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At least 37 records · Page 2
All sourcesNASA NTRSDOE OSTI
DOE OSTI2022

Chronological changes in soil biogeochemical properties of the glacier foreland of Midtre Lovénbreen, Svalbard, attributed to soil-forming factors

We report that Glacier forelands provide an excellent opportunity to investigate vegetation succession and soil development along the chronosequence; however, there are few studies on soil biogeochemical changes from environmental factors, aside from time. This study aimed to investigate soil development and biogeochemical changes in the glacier foreland of Midtre Lovenbreen, Svalbard, by considering various factors, including time. Eighteen vegetation and soil variables were measured at 38 different sampling sites of varying soil age, depth, and glacio-fluvial activity. Soil organic matter (SOM) was quantitatively measured, and the compositional changes in SOM were determined following size-density fractionation. In the topsoil, the soil organic carbon (SOC) and total nitrogen (N) content was found to increase along the soil chronosequence and were highly correlated with vegetation-associated variables. These findings suggest that plant-derived material was the main driver of the light fraction of SOM accumulation in the topsoil. The heavy fractions of SOM were composed of microbially transformed organic compounds, eventually contributing to SOM stabilization within short 90-yr deglaciation under harsh climatic conditions. In addition to time, the soil vertical profiles showed that other environmental parameters, also affected the soil biogeochemical properties. The high total phosphorous (P) content and electrical conductivity in the topsoil were attributed to unweathered subglacial materials and a considerable amount of inorganic ions from subglacial meltwater. The high P and magnesium content in the subsoil were attributed to parent materials, while the high sodium and potassium content in the surface soil were a result of sea-salt deposition. Glacio-fluvial runoff hampered ecosystem development by inhibiting vegetation development and SOM accumulation. This study emphasizes the importance of considering various soil-forming factors, including parent/subglacial materials, aeolian deposition, and glacio-fluvial runoff, as well as soil age, to obtain a comprehensive understanding of the ecosystem development in glacier forelands.

glacio-fluvial runoff↗
DOE OSTI2020

Biogeochemical Cycling of Redox-Sensitive Elements in Permafrost-Affected Ecosystems

Northern high latitudes are experiencing rapid changes in climate that drive permafrost thaw and shifts in hydrology and soil saturation. These factors regulate redox conditions across permafrost-affected landscapes, potentially altering carbon storage in soils and exacerbating climate change through accelerated decomposition of soil organic matter. Redox conditions impact soil carbon storage directly by influencing rates and pathways of organic matter decomposition, and indirectly by moderating the bioavailability of organic molecules and nutrients. Indeed, the ability of increased plant growth to offset C losses in permafrost regions will be regulated by nutrient availability (e.g., N, P) that varies across redox gradients. The purpose of this review is to examine how redox conditions shape biogeochemical cycling of ecologically important elements (P, N, S, Fe) in permafrost-affected ecosystems. Although carbon cycling in these regions continues to be widely studied, relatively little information is available on the elements that regulate C cycling. We discuss the complex feedbacks between climate change, hydrology, and landscape change that control redox conditions, then examine how these factors regulate biogeochemical cycles. We identify key gaps in our understanding of how changing climate may alter biogeochemical cycles and carbon storage in northern high-latitude ecosystems.

Herndon, Elizabeth↗
DOE OSTI2021

Biogeochemical control points of connectivity between a tidal creek and its floodplain

As global climates shift, coastal systems experience changes that alter function within the tidal zone. However, it remains uncertain how changes in tidal extent and magnitude will alter coastal biogeochemical cycling. We present high-frequency data collected in-situ along two transects across a tidal creek and floodplain to capture how changes in vertical and lateral connectivity act as biogeochemical control points. Using wavelet analysis, we identified short periods of strong vertical connectivity during spring tides followed by extended periods of floodplain isolation from tides. During a drier period, neap tides were linked to lateral creek-floodplain connectivity, detected by discharge of saline, oxygen-depleted groundwater to the creek on ebb tides. We estimate up to half of creek water throughout the tidal cycle was associated with floodplain drainage. From point measurements of carbon, nitrogen, and greenhouse gases along the creek-floodplain transect, we infer that lateral connectivity functions as a biogeochemically significant control point.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

