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At least 55 records · Page 3Linked to original sources
USGS2013

Trait contributions to fish community assembly emerge from trophicinteractions in an individual-based model

Community ecology seeks to understand and predict the characteristics of communities that can develop under different environmental conditions, but most theory has been built on analytical models that are limited in the diversity of species traits that can be considered simultaneously. We address that limitation with an individual-based model to simulate assembly of fish communities characterized by life history and trophic interactions with multiple physiological tradeoffs as constraints on species performance. Simulation experiments were carried out to evaluate the distribution of 6 life history and 4 feeding traits along gradients of resource productivity and prey accessibility. These experiments revealed that traits differ greatly in importance for species sorting along the gradients. Body growth rate emerged as a key factor distinguishing community types and defining patterns of community stability and coexistence, followed by egg size and maximum body size. Dominance by fast-growing, relatively large, and fecund species occurred more frequently in cases where functional responses were saturated (i.e. high productivity and/or prey accessibility). Such dominance was associated with large biomass fluctuations and priority effects, which prevented richness from increasing with productivity and may have limited selection on secondary traits, such as spawning strategies and relative size at maturation. Our results illustrate that the distribution of species traits and the consequences for community dynamics are intimately linked and strictly dependent on how the benefits and costs of these traits are balanced across different conditions.

Ecological Modelling↗
USGS2018

Migratory coupling between predators and prey

Animal migrations act to couple ecosystems and are undertaken by some of the world’s most endangered taxa. Predators often exploit migrant prey, but the movements taken by these consumers are rarely studied or understood. We define such movements, where migrant prey induce large-scale movements of predators, as migratory coupling. Migratory coupling can have ecological consequences for the participating prey, predators and the communities they traverse across the landscape. We review examples of migratory coupling in the literature and provide hypotheses regarding conditions favourable for their occurrence. We also provide a framework for interactions induced by migratory coupling and demonstrate their potential community-level impacts by examining other forms of spatial shifts in predators. Migratory coupling integrates the fields of landscape, movement, food web and community ecologies, and represents an understudied frontier in ecology.

Nature Ecology & Evolution↗
USGS2022

Tick abundance, diversity and pathogen data collected by the National Ecological Observatory Network

Cases of tick-borne diseases have been steadily increasing in the USA, owing in part to tick range expansion, land cover and associated host population changes, and habitat fragmentation. However, the relative importance of these and other potential drivers remain poorly understood within this complex disease system. Ticks are ectotherms with multi-host lifecycles, which makes them sensitive to changes in the physical environment and the ecological community. Here, we describe data collected by the National Ecological Observatory Network on tick abundance, diversity and pathogen infection. Ticks are collected using drag or flag methods multiple times in a growing season at 46 terrestrial sites across the USA. Ticks are identified and enumerated by a professional taxonomist, and a subset of nymphs are PCR-tested for various tick-borne pathogens. These data will enable multiscale analyses to better understand how drivers of tick dynamics and pathogen prevalence may shift with climate or land-use change.

Gigabyte↗
USGS2022

Microbiome assembly in thawing permafrost and its feedbacks to climate

The physical and chemical changes that accompany permafrost thaw directly influence the microbial communities that mediate the decomposition of formerly frozen organic matter, leading to uncertainty in permafrost–climate feedbacks. Although changes to microbial metabolism and community structure are documented following thaw, the generality of post-thaw assembly patterns across permafrost soils of the world remains uncertain, limiting our ability to predict biogeochemistry and microbial community responses to climate change. Based on our review of the Arctic microbiome, permafrost microbiology, and community ecology, we propose that Assembly Theory provides a framework to better understand thaw-mediated microbiome changes and the implications for community function and climate feedbacks. This framework posits that the prevalence of deterministic or stochastic processes indicates whether the community is well-suited to thrive in changing environmental conditions. We predict that on a short timescale and following high-disturbance thaw (e.g., thermokarst), stochasticity dominates post-thaw microbiome assembly, suggesting that functional predictions will be aided by detailed information about the microbiome. At a longer timescale and lower-intensity disturbance (e.g., active layer deepening), deterministic processes likely dominate, making environmental parameters sufficient for predicting function. We propose that the contribution of stochastic and deterministic processes to post-thaw microbiome assembly depends on the characteristics of the thaw disturbance, as well as characteristics of the microbial community, such as the ecological and phylogenetic breadth of functional guilds, their functional redundancy, and biotic interactions. These propagate across space and time, potentially providing a means for predicting the microbial forcing of greenhouse gas feedbacks to global climate change.

