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All sourcesNASA NTRSDOE OSTI
DOE OSTI2024

Aerial Data and Processed Models of Port Arthur Coastal Neighborhood and Pleasure Island Golf Course, June 2024

Our Co-design team is from the University of Texas, working on a Department of Energy-funded project focused on the Beaumont-Port Arthur area. As part of this project, we will be developing climate-resilient design solutions for areas of the region. More on www.caee.utexas.edu.We captured aerial photos in the Port Arthur Coastal Neighborhood Community and the Golf Course on Pleasure Island, Texas, in June 2024.Aerial photos taken were through DroneDeploy autonomous flight, and models were processed through the DroneDeploy engine as well. All aerial photos are in .JPG format and contained in zipped files for each area.The processed data package includes 3D models, geospatial data, mappings, and point clouds. Please be aware that DTM, Elevation toolbox, Point cloud, and Orthomosaic use EPSG: 6588. And 3D Model uses EPSG: 3857.For using these data:- The Adobe Suite gives you great software to open .Tif files.- You can use LASUtility (Windows), ESRI ArcGIS Pro (Windows), or Blaze3D (Windows, Linux) to open a LAS file and view the data it contains.- Open an .OBJ file with a large number of free and commercial applications. Some examples include Microsoft 3D Builder, Apple Preview, Blender, and Autodesk.- You may use ArcGIS, Merkaartor, Blender (with the Google Earth Importer plug-in), Global Mapper, and Marble to open .KML files.- The .tfw world file is a text file used to georeference the GeoTIFF raster images, like the orthomosaic and the DSM. You need suitable software like ArcView to open a .TFW file.This dataset provides researchers with sufficient geometric data and the status quo of the land surface at the locations mentioned above. This dataset could streamline researchers' decision-making processes and enhance the design as well.

2D mapping↗
DOE OSTI2024

Real-time kinematic (RTK) Drone-collected Data and Processed Models of Port Arthur Coastal Neighborhood and Pleasure Island Golf Course, June 2024

The Southeast Texas Urban Integrated field lab’s Co-design team captured aerial photos in the Port Arthur Coastal Neighborhood Community and the Golf Course on Pleasure Island, Texas, in June 2024. Aerial photos taken were through autonomous flight, and models were processed through the DroneDeploy engine. All aerial photos are in .JPG format and contained in zipped files for each area. The processed data package includes 3D models, geospatial data, mappings, and point clouds. Please be aware that DTM, Elevation toolbox, Point Cloud, and Orthomosaic use EPSG: 6588. And 3D Model uses EPSG: 3857.For using these data:- The Adobe Suite gives you great software to open .Tif files.- You can use LASUtility (Windows), ESRI ArcGIS Pro (Windows), or Blaze3D (Windows, Linux) to open a LAS file and view the data it contains.- Open an .OBJ file with a large number of free and commercial applications. Some examples include Microsoft 3D Builder, Apple Preview, Blender, and Autodesk.- You may use ArcGIS, Merkaartor, Blender (with the Google Earth Importer plug-in), Global Mapper, and Marble to open .KML files.- The .tfw world file is a text file used to georeference the GeoTIFF raster images, like the orthomosaic and the DSM. You need suitable software like ArcView to open a .TFW file.This dataset provides researchers with sufficient geometric data and the status quo of the land surface at the locations mentioned above. This dataset will support researchers' decision-making processes under uncertainties.

2D mapping↗
NASA NTRS1990

On the dynamic and thermodynamic structures of marine stratocumulus

Latent heating effects on stratocumulus circulations were studied successfully with a nine-coefficient spectral model of two-dimensional shallow Boussinesq convection (Laufersweiler and Shirer, 1989). Further, more realistic investigations are being performed currently with a larger, 18-coefficient spectral model, in which the effects of cloud top radiational cooling and in-cloud radiational heating are also being represented. Because assuming a rigid lid at the inversion base may have affected previous results significantly, the domain top was raised to include the lower portion of the capping inversion. As in the previous model, a uniform cloud base is assumed and latent heating effects are included implicitly such that the motions in the sub- and above-cloud regions are dry adiabatic and the motions in the cloud region are moist adiabatic. The effects of forcing by radiational heating profiles that are tied to the cloud layer, such as the one used by Nicholls will be investigated, as will profiles measured during the FIRE experiment. One concern of using truncated spectral models is that the phenomena are so poorly represented that they can change dramatically as the number of spectral coefficients is increased. The efficacy of the nine-coefficient model results is checked by examining the steady state solutions of the 18-coefficient model for parameter values used by Laufersweiler and Shirer (1989), which corresponds to the case of a moderately deep cloud and no capping inversion. The horizontally asymmetric circulation patterns that have narrow downdraft areas and broad updraft areas are virtually the same as those found in the smaller spectral model. Also captured in the case of weaker heating is an elevated circulation centered at cloud base. Thus, the results of the smaller model are substantiated. Since one of the goals of studying the new model is to represent a more realistic domain, the second test of the model is to investigate whether the steady solutions are suppressed in the case of an inversion with no cloud.

