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At least 541 records · Page 30
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

Permafrost Active Layer Microbes From Ny Ålesund, Svalbard (79°N) Show Autotrophic and Heterotrophic Metabolisms With Diverse Carbon-Degrading Enzymes

The active layer of permafrost in Ny Ålesund, Svalbard (79°N) around the Bayelva River in the Leirhaugen glacier moraine is measured as a small net carbon sink at the brink of becoming a carbon source. In many permafrost-dominating ecosystems, microbes in the active layers have been shown to drive organic matter degradation and greenhouse gas production, creating positive feedback on climate change. However, the microbial metabolisms linking the environmental geochemical processes and the populations that perform them have not been fully characterized. In this paper, we present geochemical, enzymatic, and isotopic data paired with 10 Pseudomonas sp. cultures and metagenomic libraries of two active layer soil cores (BPF1 and BPF2) from Ny Ålesund, Svalbard, (79°N). Relative to BPF1, BPF2 had statistically higher C/N ratios (15 ± 1 for BPF1 vs. 29 ± 10 for BPF2; n = 30, p < 10 –5 ), statistically lower organic carbon (2% ± 0.6% for BPF1 vs. 1.6% ± 0.4% for BPF2, p < 0.02), statistically lower nitrogen (0.1% ± 0.03% for BPF1 vs. 0.07% ± 0.02% for BPF2, p < 10 –6 ). The d 13 C values for inorganic carbon did not correlate with those of organic carbon in BPF2, suggesting lower heterotrophic respiration. An increase in the δ 13 C of inorganic carbon with depth either reflects an autotrophic signal or mixing between a heterotrophic source at the surface and a lithotrophic source at depth. Potential enzyme activity of xylosidase and N-acetyl-β-D-glucosaminidase increases twofold at 15°C, relative to 25°C, indicating cold adaptation in the cultures and bulk soil. Potential enzyme activity of leucine aminopeptidase across soils and cultures was two orders of magnitude higher than other tested enzymes, implying that organisms use leucine as a nitrogen and carbon source in this nutrient-limited environment. Besides demonstrating large variability in carbon compositions of permafrost active layer soils only ∼84 m apart, results suggest that the Svalbard active layer microbes are often limited by organic carbon or nitrogen availability and have adaptations to the current environment, and metabolic flexibility to adapt to the warming climate.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Consumer Preferences and Willingness to Pay for Potting Mix with Biochar

Biochar is a co-product of advanced biofuels production from feedstocks including food, agricultural, wood wastes, or dedicated energy crops. Markets for soil amendments using biochar are emerging, but little is known about consumer preferences and willingness to pay (WTP) for these products or the depth of the products’ market potential for this product. This research provides WTP estimates for potting mix amended with 25% biochar, conditioned on consumer demographics and attitudes about product information labeling. Data were collected with an online survey of 577 Tennessee home gardeners. WTP was elicited through a referendum contingent valuation. Consumer WTP for an 8.81 L bag of 25% biochar potting mix is $8.52; a premium of $3.53 over conventional potting mix. Demographics and attitudes toward biofuels and the environment influence WTP. Biochar amounts demanded are projected for the study area’s potential market. Optimal prices, profits, and market shares are estimated across different marginal costs of producing biochar potting mix.

09 BIOMASS FUELS↗
DOE OSTI2024

Patch-level CO2 and CH4 fluxes and porewater concentrations in experimental wetlands, 2 PPT saltwater intrusion simulations, Aug-Oct 2022: Louisiana

This dataset contains carbon dioxide (CO2) and methane (CH4) flux measurements from patches of wetland vegetation dominated by Typha domingensis and Panicum hemitomon, which were conducted to assess flux responses to acute saltwater intrusion. The measurements occurred before, during, and after simulated acute saltwater intrusion events of low concentrations of ~ 2 PPT. The measurements comprise gas fluxes from the wetland surface (i.e., soil-water column and vegetation) and fluxes from the soil-water column exclusively. These two sets of fluxes are separated into two files and are complemented with four more files containing porewater concentrations of CO2 and CH4 collected at 0-5 cm, 10-15 cm, and 20-25 cm depth increments, spectral indices measurements, biomass, and sediment elevation table measurements. The files can be opened with regular text editors or spreadsheet programs.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Monitoring Potential Transport of Radioactive Contaminants in Shallow Ephemeral Channels: FY2019

