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At least 1,297 records · Page 72Linked to original sources
USGS2018

Infrared heater system for warming tropical forest understory plants and soils

The response of tropical forests to global warming is one of the largest uncertainties in predicting the future carbon balance of Earth. To determine the likely effects of elevated temperatures on tropical forest understory plants and soils, as well as other ecosystems, an infrared (IR) heater system was developed to provide in situ warming for the Tropical Responses to Altered Climate Experiment (TRACE) in the Luquillo Experimental Forest in Puerto Rico. Three replicate heated 4-m- diameter plots were warmed to maintain a 4°C increase in understory vegetation compared to three unheated control plots, as sensed by IR thermometers. The equipment was larger than any used previously and was subjected to challenges different from those of many temperate ecosystem warming systems, including frequent power surges and outages, high humidity, heavy rains, hurricanes, saturated clayey soils, and steep slopes. The system was able to maintain the target 4.0°C increase in hourly average vegetation temperatures to within ± 0.1°C. The vegetation was heterogeneous and on a 21° slope, which decreased uniformity of the warming treatment on the plots; yet, the green leaves were fairly uniformly warmed, and there was little difference among 0–10 cm depth soil temperatures at the plot centers, edges, and midway between. Soil temperatures at the 40–50 cm depth increased about 3°C compared to the controls after a month of warming. As expected, the soil in the heated plots dried faster than that of the control plots, but the average soil moisture remained adequate for the plants. The TRACE heating system produced an adequately uniform warming precisely controlled down to at least 50-cm soil depth, thereby creating a treatment that allows for assessing mechanistic responses of tropical plants and soil to warming, with applicability to other ecosystems. No physical obstacles to scaling the approach to taller vegetation (i.e., trees) and larger plots were observed.

Puerto Rico↗
USGS2003

Biodiversity changes in Cretaceous palynofloras of eastern Asia and western North America

Palynology has great potential for providing comparative data and interpretations about changes in biodiversity during the Cretaceous Period. This is especially true for both eastern Asia and western North America because of strong floristic similarities that existed between these regions during Cretaceous time. Also, because palynomorphs of terrestrial origin can be deposited in offshore as well as terrestrial environments, significant potential exists for marine-to-continental palynostratigraphic correlations in both regions. Palynological biostratigraphy can improve the geologic dating of changes in biodiversity. During the Early Cretaceous, eastern Asia and western North America lay within the Cerebropollenites palynofloral province, a circumpolar phytogeographic zone characterized by distinctive palynological assemblages. During most of the Late Cretaceous, these regions lay within the palynofloristically unique Aquilapollenites Province, which was more restricted geographically than the Cerebropollenites Province. The most important development during Cretaceous time that is reflected in palynological assemblages was the rise of the angiosperms as the numerically and ecologically dominant forms of vegetation. The most striking short-term palynofloral event in the two regions was the sudden disappearance of species of Aquilapollenites and associated genera at the Cretaceous-Tertiary (K/T) boundary. Both of these occurrences produced major changes in biodiversity in the terrestrial realm. Geologic research in International Geological Correlation Program Project 434 can benefit from applications of palynostratigraphy. Palynologic research within Project 434 could include development of a comprehensive palynostratigraphic zonation for the Cretaceous, the definition of regional palynostratigraphic datums, and investigation of the record of floral change at the K/T boundary. ?? 2002 Elsevier Science Ltd. All rights reserved.

Journal of Asian Earth Sciences↗
USGS2018

A database of natural monthly streamflow estimates from 1950 to 2015 for the conterminous United States

Quantifying and understanding the natural streamflow regime, defined as expected streamflow that would occur in the absence of anthropogenic modification to the hydrologic system, is critically important for the development of management strategies aimed at protecting aquatic ecosystems. Water balance models have been applied frequently to estimate natural flows, but are limited in the number of predictor variables that can be included. Here, a statistical machine learning technique — random forest modeling — was applied to estimate natural flows at a monthly time‐step from 1950 to 2015 for >2.5 million stream reaches in the conterminous United States (U.S.) using 200 potential predictor variables. We describe the development and documentation of this dataset and assess model performance. Model fit statistics (mean Nash–Sutcliffe efficiency = 0.85; observed/expected ratio = 0.94) indicate good correspondence between predicted and observed flows at nearly 2,000 streamgages. As an example application of the dataset, the observed streamflow record at a site prior to and after the construction of an upstream reservoir was compared with estimated natural flows to demonstrate the magnitude of seasonal depletions in streamflow due to the reservoir. This dataset can be applied to quantify natural and anthropogenic processes contributing to streamflow depletion or augmentation, and assess associated ecological effects.