Global Change Biology↗
USGS2003

Fitting population models from field data

The application of population and community ecology to solving real-world problems requires population and community dynamics models that reflect the myriad patterns of interaction among organisms and between the biotic and physical environments. Appropriate models are not hard to construct, but the experimental manipulations needed to evaluate their defining coefficients are often both time consuming and costly, and sometimes environmentally destructive, as well. In this paper we present an empirical approach for finding the coefficients of broadly inclusive models without the need for environmental manipulation, demonstrate the approach with both an animal and a plant example, and suggest possible applications. Software has been developed, and is available from the senior author, with a manual describing both field and analytic procedures.

Ecological Modelling↗
USGS2023

Elevation, canopy cover and grass cover structure patterns of seedling establishment in a subtropical post-fire restoration

Ecological restoration is beneficial to ecological communities in this era of large-scale landscape change and ecological disruption. However, restoration outcomes are notoriously variable, which makes fine-scale decision-making challenging. This is true for restoration efforts that follow large fires, which are increasingly common as the climate changes. Post-fire restoration efforts, like tree planting and seeding have shown mixed success, though the causes of the variation in restoration outcomes remain unclear. Abiotic factors such as elevation and fire severity, as well as biotic factors, such as residual canopy cover and abundance of competitive understorey grasses, can vary across a burned area and may all influence the success of restoration efforts to re-establish trees following forest fires. We examined the effect of these factors on the early seedling establishment of a tree species—māmane ( Sophora chrysophylla )—in a subtropical montane woodland in Hawaiʻi. Following a human-caused wildfire, we sowed seeds of māmane as part of a restoration effort. We co-designed a project to examine māmane seedling establishment. We found that elevation was of overriding importance, structuring total levels of plant establishment, with fewer seedlings establishing at higher elevations. Residual canopy cover was positively correlated with seedling establishment, while cover by invasive, competitive understorey grasses very weakly positively correlated with increased seedling establishment. Our results point to specific factors structuring plant establishment following a large fire and suggest additional targeted restoration actions within this subtropical system. For example, if greater native woody recruitment is a management goal, then actions could include targeted seed placement at lower elevations where establishment is more likely, increased seeding densities at high elevation where recruitment rates are lower, and/or invasive grass removal prior to seeding. Such actions may result in faster native ecosystem recovery, which is a goal of local land managers.

Hawaii↗
USGS2024

Benthic community metrics track hydrologically stressed mangrove systems

Mangrove restoration efforts have increased in order to help combat their decline globally. While restoration efforts often focus on planting seedlings, underlying chronic issues, including disrupted hydrological regimes, can hinder restoration success. While improving hydrology may be more cost-effective and have higher success rates than planting seedlings alone, hydrological restoration success in this form is poorly understood. Restoration assessments can employ a functional equivalency approach, comparing restoration areas over time with natural, reference forests in order to quantify the relative effectiveness of different restoration approaches. Here, we employ the use of baseline community ecology metrics along with stable isotopes to track changes in the community and trophic structure and enable time estimates for establishing mangrove functional equivalency. We examined a mangrove system impacted by road construction and recently targeted for hydrological restoration within the Rookery Bay National Estuarine Research Reserve, Florida, USA. Samples were collected along a gradient of degradation, from a heavily degraded zone, with mostly dead trees, to a transition zone, with a high number of saplings, to a full canopy zone, with mature trees, and into a reference zone with dense, mature mangrove trees. The transition, full canopy, and reference zones were dominated by annelids, gastropods, isopods, and fiddler crabs. Diversity was lower in the dead zone; these taxa were enriched in 13 C relative to those found in all the other zones, indicating a shift in the dominant carbon source from mangrove detritus (reference zone) to algae (dead zone). Community-wide isotope niche metrics also distinguished zones, likely reflecting dominant primary food resources (baseline organic matter) present. Our results suggest that stable isotope niche metrics provide a useful tool for tracking mangrove degradation gradients. These baseline data provide critical information on the ecosystem functioning in mangrove habitats following hydrological restoration.