Desert Research Institute (DRI) conducted a field assessment of the potential for contaminated soil to be transported from the Smoky Site Contamination Area (CA) because of storm runoff. This activity supported U.S. Department of Energy (DOE) Environmental Management Nevada Program (EM NV) efforts to establish post-closure monitoring plans for the Smoky Site Soils Corrective Action Unit (CAU) 550. The work was intended to confirm the likely mechanism of transport and determine the meteorological conditions that might cause the movement of contaminated soils, as well as determine the particle size fraction most closely associated with transported radionuclide-contaminated soils. These data will facilitate the design of the appropriate post-closure monitoring program. In 2011, DRI installed a meteorological monitoring station on the west side of the Smoky Site CA and a hydrologic (runoff) monitoring station within the CA, near the east side. The meteorological station collected air temperature, wind speed, wind direction, relative humidity, precipitation, solar radiation, barometric pressure, soil temperature, and soil water content data. The maximum, minimum, and average or total values (as appropriate) for each of these parameters were recorded for each 10-minute interval. The maximum, minimum, and average water depth in the flume installed at the hydrologic station were also recorded for each 10-minute interval. This report presents the data collected from these stations during fiscal year (FY) 2019. During the FY2019 reporting period, the warmest months were June, July, and August and the coldest were December and February. The highest monthly solar radiation (i.e., sunshine) values were recorded in June, July, and August, whereas December through February had the lowest solar radiation values. Monthly mean wind speeds were highest in the spring (April) and early summer (June). Winds were predominantly from the north, except in February, July, August, and September when winds were mostly from the west. The monthly average relative humidity ranged from 17 percent to approximately 60 percent. Humidity was lowest in the summer and highest in the winter. Monthly total precipitation ranged from 0.0 during August and September to 2.22 inches (in) (56.39 millimeters [mm]) in February. Total precipitation for FY2019 was 7.83 in (198.88 mm). During the reporting period, a single, nonzero, flow event was recorded at the flume. This occurred over two days between March 6 and 7, 2019, in response to 1.16 in (29.46 mm) of precipitation falling within 9.3 hours on March 6, 2019. This event produced a peak water depth of 0.39 in (0.99 centimeters [cm]) in the flume, and runoff was measured for approximately 23.5 hours. However, the maximum recorded flow depth was less than the limit for flow discharge and velocity that can be calculated for the six-inch (15 cm) throat of a Parshall flume. The runoff event produced insufficient flow velocities through the natural channel to cause local erosion and transport of bedload materials. No bedload samples were collected for radiological analysis. Observing meteorological and environmental conditions that lead to storm runoff will help identify the parameters and threshold conditions that should be incorporated into post-closure monitoring plans for this and similar Soils CAU sites. Routine monitoring of meteorological and hydrologic parameters at the Smoky Site CA has been discontinued at the request of EM NV, effective at the conclusion of FY2019. Environmental data acquisition was completed and the meteorological and runoff monitoring stations were removed from the Smoky Site on October 15, 2019.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Alaskan carbon-climate feedbacks will be weaker than inferred from short-term experiments

Climate warming is occurring fastest at high latitudes. Based on short-term field experiments, this warming is projected to stimulate soil organic matter decomposition, and promote a positive feedback to climate change. We show here that the tightly coupled, nonlinear nature of high-latitude ecosystems implies that short-term (<10 year) warming experiments produce emergent ecosystem carbon stock temperature sensitivities inconsistent with emergent multi-decadal responses. We first demonstrate that a well-tested mechanistic ecosystem model accurately represents observed carbon cycle and active layer depth responses to short-term summer warming in four diverse Alaskan sites. We then show that short-term warming manipulations do not capture the non-linear, long-term dynamics of vegetation, and thereby soil organic matter, that occur in response to thermal, hydrological, and nutrient transformations belowground. Our results demonstrate significant spatial heterogeneity in multi-decadal Arctic carbon cycle trajectories and argue for more mechanistic models to improve predictive capabilities.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Alaskan carbon-climate feedbacks will be weaker than inferred from short-term manipulations: Alaskan Benchmark Data and Model runs