Journal of the American Water Resources Associatio↗
USGS2016

Detecting the movement and spawning activity of bigheaded carps with environmental DNA

Bigheaded carps are invasive fishes threatening to invade the Great Lakes basin and establish spawning populations, and have been monitored using environmental DNA (eDNA). Not only does eDNA hold potential for detecting the presence of species, but may also allow for quantitative comparisons like relative abundance of species across time or space. We examined the relationships among bigheaded carp movement, hydrography, spawning and eDNA on the Wabash River, IN, USA. We found positive relationships between eDNA and movement and eDNA and hydrography. We did not find a relationship between eDNA and spawning activity in the form of drifting eggs. Our first finding demonstrates how eDNA may be used to monitor species abundance, whereas our second finding illustrates the need for additional research into eDNA methodologies. Current applications of eDNA are widespread, but the relatively new technology requires further refinement.

Molecular Ecology Resources↗
USGS2020

Practices of biological soil crust rehabilitation in China: Experiences and challenges

Biological soil crusts (biocrusts) are a central component of dryland ecosystems. However, they are highly vulnerable to disturbance and natural recovery may be slow. Therefore, finding ways to enhance the reestablishment of biocrusts after disturbance has been of great interest to researchers. This article provides a review of the laboratory cultivation and field inoculations of biocrust materials in China (mostly published in Chinese). Larger filamentous cyanobacteria (e.g. Microcoleus ) are relatively easy, although slow, to grow in culture compared to other biocrust components. Thus, most researchers have focused their efforts on the cyanobacteria and a few species of mosses that are also easily grown but at smaller scale. For all the studies, a small amount of biocrust material was collected and its biomass enhanced under controlled conditions. However, the enhancement was done using various methods and techniques in different regions. These materials were then applied to disturbed field sites, again with various methods. Results show that keeping the inoculated soil surface wet for some time period after inoculation was crucial for restoration success. Cyanobacterial establishment was improved by installing automatic sprinkling using micro‐irrigation techniques and/or physical structures that reduced sediment moving onto the inoculated area. Experimental applications in China showed that cyanobacteria can be successfully inoculated at a large scale (hundreds of ha). Moss inoculation, on the other hand, was only accomplished at a small scale (several m 2 ). To assess whether biocrust restoration can enhance the establishment of a self‐supporting ecosystem, further research is needed on how inoculation affects vegetation diversity and structure and ecological processes.

Restoration Ecology↗
USGS2015

LANDFIRE

LANDFIRE, also known as the Landscape Fire and Resource Management Planning Tools Program, is a vegetation, fire, and fuel characteristic mapping program managed by the U.S. Department of Agriculture Forest Service and the U.S. Department of the Interior. LANDFIRE represents the first, and only, complete, nationally consistent collection of spatial resource datasets with an ecological foundation that can be used across multiple disciplines. LANDFIRE data products are primarily designed and developed to be used at the landscape level to facilitate national and regional strategic planning and reporting of wild land fire and other natural resource management activities. However, LANDFIRE’s spatially comprehensive dataset can also be adapted to support a variety of local management applications that need current and comprehensive geospatial data.

