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At least 415 records · Page 23

Ecosystem Response to Elevated Tropospheric Carbon Dioxide and Ozone is Regulated by Plant-­Microbe Interactions in Soil

Human activity has increased the concentration of carbon dioxide (CO 2 ) and ozone O 3 ) in the Earth’s lower atmosphere, and each of these trace gases has the potential to modify photosynthesis and plant growth across broad geographic regions, albeit in diametrically opposing ways. For example, higher-than-ambient concentrations of atmospheric stimulate photosynthesis and plant growth (Curtis & Wang 1998), whereas elevated O 3 generally has the opposite effect (Krupa et al. 2000; Felzer et al. 2004). By the end of this century, nearly one-half of the Earth’s forests will be growing in an atmosphere with elevated concentrations of these trace gases (Albritton et al. 2001; Fowler et al. 1998, 1999). Nonetheless, we presently do not have the ability to predict the interactive effects of CO 2 and O 3 on a wide array of biological processes from the molecular to ecosystem level. Our DoE-supported research has focused on developing and testing a conceptual model that is focused on understanding the mechanisms by which elevated ground-level CO 2 and O 3 will alter the flow of energy and nutrients through soil food webs as well as entire terrestrial ecosystems. Our approach spans a hierarchy of biological organization from the molecular to the ecosystem level, and we argue that biochemical responses can be scaled to predict ecosystem-level patterns of C and N cycling in an atmosphere enriched with anthropogenic CO 2 and O 3 .

54 ENVIRONMENTAL SCIENCES↗

Next-Generation Ecosystem Experiments–Tropics Flyer

Tropical forests cycle more carbon and water than any other ecosystem, and they play critical roles in determining Earth’s energy balance. Additionally, intact tropical forests are estimated to be Earth’s largest carbon sink, yet the processes controlling tropical forest carbon cycling are not well established. Understanding of carbon and related water and energy exchanges between tropical forests and the atmosphere lags that of other ecosystems, and poor model representation of these processes is the most significant source of terrestrial uncertainty in climate projections. To address these challenges, the Terrestrial Ecosystem Science (TES) program within the Department of Energy’s (DOE) Office of Biological and Environmental Research (BER) is supporting a next-generation ecosystem experiments project in the tropics (NGEE–Tropics).

54 ENVIRONMENTAL SCIENCES↗

DeepLynx Ecosystem 2025

Poor data integration and governance continue to plague complex engineering projects, resulting in missed cost, schedule, and performance targets. Departments operate in isolated systems with manual data exchange, creating fragmented information that compounds errors and leads to significant delays and cost overruns. The DeepLynx ecosystem addresses these challenges through an open-source, modular data management platform that transforms fragmented project data into an integrated digital thread. Built on a federated microservice architecture, the ecosystem comprises seven specialized tools centered around DeepLynx Nexus, a unified data catalog with hierarchical organization and graph-based navigation capabilities. The ecosystem includes: DeepLynx Stream for real-time timeseries data ingestion from industrial sources; DeepLynx Ingest for governed data uploads with formal review workflows; DeepLynx Lattice for ontology-based entity and relationship extraction; DeepLynx Run for workflow orchestration and secure AI/ML compute; DeepLynx Visualize for 3D digital twin visualization; and DeepLynx Insight for AI-assisted document analysis with traceable, grounded responses. Deployable in cloud, on-premise, or hybrid environments using containerized Docker applications and Helm charts, the DeepLynx ecosystem provides flexible infrastructure that adapts to organizational requirements. By consolidating project data into a unified data lake with role-based access controls and OAuth2 authentication, DeepLynx enables digital thread and digital twin capabilities that improve decision-making, reduce risk, and support complex engineering workflows throughout the project lifecycle.

