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At least 307 records · Page 17Linked to original sources
USGS2015

Encapsulating model complexity and landscape-scale analyses of state-and-transition simulation models: an application of ecoinformatics and juniper encroachment in sagebrush steppe ecosystems

State-and-transition simulation modeling relies on knowledge of vegetation composition and structure (states) that describe community conditions, mechanistic feedbacks such as fire that can affect vegetation establishment, and ecological processes that drive community conditions as well as the transitions between these states. However, as the need for modeling larger and more complex landscapes increase, a more advanced awareness of computing resources becomes essential. The objectives of this study include identifying challenges of executing state-and-transition simulation models, identifying common bottlenecks of computing resources, developing a workflow and software that enable parallel processing of Monte Carlo simulations, and identifying the advantages and disadvantages of different computing resources. To address these objectives, this study used the ApexRMS® SyncroSim software and embarrassingly parallel tasks of Monte Carlo simulations on a single multicore computer and on distributed computing systems. The results demonstrated that state-and-transition simulation models scale best in distributed computing environments, such as high-throughput and high-performance computing, because these environments disseminate the workloads across many compute nodes, thereby supporting analysis of larger landscapes, higher spatial resolution vegetation products, and more complex models. Using a case study and five different computing environments, the top result (high-throughput computing versus serial computations) indicated an approximate 96.6% decrease of computing time. With a single, multicore compute node (bottom result), the computing time indicated an 81.8% decrease relative to using serial computations. These results provide insight into the tradeoffs of using different computing resources when research necessitates advanced integration of ecoinformatics incorporating large and complicated data inputs and models. - See more at: http://aimspress.com/aimses/ch/reader/view_abstract.aspx?file_no=Environ2015030&flag=1#sthash.p1XKDtF8.dpuf

AIMS Environmental Science↗
USGS2026

The further you are, the closer you get: Environmental similarity connects aquatic invertebrate communities across the terrestrial landscape in a large river network

Biodiversity is structured on the landscape through a combination of spatial, environmental, and stochastic factors. In freshwater river networks, the interaction of the linear river network and the three-dimensional terrestrial landscape creates multiple pathways for ecological connectivity that affect aquatic community structure through habitat filtering and dispersal dynamics. Here, we use the high throughput capacity of environmental DNA (eDNA) metabarcoding to explore the influence of spatial relationships and environmental heterogeneity across an expansive and diverse landscape. We collected invertebrate eDNA samples from 70 aquatic habitats in the lower Colorado River Basin (LCRB), ranging from small, free-flowing headwater tributaries to anthropogenically-altered high order rivers, spanning five major drainage regions. Communities displayed high alpha and beta diversity among the drainage regions, structured by a combination of spatial, environmental, and stochastic factors. A novel distance-decay framework adapted from population genetics revealed the influence of terrestrial pathways of ecological connectivity among communities throughout the network. Hierarchical clustering identified patterns of convergent similarity in headwater tributaries despite extreme river network distances separating sites. These results reveal the dual influence of spatial and environmental metacommunity dynamics in aquatic invertebrate communities in the LCRB and the specific influence of interbasin terrestrial connectivity across large spatial scales. Overall, this highlights how terrestrial landscapes can shape convergent patterns of biodiversity in river networks.

Arizona, California, Nevada↗
USGS2025

Food web structure of the Lake Superior fish community in 2021–2022

The trophic linkages and ecological requirements of the Lake Superior fish community have not been assessed on a whole lake scale in over a decade. Here, we investigated the trophic dynamics across multiple species and habitat zones of Lake Superior. From April to October of 2021 and 2022, a total of five piscivore, four planktivore, and six benthivore species were collected by region and length class during bottom-trawl, standard gillnet, commercial cisco gillnet, and recreational angler surveys. To assess trophic linkages, stomach contents were measured to estimate biomass consumed and a multivariate analysis was used to assess diet composition by species, length, and region. We found a high degree of interconnectedness in the Lake Superior food web, with Mysis as a critical diet item for most fishes. Native piscivore diets varied by region and with ontogeny. Lake charr were important habitat couplers in the lake, exhibiting a diverse diet and opportunistic foraging strategy. Conversely, Pacific salmon were more restricted in their foraging. Planktivores and benthivores primarily consumed Mysis , with less reliance on Diporeia compared to previous studies. Lake whitefish and cisco were the exception to this pattern, with broader bathymetric depth distributions represented in their diets. We found the food web to be supported by a predominantly native species assemblage, with redundancies at all trophic levels.

