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Prescribed (Rx) fire is a planned, usually low-intensity, fire conducted by professionals with ecosystem-dependent objectives. Prescribed fire is not just about reducing fire risk. Ecological benefit include: (1) Maintaining fire-adapted ecosystems; (2) Promote ecological diversity; (3) Controlling invasive species; (4) Habitat maintenance; (5) Hydrologic balances; and (6) Carbon Management.
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.
Background Fire is a foundational ecological process that shapes ecosystem structure, diversity, and resilience. Quantifying paleofire regime attributes such as frequency, severity, and intensity is essential for understanding the historical range of variability in fire behavior and its ecological effects. While frequency and severity are often reconstructed in paleofire studies, quantitative reconstructions of fire intensity remain limited. Recent work has shown that maximum pyrolysis temperature—a proxy for fire intensity—and plant species type can be inferred from charcoal using transmission Fourier-transform infrared (FTIR) spectroscopy. However, the sample preparation for transmission FTIR is destructive and time-consuming, limiting application and reuse of materials for other analyses. We evaluated reflectance FTIR spectroscopy as a non-destructive alternative for reconstructing combustion temperature and plant species from laboratory-generated charcoal. We also examined the influence of contrasting airflow environments (ambient air versus nitrogen-rich) on pyrolysis temperature and plant species reconstruction prediction accuracies and compared predictive performance between a novel, neural network–based deep learning model with the traditional modern analogue technique (MAT) using k-nearest neighbor functions. As proof of concept, we apply our enhanced methodology to ancient charcoal to demonstrate applicability at improving long-term fire regime reconstructions and the ability to link paleofire records with contemporary fire ecology. Results Our analysis shows that transmission and reflectance FTIR spectra yield comparable spectral profiles. However, sample preparation for reflectance FTIR is minimal and non-destructive, unlike transmission FTIR which is destructive. We demonstrate that oxygen environments improved reconstruction accuracy relative to nitrogen-rich conditions. Finally, our deep learning neural network (DL) achieved testing accuracies of 98.7% for temperature and 96.2% for species identification, outperforming MAT’s k-NN approach (89.8% and 65.9%, respectively). A Shapley importance analysis identified 5 key spectral regions that greatly influenced the model’s temperature or species categorization. When applied to ancient charcoal, our results show historic fires from the most recent past primarily burned at low intensities (400–500 °C), reflective of natural fire regimes in ponderosa pine forests. Our results corroborate charcoal morphology data that suggests all ancient charcoal originated from burned woody plant types. Conclusions By combining reflectance FTIR spectroscopy with a deep learning approach, we provide the first accuracies high enough to confidently identify both species and temperature from laboratory-produced charcoal, improving quantitative reconstructions of fire intensity and fuel composition from paleofire records. This opens a wide range of research into the link between fire and larger drivers (i.e., climate or human) and greater ecological understanding of fire regimes beyond that of burn scars or recent observations. These methodological improvements have direct relevance for fire management by improving interpretation of historical fire behavior, informing fuel–fire relationships, and providing a scalable analytical framework applicable to both long-term ecological studies and contemporary fire science.