Effects of random forest modeling decisions on biogeochemical time series predictions

Abstract Random forests (RF) are an increasingly popular machine learning approach used to model biogeochemical processes in the Earth system. While RF models are robust to many assumptions that complicate deterministic models, there are several important parameterization decisions for appropriate use and optimal model fit. We explored the role that parameter decisions, including training/testing data splitting strategies, variable selection, and hyperparameters play on RF goodness‐of‐fit by constructing models using 1296 unique parameter combinations to predict concentrations of nitrate, a key nutrient for biogeochemical cycling in aquatic ecosystems. Models were built on long‐term, publicly available water quality and meteorology time series collected by the National Estuarine Research Reserve monitoring network for two contrasting ecosystems representing freshwater and brackish estuaries. We found that accounting for temporal dependence when splitting data into training and testing subsets was key for avoiding over‐estimation of model predictive power. In addition, variable selection, the ratio of training to testing data, and to a lesser degree, variables per split and number of trees, were significant parameters for optimizing RF goodness‐of‐fit. We also explored how model parameter decisions influenced interpretation of the relative importance of predictors to the model, and model predictor‐dependent variable relationships, with results suggesting that both data structure and model parameterization influence these factors. Because much of the current RF literature is written for the computational and statistical science communities, the primary goal of this study is to provide guidelines for aquatic scientists new to machine learning to apply RF techniques appropriately to aquatic biogeochemical datasets.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2022

Joint estimation of biogeochemical model parameters from multiple experiments: A bayesian approach applied to mercury methylation

Here, to characterize complex biogeochemical systems, results from multiple experiments, where each targets a specific subprocess, are commonly combined. The resulting datasets are interpreted through the calibration of biogeochemical models for process inference and predictions. Commonly used calibration approaches of fitting datasets from individual experiments to subprocess models one at a time is prone to missing information shared between datasets and incomplete uncertainty propagation. We propose a Bayesian joint-fitting scheme addressing the above-mentioned concerns by jointly fitting all the available datasets, thus calibrating the entire biogeochemical model in one go using Markov Chain Monte Carlo (MCMC). The identification of null spaces in the parameter distributions from MCMC guided the simplification of certain subprocess models. For example, fast kinetic sorption was replaced by equilibrium sorption, and Monod demethylation was replaced by first-order demethylation. Joint fitting of datasets resulted in complete uncertainty propagation with parameter estimates informed by all available data.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Differential Exudation Creates Biogeochemically Distinct Microenvironments during Rhizosphere Evolution

Plant roots and associated microbes release a diverse range of functionally distinct exudates into the surrounding rhizosphere with direct impacts on soil carbon storage, nutrient availability, and contaminant dynamics. Yet mechanistic linkages between root exudation and emergent biogeochemical processes remain challenging to measure nondestructively, in real soil, over time. Here we used a novel combination of in situ microsensors with high-resolution mass spectrometry to measure, nondestructively, changing exudation and associated biogeochemical dynamics along single growing plant roots (Avena sativa). We found that metabolite and dissolved organic carbon (DOC) concentrations as well as microbial growth, redox potential (EH), and pH dynamics vary significantly among bulk soil, root tip, and more mature root zones. Surprisingly, the significant spike of rhizosphere DOC upon root tip emergence did not significantly correlate with any biogeochemical parameters. However, the presence of sugars significantly correlated with declines in EH following the arrival of the root tip, likely due to enhanced microbial oxygen demand. Similarly, the presence of organic acids significantly correlated to declines in pH upon root tip emergence. Altogether, our in situ measurements highlight how different exudates released along growing roots create functionally distinct soil microenvironments that evolve over time.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Postfire Biogeochemical Processes: Implications to Source Water Quality in Fire-Influenced Watersheds