42 - ENGINEERING↗

Better practices for inferring ecosystem water use strategy from eddy covariance data

Eddy covariance data are critical for inferring ecosystem water use strategies. Yet, such inferences are sensitive to a range of assumptions applied across studies, hindering our understanding of water use strategies within and across eddy covariance sites. A recent analysis across 151 FLUXNET2015 and AmeriFlux-FLUXNET datasets found that poor model performance was the key driver of non-robust inferences of ecosystem water use strategies. Here, we leverage this previous analysis to (i) identify the specific assumptions that improve inference model performance across most sites, (ii) explain the mechanisms behind the performance improvements, and (iii) check whether better performance improves water use inference. We find that the common practice of fitting a model to canopy conductance (G c ) derived from the evapotranspiration (ET) observations, rather than to observed ET itself, artificially amplifies data errors and degrades the model performance. Next, accounting for vegetation dynamics by applying a growing season filter or incorporating satellite LAI data improves performance, but the former practice may remove soil water stress periods. Lastly, using the leaf-to-air vapor pressure deficit (VPD l ) derived from ET observations as a model input may artificially inflate performance. Based on these results, we recommend selecting observed ET (rather than derived G c ) as the response variable, carefully accounting for vegetation dynamics, and avoiding derived VPD l as a model input; these best practices improve model performance by c. 20% and robustness by c. 80% across all eddy covariance sites. Nevertheless, the performance improvements do not always correspond to more robust inference of water use strategies, as model parameter selection and surface energy budget closure corrections still strongly influence the ecosystem water use parameter estimation in a site-specific manner.

AmeriFlux↗

Experimental Soil Warming Impacts Soil Moisture and Plant Water Stress and Thereby Ecosystem Carbon Dynamics

Experimental soil heating experiments have found a consistent increase in soil-surface CO 2 emissions ( F s ), but inconsistent soil organic carbon (SOC) responses. Interpretation of heating effects is complicated by spatial heterogeneity and soil moisture, nitrogen availability, and microbial and plant responses. Here we applied a mechanistic ecosystem model to interpret heating impacts on a California forest subjected to 1 m deep, 4°C heating. The model accurately simulated control-plot CO 2 fluxes, SOC stocks, fine root biomass, soil moisture, and soil temperature, and the observed increases in F s and decreases in fine root biomass. We show that a complex suite of interactions can lead to a consistent increase in F s (~17%) over the 5-year study period, with very small changes in SOC stocks (<1%). Modeled increases in leaf water stress from soil drying reduced GPP and NPP. The resulting reduction in leaf and fine root allocation increased fine root litter inputs to the soil and reduced root exudation. Soil heating led to about a 50% larger increase in root autotrophic respiration than in heterotrophic respiration, with the heating effect on both these fluxes decreasing over the simulation period. Increased heterotrophic respiration led to increased soil N availability and plant N uptake. These heating responses are mechanistically linked, of magnitudes that can affect ecosystem dynamics, and long-term observations of them are rarely made. Therefore, we conclude that a coupled observational and mechanistic modeling framework is needed to interpret manipulation experiments, and to improve projections of climate change impacts on terrestrial ecosystem carbon dynamics.

54 ENVIRONMENTAL SCIENCES↗

From remotely sensed solar-induced chlorophyll fluorescence to ecosystem structure, function, and service: Part I—Harnessing theory

Solar-induced chlorophyll fluorescence (SIF) is a remotely sensed optical signal emitted during the light reactions of photosynthesis. The past two decades have witnessed an explosion in availability of SIF data at increasingly higher spatial and temporal resolutions, sparking applications in diverse research sectors (e.g., ecology, agriculture, hydrology, climate, and socioeconomics). These applications must deal with complexities caused by tremendous variations in scale and the impacts of interacting and superimposing plant physiology and three-dimensional vegetation structure on the emission and scattering of SIF. At present, these complexities have not been overcome. To advance future research, the two companion reviews aim to (1) develop an analytical framework for inferring terrestrial vegetation structures and function that are tied to SIF emission, (2) synthesize progress and identify challenges in SIF research via the lens of multi-sector applications, and (3) map out actionable solutions to tackle these challenges and offer our vision for research priorities over the next 5-10 years based on the proposed analytical framework. This paper is the first of the two companion reviews, and theory oriented. It introduces a theoretically rigorous yet practically applicable analytical framework. Guided by this framework, we offer theoretical perspectives on three overarching questions: (1) The forward (mechanism) question—How are the dynamics of SIF affected by terrestrial ecosystem structure and function? (2) The inference question: What aspects of terrestrial ecosystem structure, function, and service can be reliably inferred from remotely sensed SIF and how? (3) The innovation question: What innovations are needed to realize the full potential of SIF remote sensing for real-world applications under climate change? In conclusion, the analytical framework elucidates that process complexity must be appreciated in inferring ecosystem structure and function from the observed SIF; this framework can serve as a diagnosis and inference tool for versatile applications across diverse spatial and temporal scales.