This submission aimed to assess differences in short-term step warming manipulations and long-term chronic response to climate change in Alaskan ecosystems. Briefly, climate warming is occurring fastest at high latitudes. Based on short-term field experiments, this warming is projected to stimulate soil organic matter decomposition, and promote a positive feedback to climate change. We show here that the tightly coupled, nonlinear nature of high-latitude ecosystems implies that short-term (< 10 year) warming experiments produce emergent ecosystem carbon stock temperature sensitivities inconsistent with emergent multi-decadal responses. We first demonstrate that a well-tested mechanistic ecosystem model accurately represents observed carbon cycle and active layer depth responses to short-term summer warming in four diverse Alaskan sites. We then show that short-term warming manipulations do not capture the non-linear, long-term dynamics of vegetation, and thereby soil organic matter, that occur in response to thermal, hydrological, and nutrient transformations belowground. Our results demonstrate significant spatial heterogeneity in multi-decadal Arctic carbon cycle trajectories and argue for more mechanistic models to improve predictive capabilities.The model used in the current study is available publicly (https://github.com/jinyun1tang/ECOSYS), and the current submission contains the python/ matlab codes for analyzing output from the model (includng a readme file to explain the codes). The benchmark data, also enclosed, was collected from a range of published and publicly available sources (extracted using GRABIT: https://www.mathworks.com/matlabcentral/fileexchange/7173-grabit). These sources describe warming induced changes in tundra/ boreal ecosystems.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2020

Sensitivity evaluation of the Kudryavtsev permafrost model

Modeling is an important way to assess current and future permafrost spatial distribution and dynamics, especially in data poor areas like the Arctic region. Here, we evaluate a physics-based analytical model, Kudryavtsev's active layer model, which is widely used because it has relatively few data requirements. This model was recently incorporated into a component modeling toolbox, allowing for coupled modeling of permafrost and geomorphic processes over geological timescales. However, systematic quantitative assessment of the influence of its controlling parameters on permafrost temperature and active layer thickness predictions has not been undertaken before. In this work, we investigate the sensitivity of the Kudryavtsev's active layer model by Monte Carlo simulations to generate probability distributions for input parameters and compare predictions with a comprehensive benchmark dataset of in-situ permafrost observations over entire Alaska. Predicted permafrost surface temperature is highly dependent on mean annual air temperature (r = 0.78 on average), annual temperature amplitude (–0.41), and winter-averaged snow thickness (0.30). Uncertainty of predicted permafrost temperature is relatively small (RMSE = 1 °C), when air temperature and snow depth are well constrained. Similarly, RMSE between simulated and observed ALT at stations is ~0.08 m. However, under given air temperature and snow conditions, soil water content bias can significantly affect modeled active layer thickness (RMSE = 0.1 m or 40% of the observed active layer thickness). If soil water content has a large bias, improvements in other parameters may not significantly improve the active layer predictions of the Kudryavtsev's model.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Agreement of Analytical and Simulation-Based Estimates of the Required Land Depth in Climate Models

Previous analytical and simulation-based analyses suggest that deeper land surface models are needed to realistically simulate the terrestrial thermal state in climate models, with implications for land-atmosphere interactions. Analytical approaches mainly focused on the subsurface propagation of harmonics such as the annual temperature signal, and a direct comparison with climate-change model output has been elusive. Here, this study addresses the propagation of a harmonic pulse fitted to represent the timescale and amplitude of anthropogenic warming. Its comparison to land model simulations with stepwise increased bottom boundary depth leads to an agreement between the simulation-based and analytical frameworks for long-term climate trends. Any depth increase gradually decreases the relative error in the subsurface thermodynamics, and a minimum depth of 170 m is recommended to simulate the ground climate adequately. The approach provides an accurate estimate of the required land-model depth for climate-change simulations and assesses the relative bias in insufficiently deep land models.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Seismic Ambient Noise Analyses Reveal Changing Temperature and Water Signals to 10s of Meters Depth in the Critical Zone