In the Baltimore urban long-term ecological research (LTER) project, (Baltimore Ecosystem Study, BES) we use the watershed approach to evaluate integrated ecosystem function. The LTER research is centered on the Gwynns Falls watershed, a 17,150 ha catchment that traverses a gradient from the urban core of Baltimore, through older urban residential (1900 - 1950) and suburban (1950- 1980) zones, rapidly suburbanizing areas and a rural/suburban fringe. Our long-term sampling network includes four longitudinal sampling sites along the Gwynns Falls as well as several small (40 - 100 ha) watersheds located within or near to the Gwynns Falls. The longitudinal sites provide data on water and nutrient fluxes in the different land use zones of the watershed (rural/suburban, rapidly suburbanizing, old suburban, urban core) and the small watersheds provide more focused data on specific land use areas (forest, agriculture, rural/suburban, urban). Each of the gaging sites is continuously monitored for discharge and is sampled weekly for chemistry. Additional chemical sampling is carried out in a supplemental set of sites to provide a greater range of land use. Weekly analyses includes nitrate, phosphate, total nitrogen, total phosphorus, chloride and sulfate, turbidity, fecal coliforms, temperature, dissolved oxygen and pH. Cations, dissolved organic carbon and nitrogen and metals are measured on selected samples. Streamflow data for this site are posted at: http://waterdata.usgs.gov/md/nwis/nwisman?site_no=015835701
Fluxes of matter, energy and information over space and time contribute to ecosystems' functioning and stability. The meta-ecosystem framework addresses the dynamics of ecosystems linked by these fluxes but, to date, has focused solely on energy and matter. Here, we synthesize existing knowledge of information's effects on local and connected ecosystems and demonstrate how new hypotheses emerge from the integration of ecological information into meta-ecosystem theory. First, we begin by defining information and reviewing how it flows among ecosystems to affect connectivity, local ecosystem function and meta-ecosystem dynamics. We focus on the role of semiotic information: that which can reduce an individual's – or a group's – uncertainty about the state of the world. Semiotic information elicits behavioral, developmental and life history responses from organisms, potentially leading to fitness consequences. Organisms' responses to information can ripple through trophic interactions to influence ecosystem processes, their local and regional dynamics, and the spatiotemporal flows of energy and matter, therefore information should affect meta-ecosystem dynamics such as stability and productivity. While specific subdisciplines of ecology currently consider different types of information (e.g. social and cultural information, natural and artificial light or sound, body condition, genotype and phenotype), many ecological models currently account for neither the spatio–temporal distribution of information nor its perception by organisms. We identify the empirical, theoretical and philosophical challenges in developing a robust information meta-ecology and offer ways to overcome them. Finally, we present new hypotheses for how accounting for realistic information perception and responses by organisms could impact processes such as home range formation and spatial insurance, and thus our understanding of ecological dynamics across spatial and temporal scales. Accounting for information will be essential to understanding how dynamics such as fitness, organismal movement and trophic interactions influence meta-ecosystem functioning, and predicting how ecosystem processes are affected by anthropogenic pressures.
Disturbances fundamentally alter ecosystem functions, yet predicting their impacts remains a key scientific challenge. While the study of disturbances is ubiquitous across many ecological disciplines, there is no agreed-upon, cross-disciplinary foundation for discussing or quantifying the complexity of disturbances, and no consistent terminology or methodologies exist. This inconsistency presents an increasingly urgent challenge due to accelerating global change and the threat of interacting disturbances that can destabilize ecosystem responses. By harvesting the expertise of an interdisciplinary cohort of contributors spanning 42 institutions across 15 countries, we identified an essential limitation in disturbance ecology: the word ‘disturbance’ is used interchangeably to refer to both the events that cause, and the consequences of, ecological change, despite fundamental distinctions between the two meanings. In response, we developed a generalizable framework of ecosystem disturbances, providing a well-defined lexicon for understanding disturbances across perspectives and scales. The framework results from ideas that resonate across multiple scientific disciplines and provides a baseline standard to compare disturbances across fields. This framework can be supplemented by discipline-specific variables to provide maximum benefit to both inter- and intra-disciplinary research. To support future syntheses and meta-analyses of disturbance research, we also encourage researchers to be explicit in how they define disturbance drivers and impacts, and we recommend minimum reporting standards that are applicable regardless of scale. Finally, we discuss the primary factors we considered when developing a baseline framework and propose four future directions to advance our interdisciplinary understanding of disturbances and their social-ecological impacts: integrating across ecological scales, understanding disturbance interactions, establishing baselines and trajectories, and developing process-based models and ecological forecasting initiatives. Our experience through this process motivates us to encourage the wider scientific community to continue to explore new approaches for leveraging Open Science principles in generating creative and multidisciplinary ideas.