59 BASIC BIOLOGICAL SCIENCES↗

Microbial Potential for Ecosystem N Loss Is Increased by Experimental N Deposition

Fossil fuel combustion and fertilizer use has increased the amount of biologically available N entering terrestrial ecosystems. Nonetheless, our understanding of how anthropogenic N may alter the physiological mechanisms by which soil microorganisms cycle N in soil is still developing. Here, we applied shotgun metagenomics to a replicated long-term field experiment to determine how two decades of experimental N deposition, at a rate expected by mid-century, has affected the genetic potential of the soil microbial community to cycle N in soils. Experimental N deposition lead to a significant and persistent increase in functional assemblages mediating N cycle transformations associated with ecosystem N loss (i.e., denitrification and nitrification), whereas functional assemblages associated with N input and retention (i.e., N fixation and microbial N assimilation) were less positively affected. Furthermore, the abundance and composition of microbial taxa, as well as functional assemblages involved in housekeeping functions (i.e., DNA replication) were unaffected by experimental N deposition. Here taken together, our results suggest that functional genes and gene pathways associated with ecosystem N loss have been favored by experimental N deposition, which may represent a genetic mechanism fostering increased N loss as anthropogenic N deposition increases in the future.

58 GEOSCIENCES↗

Active layer depth and soil properties impact specific leaf area variation and ecosystem productivity in a boreal forest

Specific leaf area (SLA, leaf area per unit dry mass) is a key canopy structural characteristic, a measure of photosynthetic capacity, and an important input into many terrestrial process models. Although many studies have examined SLA variation, relatively few data exist from high latitude, climate-sensitive permafrost regions. We measured SLA and soil and topographic properties across a boreal forest permafrost transition, in which dominant tree species changed as permafrost deepened from 54 to >150 cm over 75 m hillslope transects in Caribou-Poker Creeks Research Watershed, Alaska. We characterized both linear and threshold relationships between topographic and edaphic variables and SLA and developed a conceptual model of these relationships. We found that the depth of the soil active layer above permafrost was significantly and positively correlated with SLA for both coniferous and deciduous boreal tree species. Intraspecific SLA variation was associated with a fivefold increase in net primary production, suggesting that changes in active layer depth due to permafrost thaw could strongly influence ecosystem productivity. While this is an exploratory study to begin understanding SLA variation in a non-contiguous permafrost system, our results indicate the need for more extensive evaluation across larger spatial domains. These empirical relationships and associated uncertainty can be incorporated into ecosystem models that use dynamic traits, improving our ability to predict ecosystem-level carbon cycling responses to ongoing climate change.

59 BASIC BIOLOGICAL SCIENCES↗

Impact of elevated CO2 on a Florida Scrub-oak Ecosystems

Since May of 1996, we have conducted an experiment in Florida Scrub Oak to determine the impact of elevated atmospheric CO 2 and climate change on carbon, water, and nutrient cycling in this important terrestrial ecosystem. Florida scrub oak is the name for a collective of species occupying much of the Florida peninsula. The dominant tree species are oaks and the dwarf structure of this community makes it an excellent system in which to test hypotheses regarding the potential capacity of woody ecosystems to assimilate and sequester anthropogenic carbon. Scrub oak is fire dependent with a return cycle of 10-15 years, a time which would permit an experiment to follow the entire cycle. Our site is located on Cape Canaveral at the Kennedy Space Center, Florida. After burning in 1995, we built 16 open top chambers, half of which have been fumigated with pure CO 2 sufficient to raise the concentration around the plants to 350 ppm above ambient. In the intervening 10 years we have non destructively measured biomass of shoots and roots, ecosystem gas exchange using chambers and eddy flux, leaf photosynthesis and respiration, soil respiration, and relevant environmental factors such as soil water availability, temperature, light, etc.