Lake Superior↗
USGS2020

Application of a new species-richness based flow ecology framework for assessing flow reduction effects on aquatic communities

Water‐resources managers are challenged with maintaining a balance among beneficial uses throughout river networks and need robust means of assessing potential risks to aquatic life resulting from flow alterations. This study generated ecological limit functions from species‐streamflow relations to quantify potential fish richness response to flow alteration and compared results to currently accepted streamflow management guidelines. Modeled responses of absolute richness change were watershed specific and varied among sample sets derived from hydrologic unit classifications of different sizes (large HUC 6 basins to regional scale HUC 8). With a 20% flow reduction, 10% of HUC 8 predicted a richness decrease in one or more taxa. While absolute richness change was consistent across streams within a HUC, percent richness change was stream size dependent. Comparisons with Instream Flow Incremental Methodology habitat models predicted habitat loss greater than percent richness change; however, predictions for habitat and richness decreased similarly as stream size decreased. Watershed‐specific responses from flow reductions could allow water‐resources management decisions to be made locally based on the predicted richness change for certain sized streams. Quantitative results highlight the utility of a richness‐based framework for generating watershed‐specific risk assessments that validate and inform currently employed water‐resources management practices.

Virginia↗
USGS2006

Vegetation classification for south Florida natural areas

Introduction A critical component of any ecological restoration program is documenting the temporal changes in the spatial extent, pattern, and proportion of plant communities within the landscape. The Comprehensive Everglades Restoration Plan (CERP - www.evergladesplan.org), authorized as part of the Water Resources and Development Act (WRDA) of 2000 (U.S. Congress, 2000), is an $8 billion hydrologic restoration project for all of south Florida. CERP includes 68 separate projects to be managed over the next 30 years by the South Florida Water Management District (SFWMD), the U. S. Army Corp of Engineers (USACE), and other State and Federal agencies. Restoration Coordination and Verification (RECOVER) is a system-wide program of the CERP, designed to organize, manage, and provide the highest quality scientific and technical support during implementation of the restoration program (RECOVER, in prep.). It is the role of RECOVER to develop and implement a system-wide Monitoring and Assessment Plan (MAP) (RECOVER, 2004) and to document how well the CERP is meeting its objectives for ecosystem restoration. One critical component of the MAP is vegetation mapping to document changes in the spatial extent, pattern, and proportion of plant communities within the Everglades landscape. A major aspect of the vegetation mapping project was determining a classification system for labeling vegetation categories utilizing a grid method. The grid method was created specifically for use in the CERP RECOVER vegetation monitoring and assessment project (Rutchey and others, in prep). The CERP RECOVER vegetation mapping project utilizes aerial photography and photointerpretation techniques (with ground truthing) to identify and label vegetation classes. A classification system that had sufficient flexibility and detail to enable the designation of vegetation classes using various remote sensing platforms and identification techniques needed to be developed. The classification system had to be hierarchical, represent distinct ecological communities, individual species, and physical characteristics such as density and height. In addition, it was desirable to have a classification system that allowed exotic species and cattail to be identified using density classes. The classification system was developed specifically for peninsular south Florida and the Florida Keys, from Lake Okeechobee in the north to Key West in the south (Figure 1). Specific areas of interest include Everglades National Park, Big Cypress National Preserve, Biscayne National Park, Florida Panther National Wildlife Refuge, Loxahatchee National Wildlife Refuge, the State of Florida Water Conservation Areas, Holeyland Wildlife Management Area, Rotenberger Wildlife Management Area, J.W. Corbett Wildlife Management Area, Pal-Mar Wildlife Management Area, the Lake Okeechobee Littoral Zones, and additional coastal wetlands of south eastern Miami-Dade County. In addition to being used for mapping of CERP affected areas, the National Park Service-South Florida/Caribbean Network is using the classification for mapping the remaining areas of Everglades National Park and Big Cypress National Preserve outside the CERP footprint, Florida Panther National Wildlife Refuge, Biscayne National Park, and Dry Tortugas National Park.