Forested watersheds are instrumental in providing purified and reliable water to millions of people worldwide. The changing climate has increased the frequency and severity of global fire events. Forested watersheds and their ecosystem functions are greatly disrupted during fire activity. Postfire concerns in forested watersheds include unpredictable and potentially simultaneous alterations in source water quality and hydro-biogeochemical processes. Here, the degree of fire severity can complexly modify water quality through the production of fire-transformed constituents on the burned forest floor (i.e., nutrients, metal(loid)s, dissolved organic matter, and the formation of disinfection byproducts). Correspondingly, fire severity and postfire rainfall patterns can refine hydro-biogeochemical processes that influence the transport of the fire-transformed constituents (i.e., vegetation function, soil structure, hydrological pathways, and microbial communities). Postfire alterations to water quality and hydro-biogeochemical processes introduce further complexity with varying temporal influence, which ranges from months to decades. As postfire water quality and watershed response research progresses, it is essential to homogenize interdisciplinary expertise to bridge knowledge gaps between fields ranging from forest ecology, hydrology, microbiology, and geochemistry. A multidisciplinary approach in wildfire research will facilitate a comprehensive perception of the diverse water quality risks associated with fire activity and mitigate fire concerns on a global level.

Disinfection Byproducts↗
DOE OSTI2021

Characterizing the Roles of Biogeochemical Cycling and Ocean Circulation in Regulating Marine Copper Distributions

Copper (Cu) is a key micronutrient for marine phytoplankton. Its oceanic biogeochemical cycle has elicited considerable attention due to dissolved Cu exhibiting a unique linear profile with depth. Several processes have been proposed for explaining this behavior. Here, in this study, we characterize the relationships between the observed Cu, PO 4 3– , and Si on a global scale. We find that the depth profiles of Cu resemble those of Si more than of PO 4 3– in the global ocean. To understand their relationships, we couple the biogeochemical and internal circulation processes in a model, fitting optimal Cu:PO 4 3– uptake ratios and remineralization length-scales to replicate the marine Cu distributions. The modeling results suggest that Cu uptake needs in the Southern Ocean are substantially higher than those in other oceanic regions. In addition, our modeling results indicate a deep Cu remineralization in the global ocean. We offer an alternative mechanism that relies on biogeochemical cycling and internal circulation to produce the linear depth profiles of dissolved Cu. Our results suggest that diatoms are likely the major phytoplankton dominating oceanic Cu cycling.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

Can Biogeochemical Tracer Observations Constrain Southern Ocean Diapycnal Mixing Rates?

Abstract Direct observations of background diapycnal mixing rates in the Southern Ocean (SO) are limited spatially and temporally, making the choice of an appropriate value to parameterize this mixing in Earth system models a challenge. However, the deployment of Argo floats throughout the SO has provided an extensive range of observations of both physical and biogeochemical parameters. We use an ocean state estimate run with various background diapycnal mixing coefficients to assess if biogeochemical tracer observations can be used to better constrain SO diapycnal mixing rates. We find that vertical tracer distributions in the SO are highly sensitive to the rate of background diapycnal mixing and can provide an upper limit on background mixing rates. This demonstrates the importance of biogeochemical tracer observations throughout the full depth of the water column to validate ocean models.

Ellison, Elizabeth [The Australian National Univer↗
DOE OSTI2022

Microbial functional diversity across biogeochemical provinces in the central Pacific Ocean

Enzymes catalyze key reactions within Earth’s life-sustaining biogeochemical cycles. Here, we use metaproteomics to examine the enzymatic capabilities of the microbial community (0.2 to 3 µm) along a 5,000-km-long, 1-km-deep transect in the central Pacific Ocean. Eighty-five percent of total protein abundance was of bacterial origin, with Archaea contributing 1.6%. Over 2,000 functional KEGG Ontology (KO) groups were identified, yet only 25 KO groups contributed over half of the protein abundance, simultaneously indicating abundant key functions and a long tail of diverse functions. Vertical attenuation of individual proteins displayed stratification of nutrient transport, carbon utilization, and environmental stress. The microbial community also varied along horizontal scales, shaped by environmental features specific to the oligotrophic North Pacific Subtropical Gyre, the oxygen-depleted Eastern Tropical North Pacific, and nutrient-rich equatorial upwelling. Some of the most abundant proteins were associated with nitrification and C1 metabolisms, with observed interactions between these pathways. The oxidoreductases nitrite oxidoreductase (NxrAB), nitrite reductase (NirK), ammonia monooxygenase (AmoABC), manganese oxidase (MnxG), formate dehydrogenase (FdoGH and FDH), and carbon monoxide dehydrogenase (CoxLM) displayed distributions indicative of biogeochemical status such as oxidative or nutritional stress, with the potential to be more sensitive than chemical sensors. Enzymes that mediate transformations of atmospheric gases like CO, CO 2 , NO, methanethiol, and methylamines were most abundant in the upwelling region. Here, we identified hot spots of biochemical transformation in the central Pacific Ocean, highlighted previously understudied metabolic pathways in the environment, and provided rich empirical data for biogeochemical models critical for forecasting ecosystem response to climate change.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2023

