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At least 37 records · Page 2Linked to original sources
USGS2016

Spectrally based mapping of riverbed composition

Remote sensing methods provide an efficient means of characterizing fluvial systems. This study evaluated the potential to map riverbed composition based on in situ and/or remote measurements of reflectance. Field spectra and substrate photos from the Snake River, Wyoming, USA, were used to identify different sediment facies and degrees of algal development and to quantify their optical characteristics. We hypothesized that accounting for the effects of depth and water column attenuation to isolate the reflectance of the streambed would enhance distinctions among bottom types and facilitate substrate classification. A bottom reflectance retrieval algorithm adapted from coastal research yielded realistic spectra for the 450 to 700 nm range; but bottom reflectance-based substrate classifications, generated using a random forest technique, were no more accurate than classifications derived from above-water field spectra. Additional hypothesis testing indicated that a combination of reflectance magnitude (brightness) and indices of spectral shape provided the most accurate riverbed classifications. Convolving field spectra to the response functions of a multispectral satellite and a hyperspectral imaging system did not reduce classification accuracies, implying that high spectral resolution was not essential. Supervised classifications of algal density produced from hyperspectral data and an inferred bottom reflectance image were not highly accurate, but unsupervised classification of the bottom reflectance image revealed distinct spectrally based clusters, suggesting that such an image could provide additional river information. We attribute the failure of bottom reflectance retrieval to yield more reliable substrate maps to a latent correlation between depth and bottom type. Accounting for the effects of depth might have eliminated a key distinction among substrates and thus reduced discriminatory power. Although further, more systematic study across a broader range of fluvial environments is needed to substantiate our initial results, this case study suggests that bed composition in shallow, clear-flowing rivers potentially could be mapped remotely.

Geomorphology↗
USGS2012

Genetic variation reveals influence of landscape connectivity on population dynamics and resiliency of western trout in disturbance-prone habitats

Salmonid fishes have evolved and persisted in dynamic ecosystems where disturbance events vary in frequency, magnitude, timing, and duration, as well as the specific nature of associated effects (e.g., changes in thermal or flow regimes, geomorphology, or water chemistry). In the western United States, one of the major drivers of disturbance in stream ecosystems is fire. Although there is a growing consensus that fish populations can ultimately benefit from the productive and heterogeneous habitats created by fire, to persist they obviously have to withstand the immediate and shorter-term effects of fire, which can reduce or even extirpate local populations. Movement among interconnected stream habitats is thought to be an important strategy enabling persistence during and following fire, and there is mounting concern that the extensive isolation of salmonid populations in fragmented habitats is reducing their resiliency to fire. In spite of this concern, there are few direct observations of salmonid responses to fire. In fact, guidance is based largely on a broader understanding of the influences of landscape structure and disturbance in general on salmonid fishes, and there is considerable uncertainty about how best to manage for salmonid resilience to wildfire. Studies are limited by the difficult logistics of following fish responses in the face of unpredictable events such as wildfires. Therefore, BACI (Before-After-Control-Impact) study designs are nearly impossible, and replication is similarly challenging because fires are often low-frequency events. Furthermore, conventional ecological study approaches (e.g., studies of fish distribution, abundance, life histories, and movement) are logistically difficult to implement. Overall, a major challenge to understanding resilience of salmonid populations in fire-prone environments is related to moving beyond localized case studies to those with broader applicability in wildfire management . Genetic data can be useful for overcoming many of the limitations inherent in ecological studies. Here we review several case studies of western trout where population genetic data have provided insight about fish responses to fragmentation and disturbance more generally, and specifically in relation to fire. Results of these studies confirm the importance of movement and landscape connectivity for ensuring fish persistence in fire-prone landscapes, and highlight the usefulness of genetic approaches for broad-scale evaluation and monitoring of population responses to fire and related management actions.

