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At least 1,405 records · Page 78Linked to original sources
USGS2023

Priority research needs to inform amphibian conservation in the Anthropocene

The problem of global amphibian declines has prompted extensive research over the last three decades. Initially, the focus was on identifying and characterizing the extent of the problem, but more recently efforts have shifted to evidence-based research designed to identify best solutions and to improve conservation outcomes. Despite extensive accumulation of knowledge on amphibian declines, there remain knowledge gaps and disconnects between science and action that hamper our ability to advance conservation efforts. Using input from participants at the ninth World Congress of Herpetology, a U.S. Geological Survey Powell Center symposium, amphibian on-line forums for discussion, the International Union for Conservation of Nature Assisted Reproductive Technologies and Gamete Biobanking group, and respondents to a survey, we developed a list of 25 priority research questions for amphibian conservation at this stage of the Anthropocene. We identified amphibian conservation research priorities while accounting for expected tradeoffs in geographic scope, costs, and the taxonomic breadth of research needs. We aimed to solicit views from individuals rather than organizations while acknowledging inequities in participation. Emerging research priorities (i.e., those under-represented in recently published amphibian conservation literature) were identified, and included the effects of climate change, community-level (rather than single species-level) drivers of declines, methodological improvements for research and monitoring, genomics, and effects of land-use change. Improved inclusion of under-represented members of the amphibian conservation community was also identified as a priority. These research needs represent critical knowledge gaps for amphibian conservation although filling these gaps may not be necessary for many conservation actions.

Conservation Science and Practice↗
USGS2023

A pragmatic approach for integrating molecular tools into biodiversity conservation

Molecular tools are increasingly applied for assessing and monitoring biodiversity and informing conservation action. While recent developments in genetic and genomic methods provide greater sensitivity in analysis and the capacity to address new questions, they are not equally available to all practitioners: There is considerable bias across institutions and countries in access to technologies, funding, and training. Consequently, in many cases, more accessible traditional genetic data (e.g., microsatellites) are still utilized for making conservation decisions. Conservation approaches need to be pragmatic by tackling clearly defined management questions and using the most appropriate methods available, while maximizing the use of limited resources. Here we present some key questions to consider when applying the molecular toolbox for accessible and actionable conservation management. Finally, we highlight a number of important steps to be addressed in a collaborative way, which can facilitate the broad integration of molecular data into conservation.

Conservation Science and Practice↗
USGS2021

Intended consequences statement

As the biodiversity crisis accelerates, the stakes are higher for threatened plants and animals. Rebuilding the health of our planet will require addressing underlying threats at many scales, including habitat loss and climate change. Conservation interventions such as habitat protection, management, restoration, predator control, translocation, genetic rescue, and biological control have the potential to help threatened or endangered species avert extinction. These existing, well-tested methods can be complemented and augmented by more frequent and faster adoption of new technologies, such as powerful new genetic tools. In addition, synthetic biology might offer solutions to currently intractable conservation problems. We believe that conservation needs to be bold and clear-eyed in this moment of great urgency.

Conservation Science and Practice↗
USGS2020

Assessing the exposure of three diving bird species to offshore wind areas on the U.S. Atlantic Outer Continental Shelf using satellite telemetry

Aim The United States Atlantic Outer Continental Shelf (OCS) has considerable offshore wind energy potential. Capturing that resource is part of a broader effort to reduce CO 2 emissions. While few turbines have been constructed in U.S. waters, over a dozen currently planned offshore wind projects have the potential to displace marine birds, potentially leading to effective habitat loss. We focused on three diving birds identified in Europe to be vulnerable to displacement. Our research aimed to determine their potential exposure to areas designated or proposed for offshore wind development along the Atlantic OCS. Methods Satellite tracking technology was used to determine the spatial and temporal use and movement patterns of Surf Scoters ( Melanitta perspicillata ), Red‐throated Loons ( Gavia stellata ) and Northern Gannets ( Morus bassanus ), and calculate their exposure to each offshore wind area. We tagged 236 adults in 2012–2015 on the Atlantic OCS from New Jersey to North Carolina; an additional 147 birds tagged in previous tracking studies were integrated into our analyses. Tracking data were analysed in two‐week intervals using dynamic Brownian bridge movement models to develop composite spatial utilization distributions. For each species, these distributions were then used to calculate the spatio‐temporal exposure to each offshore wind area. Results Surf Scoters and Red‐throated Loons were exposed to offshore wind areas almost exclusively during migration because these species were distributed among coastal and inshore waters during winter months. In contrast, Northern Gannets ranged over a much larger area, reaching farther offshore and south in winter, thus exhibited the greatest exposure to extant offshore wind areas. Conclusions Results of this study provide better understanding of how diving birds use current and potential future offshore wind areas on the Atlantic OCS, and can inform permitting, risk assessment and pre‐ and post‐construction impact assessments of offshore energy infrastructure.