Laufersweiler, Mark J.↗
DOE OSTI2023

Macroevolutionary diversity of traits and genomes in the model yeast genus Saccharomyces

Species is the fundamental unit to quantify biodiversity. In recent years, the model yeast Saccharomyces cerevisiae has seen an increased number of studies related to its geographical distribution, population structure, and phenotypic diversity. However, seven additional species from the same genus have been less thoroughly studied, which has limited our understanding of the macroevolutionary events leading to the diversification of this genus over the last 20 million years. Here, we show the geographies, hosts, substrates, and phylogenetic relationships for approximately 1,800 Saccharomyces strains, covering the complete genus with unprecedented breadth and depth. We generated and analyzed complete genome sequences of 163 strains and phenotyped 128 phylogenetically diverse strains. This dataset provides insights about genetic and phenotypic diversity within and between species and populations, quantifies reticulation and incomplete lineage sorting, and demonstrates how gene flow and selection have affected traits, such as galactose metabolism. These findings elevate the genus Saccharomyces as a model to understand biodiversity and evolution in microbial eukaryotes.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Model, data, and code for paper "Modeling of streamflow in a 30-kilometer-long reach spanning 5 years using OpenFOAM 5.x"

The data package includes data, model, and code that support the analyses and conclusions in the paper titled “modeling of streamflow in a 30-kilometer-long reach spanning 5 years using OpenFOAM 5.x”. The primary goal of this paper is to demonstrate that key streamflow properties such as water depth, flow velocity, and dynamic pressure in a natural river at 30-kilometer scale over 5 years can be reliably and efficiently modeled using the computational framework presented in this paper. To support the paper, various data types from remote sensing, field observations, and computational models are used. Specific details are described as follows. Firstly, the river bathymetry data was obtained from a Light Detection and Ranging (LiDAR) survey. This data is then converted to a triangulated surface format, STL, for mesh generation in OpenFOAM. The STL data can be found in Model_Setups/BaseCase_2013To2015/constant/triSurface. The OpenFOAM mesh generated using this STL file can be found in constant/polyMesh. Other model setups, boundary and initial conditions can be found in /system and /0.org under folder BaseCase_2013To2015. A similar data structure can also be found in BaseCase_2018To2019 for the simulations during 2018 and 2019. Secondly, the OpenFOAM simulations need the upstream discharge and water depth information at the upstream boundary to drive the model. These data are generated from a one-dimensional hydraulic model and the data can be found under the folder Model_Setups /1D model Mass1 data. The mass1_65.csv and mass1_191.csv files include the results of the 1D model at the model inlet and outlet, respectively. The Matlab source code Mass1ToOFBC20182019.m is used to convert these data into OpenFOAM boundary condition setups.With the above OpenFOAM model, it can generate data for water surface elevation, flow velocity, and dynamic pressure. In this paper, the water surface elevation was measured at 7 locations during different periods between 2011 and 2019. The exact survey locations (see Fig1_SurveyLocations.txt) can be found in folder Fig_1. The variation of water stage over time at the 7 locations can be found in folder /Observation_WSE. The data type include .txt, .csv, .xlsx, and .mat. The .mat data can be loaded by Matlab.We also measured the flow velocities at 12 cross-sections along the river. At each cross-section, we recorded the x, y locations, depth, three velocity components u,v,w. These data are saved to a Matlab format which can be found under folder /Observation_Velocity and /Fig_1. The relative locations of velocity survey locations to the river bathymetry can be found in Figure 1c.The water stage data at the 7 locations from OpenFOAM, 1D, and 2D hydraulic models are also provided to evaluate the long-term performance of 3D models vs 1D/2D models. The water stage data for the 7 locations from OpenFOAM have been saved to .mat format and can be found in /OpenFOAM_WSE. The water stage data from the 1D model are saved in .csv format and can be found in /Mass1_WSE. The water stage from the 2D model is saved as .mat format and can be found in / Mass2_WSEIn addition, the OpenFOAM model outputs the information of hydrostatic and hydrodynamic pressure. They are saved as .mat format under folder /Fig_11/2013_1. As the files are too large, we only uploaded the data for January 2013. The area of different ratio of dynamic pressure to static pressure for all simulation range, i.e., 2013-2015, are saved to .mat format. They can be found in /Fig_11/PA. Further, the data of wall clock time versus the solution time of the OpenFOAM modeling are also saved to .mat format under folder /Fig_13/LogsMat. In summary, the data package contains seven data types, including .txt, .csv, .xlsx, .dat, .stl, .m, and .mat. The former 4 types can be directly open using a text editor or Microsoft Office. The .mat format needs to be read by Matlab. The Matlab source code .m files need to be run with Matlab. The OpenFOAM setups can be visualized in ParaView. The .stl file can be opened in ParaView or Blender. The data in subfolders Fig_1 to Fig_10 and Fig_12 are copied from the aforementioned data folders to generate specific figures for the paper. A readME.txt file is included in each subfolder to further describe how the data in each folder are generated and used to support the paper.Please use the data package's DOI to cite the data package. Please contact yunxiang.chen@pnnl.gov if you need more data related to the paper.