Technical Report↗
USGS1988

Geochemical sampling in arid environments by the U.S. Geological Survey

The U.S. Geological Survey (USGS) is responsible for the geochemical evaluations used for mineral resource assessments of large tracts of public lands in the Western United States. Many of these lands are administered by the Bureau of Land Management (BLM) and are studied to determine their suitability or nonsuitability for wilderness designation. Much of the Western United States is arid or semiarid. This report discusses various geochemical sample media that have been used for evaluating areas in arid environments and describes case histories in BLM wilderness study areas in which stream-sediment and heavy-mineral-concentrate sample media were compared. As a result of these case history studies, the nonmagnetic fraction of panned heavy-mineral concentrates was selected as the most effective medium for reconnaissance geochemical sampling for resources other than gold, in arid areas. Nonmagnetic heavy-mineral-concentrate samples provide the primary analytical information currently used in geochemical interpretations of mineral resource potential assessment of BLM lands.

Circular↗
USGS2022

Human-in-the-Loop segmentation of earth surface imagery

Segmentation, or the classification of pixels (grid cells) in imagery, is ubiquitously applied in the natural sciences. Manual methods are often prohibitively time-consuming, especially those images consisting of small objects and/or significant spatial heterogeneity of colors or textures. Labeling complicated regions of transition that in Earth surface imagery are represented by collections of mixed-pixels, -textures, and -spectral signatures, can be especially error-prone because it is difficult to reliably unmix, identify and delineate consistently. However, the success of supervised machine learning (ML) approaches is entirely dependent on good label data. We describe a fast, semi-automated, method for interactive segmentation of N-dimensional (x, y, N) images into two-dimensional (x, y) label images. It uses human-in-the-loop ML to achieve consensus between the labeler and a model in an iterative workflow. The technique is reproducible; the sequence of decisions made by human labeler and ML algorithms can be encoded to file, so the entire process can be played back and new outputs generated with alternative decisions and/or algorithms. We illustrate the scientific potential of segmentation of imagery of diverse settings and image types using six case studies from river, estuarine, and open coast environments. These photographic and non-photographic imagery consist of 1- and 3-bands on regular and irregular grids ranging from centimeters to tens of meters. We demonstrate high levels of agreement in label images generated by several labelers on the same imagery, and make suggestions to achieve consensus and measure uncertainty, ideal for widespread application in training supervised ML for image segmentation.

Earth and Space Science↗
USGS2013

Parallelization of a hydrological model using the message passing interface

With the increasing knowledge about the natural processes, hydrological models such as the Soil and Water Assessment Tool (SWAT) are becoming larger and more complex with increasing computation time. Additionally, other procedures such as model calibration, which may require thousands of model iterations, can increase running time and thus further reduce rapid modeling and analysis. Using the widely-applied SWAT as an example, this study demonstrates how to parallelize a serial hydrological model in a Windows® environment using a parallel programing technology—Message Passing Interface (MPI). With a case study, we derived the optimal values for the two parameters (the number of processes and the corresponding percentage of work to be distributed to the master process) of the parallel SWAT (P-SWAT) on an ordinary personal computer and a work station. Our study indicates that model execution time can be reduced by 42%–70% (or a speedup of 1.74–3.36) using multiple processes (two to five) with a proper task-distribution scheme (between the master and slave processes). Although the computation time cost becomes lower with an increasing number of processes (from two to five), this enhancement becomes less due to the accompanied increase in demand for message passing procedures between the master and all slave processes. Our case study demonstrates that the P-SWAT with a five-process run may reach the maximum speedup, and the performance can be quite stable (fairly independent of a project size). Overall, the P-SWAT can help reduce the computation time substantially for an individual model run, manual and automatic calibration procedures, and optimization of best management practices. In particular, the parallelization method we used and the scheme for deriving the optimal parameters in this study can be valuable and easily applied to other hydrological or environmental models.

Environmental Modelling and Software↗
USGS2025

Disease, environment, and pollution: Understanding drivers behind tumour outbreaks in sea turtles