Florida↗
USGS2026

The use of an analog sclerometer to estimate strength of hard substrates supporting coastal communities

In the marine environment, substrate differences such as ‘soft’ and ‘hard’ bottom result in different ecological communities. It is unclear, however, whether strength of hard bottom affects organism presence. To date, a limitation of many studies on organism-substrate interactions is the inability to measure rock strength in situ for marine substrates. Previous efforts involved measurements of rock compressive strength, which relates to the hardness of the interior rock and does not necessarily reflect how organisms interact with the rock surface. Here we present a method for estimating the surface strength, or friability, of marine rocks in the field. We used an analog sclerometer to scratch the surface of marine rocks at predetermined force levels across 38 intertidal sites. Friability ranged over two orders of magnitude (0.13–12.10 MPa) with significant differences among rock types: mudstone (mean = 0.56 MPa) had the lowest resistance, while granitic rocks (mean = 2.14 MPa) had the highest, consistent with theoretical expectations. Friability measurements indicated expected compressive rock strengths across rock types and captured differences within types (i.e., surface weathering). The sclerometer effectively measured surface rock strength on soft rocks, such as mudstone, and hard rocks, like granite. The ability to measure the strength of surfaces represents a new tool for benthic marine research, enabling investigations of substrate-organism interactions in future studies.

Estuarine, Coastal and Shelf Science↗
USGS2017

Coastal habitat and biological community response to dam removal on the Elwha River

Habitat diversity and heterogeneity play a fundamental role in structuring ecological communities. Dam emplacement and removal can fundamentally alter habitat characteristics, which in turn can affect associated biological communities. Beginning in the early 1900s, the Elwha and Glines Canyon dams in Washington, USA, withheld an estimated 30 million tonnes of sediment from river, coastal, and nearshore habitats. During the staged removal of these dams—the largest dam removal project in history—over 14 million tonnes of sediment were released from the former reservoirs. Our interdisciplinary study in coastal habitats—the first of its kind—shows how the physical changes to the river delta and estuary habitats during dam removal were linked to responses in biological communities. Sediment released during dam removal resulted in over a meter of sedimentation in the estuary and over 400 m of expansion of the river mouth delta landform. These changes increased the amount of supratidal and intertidal habitat, but also reduced the influx of seawater into the pre-removal estuary complex. The effects of these geomorphic and hydrologic changes cascaded to biological systems, reducing the abundance of macroinvertebrates and fish in the estuary and shifting community composition from brackish to freshwater-dominated species. Vegetation did not significantly change on the delta, but pioneer vegetation increased during dam removal, coinciding with the addition of newly available habitat. Understanding how coastal habitats respond to large-scale human stressors—and in some cases the removal of those stressors—is increasingly important as human uses and restoration activities increase in these habitats.

