SEARCH · Engineering Papers
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.
Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.
This is the AmeriFlux version of the carbon flux data for the site US-UR3 Ft. Bridger - UCRB. Site Description - This site is located in Fort Bridger, Wyoming, within a flat grassland pasture. The region experiences cold winters with significant snow cover and mild summers. The land is primarily used for grazing, which influences both the vegetation and ecosystem.
This is the AmeriFlux version of the carbon flux data for the site US-UR7 Olathe - UCRB. Site Description - This site is located in Olathe, Colorado, within a flat terrain, and is characterized by a grassland ecosystem. The region has a humid continental climate, with warm summers and cold winters.
This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site US-SHC Sagehen Creek Field Station. This is the FLUXNET version of the carbon flux data for the site US-SHC Sagehen Creek Field Station produced by applying the standard ONEFlux (1F) software. Site Description - This tower is located at the Sagehen Creek Field Station of UC Berkeley. The 30m tower near the station has been used for meteorological measurements since at least 2006 and EC flux measurements were started in late June 2017. The area is dominated by coniferous forest with patches of grassland in between.
This is the AmeriFlux version of the carbon flux data for the site US-BFS Robert J. Bernard Biological Field Station. Site Description - The Bernard Field Station (BFS), an 86-acre academic resource of the Claremont University Consortium, is situated within the campus of The Claremont Colleges in Claremont, CA. Its principal habitats comprise coastal sage scrub, Riversidian alluvial fan scrub, live oak forest, and grassland. The eddy covariance tower is located in the 'neck' of the field station, home to a protected area of Coastal Sage Scrub, dominated by Artemisia californica. BFS is within walking distance of Harvey Mudd College, serving as an invaluable outdoor laboratory resource for the students. With extensive flora and fauna, including over 170 species of birds, 27 species of mammals, and more than 700 species of insects, it embodies a significant ecological haven in the region that is otherwise Southern California suburbs.
This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site PR-xLA NEON Lajas Experimental Station (LAJA). This is the FLUXNET version of the carbon flux data for the site PR-xLA NEON Lajas Experimental Station (LAJA) produced by applying the standard ONEFlux (1F) software. Site Description - The NEON Lajas Experimental Station (LAJA) site is located on the southwest corner of the main island of Puerto Rico in a experimental range. This is a grassland site that is periodically grazed by cattle.
This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site US-Dk1 Duke Forest-open field. This is the FLUXNET version of the carbon flux data for the site US-Dk1 Duke Forest-open field produced by applying the standard ONEFlux (1F) software. Site Description - The Duke Forest grass field is approximately 480×305 m, dominated by the C3 grass Festuca arundinacea Shreb. (tall fescue) includes minor components of C3 herbs and the C4 grass Schizachyrium scoparium (Michx.) Nash, not considered here. The site was burned in 1979 and is mowed annually during the summer for hay according to local practices. Lai, C.T. and G.G. Katul, 2000, "The dynamic role of root-water uptake in coupling potential to actual transpiration" , Advances in Water Resources, 23, 427-439; Novick , K.A., P. C. Stoy, G. G. Katul, D. S. Ellsworth, M. B. S. Siqueira, J. Juang, R. Oren, 2004, Carbon dioxide and water vapor exchange in a warm temperate grassland, Oecologia, 138, 259-274; Stoy PC, Katul GG, Siqueira MBS, Juang J-Y, McCarthy HR, Oishi AC, Uebelherr JM, Kim H-S, Oren R (2006). Separating the effects of climate and vegetation on evapotranspiration along a successional chronosequence in the southeastern U.S. Global Change Biology 12:2115-2135
This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site US-CMW Charleston Mesquite Woodland. This is the FLUXNET version of the carbon flux data for the site US-CMW Charleston Mesquite Woodland produced by applying the standard ONEFlux (1F) software. Site Description - Site is a riparian mesquite woodland located along an old alluvial terrace along the banks of the San Pedro River in southeastern Arizona. Site climate is semiarid with monsoonal (Jul-Sep) rainfall. The mesquite trees access groundwater from an alluvial aquifer recharged elsewhere. Site water balance is not closed and ET greatly exceeds precipitation. The understory grasses and forbs are rainfall dependent. This groundwater-dependent ecosystem is far more ebulliant and productive than the upland vegetation around it (shrublands and grasslands).