Florida↗
USGS2015

Soil ecology of a rock outcrop ecosystem: Abiotic stresses, soil respiration, and microbial community profiles in limestone cedar glades

Limestone cedar glades are a type of rock outcrop ecosystem characterized by shallow soil and extreme hydrologic conditions—seasonally ranging from xeric to saturated—that support a number of plant species of conservation concern. Although a rich botanical literature exists on cedar glades, soil biochemical processes and the ecology of soil microbial communities in limestone cedar glades have largely been ignored. This investigation documents the abiotic stress regime of this ecosystem (shallow soil, extreme hydrologic fluctuations and seasonally high soil surface temperatures) as well as soil physical and chemical characteristics, and relates both types of information to ecological structures and functions including vegetation, soil respiration, and soil microbial community metabolic profiles and diversity. Methods used in this investigation include field observations and measurements of soil physical and chemical properties and processes, laboratory analyses, and microbiological assays of soil samples. Stress factors quantified by this research include shallow soil (depth to bedrock ranging from 2.4 to 22.6 cm), volumetric soil water content levels seasonally ranging from xeric (below 5%) to saturated (above 50%), and seasonally extreme ground-surface temperatures (above 48°C). Findings from this research indicate that spatial and temporal heterogeneity exists in limestone cedar glades in terms of abiotic stress factors and soil physical and chemical properties. Several such soil properties (e.g. soil depth, organic matter levels, pH, and particle size distribution) are spatially correlated. These soil properties were statistically related to ecological structures and functions such as vegetation patterns, soil respiration, the density of culturable heterotrophic microbes in soil and metabolic diversity of soil microbial community profiles. In general, zones within limestone cedar glades that had relatively shallow soil, alkaline pH, low levels of organic matter and high levels of silt also tended to have depressed rates of soil respiration and reduced densities and metabolic diversity of culturable heterotrophic soil microbes. Additionally, seasonally-relevant stress factors including soil water content and temperatures at or near the soil surface were related to the same set of ecological structures and functions.

Tennessee↗
USGS2023

Using multiscale environmental and spatial analyses to understand natural and anthropogenic influence on fish communities in four Canadian rivers

Science-based conservation of riverine fishes can be best targeted with specific information about spatial-ecological controls on the community, including anthropogenic stressors. Because anthropogenic stressors can originate at multiple spatial scales, we investigated the influence of natural and anthropogenic variables summarized within the reach, valley, and catchment on fish community composition along four river mainstems in Ontario, Canada. We used Redundancy Analyses (RDA) to explore models with multi- and single-scale variables on fish community composition. We used partial RDAs to differentiate the relative effects of variable types in multiscale models and to determine if spatial variables explained additional variation in fish community composition. Catchment variables accounted for the majority of explained variation in fish community composition in three of the four rivers, but instream habitat variables accounted for considerable variability in fish community composition in the two rivers that are highly fragmented by dams or naturally occurring rapids. Natural and human-derived fragmentation in rivers may reduce the influence of catchment controls, disrupt longitudinal gradients, and increase the influence of local instream habitat. Environmental variables that explained fish distribution had longitudinal or patchy spatial pattern within rivers, but spatial variables representing impediments to fish dispersal and proximity to receiving waterbodies failed to explain additional variation in fish community composition.

Ontario↗
USGS2026

Socio-ecological impacts of the 2025 Los Angeles urban fires on communities, neighborhoods, and homes

Human settlements are increasingly being impacted by urban fires initiated by wildfires. Metrics such as area burned and number of structures destroyed are important, but research often overlooks the socio-ecological complexity of urban fires. We study the impacts of the 2025 Los Angeles fires on two communities at the neighborhood and residential parcel scales. Geospatial analyses and econometric modeling explore the relationships between urban morphology, socio-demographic factors, and home destruction. Here we show that socio-ecological characteristics and scale are key in parsing the dynamics of urban fires. Also, new socio-demographic populations are being affected and urban morphology metrics are more important than vegetation cover. Despite parallels with 19 th and early 20 th century urban conflagrations, understanding these re-emerging urban fires requires transdisciplinary approaches and unique metrics. Investigating the socio-ecological scales and dynamics of urban fires provides a valuable next step towards understanding and adapting to the risk associated with these disasters.