54 ENVIRONMENTAL SCIENCES↗
NASA NTRS2012

Upper-Ocean Heat Balance Processes and the Walker Circulation in CMIP5 Model Projections

Considerable uncertainty remains as to the importance of mechanisms governing decadal and longer variability of the Walker Circulation, its connection to the tropical climate system, and prospects for tropical climate change in the face of anthropogenic forcing. Most contemporary climate models suggest that in response to elevated CO2 and a warmer but more stratified atmosphere, the required upward mass flux in tropical convection will diminish along with the Walker component of the tropical mean circulation as well. Alternatively, there is also evidence to suggest that the shoaling and increased vertical stratification of the thermocline in the eastern Pacific will enable a muted SST increase there-- preserving or even enhancing some of the dynamical forcing for the Walker cell flow. Over the past decade there have been observational indications of an acceleration in near-surface easterlies, a strengthened Pacific zonal SST gradient, and globally-teleconnected dislocations in precipitation. But is this evidence in support of an ocean dynamical thermostat process posited to accompany anthropogenic forcing, or just residual decadal fluctuations associated with variations in warm and cold ENSO events and other stochastic forcing? From a modeling perspective we try to make headway on this question by examining zonal variations in surface energy fluxes and dynamics governing tropical upper ocean heat content evolution in the WCRP CMIP5 model projections. There is some diversity among model simulations; for example, the CCSM4 indicates net ocean warming over the IndoPacific region while the CSIRO model concentrates separate warming responses over the central Pacific and Indian Ocean regions. The models, as with observations, demonstrate strong local coupling between variations in column water vapor, downward surface longwave radiation and SST; but the spatial patterns of changes in the sign of this relationship differ among models and, for models as a whole, with observations. Our analysis focuses initially on probing the inter-model differences in energy fluxes / transports and Walker Circulation response to forcing. We then attempt to identify statistically the El Nino- / La Nina-related ocean heat content variability unique to each model and regress out the associated energy flux, ocean heat transport and Walker response on these shorter time scales for comparison to that of the anthropogenic signals.

Robertson, F. R.↗
DOE OSTI2022

Nonequilibrium plasma in water vapor

A kinetic model of a non-equilibrium water vapor plasma created by a nanosecond pulsed discharge at elevated temperatures and at low pressure is presented. The model includes equations for electron, vibrational and gas temperatures combined with equations for neutral, charged, electronically and vibrationally excited species. Simulation results are compared with the available experimental data and show good agreement in dynamics of the plasma decay and electron drift velocities. It is shown that the plasma decay in pure water vapor is controlled by the dissociative recombination. Under the conditions simulated, the concentration of electronically excited species is low, but we observe a formation of vibrationally excited species. Finally, a significant decrease in the electrical conductivity of water plasma with time, which depends on the level of initial ionization, is shown.