Fact Sheet↗
USGS2009

Regional estimates of reef carbonate dynamics and productivity Using Landsat 7 ETM+, and potential impacts from ocean acidification

Using imagery at 30 m spatial resolution from the most recent Landsat satellite, the Landsat 7 Enhanced Thematic Mapper Plus (ETM+), we scale up reef metabolic productivity and calcification from local habitat-scale (10 -1 to 10 0 km 2 ) measurements to regional scales (10 3 to 10 4 km 2 ). Distribution and spatial extent of the North Florida Reef Tract (NFRT) habitats come from supervised classification of the Landsat imagery within independent Landsat-derived Millennium Coral Reef Map geomorphologic classes. This system minimizes the depth range and variability of benthic habitat characteristics found in the area of supervised classification and limits misclassification. Classification of Landsat imagery into 5 biotopes (sand, dense live cover, sparse live cover, seagrass, and sparse seagrass) by geomorphologic class is >73% accurate at regional scales. Based on recently published habitat-scale in situ metabolic measurements, gross production (P = 3.01 ?? 10 9 kg C yr -1 ), excess production (E = -5.70 ?? 10 8 kg C yr -1 ), and calcification (G = -1.68 ?? 10 6 kg CaCO 3 yr -1 ) are estimated over 2711 km 2 of the NFRT. Simple models suggest sensitivity of these values to ocean acidification, which will increase local dissolution of carbonate sediments. Similar approaches could be applied over large areas with poorly constrained bathymetry or water column properties and minimal metabolic sampling. This tool has potential applications for modeling and monitoring large-scale environmental impacts on reef productivity, such as the influence of ocean acidification on coral reef environments. ?? Inter-Research 2009.

Marine Ecology Progress Series↗
USGS2021

A global ecological classification of coastal segment units to complement marine biodiversity observation network assessments

A new data layer provides Coastal and Marine Ecological Classification Standard (CMECS) labels for global coastal segments at 1 km or shorter resolution. These characteristics are summarized for six US Marine Biodiversity Observation Network (MBON) sites and one MBON Pole to Pole of the Americas site in Argentina. The global coastlines CMECS classifications were produced from a partitioning of a 30 m Landsat-derived shoreline vector that was segmented into 4 million 1 km or shorter segments. Each segment was attributed with values from 10 variables that represent the ecological settings in which the coastline occurs, including properties of the adjacent water, adjacent land, and coastline itself. The 4 million segments were classified into 81,000 coastal segment units (CSUs) as unique combinations of variable classes. We summarize the process to develop the CSUs and derive summary descriptions for the seven MBON case study sites. We discuss the intended application of the new CSU data for research and management in coastal areas.

Oceanography↗
USGS1995

Can we manage for biological diversity in the absence of science?

Conservation of biological diversity is dependent on sound scientific information about underlying ecological processes. Current knowledge of the composition, distribution, abundance and life cycles of most species of plants and animals is incomplete, insufficient, unreliable, or nonexistent. Contemporary managers are also confronted with additional levels of complexity related to varying degrees of knowledge and understanding about interactions of species and ecosystems. Consequently, traditional species-oriented management schemes may have unintended consequences and ecosystem-oriented management initiatives may fail in the face of inadequate or fragmentary information on the structure, function, and dynamics of biotic communities and ecological systems. Nevertheless, resource managers must make decisions and manage based on the best biological information currently available. Adaptive resource management may represent a management paradigm that allows managers to learn something about the species or systems that they are managing while they are managing, but potential pitfalls lurk for such approaches. In addition to lack of control over the primary physical, chemical, and ecological processes, managers also lack control over social, economic, and political parameters affecting resource management options. Moreover, appropriate goals may be difficult to identify and criteria for determining success may be elusive. Some management responsibilities do not lend themselves to adaptive strategies. Finally, the lessons learned from adaptive management are usually obtained from a highly situational context that may limit applicability in a wider range of situations or undermine confidence that problems and solutions were properly diagnosed and addressed. Several scenarios are critically examined where adaptive management approaches may be inappropriate or ineffective and where management for biological diversity may be infeasible or inefficient without a sound scientific basis. Whereas some level of management must exist to meet agency responsibilities, more research is needed to conserve biological diversity.

Wildlife Society Annual Conference↗
USGS2018

Drought and fire in the western USA: Is climate attribution enough?