Biogeochemical Changes in Estuaries

The biogeochemical composition of materials suspended and dissolved in estuarine waters is substantially transformed by biological and abiotic processes as water from rivers and subterranean aquifers travels through estuaries to the coastal ocean, influencing the rate of storage and/or exchange of carbon with the atmosphere. Biogeochemical signatures in the upper reaches of estuaries (e.g., low salinity) generally reflect characteristics of the rivers and groundwater draining into the estuary. The composition of organic matter (OM) where rivers meet estuaries is a mixture of terrigenous signatures dependent on watershed landscape features, aquatic signatures dependent on the prominence of freshwater primary productivity, and intermediate metabolites (i.e., byproducts of in situ transformation) of these terrigenous and aquatic OM sources. The prominence of aquatic primary production-derived OM and products of microbial decomposition generally increases towards the lower reaches of estuaries where they meet the coastal ocean (i.e.., continental shelf). The nature of biogeochemical transformations occurring along estuarine gradients is closely coupled with factors that are poised to change under multiple compounding disturbances and stress factors related to both climate change and other anthropogenic global changes. This chapter describes the fundamental mechanisms that drive the transport, transformation, and storage of OM in estuaries and how these dynamics have and may continue to change in response to key disturbances and stressors related to climate change and other anthropogenic global changes including warming, intensifying hydrological extremes (e.g., droughts and floods), sea level rise, and acidification.

Ward, Nicholas D.↗
DOE OSTI2021

Biogeochemical dynamics and microbial community development under sulfate- and iron-reducing conditions based on electron shuttle amendment

Iron reduction and sulfate reduction are two of the major biogeochemical processes that occur in anoxic sediments. Microbes that catalyze these reactions are therefore some of the most abundant organisms in the subsurface, and some of the most important. Due to the variety of mechanisms that microbes employ to derive energy from these reactions, including the use of soluble electron shuttles, the dynamics between iron- and sulfate-reducing populations under changing biogeochemical conditions still elude complete characterization. Here, we amended experimental bioreactors comprised of freshwater aquifer sediment with ferric iron, sulfate, acetate, and the model electron shuttle AQDS (9,10-anthraquinone-2,6-disulfonate) and monitored both the changing redox conditions as well as changes in the microbial community over time. The addition of the electron shuttle AQDS did increase the initial rate of Fe III reduction; however, it had little effect on the composition of the microbial community. Our results show that in both AQDS- and AQDS+ systems there was an initial dominance of organisms classified as Geobacter (a genus of dissimilatory Fe III -reducing bacteria), after which sequences classified as Desulfosporosinus (a genus of dissimilatory sulfate-reducing bacteria) came to dominate both experimental systems. Furthermore, most of the ferric iron reduction occurred under this later, ostensibly “sulfate-reducing” phase of the experiment. This calls into question the usefulness of classifying subsurface sediments by the dominant microbial process alone because of their interrelated biogeochemical consequences. To better inform models of microbially-catalyzed subsurface processes, such interactions must be more thoroughly understood under a broad range of conditions.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2021

Time-series dissolved oxygen, other bigeochemically-relevant analytes, and pressure gradients associated with the manuscript “Dissolved oxygen sensor in an automated hyporheic sampling system reveals biogeochemical dynamics”

This dataset contains time-series data from a vertical profile within the bed and banks of the Columbia river near Richland, WA. Water was sampled through 3 small tubes embedded in the sediment at 50,100, and 200 cm below the sediment-water interface. The goal of this study was to observe the correlations between hydraulic drivers and biogeochemical responses. The results of this study are published in the manuscript “Dissolved oxygen sensor in an automated hyporheic sampling system reveals biogeochemical dynamics”. The file types included in the data package are all time-series spreadsheet data, including hydraulic head gradients, physical parameters (temperature, pressure, SpC (specific conductivity)), and biogeochemical parameters (dissolved oxygen, pH, NO3 (nitrate) and ORP (oxidation-reduction potential)).