42 ENGINEERING↗
DOE OSTI2024

Characteristics of Precipitation and Mesoscale Convective Systems Over the Peruvian Central Andes in Multi 5‐Year Convection‐Permitting Simulations

Abstract Using the Weather Research and Forecasting model with two planetary boundary layer schemes, ACM2 and MYNN, convection‐permitting model (CPM) regional climate simulations were conducted for a 6‐year period, including a one‐year spin‐up period, at a 15‐km grid spacing covering entire South America and a nested convection‐permitting 3‐km grid spacing covering the Peruvian central Andes region. These two CPM simulations along with a 4‐km simulation covering South America produced by National Center for Atmospheric Research (NCAR), three gridded precipitation products, and rain gauge data in Peru and Brazil, are used to document the characteristics of precipitation and mesoscale convective systems (MCSs) in the Peruvian central Andes region. Results show that all km‐scale simulations generally capture the spatiotemporal patterns of precipitation and MCSs at both seasonal and diurnal scales, although biases exist in aspects such as precipitation intensity and MCS frequency, size, propagation speed, and associated precipitation intensity. The 3‐km simulation using MYNN scheme generally outperforms the other simulations in capturing seasonal and diurnal precipitation over the mountain, while both it and the 4‐km simulation demonstrate superior performance in the western Amazon Basin, based on the comparison to the gridded precipitation products and gauge data. Dynamic factors, primarily low‐level jet and terrain‐induced uplift, are the key drivers for precipitation and MCS genesis along the east slope of the Andes, while thermodynamic factors control the precipitation and MCS activity in the western Amazon Basin and over elevated mountainous regions. The study suggests model improvements and better model configurations for future regional climate projections.

Meteorology & Atmospheric Sciences↗
NASA NTRS1994

Post-Gondwana geomorphic evolution of southwestern Africa: Implications for hte controls on landscape development from observations and numerical experiments

The relationship between morphology and surficial geology is used to quantify the denudation that has occurred across southwestern Africa sicne the fragmentation of Gondwana during the Early Mesozoic. Two main points emerge. Signficant denudation, of the order of kilometers, is widespread except in the Kalahari region of the continental interior. The denudation is systematically distributed so that the continental exterior catchment, draining directly to the Cape basin, is denuded to a greater depth than the interior catchment inland of the Great Escarpment. The analysis also implies tha the majority of the denudation occurred before the beginning of the Cenozoic for both teh exerior and interior catchments. Existing models of landscape development are reviewed, and implications of the denudation chronology are incorporated into a revised conceptual model. This revision implies tha thte primary effect of rifting on the subsequent landscape evolution is that it generates two distinct drainage regimes. A marginal upwarp, or rift flank uplift, separates rejuvenated rivers that drain into the subsiding rift from rivers in the continetal interior that are deflected but not rejuvenated. The two catchments evolve independently unless they are integrated by breaching of hte marginal upwarp. If this occurs, the exterior baselevel is communicated to the interior catchment that is denuded accordingly. Denudation rates generally decrease as the margin evolves, and this decrease is reinforced by the exposure of substrate that is resistant to denudation and/or a change to a more arid climate. The observations do not reveal a particular style of smaller-scale landscape evolution, sucha s escarpment retreat, that is responsible for the differential denudation across the region. It is proposed that numerical model experiments, which reflect the observational insights at the large scale, may identify the smaller-scale controls on escarpment development if the model and natural systems are analogous. Four numerical experiments are presented in which the roles of antecedent topography, resistant substrate, climte change, and lowering the baselevel of the interior catchment are investigated for an initially high elevation margin bordered by an escarpment. The model results suggest several styles of landscape evolution that are compatible with the observations. Escarpments may retreat in a regular manner, but they also degrade and are destroyed, only to reform at the drainage divide between exterior and interior catchments.