The critical zone sustains terrestrial life, but we have few tools to explore it efficiently beyond the first few meters of the subsurface. Using analyses of high-frequency ambient seismic noise from densely spaced seismometers deployed in the forested Shale Hills subcatchment of the Susquehanna Shale Hills Critical Zone Observatory (SSHCZO), we show that temporal changes in seismic velocities at depths from ~1 m to tens of m can be detected. Furthermore, these changes are driven by variations at the land surface. The Moving-Window Cross-Spectral (MWCS) method was employed to measure seismic-velocity changes in coda waves at hourly resolution in 10 different frequency bands. We observed a diurnal signal, a seasonal signal, and a meteorological-event-based signal. These signals were compared to time-series measurements of precipitation, well water levels, soil moisture, soil temperature, air temperature, latent heat flux, and air pressure in the heavily instrumented catchment. Most of the velocity changes can be explained by variations in temperature that result in thermoelastic strains that propagate to depth. But some double minima in seismic velocity time-series observed after large rain events were attributed in part to the effects of water infiltration. These results show that high-frequency ambient noise data may in some locations be used to detect changes in the critical zone from ~1 to ~100 m or greater depth with hourly resolution. But interpretation of such data requires multiple environmental data sets to deconvolve the complex interrelationships among thermoelastic and hydrological effects in the subsurface critical zone.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Deep root activity overprints weathering of petrogenic organic carbon in shale

The oxidation of organic carbon in sedimentary bedrock (petrogenic OC, OC petro ) is increasingly recognized as a potential source of CO 2 to the atmosphere. Recent studies provide evidence for the mobilization and oxidation of OC petro in sedimentary bedrock during rock weathering. However, the mechanisms and rates remain uncertain, particularly where overlying soils and vegetation drive contemporaneous oxidation of recently fixed organic carbon. Here, in this study, we quantify OC petro weathering across a 16 m shale depth profile in a steep, rapidly eroding forested hillslope in the Northern California Coast Ranges. We report solid and gas phase radiocarbon and stable isotope analyses of samples extracted from specialized in-situ samplers, and a supporting laboratory incubation experiment of the shale regolith. OC petro is removed from the weathered bedrock at a rate of approximately 0.12 gC/m 3 yr, which is orders of magnitude lower than the rate of OC petro oxidation we achieved in the laboratory with crushed samples (557.1 gC/m 3 yr). This disparity occurs despite high O 2(g) content across the depth profile, indicating that physical accessibility of OC petro can regulate oxidative weathering. There is no direct radiocarbon evidence of OC petro oxidation in CO 2(g) across the upper 13 m of the weathering profile during both wet and dry seasons. Instead, vadose zone CO 2(g) production at the site is dominated by respiration of recently fixed carbon associated with deep rooting. OC petro is clearly mobilized across the vadose zone during weathering in this rapidly eroding, oxygen-rich, biologically dynamic hillslope, but at rates far below what can be measured given the contribution of root-derived CO 2(g) .

58 GEOSCIENCES↗
DOE OSTI2022

Uranium sorption to organic matter and long-term accumulation in a pristine alpine wetland

