and introducing a gp120-gp41 SOS disulfide to prevent gp120 shedding. "Repairs" were made to fill glycan holes and eliminate other strain-specific aberrations. A new neutralization assay allowed PV infection when our standard assay was insufficient. Trimers with exposed V3 loops, a target of non-NAbs, were discarded. To try to increase V2-sensitivity, we removed clashing glycans and modified the C-strand. Notably, a D167N mutation improved V2-sensitivity in several cases. Glycopeptide analysis of JR-FL trimers revealed near complete sequon occupation and that filling the N197 glycan hole was well-tolerated. In contrast, sequon optimization and inserting/removing glycans at other positions frequently had global "ripple" effects on glycan maturation and sequon occupation throughout the gp120 outer domain and gp41. V2 MAb CH01 selectively bound to trimers with small high mannose glycans near the base of the V1 loop, thereby avoiding clashes. Knocking in a rare N49 glycan was found to perturb gp41 glycans, increasing FP NAb sensitivity—and sometimes improving expression. Finally, a biophysical analysis of VLPs revealed that i) ~25% of particles bear Env spikes, ii) spontaneous particle budding is high and only increases 4-fold upon Gag transfection, and iii) Env+ particles express ~30–40 spikes. Taken together, we identified 7 diverse trimers with a range of sensitivities to two targets to allow rigorous testing of immunofocusing vaccine concepts.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2026

A Faster-Than-Real-Time Framework for Reliability-Oriented Simulation of PV Inverters

Physics-of-Failure (PoF) based reliability assessment for photovoltaic (PV) inverters requires long-duration electrical and electrothermal stress histories, yet generating such stress histories with high-fidelity switching models over year long mission profiles is computationally prohibitive. Conventional methods either sacrifice modeling fidelity for speed or require runtimes that are impractical for design iteration and uncertainty studies. To address this bottleneck, this paper presents a High-Performance Computing (HPC) based simulation frame work for faster-than-real-time reliability-oriented simulation. The proposed framework integrates the Average-to-Switching (A2S) method with parallel computing techniques to accelerate switching-level waveform reconstruction. We further introduce optimization strategies, including cluster merging and sensitivity based mission profile screening, to reduce the computational burden. Evaluated using real-world mission profile inputs and a MATLAB/Simulink switching-model reference, the framework reduces the simulation time for a one-year mission from an intractable multi-year duration to approximately 7.3 minutes while maintaining low waveform error. This acceleration provides a practical reliability-oriented simulation engine that can be coupled with component-specific aging models for subsequent PV inverter PoF assessment.

High-performance Computing↗
DOE OSTI2021

The effects of low- Z shielding on uranium isotope discrimination using the time-emission profiles of long-lived delayed neutrons

Characteristic radiation signals can often be obscured or distorted by relatively small amounts of shielding, as is the case for highly-enriched uranium (HEU). Methods that can detect and identify special nuclear material (SNM) even in the presence of shielding are therefore of high value in many nuclear security and nonproliferation applications. It has been previously shown that the buildup and decay time profiles of long-lived delayed neutron emission from induced fission are unique and can be used to successfully discriminate between uranium isotopes and infer enrichment without the need for a calibration standard. Because the long-lived delayed neutron precursors exhibit decay times on the order of tens of seconds, their time profiles are not sensitive to the delays associated with scattering or diffusion in shielding materials, which occur on much shorter time scales. The use of capture-based neutron detectors can also mitigate the effects of shielding, because unlike recoil-based detectors, they do not have a low-energy detection threshold, so that neutrons that lose their energy in the shielding are still detectable. In this work, the effects of low-Z shielding on the discrimination of uranium isotopes using delayed neutron time profile measurements are investigated for the first time. Furthermore, the delayed neutron buildup and decay time profiles of polyethylene-shielded HEU and depleted uranium objects are measured using two different capture-gated detector designs. The recorded profiles show good agreement with the shapes predicted from six-group delayed neutron models even with the shielding in place, and the enrichment of the HEU and DU objects was estimated accurately to within 5%. While this method shows potential for discriminating and characterizing extreme cases of enrichment when a moderate amount of shielding is present, simulation results suggest that significant limitations exist for intermediate enrichment levels due to distortions to the delayed neutron time profile caused by neutron reflection in the shielding.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗
DOE OSTI2023