Purpose of Review I sought to review the contributions of recent literature and prior foundational papers to our understanding of drought and fire. In this review, I summarize recent literature on drought and fire in the western USA and discuss research directions that may increase the utility of that body of work for twenty-first century application. I then describe gaps in the synthetic knowledge of drought-driven fire in managed ecosystems and use concepts from use-inspired research to describe potentially useful extensions of current work. Recent Findings Fire responses to climate, and specifically various kinds of drought, are clear, but vary widely with fuel responses to surplus water and drought at different timescales. Ecological and physical factors interact with human management and ignitions to create fire regime and landscape trajectories that challenge prediction. Summary The mechanisms by which the climate system affects regional droughts and how they translate to fire in the western USA need more attention to accelerate both forecasting and adaptation. However, projections of future fire activity under climate change will require integrated advances on both fronts to achieve decision-relevant modeling. Concepts from transdisciplinary research and coupled human-natural systems can help frame strategic work to address fire in a changing world.

Current Climate Change Reports↗
USGS2002

Status and opportunities for genomics research with rainbow trout

The rainbow trout (Oncorhynchus mykiss) is one of the most widely studied of model fish species. Extensive basic biological information has been collected for this species, which because of their large size relative to other model fish species are particularly suitable for studies requiring ample quantities of specific cells and tissue types. Rainbow trout have been widely utilized for research in carcinogenesis, toxicology, comparative immunology, disease ecology, physiology and nutrition. They are distinctive in having evolved from a relatively recent tetraploid event, resulting in a high incidence of duplicated genes. Natural populations are available and have been well characterized for chromosomal, protein, molecular and quantitative genetic variation. Their ease of culture, and experimental and aquacultural significance has led to the development of clonal lines and the widespread application of transgenic technology to this species. Numerous microsatellites have been isolated and two relatively detailed genetic maps have been developed. Extensive sequencing of expressed sequence tags has begun and four BAC libraries have been developed. The development and analysis of additional genomic sequence data will provide distinctive opportunities to address problems in areas such as evolution of the immune system and duplicate genes. ?? 2002 Elsevier Science Inc. All rights reserved.

Conference Paper↗
USGS2008

Hierarchical Bayes estimation of species richness and occupancy in spatially replicated surveys

1. Species richness is the most widely used biodiversity metric, but cannot be observed directly as, typically, some species are overlooked. Imperfect detectability must therefore be accounted for to obtain unbiased species-richness estimates. When richness is assessed at multiple sites, two approaches can be used to estimate species richness: either estimating for each site separately, or pooling all samples. The first approach produces imprecise estimates, while the second loses site-specific information. 2. In contrast, a hierarchical Bayes (HB) multispecies site-occupancy model benefits from the combination of information across sites without losing site-specific information and also yields occupancy estimates for each species. The heart of the model is an estimate of the incompletely observed presence-absence matrix, a centrepiece of biogeography and monitoring studies. We illustrate the model using Swiss breeding bird survey data, and compare its estimates with the widely used jackknife species-richness estimator and raw species counts. 3. Two independent observers each conducted three surveys in 26 1-km(2) quadrats, and detected 27-56 (total 103) species. The average estimated proportion of species detected after three surveys was 0.87 under the HB model. Jackknife estimates were less precise (less repeatable between observers) than raw counts, but HB estimates were as repeatable as raw counts. The combination of information in the HB model thus resulted in species-richness estimates presumably at least as unbiased as previous approaches that correct for detectability, but without costs in precision relative to uncorrected, biased species counts. 4. Total species richness in the entire region sampled was estimated at 113.1 (CI 106-123); species detectability ranged from 0.08 to 0.99, illustrating very heterogeneous species detectability; and species occupancy was 0.06-0.96. Even after six surveys, absolute bias in observed occupancy was estimated at up to 0.40. 5. Synthesis and applications. The HB model for species-richness estimation combines information across sites and enjoys more precise, and presumably less biased, estimates than previous approaches. It also yields estimates of several measures of community size and composition. Covariates for occupancy and detectability can be included. We believe it has considerable potential for monitoring programmes as well as in biogeography and community ecology.