Over multi-decadal time scales, assuming that changes in subsurface water storage are negligible, the continental precipitative water flux, P, can be divided into two principal components, Q (run-off, including soil infiltration and groundwater recharge) and ET (evapotranspiration). Taking into account a broadly applied Budyko's phenomenology to describe the relationship of ET/P as a function of PET/P, where PET is the potential evapotranspiration, we propose a theoretical framework for predicting characteristics of the water cycle from scaling relationships. In this framework, the ecosystem net primary productivity is expressed in terms of soil formation and vegetation growth, which is mathematically optimized with respect to the water partitioning, generating directly the value ET/P. Here, the mathematical optimization is based on the general ecological principle that dominant ecosystems tend to be those that, for any given conditions, maximize conversion of atmospheric carbon to biomass. It is shown that application of the results of mathematical optimization to water-limited ecosystems is possible by applying the optimization only to a vegetation covered portion of the surface. For energy-limited ecosystems, the optimization can be applied only to a portion of the precipitation equal to PET, assuming that the remaining P simply runs off. We use theoretical and actual values of plant root fractal dimensionalities, d f , to predict ranges of ET/P as a function of PET/P for 0 ≤ PET/P ≤ 1 and compare with annual and multi-decadal means of ET/P. By comparing the developed approach with a large amount of data collected from the literature, we demonstrate its successful applications to both water- and energy-limited systems.
In the Fall of 2016 a workshop was held which brought together over 50 scientists from the ecological and radiological fields to discuss feasibility and challenges of reintegrating ecosystem science into radioecology. There is a growing desire to incorporate attributes of ecosystem science into radiological risk assessment and radioecological research more generally, fueled by recent advances in quantification of emergent ecosystem attributes and the desire to accurately reflect impacts of radiological stressors upon ecosystem function. This work is a synthesis of the discussions and consensus of the workshop participant's responses to three primary questions, which were: 1) How can ecosystem science support radiological risk assessment? 2) What ecosystem level endpoints potentially could be used for radiological risk assessment? and 3) What inference strategies and associated methods would be most appropriate to assess the effects of radionuclides on ecosystem structure and function? The consensus of the participants was that ecosystem science can and should support radiological risk assessment through the incorporation of quantitative metrics that reflect ecosystem functions which are sensitive to radiological contaminants. The participants also agreed that many such endpoints exit or are thought to exit and while many are used in ecological risk assessment currently, additional data need to be collected that link the causal mechanisms of radiological exposure to these endpoints. Finally, the participants agreed that radiological risk assessments must be designed and informed by rigorous statistical frameworks capable of revealing the causal inference tying radiological exposure to the endpoints selected for measurement.
Most trees on Earth form a symbiosis with either arbuscular mycorrhizal or ectomycorrhizal fungi. By forming common mycorrhizal networks, actively modifying the soil environment and other ecological mechanisms, these contrasting symbioses may generate positive feedbacks that favour their own mycorrhizal strategy (that is, the con-mycorrhizal strategy) at the expense of the alternative strategy. Positive con-mycorrhizal feedbacks set the stage for alternative stable states of forests and their fungi, where the presence of different forest mycorrhizal strategies is determined not only by external environmental conditions but also mycorrhiza-mediated feedbacks embedded within the forest ecosystem. Here, in this work, we test this hypothesis using thousands of US forest inventory sites to show that arbuscular and ectomycorrhizal tree recruitment and survival exhibit positive con-mycorrhizal density dependence. Data-driven simulations show that these positive feedbacks are sufficient in magnitude to generate and maintain alternative stable states of the forest mycobiome. Given the links between forest mycorrhizal strategy and carbon sequestration potential, the presence of mycorrhizal-mediated alternative stable states affects how we forecast forest composition, carbon sequestration and terrestrial climate feedbacks.
File types include: Soil respiration as 13C cumulative respiration from soil incubation experiment, qSIP (quantitative stable isotope probing) data that is "18S apes wide" which is the fungal atom percent excess or how much the fungi took up of the labeled litter and "16S apes wide" which is the bacterial atom percent excess or how much the bacteria took up of the labeled litter, metabolomic data from the incubated soil samples called "Metab Soil Unique Filtered", which is the metabolomic data that had an initial filter from the raw data, and lipidomic data from the incubated soil samples called "All lipids soil". These files were used according to methods in Raczka et al. 2021 Scientific Reports. Headers show soil type (Oak, Poplar) and litter type (also called substrate here, which is labeled as no litter (control), poplar, and oak). This research was done to understand interactions between ecosystem-level processes and microbial diversity that impacts the composition of decomposition products that can form stable soil organic matter.