Washington↗
USGS2023

A community convention for ecological forecasting: Output files and metadata version 1.0

This paper summarizes the open community conventions developed by the Ecological Forecasting Initiative (EFI) for the common formatting and archiving of ecological forecasts and the metadata associated with these forecasts. Such open standards are intended to promote interoperability and facilitate forecast communication, distribution, validation, and synthesis. For output files, we first describe the convention conceptually in terms of global attributes, forecast dimensions, forecasted variables, and ancillary indicator variables. We then illustrate the application of this convention to the two file formats that are currently preferred by the EFI, netCDF (network common data form), and comma-separated values (CSV), but note that the convention is extensible to future formats. For metadata, EFI's convention identifies a subset of conventional metadata variables that are required (e.g., temporal resolution and output variables) but focuses on developing a framework for storing information about forecast uncertainty propagation, data assimilation, and model complexity, which aims to facilitate cross-forecast synthesis. The initial application of this convention expands upon the Ecological Metadata Language (EML), a commonly used metadata standard in ecology. To facilitate community adoption, we also provide a Github repository containing a metadata validator tool and several vignettes in R and Python on how to both write and read in the EFI standard. Lastly, we provide guidance on forecast archiving, making an important distinction between short-term dissemination and long-term forecast archiving, while also touching on the archiving of code and workflows. Overall, the EFI convention is a living document that can continue to evolve over time through an open community process.

Ecosphere↗
USGS2015

Wyoming Basin Rapid Ecoregional Assessment

The Wyoming Basin Rapid Ecoregional Assessment was conducted in partnership with the Bureau of Land Management (BLM). The overall goals of the BLM Rapid Ecoregional Assessments (REAs) are to identify important ecosystems and wildlife habitats at broad spatial scales; identify where these resources are at risk from Change Agents, including development, wildfire, invasive species, disease and climate change; quantify cumulative effects of anthropogenic stressors; and assess current levels of risk to ecological resources across a range of spatial scales and jurisdictional boundaries by assessing all lands within an ecoregion. There are several components of the REAs. Management Questions, developed by the BLM and stakeholders for the ecoregion, identify the regionally significant information needed for addressing land-management responsibilities. Conservation Elements represent regionally significant species and ecological communities that are of management concern. Change Agents that currently affect or are likely to affect the condition of species and communities in the future are identified and assessed. REAs also identify areas that have high conservation potential that are referred to as “large intact areas.” At the ecoregion level, the ecological value of large intact areas is based on the assumption that because these areas have not been greatly altered by human activities (such as development), they are more likely to contain a variety of plant and animal communities and to be resilient and resistant to changes resulting from natural disturbances such as fire, insect outbreaks, and disease. The Wyoming Basin Ecoregion encompasses approximately 133,656 square kilometers (51,604.87 square miles), including portions of Wyoming, Colorado, Utah, Idaho, and Montana. The Wyoming Basin has some of the highest quality wildlife habitats remaining in the Intermountain West. The wide variety of habitats includes intermountain basins dominated by sagebrush shrublands interspersed with deciduous and conifer woodlands and montane or subalpine forests at higher elevations. The Wyoming Basin also supports ranching and agricultural operations that are important to the region’s economy and vital to conserving habitats for wildlife. The region also contains abundant energy resources, including large natural gas reserves and areas of high wind-energy potential. Combined with increased residential and industrial development, fast-paced energy development is resulting in notable land-use changes, including habitat loss and fragmentation. In the Wyoming Basin REA, we evaluated the following seven communities as Conservation Elements: streams and rivers, wetlands, riparian forests and shrublands, sagebrush steppe, desert shrublands, foothill shrublands and woodlands, and mountain forests and alpine zones. We evaluated a total of 14 species and species assemblages as Conservation Elements: aspen forests and woodlands, five-needle pine forests and woodlands, juniper woodlands, cutthroat trout, three-species fish assemblage, northern leatherside chub, sauger, spadefoot assemblage, greater sage-grouse, golden eagle, ferruginous hawk, sagebrush-obligate birds, pygmy rabbit, and mule deer. We evaluated Management Questions (Core and Integrated) for each species and community for the Wyoming Basin REA. Core Management Questions address primary management issues, including (1) where is the Conservation Element, and what are its key ecological attributes (characteristics of species and communities that may affect their long-term persistence or viability); (2) what and where are the Change Agents; and (3) how do the Change Agents affect the key ecological attributes? Integrated Management Questions synthesize the Core Management Questions as follows: (1) where are the areas with high landscape-level ecological values; (2) where are the areas with high landscape-level risks; and (3) where are the potential areas for conservation, restoration, and development? The associated maps and key findings for each Management Question are summarized for each Conservation Element in individual chapters. Additional chapters on landscape intactness and an REA synthesis are included.