Lawrence Livermore National Laboratory (LLNL), operated under cooperative agreement between the University of California and the U. S. Department of Energy, administers and operates an approximately 11 mi2 (2$ km2) test site in the remote hills at the northern end of the South Coast Ranges of Central California. Known as Site 300, this expanse of rolling hills and canyons supports a diverse array of grassland communities typical of lowland central California. The facility serves a variety of functions related to testing non-nuclear explosives, lasers, and weapons subsystems. The primary purpose of this project was to determine the presence of any mesocamivores on Site 300 that use the property for foraging, denning, and other related activities. The surveys occurred from mid-September to mid-October, 2002.
In the 1970s, growing concern about potential long-range consequences of carbon dioxide (CO 2 ) emissions from the combustion of fossil fuels prompted the U.S. Department of Energy (DOE) to begin developing a CO 2 research program. The goal was to obtain the scientific information needed to reduce uncertainty and develop a knowledgebase for decision-making. At its start in 1980, this program had three components: the global carbon cycle, climate effects, and vegetation effects. The vegetation effects component recognized that increased atmospheric CO 2 could be a potential benefit to vegetation and crops because CO 2 is an essential resource for plant growth. In addition to increasing crop yield, program developers and researchers recognized that this fertilizer effect could also result in greater storage of fossil fuel CO 2 by forests. Initial experiments were small in scale and scope and focused on the photosynthesis, physiology, and water use of crop plants, but the focus shifted toward responses of plants in natural systems, as needed for connections to the global carbon cycle. Program research investigated CO 2 interactions with other environmental variables, emphasizing field research whenever possible and recognizing that exposure to elevated CO 2 concentrations under realistic field conditions should lead to better predictions of plant response. Whole-ecosystem field experiments were instituted in low-stature ecosystems, but experiments to address forest responses necessarily relied on tree seedlings or saplings in open-top chambers (OTCs) and not within intact forest ecosystems. The need for larger-scale, longer-duration experiments in each of the world’s six major biomes (tundra, boreal forest, temperate forest, tropical forest, grassland, and desert) became clear, and for these experiments, free-air CO 2 exposure facilities were necessary. This report summarizes the objectives and main results of DOE-sponsored experiments employing such facilities, along with the outcomes from research on ecosystem responses using field chambers (see Fig. ES.1, p. x). Additionally, this report highlights the many successes of DOE CO 2 enrichment studies and considers the lessons learned that can be used to guide future initiatives.
The United States recently launched the Net Zero World Initiative on decarbonization. As temperatures and sea levels rise, strong action is needed to mitigate high atmospheric CO 2 levels. In response to this need, a joint workshop between the US Department of Energy’s Oak Ridge National Laboratory (ORNL) and Lawrence Berkeley National Laboratory (LBNL) was convened to assess the challenges and opportunities within biological carbon (C) capture. The virtual workshop on Biological Carbon Sequestration for Climate and Soil Health focused on three aspects of biological C capture research: natural systems, engineered systems, and modeling. For this workshop, the scope of natural systems included unmanaged (e.g., grasslands, wetlands, natural forests) and managed (e.g., agricultural lands, commercial forests, forest biofuels) ecosystems. The engineered systems group covered topics in genetically modified plants and microbes, synthetic microbiomes, and altered plant–microbe interactions for enhancing C capture, storage, and utilization. The modeling group focused on computational tools and data collection to predict and assess the effectiveness of new biocarbon sequestration advances. Participant expertise included plant and microbial systems biology, synthetic biology, soil biogeochemistry, and techno-economic analysis. Together, participants outlined key scientific advances in support of biological C capture and storage. Among the major findings of the meeting were the need to better measure C flux within natural, agricultural, and fabricated ecosystems for experimentation; better understand the role of soil composition, plant roots, and the rhizosphere (i.e., the soil surrounding the plant root) in the underground storage of organic C; and design plant–microbe systems for maximal C storage.