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2024

Trace Metal Dynamics and Limitations on Biogeochemical Cycling in Wetland Soils and Hyporheic Zones

Biogeochemical cycling in subsurface aquatic systems is driven by anaerobic microbial processes that employ metalloenzymes. Pure culture studies reveal that low availability of trace metals may inhibit methanogenesis, mercury methylation, and reduction of N 2 O to N 2 during denitrification. However, whether such limitations occur in natural subsurface aquatic systems is currently unclear. This project sought to establish mechanistic links between trace metal availability and biogeochemical transformations in subsurface systems. Integrated field and laboratory studies of trace metal availability and biogeochemical processes were conducted in riparian wetlands in the Tims Branch watershed at the Savannah River Site, marsh wetlands at Argonne National Laboratory, and the streambed of East Fork Poplar Creek at Oak Ridge National Laboratory, with supplemental work with wetland soils from sites in Missouri and Florida.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

High-throughput physiochemical and biogeochemical characterization for coastal soils and waters

Coastal environments span large biogeochemical gradients and provide critical ecosystem services worldwide, thereby having a disproportionately larger influence on global biogeochemical cycles and greenhouse gas fluxes than their geographical extent suggests. Despite this, cohesive quantitative tools to understand and describe these environments, including scalable, standardized field and laboratory methodologies are lacking. In this work, we advanced the streamlining and standardizing of quantitative approaches to measure and understand coastal physiochemical properties and biogeochemical processes across systems and scales. Outcomes of this work includes workflows for multiple complementary and in-line analyses, from basic physiochemical datasets to targeted molecular approaches and proof of concept through manipulation and analysis of coastal soils and waters with varying salinity, minerology, and biogeochemistry.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2025

A new biogeochemical modelling framework (FLaMe-v1.0) for lake methane emissions on the regional scale: development and application to the European domain

This study presents a new physical-biogeochemical modelling framework for simulating lake methane (CH 4 ) emissions at regional scales. The new model, FLaMe-v1.0 (Fluxes of Lake Methane), rests on an innovative, computationally efficient lake clustering approach that enables the simulation of CH 4 emissions across a large number of lakes. Building on the Canadian Small Lake Model (CSLM) that simulates the lake physics, we develop a suite of biogeochemical modules to simulate transient dynamics of organic Carbon (C), Oxygen (O 2 ), and CH 4 . We first test the performance of FLaMe-v1.0 by analyzing physical and biogeochemical processes in two theoretical lakes with characteristics that can be considered representative for many lakes (an oligotrophic, deep lake driven by cold climate versus a eutrophic, shallow lake driven by warm climate). Next, we evaluate the model by comparing simulated and observed timeseries of CH 4 emissions in four well-surveyed lakes. We then apply FLaMe-v1.0 at the European scale to evaluate simulated diffusive and ebullitive lake CH 4 fluxes against in-situ measurements in both boreal and central European regions. Finally, we provide a first assessment of the spatio-temporal variability in CH 4 emissions from European lakes with a surface area comprised between 0.1–1000 km 2 (n= 108 407, total area = 1.33 × 105 km 2 ), indicating a total emission of 0.97 ± 0.23 Tg CH 4 yr −1 , with the uncertainty constrained by combining FLaMe-v1.0 and machine learning techniques. Moreover, 30 % and 70 % of these CH 4 emissions are through diffusive and ebullitive pathways, respectively. Annually averaged CH 4 emission rates per unit lake area during 2010–2016 have a South-to-North decreasing gradient, resulting in a mean over the European domain as 7.39 g CH 4 m −2 yr −1 . Our simulations reveal a strong seasonality (with ice-blocking effects accounted for) in European lake CH 4 emissions, with nearly ten times higher emissions during late summer than during winter. This pronounced seasonal variation highlights the importance of accounting for the sub-annual variability in CH 4 emissions to accurately constrain regional CH 4 budgets. In the future, FLaMe-v1.0 could be embedded into Earth System Models to investigate the feedback between climate warming and global lake CH 4 emissions.