Various wildlife diseases of the Anthropocene (the Anthropocene currently has no formal status in the Divisions of Geologic Time https://pubs.usgs.gov/fs/2018/3054/fs20183054.pdf , accessed 4 June 2024) have root causes that are found in human-driven environmental disturbances. Fibropapillomatosis of sea turtles is exemplary of a human-exacerbated wildlife disease, and this case study offers an overview of how we applied a One Health approach and interdisciplinary process to better understand its complexity and highlight the interconnections existing between the health of the environment, and of the wildlife and humans living in it. Persistent organic pollutants (POPs) have known detrimental effects on human and wildlife health. Ubiquitous in the environment, these degradation-resistant chemicals have a high bioaccumulation potential. This case study describes the interdisciplinary plan and One Health design implemented to measure the role of harmful pollutants in the occurrence of a marine turtle panzootic fibropapillomatosis (FP). FP is a neoplastic disease that causes the growth of debilitating tumours on soft tissues and internal organs. Disease incidence has been increasing significantly throughout the Anthropocene and the reasons are still uncertain. The pervasive effect of pollution in marine coastal habitats has often been hypothesized as a driver of high disease prevalence but never fully tested. Our project combines disease ecology, marine field biology, and chemical toxicology in the attempt to unravel the intricate dynamics behind FP. We here describe the complex process used to develop a methodology to measure levels of harmful seawater pollutants such as polychlorinated biphenyls (PCBs), polycyclic aromatic hydrocarbons (PAHs), and organochlorine pesticides (OCPs) in important sea turtle habitats in Florida. The proposed contaminants are among the top priority harmful pollutants, highly carcinogenic in aquatic animals, and bioaccumulate in sea turtles. Although only providing a description of the methodological process, this case study can help future research to apply similar transdisciplinary studies in the context of wildlife diseases. Understanding the effects of anthropogenic-driven pollution activity on ocean health can clarify its consequences to the health of wildlife and humans living in and around that environment.

One Health Cases↗
USGS2015

Organic sedimentation in modern lacustrine systems: A case study from Lake Malawi, East Africa

This study examines the relationship between depositional environment and sedimentary organic geochemistry in Lake Malawi, East Africa, and evaluates the relative significance of the various processes that control sedimentary organic matter (OM) in lacustrine systems. Total organic carbon (TOC) concentrations in recent sediments from Lake Malawi range from 0.01 to 8.80 wt% and average 2.83 wt% for surface sediments and 2.35 wt% for shallow core sediments. Hydrogen index (HI) values as determined by Rock-Eval pyrolysis range from 0 to 756 mg HC g−1 TOC and average 205 mg HC g−1 TOC for surface sediments and 228 mg HC g−1 TOC for shallow core samples. On average, variations in primary productivity throughout the lake may account for ~33% of the TOC content in Lake Malawi sediments (as much as 1 wt% TOC), and have little or no impact on sedimentary HI values. Similarly, ~33% to 66% of the variation in TOC content in Lake Malawi sediments appears to be controlled by anoxic preservation of OM (~1–2 wt% TOC), although some component of the water depth–TOC relationship may be due to physical sediment transport processes. Furthermore, anoxic preservation has a minimal effect on HI values in Lake Malawi sediments. Dilution of OM by inorganic sediment may account for ~16% of variability in TOC content in Lake Malawi sediments (~0.5 wt% TOC). The effect of inputs of terrestrial sediment on the organic character of surface sediments in these lakes is highly variable, and appears to be more closely related to the local depositional environment than the regional flux of terrestrial OM. Total nitrogen and TOC content in surface sediments collected throughout the lake are found to be highly correlated (r2 = 0.95), indicating a well-homogenized source of OM to the lake bottom. The recurring suspension and deposition of terrestrial sediment may account for significant amounts of OM deposited in offshore regions of the lake. This process effectively separates denser inorganic sediment from less dense OM and allows terrestrial OM to preferentially be transported farther offshore. The conclusion is that for the organic carbon content in these regions to be elevated a mixed terrestrial-lacustrine origin is required. The hydrodynamic separation of mineral and organic constituents is most pronounced in regions with shallow bathymetric gradients, consistent with previous findings from Lake Tanganyika.

Lake Malawi↗
USGS2013

Current perspectives in contaminant hydrology and water resources sustainability

Human society depends on liquid freshwater resources to meet drinking, sanitation and hygiene, agriculture, and industry needs. Improved resource monitoring and better understanding of the anthropogenic threats to freshwater environments are critical to efficient management of freshwater resources and ultimately to the survival and quality of life of the global human population. This book helps address the need for improved freshwater resource monitoring and threat assessment by presenting current reviews and case studies focused on the fate and transport of contaminants in the environment and on the sustainability of groundwater and surface-water resources around the world. It is intended for students and professionals working in hydrology and water resources management.