Ensemble-based approaches to prescribed fire planning cannot be supported by computational fluid dynamics based models like FIRETEC and the Wildland-Urban Interface Fire Dynamics Simulator (WFDS) because they are too computationally expensive and cannot leverage large eddy simulation approaches like CAWFE and WRF-SFIRE because they have too coarse of resolution. QUIC-Fire was developed to fill this gap but it cannot currently address complex terrain, that is typical for instance in the Western United States. This dissertation describes a variety of improvements made to QUIC-Fire and its various incorporated algorithms in an effort to make it a viable tool in simulating wildland and prescribed fires on terrain. The modifications made to QUIC-Fire are described in three chapters. The first chapter describes the extension of the diagnostic wind model QUIC-URB, the wind engine of QUIC-Fire, to a terrain-following coordinate system. The terraininfluenced winds it generates are analyzed and compared. In particular, this chapter presents the mathematical derivation of the wind solver leading to a linear system of equations that are solved through the successive over-relaxation method. The model is validated against a standard test used in previous works (the Askervein Hill) and against a new dataset from measurements in the Socorro Mountains, New Mexico. The terrain-following implementation captures the correct phenomenology for the isolated Askervein Hill, with a wind speed up at the top of the hill. The model agrees well with measurements on the upwind side of the peak, but overestimates speed-up on the downwind side of the hill. This is due to the inability of the model to generate flow separation and wake-eddy dynamics. On a common laptop, the divergence-free wind field is obtained in 6 s, making the solver appealing for coupled fire-atmosphere simulations. The Socorro Mountain is highly complex, with many cliff faces, peaks, and valleys. Although the model captures the magnitude and direction of inlet and outlet areas of the domain, it performs rather poorly in the valley region and in the regions near the steep cliffs. Hence, the model shows good agreement with data in areas of open sloped terrain but lacks in areas where flow separation and thermally driven effects may be present (neither effect is addressed in this work). In the second chapter the implementation of the terrain-following version of QUIC-URB into QUIC-Fire, and the necessary changes needed to include terrain are described. No changes to the underlying fire spread algorithm are made other than what is required to correctly account for the inclusion of terrain. Previously published FIRETEC results that use five different topographies that share the same centerline profile are compared to simulation results from the modified QUIC-Fire that use the same topographies and fuels. QUIC-Fire results show overall similar behaviors in terms of how the topographies affect fire shapes and trends in spread rates. Due to the terrain-following version of QUIC-URB being unable to generate flow separations at the crest of hills, fire spread rates in these regions across all topographies are over-predicted when compared to FIRETEC. Lateral fire growth shows similar trends with FIRETEC between topographies but does not capture the increase in spread due to a diagonal interface between grassland and forested fuel region of the domain. These results suggest that there are three algorithms within QUIC-Fire that could use improvement: how flame tilt angle is accounted for, the incorporation of non-local drag effects, and the inclusion of the wake-eddy parameterizations that are used in QUIC-URB. Lastly, the third chapter describes a modification to the initial guess used for the calculation of the QUIC-URB mass-conserved wind solution during fire simulations. The modification is aimed at improving fire-fire interactions in QUIC-Fire simulations. The modification consists of using the solution from the previous timestep as the starting point for the calculation of the solution for the next timestep. Fire-fire interactions is greatly improved by the change but a new source of error is introduced. Due to how plumes are modelled in QUIC-Fire the new solution contains errors where gaps in the plume structure are present. However, these errors are mostly limited to the upper atmosphere, where they do not affect fire behavior at the surface, and their magnitude isn’t significant enough to discount the amount of new fire phenomenology now captured in QUIC-Fire with the change.