Understanding the controls on uranium (U) mobility in the environment is key to improve the management of sites contaminated by U mining activities. Previous research has shown that natural or engineered wetlands are particularly able to scavenge high amounts of U(VI) and U(IV) under noncrystalline forms. However, questions remain on the respective roles of sorption and reduction processes in the removal of U from running waters in wetlands, as well as on the long-term stability of U storage. Here, we performed a series of geochemical, isotopic ($δ$ 238 U, ( 234 U/ 238 U)), microscopic (SEM-EDXS, EPMA) and spectroscopic (µ-XRF, µ-XAS, XANES and EXAFS at the U L 3 and M 4 -edges and Fe K-edge) investigations to determine the modes of U accumulation and assess U mobility in a natural exceptionally U-enriched (up to 5000 µg/g) wetland on the shore of Lake Nègre (Mediterranean Alps, France). Uranium (VI) was largely dominant in the two studied soil cores, except a few samples containing as much as ~50 % U(IV). At the particle scale, U is associated to a variety of organic constituents of the soil matrix with a homogenous oxidation state. Bulk EXAFS spectroscopy at the U L 3 -edge shows that U is mostly mononuclear, with dominant monodentate binding to organic moieties (C neighbors at ~3.45 Å). An additional minor fraction of U under polymeric forms is inferred from wavelet (CCWT) analysis of the EXAFS data. These observations are reinforced by 1 M bicarbonate extractions that result in the dissolution of 82–96 % of total U, including putative polymeric species. At the wetland scale, similar or slightly fractionated isotopic ratios ($δ$ 238 U) between the wetland-feeding creek waters and the wetland soils are observed, supporting the idea that U(VI) sorption on organic matter is the primary U scavenging mechanism. Furthermore, it indicates that partial U(VI) reduction to U(IV) occurs as a second step, after sorption. Analysis of U decay chain disequilibria in the cores as a function of depth suggests that U accumulation in this wetland has lasted for several thousand years. In conclusion, we propose that the wetland acts as an active reactor where U has been massively accumulating for ~14500 years, especially as U(VI) forms associated to organic matter and is further partly exported to the lake through soil erosion.

63 RADIATION, THERMAL, AND OTHER ENVIRON. POLLUTAN↗
DOE OSTI2025

Large emissions of CO 2 and CH 4 due to active-layer warming in Arctic tundra

Climate warming may accelerate decomposition of Arctic soil carbon, but few controlled experiments have manipulated the entire active layer. To determine surface-atmosphere fluxes of carbon dioxide and methane under anticipated end-of-century warming, here we used heating rods to warm (by 3.8 °C) to the depth of permafrost in polygonal tundra in $Utqia\dot{g}vik$ (formerly Barrow), Alaska and measured fluxes over two growing seasons. We show that ecosystem respiration is ~30% higher in warmed plots than in control plots (0.99 μmol m -2 s -1 versus 0.67 μmol m -2 s -1 , p < 0.0001, n = 79). Additionally, the observed temperature sensitivity (Q 10 of 2.8) is higher than that imposed for soil in Earth system models or reported by arctic experiments warming only the surface. A shoulder-season warming experiment revealed that rapid snow melt, which is becoming a more common event, can result in large methane emissions that may have otherwise been oxidized to carbon dioxide. Thus, warming promotes greenhouse gas emissions from the whole, deepening active layer and may contribute to climate change amplification.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Assessing Nutrient and Carbon Responses to Agricultural Conservation Practices in Two Midwest Watersheds