Book↗
USGS2024

A universal method for the simultaneous determination of environmental pollutants in marine biological samples: Per- and polyfluoroalkyl substances and antibiotics as a case study

Conventional detection technologies for environmental contaminants have primarily focused on providing accurate qualitative and quantitative evaluations for single pollutant types, leading to increased costs and an inability to satisfy the growing demand for detecting a broader spectrum of pollutants. Here, we introduced a novel analytical method to simultaneously measure the concentration levels of diverse environmental pollutants, characterized by their distinct properties, across complex biological samples. Per- and polyfluoroalkyl substances (PFAS) and antibiotics were used as a case study due to their frequency of detection in the environment and known impacts Our method harnesses the salting-out effect of sodium chloride on proteins within the muscle tissues of 178 marine species, which significantly reduces the addition of extraneous substances, mitigates matrix interference, and avoids reliance on solid-phase extraction or dispersive extraction agents. The method provides a simultaneous pretreatment for the detection of several compounds, with detection limits from 0.002 to 0.41 ng/g dry weight, which are substantially lower than conventional methods. Overall, this method streamlines efficiency, decreases costs, lessens matrix effects, and sets a solid groundwork for future applications in the concurrent detection of a broader spectrum of environmentally pertinent pollutants with varied characteristics.

ACS ES&T Water↗
USGS2020

Repetitive sampling and control threshold improve 16S rRNA results from produced waters associated with hydraulically fractured shales

Sequencing microbial DNA from deep subsurface environments is complicated by a number of issues ranging from contamination to non-reproducible results. Many samples obtained from these environments - which are of great interest due to the potential to stimulate microbial methane generation - contain low biomass. Therefore, samples from these environments are difficult to study as sequencing results can be easily impacted by contamination. In this case, the low amount of sample biomass may be effectively swamped by the contaminating DNA and generate misleading results. Additionally, performing field work in these environments can be difficult, as researchers generally have limited access to and time on site. Therefore, optimizing a sampling plan to produce the best results while collecting the greatest number of samples over a short period of time is ideal. This study aimed to recommend an adequate sampling plan for field researchers obtaining microbial biomass for 16S rRNA gene sequencing, applicable specifically to oil and gas-producing environments. Forty-nine different samples were collected by filtering specific volumes of produced water from a hydraulically fractured well producing from the Niobrara Shale. Water was collected in two different sampling events 24 hours apart. Four to five samples were collected from 11 specific volumes. These samples along with eight different blanks were submitted for analysis. DNA was extracted from each sample, and quantitative polymerase chain reaction (qPCR) and 16S rRNA Illumina MiSeq gene sequencing were performed to determine relative concentrations of biomass and microbial community composition, respectively. The qPCR results varied across sampled volumes, while no discernible trend correlated contamination to volume of water filtered. This suggests that collecting a larger volume of sample may not result in larger biomass concentrations or better representation of a sampled environment. Researchers could prioritize collecting many low volume samples over few high-volume samples. Our results suggest that there also may be variability in the concentration of microbial communities present in produced waters over short (i.e., hours) time scales, which warrants further investigation. Submission of multiple blanks is also vital to determining how contamination or low biomass effects may influence a sample set collected from an unknown environment.

Montana, Wyoming, Colorado, New Mexico, Texas, Okl↗
USGS2017

An “EAR” on environmental surveillance and monitoring: A case study on the use of Exposure–Activity Ratios (EARs) to prioritize sites, chemicals, and bioactivities of concern in Great Lakes waters

Current environmental monitoring approaches focus primarily on chemical occurrence. However, based on concentration alone, it can be difficult to identify which compounds may be of toxicological concern and should be prioritized for further monitoring, in-depth testing, or management. This can be problematic because toxicological characterization is lacking for many emerging contaminants. New sources of high-throughput screening (HTS) data, such as the ToxCast database, which contains information for over 9000 compounds screened through up to 1100 bioassays, are now available. Integrated analysis of chemical occurrence data with HTS data offers new opportunities to prioritize chemicals, sites, or biological effects for further investigation based on concentrations detected in the environment linked to relative potencies in pathway-based bioassays. As a case study, chemical occurrence data from a 2012 study in the Great Lakes Basin along with the ToxCast effects database were used to calculate exposure–activity ratios (EARs) as a prioritization tool. Technical considerations of data processing and use of the ToxCast database are presented and discussed. EAR prioritization identified multiple sites, biological pathways, and chemicals that warrant further investigation. Prioritized bioactivities from the EAR analysis were linked to discrete adverse outcome pathways to identify potential adverse outcomes and biomarkers for use in subsequent monitoring efforts.