54 ENVIRONMENTAL SCIENCES↗

Evaluating the Long-Term Ecological Responses to Riparian Ecosystem Restoration at the Fort Benning, Georgia Military Installation

Riparian and instream restorations are commonly implemented to improve ecosystem condition. However, very few restoration activities are monitored for multiple years to assess long-term effectiveness. At the Department of Defense’s Fort Benning Military Installation (FBMI) in west-central Georgia, two experimental restoration projects (ephemeral drainage revitalization and instream habitat augmentation [i.e., coarse woody debris (CWD) additions]) were implemented ~14 years ago with the goal of reducing environmental impacts of military training activities. A SERDP project found that instream restoration improved some aspects of ecosystem function and community structure but not others. The objective of the current study was to re-evaluate the effect of these restoration practices on stream ecosystem processes ~14 years after implementation.

54 ENVIRONMENTAL SCIENCES↗

Synthetic Scenarios from CMIP5 Model Simulations for Climate Change Impact Assessments in Managed Ecosystems and Water Resources: Case Study in South Asian Countries

Increasing population, urbanization, and associated demand for food production compounded by climate change and variability have important implications for the managed ecosystems and water resources of a region. This is particularly true for south Asia, which supports one quarter of the global population, half of whom live below the poverty line. This region is largely dependent on monsoon precipitation for water. Given the limited resources of the developing countries in this region, the objective of our study was to empirically explore climate change in south Asia up to the year 2099 using monthly simulations from 35 global climate models (GCMs) participating in the fifth phase of the Climate Model Inter-comparison Project (CMIP5) for two future emission scenarios (representative concentration pathways RCP4.5 and RCP8.5) and provide a wide range of potential climate change outcomes. This was carried out using a three-step procedure: calculating the mean annual, monsoon, and non-monsoon precipitation and temperatures; estimating the percent change from historical conditions; and developing scenario funnels and synthetic scenarios. This methodology was applied for the entire south Asia region; however, the percent change information generated at 1.5deg grid scale can be used to generate scenarios at finer spatial scales. Our results showed a high variability in the future change in precipitation (-23% to 52%, maximum in the non-monsoon season) and temperature (0.8% to 2.1%) in the region. Temperatures in the region consistently increased, especially in the Himalayan region, which could have impacts including a faster retreat of glaciers and increased floods. It could also change rivers from perennial to seasonal, leading to significant challenges in water management. Increasing temperatures could further stress groundwater reservoirs, leading to withdrawal rates that become even more unsustainable. The high precipitation variability (with higher propensity for localized intense rainfall events) observed in the region can be a key factor for managed ecosystems and water management and could also lead to more incidence of severe urban flooding. The results could be used to assess both mitigation and adaptation alternatives to reduce vulnerabilities in managed ecosystems (agricultural and urban) and water resources.

agriculture↗

Data for: A Synoptic System for Capturing Ecosystem Control Points Across Terrestrial-Aquatic Interfaces

The investigation of how climate change and water level fluctuations impact variable and interconnected ecosystems, like the interfaces between terrestrial and aquatic environments, requires the collection and integration of many data types. We describe an integrative and autonomous environmental monitoring approach that uses environmental sensors and data loggers to monitor surface water, groundwater, soil, and vegetation changes and generate essential data for predictive models. We established the network at seven sites along the Chesapeake Bay and Lake Erie coastlines, including a large-scale flood manipulation experiment, collectively generating over three million observations per month. Such sensor networks hold great promise for tracking and comprehending environmental changes where land and water intersect. The sensor system and overall approach to sensor management that we have designed is intended to be widely accessible for research teams spanning in size from an individual investigator to large multi-institution projects. This dataset shows example data generated by the sensor network described above. Data output for data loggers connected to groundwater water quality sondes measuring dissolved oxygen, pH, oxidative redox potential (ORP), groundwater elevation, groundwater salinity and temperature, and groundwater elevation; replicate soil moisture and conductivity probes installed at 10 and 30 cm below the ground surface; rainfall and solar radiation; and mean sap flow from 8 replicate probes. Sensors are installed at upland forest (UP), wetlands (W), and transitional locations between these ecosystems (TR). Example datasets are from Goodwin Islands in the Chesapeake Bay and Portage River along the Lake Erie coastline.