Maisonnier, Manon [Free Univ. of Brussels (Belgium↗
DOE OSTI2024

Lambda-PFLOTRAN 1.0: a workflow for incorporating organic matter chemistry informed by ultra high resolution mass spectrometry into biogeochemical modeling

Abstract. Organic matter (OM) composition plays a central role in microbial respiration of dissolved organic matter and subsequent biogeochemical reactions. Here, a direct connection of organic matter chemistry and thermodynamics to reactive transport simulators has been achieved through the newly developed Lambda-PFLOTRAN workflow tool that succinctly incorporates carbon chemistry data generated from Fourier transform ion cyclotron resonance mass spectrometry (FTICR-MS) into reaction networks to simulate organic matter degradation and the resulting biogeochemistry. Lambda-PFLOTRAN is a Python-based workflow, executed through a Jupyter notebook interface, that digests raw FTICR-MS data, develops a representative reaction network based on substrate-explicit thermodynamic modeling (also termed lambda modeling due to its key thermodynamic parameter λ used therein), and completes a biogeochemical simulation with the open source, reactive flow and transport code PFLOTRAN. The workflow consists of the following five steps: configuration, thermodynamic (lambda) analysis, sensitivity analysis, parameter estimation, and simulation output and visualization. Two test cases are provided to demonstrate the functionality of the Lambda-PFLOTRAN workflow. The first test case uses laboratory incubation data of temporal oxygen depletion to fit lambda parameters (i.e., maximum utilization rate and microbial carrying capacity). A slightly more complex second test case fits multiple lambda formulation and soil organic matter release parameters to temporal greenhouse gas generation measured during a soil incubation. Overall, the Lambda-PFLOTRAN workflow facilitates upscaling by using molecular-scale characterization to inform biogeochemical processes occurring at larger scales.

58 GEOSCIENCES↗
DOE OSTI2024

The Median Isn’t the Message: soil nutrient hot spots have a disproportionate influence on biogeochemical structure across years, seasons, and depths

Abstract Soil nutrient distribution is heterogeneous in space and time, potentially altering nutrient acquisition by trees and microorganisms. Ecologists have distinguished “hot spots” (HSs) as areas with enhanced and sustained rates of nutrient fluxes relative to the surrounding soil matrix. We evaluated the spatial and temporal patterns in nutrient flux HSs in two mixed-conifer forest soils by repeatedly sampling the soil solution at the same spatial locations (horizontally and vertically) over multiple seasons and years using ion exchange resins incubated in situ. The climate of these forests is Mediterranean, with intense fall rains occurring following summers with little precipitation, and highly variable winter snowfall. Hot spots formed most often for NO 3 − and Na + . Although nutrient HSs often occurred in the same spatial location multiple times, HSs persisted more often for PO 4 3− NH 4 + , and NO 3 − , and were more transient for Ca 2+ , Mg 2+ , and Na + . Sampling year (annual precipitation ranged from 558 to 1223 mm) impacted the occurrence of HSs for most nutrients, but season was only significant for PO 4 3− , NH 4 + , NO 3 − , and Na + , with HSs forming more often after fall rains than after spring snowmelt. The frequency of HSs significantly decreased with soil depth for all nutrients, forming most commonly immediately below the surficial organic horizon. Although HSs accounted for less than 17% of the sampling volume, they were responsible for 56–88% of PO 4 3− , NH 4 + , and NO 3 − resin fluxes. Our results suggest that macronutrient HSs have a disproportional contribution to soil biogeochemical structure, with implications for vegetation nutrient acquisition strategies and biogeochemical models. Graphical abstract

54 ENVIRONMENTAL SCIENCES↗