Great Lakes↗
USGS2015

The modern muds of Laguna Mar Chiquita (Argentina): Particle size and geochemical trends from a large saline lake in the "thick-skinned" Andean foreland

Laguna Mar Chiquita (central Argentina; ~latitude 31°S, longitude 63°W) provides an outstanding opportunity to examine organic facies development and petroleum source-rock potential in a modern thick-skinned foreland basin lake. In this case study, we define profundal, paleodelta, and lake-margin depositional environments based on trends in bathymetry and lake-floor sediment particle size. Sedimentary geochemical analyses indicate that organic carbon–rich muds accumulate in profundal environments during the extant lake-level highstand. The lateral variability of organic facies is minimal. The quality of organic facies is controlled by lake level and depositional environment, both of which dictate patterns of algal productivity, siliciclastic dilution, and early diagenesis. We present conceptual models of lacustrine source rocks in both thick-skinned and thin-skinned foreland basins based on modern analog data from both Laguna Mar Chiquita and other lakes in the central Andean foreland. Over relatively short time intervals (10 2 –10 4 yr), climatically driven water-level fluctuations influence the source-rock potential of these basins. Over time intervals >10 5 yr, contraction and lateral migration of the basin flexural profile control stratal stacking patterns and the potential for hydrocarbon play development.

Laguna Mar Chiquita↗
USGS2016

Invasive species: Ocean ecosystem case studies for earth systems and environmental sciences

Marine species are increasingly transferred from areas where they are native to areas where they are not. Some nonnative species become invasive, causing undesirable impacts to environment, economy and/or human health. Nonnative marine species can be introduced through a variety of vectors, including shipping, trade, inland corridors (such as canals), and others. Effects of invasive marine species can be dramatic and irreversible. Case studies of four nonnative marine species are given (green crab, comb jelly, lionfish and Caulerpa algae).

Earth Systems and Environmental Sciences↗
USGS2019

A mosaic of land tenure and ownership creates challenges and opportunities for transboundary conservation in the US-Mexico borderlands

In the Madrean Sky Islands of western North America, a mixture of public and private land ownership and tenure creates a complex situation for collaborative efforts in conservation. In this case study, we describe the current ownership and management structures in the US-Mexico borderlands where social, political, and economic conditions create extreme pressures on the environment and challenges for conservation. On the US side of the border, sky island mountain ranges are almost entirely publicly owned and managed by federal, state and tribal organizations that manage and monitor species, habitats, and disturbances including fire. In contrast, public lands are scarce in the adjacent mountain ranges of Mexico, rather, a unique system of private parcels and communal lands make up most of Mexico's Natural Protected Areas. Several of the Protected Area reserves in Mexico form a matrix that serves to connect scattered habitats for jaguars dispersing northward toward public and private reserves in the U.S. from their northernmost breeding areas in Mexico. Despite administrative or jurisdictional boundaries superimposed upon the landscape, we identify two unifying management themes that encourage collaborative management of transboundary landscape processes and habitat connectivity: jaguar conservation and wildfire management. Our case study promotes understanding of conservation challenges as they are perceived and managed in a diversity of settings across the US-Mexico borderlands. Ultimately, recognizing the unique and important contributions of people living and working under different systems of land ownership and tenure will open doors for partnerships in achieving common goals.