Journal of Applied Ecology↗
USGS2018

Improving estimation of flight altitude in wildlife telemetry studies

Altitude measurements from wildlife tracking devices, combined with elevation data, are commonly used to estimate the flight altitude of volant animals. However, these data often include measurement error. Understanding this error may improve estimation of flight altitude and benefit applied ecology. There are a number of different approaches that have been used to address this measurement error. These include filtering based on GPS data, filtering based on behaviour of the study species, and use of state-space models to correct measurement error. The effectiveness of these approaches is highly variable. Recent studies have based inference of flight altitude on misunderstandings about avian natural history and technical or analytical tools. In this Commentary, we discuss these misunderstandings and suggest alternative strategies both to resolve some of these issues and to improve estimation of flight altitude. These strategies also can be applied to other measures derived from telemetry data. Synthesis and applications. Our Commentary is intended to clarify and improve upon some of the assumptions made when estimating flight altitude and, more broadly, when using GPS telemetry data. We also suggest best practices for identifying flight behaviour, addressing GPS error, and using flight altitudes to estimate collision risk with anthropogenic structures. Addressing the issues we describe would help improve estimates of flight altitude and advance understanding of the treatment of error in wildlife telemetry studies.

Journal of Applied Ecology↗
USGS2013

Fish depth distributions in the Lower Mississippi River

A substantial body of literature exists about depth distribution of fish in oceans, lakes and reservoirs, but less is known about fish depth distribution in large rivers. Most of the emphasis on fish distributions in rivers has focused on longitudinal and latitudinal spatial distributions. Knowledge on depth distribution is necessary to understand species and community habitat needs. Considering this void, our goal was to identify patterns in fish benthic distribution along depth gradients in the Lower Mississippi River. Fish were collected over 14 years in depths down to 27 m. Fish exhibited non-random depth distributions that varied seasonally and according to species. Species richness was highest in shallow water, with about 50% of the 62 species detected no longer collected in water deeper than 8 m and about 75% no longer collected in water deeper than 12 m. Although richness was highest in shallow water, most species were not restricted to shallow water. Rather, most species used a wide range of depths. A weak depth zonation occurred, not as strong as that reported for deep oceans and lakes. Larger fish tended to occur in deeper water during the high-water period of an annual cycle, but no correlation was evident during the low-water period. The advent of landscape ecology has guided river research to search for spatial patterns along the length of the river and associated floodplains. Our results suggest that fish assemblages in large rivers are also structured vertically.

Lower Mississippi River↗
USGS2024

Leveraging relationships between species abundances to improve predictions and inform conservation

Many management and conservation contexts can benefit from understanding relationships between species abundances, which can be used to improve predictions of species occurrence and abundance. We present conditional prediction as a tool to capture information about species abundances via residual covariance between species. From a fitted joint species distribution model, this framework produces a species coefficient matrix that contains relationships between species abundances. The species coefficients allow co-observed species to be treated as a second set of predictors supplementing covariates in the model to improve prediction. We use simulations to demonstrate the potential benefits and limitations of conditional prediction across data types and species covariance before applying conditional prediction to two management contexts with real data. Simulations demonstrate that conditional prediction provides the largest benefits to continuous data and when there is residual covariance between many species. In our first application, we show that conditioning on other species improves in-sample and out-of-sample predictions of fish and invertebrate species, including Atlantic cod. In our second application, we show that the species coefficient matrix can be used to identify bird species at risk of nest parasitism by Brown-headed Cowbirds. Synthesis and applications . We present guidelines for using conditional prediction, which can help understand relationships between species abundances, improve predictions and inform conservation in a variety of contexts.

Journal of Applied Ecology↗
USGS2022

Estimating occupancy from autonomous recording unit data in the presence of misclassifications and detection heterogeneity