This dataset contains eddy covariance carbon dioxide flux and hydrometeorological measurements made in an Amazonian palm swamp peatland near Iquitos, Peru. These data have been aggregated from half-hourly observations that are available from AmeriFlux (https://ameriflux.lbl.gov/; site PE-QFR). These data files are CSV (comma separated values) format and can be imported using Matlab, R, or Excel. Three full years of data are reported (2018, 2019 and 2022) during which time there were large differences in annual net ecosystem carbon dioxide exchange. The gap was caused by instrument malfunction and extended delays in repairs because of the Covid-19 pandemic. This research was conducted to better understand the carbon cycle of tropical peatlands, and was supported by the U.S. Department of Energy, Office of Science, Office of Biological and Environmental Research, Terrestrial Ecosystem Science Program, under Award Number DE-SC0020167.
Degradation of freshwater ecosystems and the services they provide is a primary cause of increasing water insecurity, raising the need for integrated solutions to freshwater management. While methods for characterizing the multi-faceted challenges of managing freshwater ecosystems abound, they tend to emphasize either social or ecological dimensions and fall short of being truly integrative. This paper suggests that management for sustainability of freshwater systems needs to consider the linkages between human water uses, freshwater ecosystems and governance. We present a conceptualization of freshwater resources as part of an integrated social-ecological system and propose a set of corresponding indicators to monitor freshwater ecosystem health and to highlight priorities for management. We demonstrate an application of this new framework -the Freshwater Health Index (FHI) - in the Dongjiang River Basin in southern China, where stakeholders are addressing multiple and conflicting freshwater demands. By combining empirical and modeled datasets with surveys to gauge stakeholders' preferences and elicit expert information about governance mechanisms, the FHI helps stakeholders understand the status of freshwater ecosystems in their basin, how ecosystems are being manipulated to enhance or decrease water-related services, and how well the existing water re-source management regime is equipped to govern these dynamics over time. This framework helps to operationalize a truly integrated approach to water resource management by recognizing the interplay between governance, stakeholders, freshwater ecosystems and the services they provide
Abstract Understanding how carnivores impact ecological communities is essential for guiding effective management actions and conserving biodiversity. Quantifying predators' diets, including prey selectivity, allows for the assessment of the relative effects native and invasive predators may have on prey populations. In Australia, populations of a native, terrestrial apex predator, the dingo Canis dingo/C. familiaris , and introduced and invasive subordinate mesopredators, the European red fox Vulpes vulpes and feral cat Felis catus , co‐occur, but there is limited understanding of their relative impacts on native and invasive prey in different ecosystems. To assess the possible effects of dingoes, foxes and cats on prey, we examined their diet and prey selectivity across a ~10,000 km 2 semi‐arid mallee ecosystem. Using macroscopic scat analysis, we identified strong dietary niche separation. Larger‐bodied dingoes primarily consumed large marsupial herbivores, whereas foxes and cats primarily consumed smaller prey, including introduced and native rodents and birds. Foxes had the broadest diet, and the greatest dietary overlap with cats ( = 0.81), compared with dingoes ( = 0.50) or between dingoes and cats ( = 0.36). Livestock were identified in 2% of dingo and 7% of fox scats. Cats and foxes consumed more than 15 times the volume of small native mammals compared with dingoes, including threatened species such as fat‐tailed dunnarts Sminthopsis crassicaudata . Cats and foxes also selectively consumed small mammals relative to their estimated availability and consumed fewer large mammals. In contrast, dingoes consumed fewer birds and more echidnas relative to their availability. Our results suggest limited intraguild competition within this semi‐arid ecosystem, as dingoes are primarily exerting top‐down pressure on large herbivores, whereas invasive mesopredators are disproportionately impacting smaller prey, including threatened native mammals. Practical implication . Our findings suggest that ongoing conservation management of dingoes, red foxes and feral cats must consider the variation in diets, impacts on prey and ecological roles of these different predator species, and avoid indiscriminate lethal control methods. Quantifying actual, rather than assumed, impacts of predators on threatened native species, large herbivores and livestock is essential to achieve effective and integrated ecosystem management.