Arizona, Baja California, California, Chihuahua, N↗
USGS2026

A methods framework for evaluating measurement consistency across spectrometers for multispectral uncrewed aerial system vegetation mapping applications

The U.S. Geological Survey collects remote sensing data to support national scientific assessments of natural resources, hazards, and landscape change. Spectrometers and spectroradiometers are essential for gathering point-based spectral measurements used in applications such as uncrewed aerial systems (UAS) multispectral image calibration, validation, and analysis. Evaluating how different instruments perform in laboratory and field environments helps determine whether they provide consistent, interoperable measurements. Such verification can expand access to spectral ground data during UAS operations by allowing scientists to use alternative instruments when budgets, logistics, or field conditions limit options. We propose and test a methodological framework for evaluating spectrometers for measurement consistency during UAS multispectral vegetation mapping applications. There are three central evaluation components to the framework: laboratory, field, and relative to UAS multispectral imagery. By evaluating the instruments in both relatively controlled and uncontrolled environments, we thoroughly examine measurement consistency and when/why measurements may differ. We opportunistically selected two instruments for a case study in a coastal marsh setting: a compact laboratory spectrometer we modified for field use and a field-ready spectroradiometer. The instruments produced consistent measurements in both environments. We found differences between the field spectra and UAS spectra that likely reflect the perspectives of ground vs. aerial data and indicate that further radiometric calibration may be needed.

Massachusetts↗
USGS2015

Niche divergence builds the case for ecological speciation in skinks of the Plestiodon skiltonianus species complex

Adaptation to different thermal environments has the potential to cause evolutionary changes that are sufficient to drive ecological speciation. Here, we examine whether climate-based niche divergence in lizards of the Plestiodon skiltonianus species complex is consistent with the outcomes of such a process. Previous work on this group shows that a mechanical sexual barrier has evolved between species that differ mainly in body size and that the barrier may be a by-product of selection for increased body size in lineages that have invaded xeric environments; however, baseline information on niche divergence among members of the group is lacking. We quantified the climatic niche using mechanistic physiological and correlative niche models and then estimated niche differences among species using ordination techniques and tests of niche overlap and equivalency. Our results show that the thermal niches of size-divergent, reproductively isolated morphospecies are significantly differentiated and that precipitation may have been as important as temperature in causing increased shifts in body size in xeric habitats. While these findings alone do not demonstrate thermal adaptation or identify the cause of speciation, their integration with earlier genetic and behavioral studies provides a useful test of phenotype–environment associations that further support the case for ecological speciation in these lizards.

Ecology and Evolution↗
USGS2017

Distance and environmental difference in alpine plant communities

Differences in plant communities are a response to the abiotic environment, species interactions, and dispersal. The role of geographic distance relative to the abiotic environment is explored for alpine tundra vegetation from 319 plots of four regions along the Rocky Mountain cordillera in the USA. The site by species data were ordinated using nonmetric multidimensional scaling to produce dependent variables for use in best-subsets regression. For independent variables, observations of local topography and microtopography were used as environmental indicators. Two methods of including distance in studies of vegetation and environment are used and contrasted. The relative importance of geographic distance in accounting for the pattern of alpine tundra similarity indicates that location is a factor in plant community composition. Mantel tests provide direct correlations between difference and distance but have known weaknesses. Moran spatial eigenvectors used in regression based approaches have greater geographic specificity, but require another step, ordination, in creating a vegetation variable. While the spatial eigenvectors are generally preferable, where species–environment relations are weak, as seems to be the case for the alpine sites studied here, the fewer abstractions of the Mantel test may be useful.

Rocky Mountain cordillera↗
USGS1998

Cattle and cultivators: A study of competition over natural resources in north Senegal

This study presents an analysis of the interaction of humans and their environment in the arid Sahel ian zone of northern Senegal. It compares a pastoral community which lives primarily from the production of livestock and a farming community whose activities have traditionally centered on crop production. Living side by side but following different strategies for securing their livelihoods, these groups find themselves in increasing conflict over how the diminishing resources of the area should be used. The pastoral livelihood system, as practiced in the case study community of Maka Ndandary, is essentially conservationist in its approach to natural resources. It regulates the activities of community members toward the environment and employs diverse strategies to protect local resources against incursion by outsiders. The agricultural village, represented by the case study of Teud Bitty, takes a much more extractive approach to its resources. As resources have diminished over time, the villagers have become even more aggressive in their attempts to exploit what remains, whether soils or trees ... both within and outside their territory.

Report↗