1. Autonomous Recording Units (ARUs) are now widely used to survey communities of species. These surveys generate spatially and temporally replicated counts of unmarked animals, but such data typically include false negatives and misclassified detections, both of which may vary across sites in proportion to abundance. These data challenges can bias estimates of occupancy, and the typical approach of verifying individual detections is expensive. 2. We developed a Bayesian implementation of a two-species, false-positive N-mixture model for estimating occupancy from ARU data or other counts of unmarked animals that does not require manual verification. The model accounts for species misclassification and abundance-induced detection heterogeneity, as well as false negatives. To evaluate this model, we simulated 200 data sets for each of 29 scenarios, including scenarios in which misclassifications outnumbered correct classifications for rare species. We also applied the model to acoustic surveys of bats conducted on Fort Carson Army Post and Piñon Canyon Maneuver Site, Colorado, USA. 3. In the simulation study, bias, coverage, and root mean square error for occupancy estimates obtained from the two-species false-positive N-mixture model were superior to metrics obtained from two competing two-species false-positive occupancy models. Across 29 scenarios, absolute bias was consistently low (range: -0.03–0.07), while coverage averaged 93% (range: 74%–98%). For alternative occupancy models, absolute bias was often high (range: -0.36–0.39), and coverage averaged from 47%–65%. Although our model included an abundance parameter, abundance estimates were not reliable. For two species of Myotis bats, we estimated that 1%–5% of field-recorded detections were misclassified. Estimated occupancy (0.91 and 0.76) was lower than naïve estimates (1.00 and 0.94). Competing occupancy models implausibly estimated local occupancy of 0.00 at sites with numerous detections. 4. Our two-species, false-positive N-mixture model is significant because it accounts for detection heterogeneity and improves occupancy estimates without expensive manual verification of detections. Our field application indicated that misclassifications were not common, yet affected occupancy inferences. Given that ARUs are increasingly used to survey a broad range of taxa, such an occupancy model could be widely useful.

Methods in Ecology and Evolution↗
USGS2011

History of wildlife toxicology and the interpretation of contaminant concentrations in tissues

The detection and interpretation of contaminants in tissues of wildlife belongs to the field of toxicology, a scientific discipline with a long, intriguing, and illustrious history. Concern over poisoning of wildlife began in the late nineteenth century, and initially focused more on identifying environmental problems than determining contaminant concentrations in tissues. Endpoint measurements were characterized for sensitivity, specificity, variability, clarity of interpretation, validity, and applicability to field sampling. The use of stable isotopes to identify the environmental source of a metal is a recent development in the field of wildlife toxicology. The chemical forms of Mercury may be changed within some organs (e.g., demethylation by liver), further complicating interpretation of wildlife tissue concentrations. The field of wildlife toxicology has been shaped by chemical use and misuse, ecological mishaps, and research in the allied field of human toxicology. The development and use of new chemicals, and unexpected and unpredicted contamination problems continue to drive this discipline.

Book chapter↗
USGS2006

Assessing tiger population dynamics using photographic capture-recapture sampling

Although wide-ranging, elusive, large carnivore species, such as the tiger, are of scientific and conservation interest, rigorous inferences about their population dynamics are scarce because of methodological problems of sampling populations at the required spatial and temporal scales. We report the application of a rigorous, noninvasive method for assessing tiger population dynamics to test model-based predictions about population viability. We obtained photographic capture histories for 74 individual tigers during a nine-year study involving 5725 trap-nights of effort. These data were modeled under a likelihood-based, ?robust design? capture?recapture analytic framework. We explicitly modeled and estimated ecological parameters such as time-specific abundance, density, survival, recruitment, temporary emigration, and transience, using models that incorporated effects of factors such as individual heterogeneity, trap-response, and time on probabilities of photo-capturing tigers. The model estimated a random temporary emigration parameter of =K' =Y' 0.10 ? 0.069 (values are estimated mean ? SE). When scaled to an annual basis, tiger survival rates were estimated at S = 0.77 ? 0.051, and the estimated probability that a newly caught animal was a transient was = 0.18 ? 0.11. During the period when the sampled area was of constant size, the estimated population size Nt varied from 17 ? 1.7 to 31 ? 2.1 tigers, with a geometric mean rate of annual population change estimated as = 1.03 ? 0.020, representing a 3% annual increase. The estimated recruitment of new animals, Bt, varied from 0 ? 3.0 to 14 ? 2.9 tigers. Population density estimates, D, ranged from 7.33 ? 0.8 tigers/100 km2 to 21.73 ? 1.7 tigers/100 km2 during the study. Thus, despite substantial annual losses and temporal variation in recruitment, the tiger density remained at relatively high levels in Nagarahole. Our results are consistent with the hypothesis that protected wild tiger populations can remain healthy despite heavy mortalities because of their inherently high reproductive potential. The ability to model the entire photographic capture history data set and incorporate reduced-parameter models led to estimates of mean annual population change that were sufficiently precise to be useful. This efficient, noninvasive sampling approach can be used to rigorously investigate the population dynamics of tigers and other elusive, rare, wide-ranging animal species in which individuals can be identified from photographs or other means.

Ecology↗