The Characterization of Orography-Influenced Riming and Secondary Ice Production and Their Effects on Precipitation Rates Using Radar Polarimetry and Doppler Spectra (CORSIPP) project was conducted to help improve the understanding of precipitation formation in orographically influenced terrain. Special focus is put on the two processes of riming and secondary ice production and their external drivers. Two instruments, a polarimetric W-band simultaneous transmission simultaneous reception (STSR) Doppler cloud radar manufactured by Radiometer Physics GmbH (RPG, instrument type RPG-FMCW-94-DP), from now on named LIMRAD94, and the video in situ snowfall sensor (VISSS), were deployed at the U. S. Department of Energy Atmospheric Radiation Measurement (ARM) user facility’s Surface Atmosphere Integrated Field Laboratory (SAIL) site in Gothic, Colorado between November 2022 and June 2023 during the second SAIL winter. Note that the exact dates of data availability differ between the instruments. Both instruments arrived at Gothic on November 2, 2022, 09:20 local time. VISSS, described by Maahn et al., is equipped with two camera systems with telecentric lenses. The two cameras are at a 90° angle to each other. This configuration allows for size-independent measurements by capturing images of hydrometeors from two sides at a high frame rate of 250 Hz. With a minimum detection size of 200 μm, VISSS provides valuable insights into particle size, number, shape, complexity, and fall velocity. The VISSS was deployed on the grassland next to the ARM facility with the amazing help of the ARM employees on site. The setup started on November 2, 2022, and was finished on November 5, 2022, without major problems. VISSS measurements were started on November 6, 2022. LIMRAD94 was installed on a scaffolding platform near Orehouse (Gothic) on November 9, 2022, with the great help of RMBL staff. LIMRAD94 was mounted on a cold temperature scanner prototype. After a short test of the setup on November 9, 2022, the digital control of the scanner elevation stopped working for (at that time) unknown reasons. All attempts to resolve the problem failed. This malfunction made it impossible to operate LIMRAD94 in scanning mode. The scanner was then manually moved to zenith pointing mode and between November 10 and November 15, 2022, vertical observations for polarimetric calibration were performed. On November 15, 2022, after the polarimetric calibration was applied, the scanner was manually moved to 40° elevation with azimuthal view towards the Ka-band ARM Zenith Radar (KAZR) and measurements were continued at constant elevation. Investigation of the scanner malfunction on February 6, 2023, by Benn Schmatz revealed a disengagement between the cogwheel of the elevation motor and the cogwheel moving the scanner in elevation. This mechanical issue was temporarily solved by re-engaging the cogwheels. This made the scanner operational again for about four weeks, until mechanical force disengaged the cogwheels again on March 15, 2023. This repeated scanner failure remained undetected for about three weeks until April 8, 2023; during this time the scanner was stuck at 72° elevation. However, the radar software continued to produce data files falsely indicating that the scanner was still operational. After the scanner failure was noticed, scanning was stopped again, and we returned to constant elevation measurements. On May 15, 2023, the cogwheels of the elevation motor were secured with additional screws sent by the manufacturer. At some point in May, the cogwheels of the azimuth motor were also disengaged by mechanical force, which still allowed for range height indicator (RHI) but no plan position indicator (PPI) scans in the last weeks of the campaign. The azimuth motor was repaired in Germany after the end of the campaign. Throughout the campaign, RMBL and ARM staff kept the radar and the VISSS free of snow.
This dataset contains soil microbial biomass data compiled from published laboratory studies and field manipulations of organic inputs to soils. Each study included at least three levels of a given type of organic input applied to a given type of soil. Studies were selected from the literature that had experimentally manipulated organic input rates to soils using unburned, non-synthetic material (e.g. plant litters, manures, and composts). Fifty-five (55) studies, conducted from 1997 to October 2019, were chosen and compiled into a dataset with 358 observations from 96 combinations of a given organic material applied to a given soil in agricultural systems, laboratory incubations, forests, or grasslands. • Studies were selected when biomass measurements used the chloroform fumigation-extraction procedure followed by carbon analysis, or, in two instances, studies estimated microbial biomass using phospholipid fatty acid analysis. • Studies that used fewer than three input rates or characterized microbial biomass via substrate induced respiration were excluded. • The temporal and spatial aspects of the laboratory and field studies were not essential to the analyses (Craig et al., 2021) and were not included with the measurement data. These data were used to assess the relationship between organic input amounts and microbial biomass. Complete reference citations are provided if additional information is needed. The compiled data are provided in two .csv files: (1) soil treatments and microbial biomass data and (2) literature citations. The “Study” field is the cross reference between files. Also provided is the R code for reproducing the results in the related publication.