Development of an accelerator-based neutron source to prototype Mo-99 production, part I: A liquid LBE windowless target

In this article, Molybdenum-99 (Mo-99)’s decay product, technetium-99 (Tc-99 m), is one of the most critical isotopes for medical diagnostics. To provide U.S. domestic supply of Mo-99 without using high-enriched uranium (HEU), a subcritical uranium target assembly (UTA) is irradiated by an accelerator-based neutron source to create Mo-99 through fission. This study discusses the development of the accelerator-based neutron source. The high-energy electrons from the accelerator irradiate a liquid lead-bismuth eutectic (LBE) target to produce neutrons. Part I of this work focuses on numerical and experimental analysis towards the development of a liquid LBE windowless target. Unlike the existing windowless targets in literature, the current design creates a vertical free surface for a beam to irradiate. First, a hydrodynamic analysis of the LBE windowless target is performed. Simplified analytical calculations are assisted by 2D computational fluid dynamics (CFD) simulations to design the target, with the focus on eliminating recirculation zones and avoiding cavitation. With the optimized geometry, the experimental study is performed to investigate the flow hydrodynamics using liquid LBE. The experiments (1) compare pressure drop in the system to correlation predictions; (2) visualize the free surface liquid LBE flow from the beam view; (3) validate the LBE flow profile using temperature sensitive paint from the side view; and (4) validate the liquid LBE film thickness using gamma densitometer measurements. Second, the power handling capability of the designed windowless target is investigated. The divider plate in the current design is susceptible to overheating due to the thin LBE film in front. As LBE erosion and corrosion is likely to occur at an LBE velocity of 2.0 m/s and temperature above 500 °C, a power limit of 10 kW of beam power was established to prevent this corrosion from occurring, which is calculated by a Nusselt number correlation. The divider plate surface temperature at 10 kW agrees well with the 3D CFD simulation results. Part I demonstrates the fundamental physics in liquid LBE windowless target design and associated testing. A companion paper, Part II will demonstrate how to couple this windowless target into the Mo-99 production system, including an accelerator system operating under an ultra-high vacuum and the UTA cooled by water at room temperature.

43 PARTICLE ACCELERATORS↗
DOE OSTI2021

Density evolution after shock release from laser-driven polystyrene (CH) targets in inertial confinement fusion

The evolution of the plasma density in the rarefaction wave formed after a laser-driven shock is released from a CH foil was measured using optical interferometry. Here, it was found that the plasma density profile is very sensitive to the conditions at the back surface of the foil before the shock release. Dedicated experiments demonstrated that radiation preheat by coronal x-rays caused early expansion of the back surface and faster expansion of the rarefaction wave. Radiation-hydrodynamics simulations with accurate modeling of radiation preheat from the plasma corona are in good agreement with the experimental results. The early expansion of material interfaces due to coronal x-ray preheat must be evaluated in designing and interpreting laser-driven inertial confinement fusion experiments.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2026

Superconductivity Reinforces Charge-Density-Wave Phase Coherence across Cuprates

For decades, superconductivity in high-𝑇 c cuprates has been viewed as a competitor that suppresses charge-density-wave (CDW) order by reducing its amplitude and spatial extent. Here, in this study, we show that this picture is incomplete, as superconductivity is accompanied by a systematic enhancement of CDW phase coherence across multiple cuprate families. Using resonant soft x-ray scattering combined with a coherence-sensitive momentum-profile analysis, we uncover a BCS-like growth of phase coherence below 𝑇 c , which phenomenologically manifests as the absence of CDW peak broadening and near-perfect wave-vector locking. This enhancement remains visible even in a disorder-dominated regime created by long-term crystal aging and follows a common trend when compared with published data on Bi-, Hg-, Y-, and Nd-based cuprates. These results indicate that superconductivity reshapes CDW order in two distinct ways, suppressing its amplitude while strengthening its phase coherence, and reveal an additional phase-level interplay with lattice coupling in high-𝑇 c cuprates.