The United States is undertaking efforts to transition to a low-carbon economy in response to the heightened impacts of climate change, which are largely attributed to decades of carbon-intensive development. A concerted effort by the energy sector to achieve net-zero carbon emissions is aimed at strategically reducing the carbon footprint of the energy supply chain, particularly in the production of feedstocks for biofuels. The production of biofuels relies heavily on land use and management practices in biomass cultivation. Among other factors, soil organic carbon (SOC) plays a crucial role in the biofuel carbon cycle, impacting land productivity, greenhouse gas emissions, and water quality. The process of carbon drawdown during plant growth and storage helps to mitigate the release of carbon dioxide (CO 2 ) into the atmosphere. Another key parameter is the release of nitrous oxide (N 2 O) — a potent greenhouse gas with a global warming potential 273 times that of CO 2 — from soil. While prioritizing low-carbon production, sustainable bioenergy also necessitates improved water quality and ecosystem services. Agricultural conservation practices can contribute to enhanced soil health and reduce nutrient and sediment loss into streams. However, studies that explore the broader impact of these practices on soil carbon storage and N 2 O emissions at a watershed scale are limited. Specifically, our understanding of how low-carbon feedstock production and management affect nutrient cycle dynamics is incomplete. This study assesses watershed responses to land management practices in two agriculturally dominant watersheds: the Raccoon River watershed and the Southfork of Iowa River watershed. The study focuses on carbon and nutrient dynamics, characterizing spatial and temporal variations in SOC, N 2 O, and nutrient loadings to examine the relationship between nutrient and carbon responses and agricultural conservation practices. The study employs the newly developed Soil Water Analysis Tool for Carbon (SWAT-C) model, calibrated using 20 years’ of climate and water monitoring data, to simulate and evaluate two agricultural conservation practices: no-till and crop residue harvest with cover crop planting. We compared the calibrated SWAT-C model with a historical baseline model, which allowed us to analyze various aspects of the watershed, including stream flow, suspended sediments, nitrogen, phosphorus, organic carbon, SOC at different depths, and N 2 O emissions from topsoil. Our SWAT-C modeling results indicate that, compared with results from the historical baseline model, no-till practices are positively correlated with SOC accumulation, reduced N 2 O emissions, and decreased soil loss. We also observed no change or slightly increased nitrogen and phosphorus loss to water bodies in the watersheds compared with the baseline. Conversely, crop residue harvest with cover crop planting improved water quality by reducing nutrient and soil losses but also increased N 2 O emissions. This SWAT-C modeling study establishes the groundwork for further smaller-scale and/or sub-basin-level assessments of nitrogen, phosphorus, and carbon cycles. It provides valuable science-based insights to inform policy decisions — particularly in the context of transitioning to biofuel feedstock production in these watersheds — by addressing concerns about nutrient exports to local water bodies and, ultimately, the Mississippi River.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Soil water percolation and nutrient fluxes as a function of topographical, seasonal and soil texture variation in Central Amazonia, Brazil

Abstract Understanding soil water dynamics and transport of nutrients is challenging in tropical rainforests due to the uniqueness of several properties related to soils, vegetation and seasonality that make relating patterns found in temperate environments to tropical sites difficult. We address the need for better edaphic characterization in tropical environments by investigating soil water percolation rates and chemistry across topographic, soil texture and seasonal gradients in a mature tropical rainforest in Central Amazonia, Brazil. We utilized a passive wick flux meter (e.g., drainage lysimeter) to directly measure real‐time percolation fluxes at 60‐cm depth, and to sample a suite of chemical species across plateau, slope and valley topographic positions. We found percolation flux volume and chemical exports generally increase with decreasing elevation and clay content, which was lowest in the valley. Daily percolation flux was observed to be 2.39 ± 0.44 in plateau, 3.01 ± 0.50 in slope and 6.16 ± 0.83 mm in valley. Most solutes were present in small amounts of <1 mg L −1 , such as PO₄ 3− , Fe 2+ /Fe 3+ and Mn 2+ ; however, NO 3 − concentrations were >20 mg L −1 , even exceeding 100 mg L −1 in the valley. Based on additional isotopic analysis, we speculate high NO 3 − concentrations are partially an artefact of root decomposition following installation of the flux meters. The empirical relationships we show among percolation volume and nutrient exports under varying topographies and soil textures can improve Earth System Model performance by better constraining ecohydrological relationships to nutrient fluxes, which can in‐turn better illuminate the important factors that govern their behaviour.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

Propagation of viral genomes by replicating ammonia-oxidising archaea during soil nitrification

Ammonia-oxidising archaea (AOA) are a ubiquitous component of microbial communities and dominate the first stage of nitrification in some soils. While we are beginning to understand soil virus dynamics, we have no knowledge of the composition or activity of those infecting nitrifiers or their potential to influence processes. This study aimed to characterise viruses having infected autotrophic AOA in two nitrifying soils of contrasting pH by following transfer of assimilated CO 2 -derived 13 C from host to virus via DNA stable-isotope probing and metagenomic analysis. Incorporation of 13 C into low GC mol% AOA and virus genomes increased DNA buoyant density in CsCl gradients but resulted in co-migration with dominant non-enriched high GC mol% genomes, reducing sequencing depth and contig assembly. We therefore developed a hybrid approach where AOA and virus genomes were assembled from low buoyant density DNA with subsequent mapping of 13 C isotopically enriched high buoyant density DNA reads to identify activity of AOA. Metagenome-assembled genomes were different between the two soils and represented a broad diversity of active populations. Sixty-four AOA-infecting viral operational taxonomic units (vOTUs) were identified with no clear relatedness to previously characterised prokaryote viruses. These vOTUs were also distinct between soils, with 42% enriched in 13 C derived from hosts. The majority were predicted as capable of lysogeny and auxiliary metabolic genes included an AOA-specific multicopper oxidase suggesting infection may augment copper uptake essential for central metabolic functioning. These findings indicate virus infection of AOA may be a frequent process during nitrification with potential to influence host physiology and activity.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2026