Please cite as : Josué A. Rodríguez-Ramos, Amy E. Zimmerman, Ruonan Wu, Sheryl Bell, Trinidad Alfaro, Kirsten Hofmockel, William C. Nelson. 2025. Inter-Kingdom Viral Interactions. [Data Set] PNNL DataHub. This data is published under a CC0 license. The authors encourage data reuse and request attribution by referencing the above citations for the data package and associated manuscript. Deciphering viral ecology in soils is challenging due to their high physiochemical and community complexity. To enhance detection of sub-communities of DNA and RNA viruses, we applied fractionation approaches to soils collected across a moisture gradient from a grassland field experiment. Analyses included metagenomics and metatranscriptomics of size-fractionated extracellular viruses (i.e., DNA and RNA viromes), metagenomics of bacteria/archaea- or eukaryote-enriched samples, and whole soil metatranscriptomes with rRNA-depletion or polyadenylation enrichment. While RNA virome and whole soil RNA methods captured similar viral diversity, RNA viromes identified longer, higher-quality genomes. Further, we showed that significantly more DNA viruses were active in higher moisture than lower moisture samples, whereas responses by overall diversity vary by genome type (DNA versus RNA genomes). Finally, we demonstrate the power of fractionation approaches for identifying distinct viral communities that infect unique hosts, which has significant implications for ecological investigations, particularly related to interkingdom interactions.
Soil samples were collected in triplicate in the Fall of 2017 across the three grassland locations having differences in historical annual precipitation (WA-TmG.1.0, KS-TmG.1.0, and IA-TmG.1.0). For each location, one deeply sequenced composite metagenome (> 1 terabase) were screened for viruses,In addition, each of the three field soil samples were individually sequenced to provide three replicate metagenomes (WA-TmG.2.0, KS-TmG.2.0, and IA-TmG.2.0) for statistical comparison in addition to screening for viral soil contigs for assessing the impact of historical annual precipitation.
The novel fungal strain, Fusarium sp. DS 682, was isolated from the rhizosphere of the perennial grass, Bouteloua gracilis, at the Konza Prairie Biological Station in Kansas. This fungal strain is common across North American grasslands and is resilient to environmental fluctuations. The draft genome is estimated to be 97.2% complete.
Model Soil Consortium 2 (MSC-2) bacterial isolate genome collections are derived from the soil consortium MSC-1 multi-species cultured isolate genome collections from a previously reported WA-IsoC_MSC1.1.0 collection of a naturally evolved, model soil consortia (10.25584/WAIsoCMSC1/1635272). This collection contains 8 different isolate species cultivated under variable carbon and nitrogen sources, originating from the IAREC grassland soil field site located in Prosser, WA, USA. Genomic sequencing of one or more organisms, or genomes in general, such as meta-information on genomes, genome projects, gene names of a given organism within a natural environment. The version described here is the first version.
The soil microbiome is central to the cycling of carbon and other nutrients and to the promotion of plant growth. Despite its importance, analysis of the soil microbiome is difficult due to its sheer complexity, with thousands of interacting species. Here, we reduced this complexity by developing model soil microbial consortia that are simpler and more amenable to experimental analysis but still represent important microbial functions of the native soil ecosystem. Samples were collected from an arid grassland soil and microbial communities (consisting mainly of bacterial species) were enriched on agar plates containing chitin as the main carbon source. Chitin was chosen because it is an abundant carbon and nitrogen polymer in soil that often requires the coordinated action of several microorganisms for complete metabolic degradation. Several soil consortia were derived that had tractable richness (30-50 OTUs) with diverse phyla representative of the native soil, including Actinobacteria, Bacteroidetes, Firmicutes, Proteobacteria and Verrucomicrobia. The resulting consortia can be stored as glycerol or lyophilized stocks at -80° C and revived while retaining community composition, greatly increasing their use as tools for the research community at large. One of the consortia that was particularly stable was chosen as a model soil consortium (MSC-1) for further analysis. MSC-1 species interactions were studied using both pairwise co-cultivation in liquid media and during growth in soil under several perturbations. Co-abundance analyses highlighted interspecies interactions and helped to define keystone species, including Mycobacterium, Rhodococcus, and Rhizobiales taxa. These experiments demonstrate the success of an approach based on naturally enriching a community of interacting species that can be stored, revived, and shared. The knowledge gained from querying these communities and their interactions will enable better understanding of the soil microbiome and the roles these interactions play in this environment.