Gilchrist, Alan R.↗
NASA NTRS1996

Elevation correction factor for absolute pressure measurements

With the arrival of highly accurate multi-port pressure measurement systems, conditions that previously did not affect overall system accuracy must now be scrutinized closely. Errors caused by elevation differences between pressure sensing elements and model pressure taps can be quantified and corrected. With multi-port pressure measurement systems, the sensing elements are connected to pressure taps that may be many feet away. The measurement system may be at a different elevation than the pressure taps due to laboratory space or test article constraints. This difference produces a pressure gradient that is inversely proportional to height within the interface tube. The pressure at the bottom of the tube will be higher than the pressure at the top due to the weight of the tube's column of air. Tubes with higher pressures will exhibit larger absolute errors due to the higher air density. The above effect is well documented but has generally been taken into account with large elevations only. With error analysis techniques, the loss in accuracy from elevation can be easily quantified. Correction factors can be applied to maintain the high accuracies of new pressure measurement systems.

Panek, Joseph W.↗
NASA NTRS2005

Decision Support for Emergency Operations Centers

The Flood Disaster Mitigation Decision Support System (DSS) is a computerized information system that allows regional emergency-operations government officials to make decisions regarding the dispatch of resources in response to flooding. The DSS implements a real-time model of inundation utilizing recently acquired lidar elevation data as well as real-time data from flood gauges, and other instruments within and upstream of an area that is or could become flooded. The DSS information is updated as new data become available. The model generates realtime maps of flooded areas and predicts flood crests at specified locations. The inundation maps are overlaid with information on population densities, property values, hazardous materials, evacuation routes, official contact information, and other information needed for emergency response. The program maintains a database and a Web portal through which real-time data from instrumentation are gathered into the database. Also included in the database is a geographic information system, from which the program obtains the overlay data for areas of interest as needed. The portal makes some portions of the database accessible to the public. Access to other portions of the database is restricted to government officials according to various levels of authorization. The Flood Disaster Mitigation DSS has been integrated into a larger DSS named REACT (Real-time Emergency Action Coordination Tool), which also provides emergency operations managers with data for any type of impact area such as floods, fires, bomb

Harvey, Craig↗
NASA NTRS1996

ATMOS Measurements of H2O + 2CH4 and Total Reactive Nitrogen in the November 1994 Antarctic Stratosphere: Dehydration and Denitrification in the Vortex

Simultaneous stratospheric volume mixing ratios (VMR's) measured inside and outside the Antarctic vortex by the Atmospheric Trace Molecule Spectroscopy (ATMOS) instrument in November 1994 reveal previously unobserved features in the distributions of total reactive nitrogen (NO(y)) and total hydrogen (H2O + 2CH4). Maximum removal of NO(y) due to sedimentation of polar stratospheric clouds (PSC's) inside the vortex occurred at a potential temperature (Theta) of 500-525 K (approximately 20 km), where values were 5 times smaller than measurements outside. Maximum loss of H2O + 2CH4 due to PSC's occurred in the vortex at 425-450 K, approximately 3 km lower than the peak NO(y) loss. At that level, H2O + 2CH4 VMR's inside the vortex were approximately 70% of corresponding values outside. The Antarctic and April 1993 Arctic measurements by ATMOS show no significant differences in H2O + 2CH4 VMR's outside the vortices in the two hemispheres. Elevated NO(y) VMRs were measured inside the vortex near 700 K. Recent model calculations indicate that this feature results from downward transport of elevated NO(y) produced in the thermosphere and mesosphere.

Rinsland, C. P.↗
DOE OSTI2024

Demonstration of a multi-channel fluidized bed particle–supercritical carbon dioxide heat exchanger for concentrating solar applications