California↗
USGS2026

Spatial ecology and recovery patterns of a translocated mammal community in southern Africa

Conservation translocations are an increasingly common tool to restore wildlife populations within protected areas. Along with identifying and mitigating threats, post-release monitoring allows managers to evaluate recovery effectiveness and improve success rates. Multispecies translocations present challenges in monitoring design, data processing, and analysis. Camera traps coupled with computer-vision-assisted workflows, environmental data, and spatially explicit occupancy models show promise for efficient multispecies monitoring over broad spatiotemporal scales. We applied this approach to a large translocation program in Nkhotakota Wildlife Reserve, Malawi, using a six-year camera-trap dataset to assess recovery patterns of nine large herbivore species. We fit spatial occupancy models to estimate species distributions and trends in landscape use while incorporating environmental covariates and accounting for spatial autocorrelation. African bush elephants ( Loxodonta africana ) and cape buffalo ( Syncerus caffer ) showed the strongest evidence of establishment and expansion, while common eland ( Taurotragus oryx ), greater kudu ( Tragelaphus strepsiceros ), plains zebra ( Equus quagga ), and impala ( Aepyceros melampus ) showed positive but weaker or uneven trends. Sable antelope ( Hippotragus niger ) showed evidence of establishment without expansion, whereas waterbuck ( Kobus ellipsiprymnus ) and warthog ( Phacochoerus africanus ) exhibited negative trends, although support for waterbuck declines was weak. Species exhibited variable and seasonally specific relationships with tree density, proximity to water, elevation, slope, and the reserve boundary, indicating that a range of environmental conditions support this mammal community. Our results demonstrate how spatial occupancy models can provide interpretable recovery indicators for multispecies translocations while highlighting how long-term monitoring can distinguish early recovery, behavioral shifts, and interannual variation from long-term population responses.

Nkhotakota Wildlife Reserve↗
USGS2017

Putting flow-ecology relationships into practice: A decision-support system to assess fish community response to water-management scenarios

This paper presents a conceptual framework to operationalize flow–ecology relationships into decision-support systems of practical use to water-resource managers, who are commonly tasked with balancing multiple competing socioeconomic and environmental priorities. We illustrate this framework with a case study, whereby fish community responses to various water-management scenarios were predicted in a partially regulated river system at a local watershed scale. This case study simulates management scenarios based on interactive effects of dam operation protocols, withdrawals for municipal water supply, effluent discharges from wastewater treatment, and inter-basin water transfers. Modeled streamflow was integrated with flow–ecology relationships relating hydrologic departure from reference conditions to fish species richness, stratified by trophic, reproductive, and habitat characteristics. Adding a hypothetical new water-withdrawal site was predicted to increase the frequency of low-flow conditions with adverse effects for several fish groups. Imposition of new reservoir release requirements was predicted to enhance flow and fish species richness immediately downstream of the reservoir, but these effects were dissipated further downstream. The framework presented here can be used to translate flow–ecology relationships into evidence-based management by developing decision-support systems for conservation of riverine biodiversity while optimizing water availability for human use.

Water↗
USGS2016

Bacterial community diversity of the deep-sea octocoral Paramuricea placomus

Compared to tropical corals, much less is known about deep-sea coral biology and ecology. Although the microbial communities of some deep-sea corals have been described, this is the first study to characterize the bacterial community associated with the deep-sea octocoral, Paramuricea placomus . Samples from five colonies of P. placomus were collected from Baltimore Canyon (379–382 m depth) in the Atlantic Ocean off the east coast of the United States of America. DNA was extracted from the coral samples and 16S rRNA gene amplicons were pyrosequenced using V4-V5 primers. Three samples sequenced deeply (>4,000 sequences each) and were further analyzed. The dominant microbial phylum was Proteobacteria, but other major phyla included Firmicutes and Planctomycetes. A conserved community of bacterial taxa held in common across the three P. placomus colonies was identified, comprising 68–90% of the total bacterial community depending on the coral individual. The bacterial community of P. placomus does not appear to include the genus Endozoicomonas , which has been found previously to be the dominant bacterial associate in several temperate and tropical gorgonians. Inferred functionality suggests the possibility of nitrogen cycling by the core bacterial community.

PeerJ↗