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.
The use of closed ecological systems for the regeneration of wastes, air, and water is discussed. It is concluded that such systems, if they are to be used for the support of humans in space, will require extensive mechanical and physico-chemical support. The reason for this is that the buffering capacity available in small systems is inadequate, and that natural biological and physical regulatory mechanisms rapidly become inoperative. It is proposed that mathematical models of the dynamics of a closed ecological system may provide the best means of studying the initial problems of ecosystem closure. A conceptual and mathematical model of a closed ecosystem is described which treats the biological components as a farm, calculates the rates of flow of elements through the system by mass-balance techniques and control theory postulates, and can evaluate the requirements for mechanical buffering activities. It is suggested that study of the closure of ecosystems can significantly aid in the establishment of general principles of ecological systems.
Labyrinthulomycetes are a group of ubiquitous and diverse unicellular Stramenopiles and have long been known for their vital role in ocean carbon cycling. However, their ecological function from the perspective of organic matter degradation remains poorly understood. This study reports high-quality genomes of two newly isolated Labyrinthulomycetes strains, namely, Botryochytrium sp. strain S-28 and Oblongichytrium sp. strain S-429, and provides molecular analysis of their ecological functions using comparative genomics and a biochemical assay. Our results suggest that Labyrinthulomycetes may occupy multiple ecological niches in marine ecosystems because of the significant differences in gene function among different genera. Certain strains could degrade wheat bran independently by secreting cellulase. The key glycoside hydrolase families (GH1, GH5, and GH9) related to cellulase and the functional domains of carbohydrate-active enzymes (CAZymes) were more enriched in their genomes. This group can actively participate in marine biochemical cycles as decomposers. In contrast, other strains that could not produce cellulase may thrive as “leftover scavengers” and act as a source of nutrients to the higher-trophic-level plankton. In addition, our findings emphasize the dual roles of endoglucanase, acting as both exo- and endoglucanases, in the process of cellulose degradation. Using genomic, biochemical, and phylogenetic analyses, our study provides a broader insight into the nutritional patterns and ecological functions of Labyrinthulomycetes.
This data package contains litter decomposition data collected from 170 plots of rapidly expanding shrub genera (Alnus, Betula, and Salix) and a widespread sedge (Eriophorum vaginatum) along a latitudinal and temperature gradient in northern Alaska. These data were produced from a litter bag experiment that took place from July 2017 to July 2018 and include mass loss and nitrogen loss decomposition metrics for both leaf and root litters. These raw data support a submitted manuscript that examines the variability in decomposition between shrub and graminoid leaf and root litters across a 1-year experiment across the graminoid-dominated Arctic tundra and reveals how deciduous shrub expansion affects litter decomposition in tundra ecosystems. Data are presented by site (n=5) and patch (shrub or sedge plot) in csv files. The site and plot location data and environmental measurement data are provided in Fraterrigo and Chen (2020). Additional methods regarding plot distribution and environmental measurements are in Chen et al. (2020) and Fraterrigo et al. (2024).
This dataset contains gap-filled measurements of methane flux (FCH4), net ecosystem CO2 exchange (NEE) partitioned into gross primary productivity (GPP) and ecosystem respiration (RE), as well as latent heat flux (LE) from a Great Lakes coastal freshwater wetland at the US-OWC AmeriFlux site. The dataset covers the peak growing seasons (June−September) of 2015−2016, dominated by Typha spp., and 2020−2022, characterized by floating-leaved species (lotus and water lily). These data were generated to investigate how rising water levels and vegetation shifts influence CH4 and CO2 fluxes across two distinct ecosystem states in this wetland. The dataset, provided in CSV format, includes half-hourly gap-filled flux data from June to September for 2015, 2016, 2020, 2021, and 2022. The gap-filled data refers to measurements where missing values due to instrument issues or quality control were filled using artificial neural networks (ANNs).