High-temperature thermal energy storage in oxide particles at temperatures above 600°C can couple concentrated solar energy with high-efficiency thermal power cycles to provide dispatchable solar-driven electricity. Challenges remain in developing cost-effective primary heat exchangers, which require expensive alloys, to extract the high-temperature thermal energy from the particles to power cycle fluids, such as supercritical CO 2 (sCO 2 ) in recuperated Brayton cycles. To explore one pathway for cost-effective, high-temperature particle heat exchangers, the current study demonstrates a shell-and-plate, particle–sCO 2 heat exchanger with narrow- channel fluidized beds coupled with micro-channel sCO 2 flows in the heat exchanger walls. This study evaluates the feasibility of multiple parallel, narrow-channel fluidized beds in shell-and-plate particle–sCO 2 HXs, to achieve high bed-wall heat fluxes at elevated temperatures. A reduced-order model simulates the narrow- channel, fluidized-bed particle–sCO 2 heat exchanger to design the fluidized bed geometry, in terms of depth, height, and number of channels,for a nominal 40-kWth heat exchanger at particle and sCO 2 inlet temperatures up to 600 °C and 400 °C respectively. The resulting shell-and-plate heat exchanger design operates with bubbling fluidization of the downward-flowing oxide particles to enhance bed-wall heat transfer. The heat exchanger core is fabricated with etched sCO 2 micro-channels in thin wall plates that are diffusion bonded to spacer frames to form the shell-and-plate structure with 12 parallel, fluidized bed channels, 10.4 mm deep. The heat exchanger is tested at the National Solar Thermal Test Facility at Sandia National Laboratories with CARBOBEAD HSP particles at design particle flow rates of 0.20 kg s –1 and inlet temperatures up to 525 °C. Results show that fluidization across multiple parallel channel beds can maintain uniform particle inventory with a common freeboard zone above the heat exchanger core. Bubbling fluidization improves particle–wall heat transfer coefficients but also increases axial dispersion of particle thermal energy, which lowers the log- mean temperature difference such that total heat transfer remains relatively constant to within ±10% over a broad range of fluidization gas velocities. The axial dispersion required particle and sCO 2 flow rates to be increased by 25% over model-designed conditions to achieve the targeted 40 kWth, which indicates the importance of incorporating axial dispersion into heat exchanger design models and of deploying bed structures to suppress it. Furthermore, this study demonstrates the feasibility and preferred fluidizing gas conditions for particle heat exchangers for releasing high-temperature thermal energy storage systems.

14 SOLAR ENERGY↗
DOE OSTI2024

Detecting ecological signatures of long-term human activity across an elevational gradient in the Šumava Mountains, Central Europe

Central European mountains, including the Šumava Mountains located along the Czechia/Germany border, have a long and rich anthropogenic history. Yet, documenting prehistoric human impact in Central European mountain environments remains a challenge because of the need to disentangle climate and human-caused responses in terrestrial systems. Here, we present the first reconstructed water table depths (WTDs) from two sites, Pěkná and Blatenská slať, located in the Šumava Mountains. We compare these local WTD records with new and published pollen, non-pollen palynomorphs (NPPs), plant macrofossils, geochemistry and archeological records to investigate how changes in local hydrology and human activities impacted forest succession and fire activity throughout the Holocene across an elevational gradient. Using a generalized additive model, our results suggest that changes in forest succession and fire activity have been primarily caused by climate throughout the Holocene. However, humans have been utilizing mountain environments and their resources continuously since ∼4600 cal yr BP, thus playing a secondary role in modifying forest succession to increase resources beneficial to both humans and grazers. Over the last 1000 years, we provide evidence of directly observed human-caused modifications to the landscape. These results contribute to a growing body of literature illustrating human activities and landscape modifications in Central European mountains.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Global-Scale Convergence Obscures Inconsistencies in Soil Carbon Change Predicted by Earth System Models

Soil carbon (C) responses to environmental change represent a major source of uncertainty in the global C cycle. Feedbacks between soil C stocks and climate drivers could impact atmospheric CO 2 levels, further altering the climate. Here, we assessed the reliability of Earth system model (ESM) predictions of soil C change using the Coupled Model Intercomparison Project phases 5 and 6 (CMIP5 and CMIP6). ESMs predicted global soil C gains under the high emission scenario, with soils taking up 43.9 Pg (95% CI: 9.2–78.5 Pg) C on average during the 21st century. The variation in global soil C change declined significantly from CMIP5 (with average of 48.4 Pg [95% CI: 2.0–94.9 Pg] C) to CMIP6 models (with average of 39.3 Pg [95% CI: 23.9–54.7 Pg] C). For some models, a small C increase in all biomes contributed to this convergence. For other models, offsetting responses between cold and warm biomes contributed to convergence. Although soil C predictions appeared to converge in CMIP6, the dominant processes driving soil C change at global or biome scales differed among models and in many cases between earlier and later versions of the same model. Random Forest models, for soil carbon dynamics, accounted for more than 63% variation of the global soil C change predicted by CMIP5 ESMs, but only 36% for CMIP6 models. Although most CMIP6 models apparently agree on increased soil C storage during the 21st century, this consensus obscures substantial model disagreement on the mechanisms underlying soil C response, calling into question the reliability of model predictions.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Metal-induced oxidative stress and human plasma protein oxidation after SARS-CoV-2 infection