54 ENVIRONMENTAL SCIENCES↗

Diagnosing phosphorus limitations in natural terrestrial ecosystems in carbon cycle models

Abstract Most of the Earth System Models ( ESMs ) project increases in net primary productivity ( NPP ) and terrestrial carbon (C) storage during the 21st century. Despite empirical evidence that limited availability of phosphorus (P) may limit the response of NPP to increasing atmospheric CO 2 , none of the ESMs used in the previous Intergovernmental Panel on Climate Change assessment accounted for P limitation. We diagnosed from ESM simulations the amount of P need to support increases in carbon uptake by natural ecosystems using two approaches: the demand derived from (1) changes in C stocks and (2) changes in NPP . The C stock‐based additional P demand was estimated to range between −31 and 193 Tg P and between −89 and 262 Tg P for Representative Concentration Pathway ( RCP ) 2.6 and RCP8.5 , respectively, with negative values indicating a P surplus. The NPP ‐based demand, which takes ecosystem P recycling into account, results in a significantly higher P demand of 648–1606 Tg P for RCP2 .6 and 924–2110 Tg P for RCP8 .5. We found that the P demand is sensitive to the turnover of P in decomposing plant material, explaining the large differences between the NPP ‐based demand and C stock‐based demand. The discrepancy between diagnosed P demand and actual P availability (potential P deficit) depends mainly on the assumptions about availability of the different soil P forms. Overall, future P limitation strongly depends on both soil P availability and P recycling on ecosystem scale.

54 ENVIRONMENTAL SCIENCES↗

Predicting ecosystem metaphenome from community metagenome: A grand challenge for environmental biology

Abstract Elucidating how an organism's characteristics emerge from its DNA sequence has been one of the great triumphs of biology. This triumph has cumulated in sophisticated computational models that successfully predict how an organism's detailed phenotype emerges from its specific genotype. Inspired by that effort's vision and empowered by its methodologies, a grand challenge is described here that aims to predict the biotic characteristics of an ecosystem, its metaphenome, from nucleic acid sequences of all the species in its community, its metagenome. Meeting this challenge would integrate rapidly advancing abilities of environmental nucleic acids (eDNA and eRNA) to identify organisms, their ecological interactions, and their evolutionary relationships with advances in mechanistic models of complex ecosystems. Addressing the challenge would help integrate ecology and evolutionary biology into a more unified and successfully predictive science that can better help describe and manage ecosystems and the services they provide to humanity.

59 BASIC BIOLOGICAL SCIENCES↗

Aboveground and belowground contributions to ecosystem respiration in a temperate deciduous forest

In this study, we developed a three-way carbon dioxide (CO 2 ) flux-partitioning algorithm that separates net ecosystem exchange (NEE) into aboveground plant respiration (R above ), belowground root and soil respiration (R below ), and gross primary production (GPP). We applied this algorithm to a coupled dataset of continuous chamber-measured soil respiration and eddy covariance (EC)-measured NEE of CO 2 in an oak-hickory (Quercus-Carya) deciduous broadleaf forest from 2006 to 2015. We found that on annual time scale, R below dominated over R above with the former accounting for 66.9–86.4% and the latter 13.6–33.1%, of the total ecosystem respiration (R eco ). The ratio of R below to R above varied seasonally, ranging from 1.77 to 7.25 in growing season, and 1.02 to 4.57 in non-growing season. The temperature sensitivity (E 0 ) of R below was significantly higher than that of R above , and E 0 of R eco responded differently to air and soil temperature. Over the whole study period, annual mean R above , R below , and GPP were 243, 806, and 1170 g C m –2 , respectively, with annual R eco accounting for 89.6% of GPP, of which 68.8% was lost as R below and 20.8% lost as R above , and leaving only 10% of the carbon fixation in ecosystems. Furthermore, these estimates, however, did not consider potential light inhibition of leaf respiration. If we accept the presence of light inhibition, then the daytime three-way partitioning method would underestimate annual R above by 20.4% whereas the nighttime method would overestimate R above by 23.9% and GPP by 4.7%, compared with estimates accounting for light inhibition in leaves.