SPRUCE Soil Volumetric Water Content in Experimental Plots, Marcell Experimental Forest, Minnesota, 2017-2025

This dataset contains soil volumetric water content (VWC) measurements from the Spruce and Peatland Responses Under Changing Environments (SPRUCE) Experiment. Measurements were made inside SPRUCE experimental plots in the S1 Bog at the US Forest Service Marcell Experimental Forest in northern Minnesota, USA from 2018-2025 (2018-06-14 to 2025-12-31). Observations were made with METER 10HS soil moisture sensors. To reduce bulk density related variability, 10HS sensors were placed inside mesh tubes filled with peat at a standard bulk density. The observations under standard bulk density represent relative differences in water content between hummock and hollow positions, and in response to experimental treatments. Productivity of peatlands, and their keystone species sphagnum, are highly dependent on water availability, which is affected by lateral inputs, precipitation, ground water depth and evapotranspiration. Knowledge of near surface and sphagnum water content is useful to understand peatland function. This dataset contains 8 data files in comma-separate values (.csv) format. Additional metadata are provided: one data dictionary and a file-level metadata file in comma-separate values (*.csv) format and a user guide in PDF (*.pdf) format.

Warren, Jeffrey [ORNL] (ORCID:0000000206804697)↗
DOE OSTI2024

Measurements of soil protist richness and community composition are influenced by primer pair, annealing temperature, and bioinformatics choices

ABSTRACT Protists are a diverse and understudied group of microbial eukaryotic organisms especially in terrestrial environments. Advances in molecular methods are increasing our understanding of the distribution and functions of these creatures; however, there is a vast array of choices researchers make including barcoding genes, primer pairs, PCR settings, and bioinformatic options that can impact the outcome of protist community surveys. Here, we tested four commonly used primer pairs targeting the V4 and V9 regions of the 18S rRNA gene using different PCR annealing temperatures and processed the sequences with different bioinformatic parameters in 10 diverse soils to evaluate how primer pair, amplification parameters, and bioinformatic choices influence the composition and richness of protist and non-protist taxa using Illumina sequencing. Our results showed that annealing temperature influenced sequencing depth and protist taxon richness for most primer pairs, and that merging forward and reverse sequencing reads for the V4 primer pairs dramatically reduced the number of sequences and taxon richness of protists. The data sets of primers that targeted the same 18S rRNA gene region (e.g., V4 or V9) had similar protist community compositions; however, data sets from primers targeting the V4 18S rRNA gene region detected a greater number of protist taxa compared to those prepared with primers targeting the V9 18S rRNA region. There was limited overlap of protist taxa between data sets targeting the two different gene regions (80/549 taxa). Together, we show that laboratory and bioinformatic choices can substantially affect the results and conclusions about protist diversity and community composition using metabarcoding. IMPORTANCE Ecosystem functioning is driven by the activity and interactions of the microbial community, in both aquatic and terrestrial environments. Protists are a group of highly diverse, mostly unicellular microbes whose identity and roles in terrestrial ecosystem ecology have been largely ignored until recently. This study highlights the importance of choices researchers make, such as primer pair, on the results and conclusions about protist diversity and community composition in soils. In order to better understand the roles protist taxa play in terrestrial ecosystems, biases in methodological and analytical choices should be understood and acknowledged.

Biotechnology & Applied Microbiology↗