Lee, H. [SLAC National Accelerator Laboratory (SLA↗
DOE OSTI2023

Foreground-immune CMB lensing reconstruction with polarization

Extragalactic foregrounds are known to generate significant biases in temperature based CMB lensing reconstruction. Several techniques, which include "source hardening'" and "shear-only estimators'' have been proposed to mitigate contamination and have been shown to be very effective at reducing foreground-induced biases. Here we extend both techniques to polarization, which will be an essential component of CMB lensing reconstruction for future experiments and investigate the "large lens'' limit analytically to gain insight on the origin and scaling of foreground biases, as well as the sensitivity to their profiles. Furthermore, using simulations of polarized point sources, we estimate the expected bias to both Simons Observatory and CMB-S4 like (polarization-based) lensing reconstruction, finding that biases to the former are minuscule while those to the latter are potentially non-negligible at small scales ($L$ ~ $1000-2000$). In particular, we show that for a CMB-S4 like experiment, an optimal linear combination of point-source hardened estimators can reduce the (point-source induced) bias to the CMB lensing power spectrum by up to two orders of magnitude, at a ~ 4% noise cost relative to the global minimum variance estimator.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2020

COVID-19 biomarkers based on respiratory microbiome content

COVID-19 patient care management would greatly benefit from new tools that enable accurate assessment of disease severity and stage, potentially enabling a personalized medicine approach. Detection of the SARS-CoV-2 virus itself, or even quantitation of viral loads, is not sufficient for accurate assessment of disease state beyond diagnosis of infection [eg, doi:10.1093/cid/ciaa344]. Levels of usual suspect protein biomarkers associated with host response to infection [eg, C-reactive protein (CRP); cytokines like IL-6, TNF-alpha, and IL-10; complement proteins like C3a and C5a], and of individual blood cell types (eg, leukocytes, lymphocytes, and subsets thereof), show limited correlation with disease severity and stage, with high patient-to-patient and study-to-study variability [eg, doi:10.1093/cid/ciaa248]. High-dimensional panels of biomarkers should have greater predictive power and resilience to unavoidable sources of variability; however, their assembly from proteins and cell types is extremely difficult, due to technical limitations in analyte measurement, especially with regard to starting material requirements and detection sensitivity. Host response profiling through Next Generation Sequencing (NGS) of gene expression patterns (ie, RNA-Seq) is a promising approach, but at the time of this project there were only two publicly available datasets of relevance [doi:10.1093/cid/ciaa203, doi:10.1080/22221751.2020.1747363], and close inspection of them revealed that each had at least one major flaw that severely undermined its value in supporting robust analysis of host response to SARS-CoV- 2 infection. However, the first of these studies [doi:10.1093/cid/ciaa203] fortuitously collected NGS data not only from host cells, but also from bacteria present in bronchoalveolar lavage fluid (BALF) recovered from COVID-19 patients; and because the respiratory microbiome (in terms of bacterial species content) is far less complex than the human transcriptome, the NGS data collected were sufficient to provide coverage depth supporting robust analysis. Surprisingly, the authors of the study did not carry out a detailed analysis of these data and their potential for revealing important new information about COVID-19. Therefore, we carried out a meta-analysis of the dataset as a first step in evaluating the potential for profiling of respiratory microbiome dynamics as a means of accurately assessing COVID-19 disease state.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

A novel candidate hepatitis C virus genotype 4 subtype identified by next generation sequencing full-genome characterization in a patient from Saudi Arabia

Background and aim: Hepatitis C virus (HCV) infection is a major global public health concern, being a leading cause of chronic liver diseases such as chronic hepatitis, cirrhosis, and hepatocellular carcinoma. The virus is classified into 8 genotypes and 93 subtypes, each displaying distinct geographic distributions. Genotype 4 is the most predominant in the Middle East and Eastern Mediterranean and is associated with high rates of hepatitis C infection worldwide. This study used next-generation sequencing to fully characterize the HCV genome and identify a novel subtype within genotype 4 isolated from a 64-year-old Saudi man diagnosed with hepatitis C. Methods: We analyzed the complete genome of the 141-HCV isolate using whole-genome sequencing. Results: Our phylogenetic reconstructions, based on the entire genome of HCV-4 strains, revealed that the 141-HCV isolate formed a distinct group within the genotype 4 classification, providing valuable new insights into the variability of HCV. Conclusion: This discovery of a previously unclassified HCV subtype within genotype 4 sheds light on the ongoing evolution and diversity of the virus. Such knowledge has significant implications for diagnostic and therapeutic approaches, as different subtypes may exhibit varying drug sensitivities and resistance profiles.

60 APPLIED LIFE SCIENCES↗