Pathogenesis of COVID-19 by SARS-CoV-2 resulted in a global pandemic and public health emergency in 2020. Viral infection can induce oxidative stress through reactive oxygen species (ROS). Inflammation and environmental stress are major sources of oxidative stress after infection. Micronutrients such as iron, copper, zinc, and manganese play various roles in human tissues and their imbalance in blood can impact immune responses against pathogens including SARS CoV-2. We hypothesized that alteration of free metal ions during infection and metal-catalyzed oxidation plays a critical role towards pathogenesis after infection. We analyzed convalescent and hospitalized COVID-19 patient plasma using orthogonal analytical techniques to determine redox active metal concentrations, overall protein oxidation, oxidative modifications, and protein levels via proteomics to understand the consequences of metal-induced oxidative stress in COVID-19 plasma proteins. Metal analysis using ICP-MS showed significantly greater concentrations of copper in COVID-19 plasma compared to healthy controls. We demonstrate significantly greater total protein carbonylation, other oxidative modifications, and deamidation of plasma proteins in COVID-19 plasma compared to healthy controls. Proteomics analysis showed that levels of redox active proteins including hemoglobulin were elevated in COVID-19 plasma. Molecular modeling concurred with potential interactions between iron binding proteins and SARS CoV-2 surface proteins. Overall, increased levels of redox active metals and protein oxidation indicate that oxidative stress-induced protein oxidation in COVID-19 may be a consequence of the interactions of SARS-CoV-2 proteins with host cell metal binding proteins resulting in altered cellular homeostasis.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2021

Widespread misregulation of inter-species hybrid transcriptomes due to sex-specific and sex-chromosome regulatory evolution

When gene regulatory networks diverge between species, their dysfunctional expression in inter-species hybrid individuals can create genetic incompatibilities that generate the developmental defects responsible for intrinsic post-zygotic reproductive isolation. Both cis- and trans-acting regulatory divergence can be hastened by directional selection through adaptation, sexual selection, and inter-sexual conflict, in addition to cryptic evolution under stabilizing selection. Dysfunctional sex-biased gene expression, in particular, may provide an important source of sexually-dimorphic genetic incompatibilities. Here, we characterize and compare male and female/hermaphrodite transcriptome profiles for sibling nematode species Caenorhabditis briggsae and C. nigoni, along with allele-specific expression in their F 1 hybrids, to deconvolve features of expression divergence and regulatory dysfunction. Despite evidence of widespread stabilizing selection on gene expression, misexpression of sex-biased genes pervades F 1 hybrids of both sexes. This finding implicates greater fragility of male genetic networks to produce dysfunctional organismal phenotypes. Spermatogenesis genes are especially prone to high divergence in both expression and coding sequences, consistent with a “faster male” model for Haldane’s rule and elevated sterility of hybrid males. Moreover, underdominant expression pervades male-biased genes compared to female-biased and sex-neutral genes and an excess of cis-trans compensatory regulatory divergence for X-linked genes underscores a “large-X effect” for hybrid male expression dysfunction. Extensive regulatory divergence in sex determination pathway genes likely contributes to demasculinization of XX hybrids. The evolution of genetic incompatibilities due to regulatory versus coding sequence divergence, however, are expected to arise in an uncorrelated fashion. This study identifies important differences between the sexes in how regulatory networks diverge to contribute to sex-biases in how genetic incompatibilities manifest during the speciation process.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2022

Data used in “Enguehard et al. 2022, Machine-Learning Functional Zonation Approach for Characterizing Terrestrial–Aquatic Interfaces: Application to Lake Erie”

The package contains the data layers used in “Enguehard et al. 2022, Machine-Learning Functional Zonation Approach for Characterizing Terrestrial–Aquatic Interfaces: Application to Lake Erie”. Spatial data layers include: topography, wetland vegetation cover, time series of Landsat’s enhanced vegetation index (EVI) between 1990 and 2020. The study aims to characterize coastal wetlands with particular focus on the co-variability between plant dynamics, topography, soil, and other environmental factors. We proposed a functional zonation approach based on machine learning clustering to identify the spatial regions, i.e., zones that capture these co-varied properties. This approach was applied to publicly available datasets along Lake Erie, in the Great Lakes Region

54 ENVIRONMENTAL SCIENCES↗