54 ENVIRONMENTAL SCIENCES↗

Exploring the Future Role of Asia Utilizing A Scenario Matrix Architecture and Shared Socio-Ecosystem Pathways

We explore the implications of alternative pathways for human population and economic development for the role of Asia in both reference, no-climate-policy, scenarios and scenarios in which climate forcing is limited. We consider three different reference scenarios, which we refer to as Shared Socio-ecosystem Pathways (SSPs) and four different levels of limitation on climate forcing, which we refer to as Shared Policy Assumptions (SPAs). SSPs are differentiated by population and economic growth assumptions, while SPAs are differentiated on the level of radiative forcing in the year 2100. Regardless of the scenarios we examined Asia plays a central role in shaping the world’s future with nearly half of the world’s people and more than half of the world’s economic activity and energy consumption. The future of Asian and world are dramatically different across the various combinations of SSPs and SPAs. High population worlds place significant stress on Asian resources and ecosystems. In high population SSPs the poorest members of the population face high energy and food prices and the more stringent the level of emissions mitigation, the more stress poor populations experience, though the more stringent the emissions mitigation, the larger the area of unmanaged ecosystems that are preserved.

Emissions Mitigation↗

Ecosystem service benefits to water users from perennial biomass production

We report although many agree that a transition to renewable energy sources is needed to avoid the climate consequences of continued reliance on fossil sources, price is a barrier. For renewable energy sources, including bioenergy, penetrating energy markets depends on lowering prices to compete with the price of fossil sources, but the tools used in decision making, such as supply curves, exclude non-market benefits from ecosystem services. Here, we extend the economic concept of an economic supply curve to account for ecosystem services co-produced with perennial biomass. We developed three new types of supply curves to visualize the increased supply of biomass (‘sustainable supply’) with sufficient water-quality benefits to offset biomass production costs. Using these tools, we show that the value of water-quality improvements could significantly reduce the break-even price of perennial feedstocks if it were available to farmers. In the most optimistic case, nearly half of potential biomass supply in a large tributary of the Mississippi river basin carried water purification value exceeding the cost of biomass production. Furthermore, adding the value to swimmers and waders offset production cost for over 90% of potential supply. Simulated benefits were context specific. For example, total value for water drinkers peaked at an intermediate level of fertilizer application. Geographically, benefits were highest in the eastern portion of the river basin. This research shows where the sustainable supply is needed and can generate value; the next step is to match this supply with credit buyers. Efforts to internalize the values of ecosystem services into biomass prices could help to meet Biden administration targets to meet 100% of sustainable aviation fuels.

54 ENVIRONMENTAL SCIENCES↗

Can large herbivores enhance ecosystem carbon persistence?

There is growing interest in aligning the wildlife conservation and restoration agenda with climate change mitigation goals. However, the presence of large herbivores tends to reduce aboveground biomass in some open-canopy ecosystems, leading to the possibility that large herbivore restoration may negatively influence ecosystem carbon storage. Furthermore, belowground carbon storage is often ignored in these systems, despite the wide recognition of soils as the largest actively-cycling terrestrial carbon pool. Here, we suggest a shift away from a main focus on vegetation carbon stocks, towards inclusion of whole ecosystem carbon persistence, in future assessments of large herbivore effects on long-term carbon storage. Failure to do so may lead to counterproductive biodiversity and climate impacts of land management actions.

54 ENVIRONMENTAL SCIENCES↗