Colorado, Idaho, Montana, Utah, Wyoming↗
USGS2013

Strong species-environment feedback shapes plant community assembly along environmental gradients

An aim of community ecology is to understand the patterns of competing species assembly along environmental gradients. All species interact with their environments. However, theories of community assembly have seldom taken into account the effects of species that are able to engineer the environment. In this modeling study, we integrate the species' engineering trait together with processes of immigration and local dispersal into a theory of community assembly. We quantify the species' engineering trait as the degree to which it can move the local environment away from its baseline state towards the optimum state of the species (species-environment feedback). We find that, in the presence of immigration from a regional pool, strong feedback can increase local species richness; however, in the absence of continual immigration, species richness is a declining function of the strength of species-environment feedback. This shift from a negative effect of engineering strength on species richness to a positive effect, as immigration rate increases, is clearer when there is spatial heterogeneity in the form of a gradient in environmental conditions than when the environment is homogeneous or it is randomly heterogeneous. Increasing the scale over which local dispersal occurs can facilitate species richness when there is no species-environment feedback or when the feedback is weak. However, increases in the spatial scale of dispersal can reduce species richness when the species-environment feedback is strong. These results expand the theoretical basis for understanding the effects of the strength of species-environment feedback on community assembly.

Ecology and Evolution↗
USGS2022

Does large dam removal restore downstream riparian vegetation diversity? Testing predictions on the Elwha River, Washington, USA

Large dams and their removal can profoundly affect riparian ecosystems by altering flow and sediment regimes, hydrochory, and landform dynamics, yet few studies have documented these effects on downstream plant communities. Ecological theory and empirical results suggest that by altering disturbance regimes, reducing hydrochory, and shifting communities to later successional stages, dams reduce downstream plant diversity. Dam removal could reverse these processes, but the release of large volumes of sediment could have unexpected, transient effects. Two large dams were removed on the Elwha River in Washington State, USA, from 2011-2014, representing an unprecedented opportunity to study large dam removal effects on riparian plant communities. Our research objectives were to determine: 1) whether the Elwha River dams were associated with lower downstream plant diversity and altered species composition across riparian landforms pre-dam removal, and 2) whether dam removal has begun to restore downstream diversity and composition. To address these objectives, we compared plant species richness and community composition in river segments above, below, and between the two dams. Plant communities were sampled twice before (2005 and 2010) and four times after (2013, 2014, 2016, and 2017) the start of dam removal, with 2013 and 2014 sampled while the upstream dam removal was ongoing. Prior to dam removal, native species richness was 41% lower below dams compared to the upstream segment; six years after dam removal began, it increased ~31% between the dams, while nonnative species richness and cover were not apparently affected by dams or their removal. Deposition caused by large volumes of released reservoir sediment had mixed effects on native species richness (increased on floodplains, decreased elsewhere) in the lowest river segment. Plant community composition was also different downstream from dams compared to the upstream reference, and has changed in downstream floodplains and bars since dam removal. Long-term, we expect that diversity will continue to increase in downstream river segments. Our results provide evidence that 1) large dams reduce downstream native plant diversity, 2) dam removal may restore it, and 3) given the natural dynamics of riparian vegetation, long-term, multi-year before-and-after-monitoring is essential for understanding dam removal effects.

Washington↗
USGS1990

A sensitivity analysis of nine diversity and seven similarity indices

Indices summarizing community structure are used to evaluate fundamental community ecology, species interaction, biogeographical factors, and environmental stress. Some of these indices are insensitive to gross community changes induced by contaminants of pollution. Sixteen indices commonly used to assess the status of aquatic communities in water quality studies were evaluated using computer simulation techniques to determine specific index responses. Three communities of different initial structure (19 species, 38 species, and 83 species) were generated using the lognormal equation. Each community was then perturbed in three ways: common species disproportionally reduced, all species proportionally reduced, and rare species disproportionally reduced. The behavior of the indices was analyzed graphically and differential response due to initial community structure and type of community change was documented. Some recommendations of potential sources of error using community levels indices were developed.

Research Journal of the Water Pollution Control Fe↗
USGS2014

The role of infectious disease in marine communities

Marine ecologists recognize that infectious diseases play and important role in ocean ecosystems. This role may have increased in some host taxa over time (Ward and Lafferty 2004). We begin this chapter by introducing infectious agents and their relationships with their hosts in marine systems. We then put infectious disease agents with their hosts in marine systems. We then put infectious disease agents in the perspective of marine biodiversity and discuss the various factors that affect parasites. Specifically, we introduce some basin epidemiological concepts, including the effects of stress and free-living diversity on parasites. Following this, we give brief consideration to communities of parasites within their hosts, particularly as these can lead to general insights into community ecology. We also give examples of how infectious diseases affect host populations, scaling up to marine communities. Finally, we present examples of marine infectious disease that impair conservation and fisheries.

Book chapter↗
USGS2019

Seed bank community and soil texture relationships in a cold desert

Sustainable dryland management depends on understanding environmental factors driving composition of current and future ecological communities. While there has been extensive research on aboveground plant communities, less is known about belowground soil seed bank communities, which can reflect both past and potential future communities. In the Colorado Plateau of the western United States, we explored aboveground and belowground plant communities and how they varied across sites with similar climate but contrasting soil textures. We found that aboveground vegetation and belowground seed bank community composition each varied significantly among sites. However, we also observed marked aboveground-belowground compositional dissimilarity across sites, suggesting that the two spatially-associated communities may respond differently to the same environmental gradient. Lastly, we found that cheatgrass seed prevalence (Bromus tectorum) – one of the region’s major exotic invasive plants – varied strongly by soil texture, a finding with potential implications for invasive species management. From our research findings, we highlight two general patterns for dryland managers. Firstly, we show aboveground and belowground plant communities will not always respond to the same environmental changes in a coordinated manner. Secondly, the data underscore a large potential role for soil texture in mediating the plant community responses to other environmental factors.

Utah↗
USGS2016

Incorporating imperfect detection into joint models of communites: A response to Warton et al.

Warton et al. [1] advance community ecology by describing a statistical framework that can jointly model abundances (or distributions) across many taxa to quantify how community properties respond to environmental variables. This framework specifies the effects of both measured and unmeasured (latent) variables on the abundance (or occurrence) of each species. Latent variables are random effects that capture the effects of both missing environmental predictors and correlations in parameter values among different species. As presented in Warton et al. , however, the joint modeling framework fails to account for the common problem of detection or measurement errors that always accompany field sampling of abundance or occupancy, and are well known to obscure species- and community-level inferences.

Trends in Ecology and Evolution↗
USGS2019

Overview of emerging amphibian pathogens and modeling advances for conservation-related decisions

One of the leading causes of global amphibian decline is emerging infectious disease. We summarize the disease ecology of four major emerging amphibian infectious agents: chytrids, ranaviruses, trematodes, and Perkinsea. We focus on recently developed quantitative advances that build on well-established ecological theories and aid in studying epizootic and enzootic disease dynamics. For example, we identify ecological and evolutionary selective forces that determine disease outcomes and transmission pathways by borrowing ideas from population and community ecology theory. We outline three topics of general interest in disease ecology: (i) the relationship between biodiversity and disease risk, (ii) individual, species, or environmental transmission heterogeneity, and (iii) pathogen coinfections. Finally, we identify specific knowledge gaps impeding the success of conservation-related decisions for disease mitigation and the future of amphibian conservation success.

Biological Conservation↗