Atlantic Outer Continental Shelf↗
USGS2017

Unifying population and landscape ecology with spatial capture-recapture

Spatial heterogeneity in the environment induces variation in population demographic rates and dispersal patterns, which result in spatio‐temporal variation in density and gene flow. Unfortunately, applying theory to learn about the role of spatial structure on populations has been hindered by the lack of mechanistic spatial models and inability to make precise observations of population state and structure. Spatial capture–recapture (SCR) represents an individual‐based analytic framework for overcoming this fundamental obstacle that has limited the utility of ecological theory. SCR methods make explicit use of spatial encounter information on individuals in order to model density and other spatial aspects of animal population structure, and they have been widely adopted in the last decade. We review the historical context and emerging developments in SCR models that enable the integration of explicit ecological hypotheses about landscape connectivity, movement, resource selection, and spatial variation in density, directly with individual encounter history data obtained by new technologies (e.g. camera trapping, non‐invasive DNA sampling). We describe ways in which SCR methods stand to advance the study of animal population ecology.

Ecography↗
USGS2019

oSCR: A spatial capture–recapture R package for inference about spatial ecological processes

Spatial capture–recapture (SCR) methods have become widely applied in ecology. The immediate adoption of SCR is due to the fact that it resolves some major criticisms of traditional capture–recapture methods related to heterogeneity in detectabililty, and the emergence of new technologies (e.g. camera traps, non‐invasive genetics) that have vastly improved our ability to collection spatially explicit observation data on individuals. However, the utility of SCR methods reaches far beyond simply convenience and data availability. SCR presents a formal statistical framework that can be used to test explicit hypotheses about core elements of population and landscape ecology, and has profound implications for how we study animal populations. In this software note, we describe the technical basis and analytical workflow of oSCR, an R package for analyzing spatial encounter history data using a multi‐session sex‐structured likelihood. The impetus for developing oSCR was to create an accessible and transparent analysis tool that allows users to conveniently and intuitively formulate statistical models that map directly to fundamental processes of interest in spatial population ecology (e.g. space use, resource selection, density and connectivity). We have placed an emphasis on creating a transparent and accessible code base that is coupled with a logical workflow that we hope stimulates active participation in further technical developments.

Ecography↗
USGS2020

Multi‐species occupancy models: Review, roadmap, and recommendations

Recent technological and methodological advances have revolutionized wildlife monitoring. Although most biodiversity monitoring initiatives are geared towards focal species of conservation concern, researchers are increasingly studying entire communities, specifically the spatiotemporal drivers of community size and structure and interactions among species. This has resulted in the emergence of multi‐species occupancy models (MSOMs) as a promising and efficient approach for the study of community ecology. Given the potential of MSOMs for conservation and management action, it is critical to know whether study design and model assumptions are consistent with inference objectives. This is especially true for studies that are designed for a focal species but can give insights about a community. Here, we review the recent literature on MSOMs, identify areas of improvement in the multi‐species study workflow, and provide a reference model for best practices for focal species and community monitoring study design. We reviewed 92 studies published between 2009 and early 2018, spanning 27 countries and a variety of taxa. There is a consistent under‐reporting of details that are central to determining the adequacy of designs for generating data that can be used to make inferences about community‐level patterns of occupancy, including the spatial and temporal extent, types of detectors used, covariates considered, and choice of field methods and statistical tools. This reporting bias could consequently result in skewed estimates, affecting conservation actions and management plans. On the other hand, comprehensive reporting is likely to help researchers working on MSOMs assess the robustness of inferences, in addition to making strides in terms of reproducibility and reusability of data. We use our literature review to inform a roadmap with best practices for MSOM studies, from simulations to design considerations and reporting, for the collection of new data as well as those involving existing datasets.

Ecography↗
USGS2024

Thermal transfer rate is slower in bigger fish: How does body size affect response time of small, implantable temperature recording tags?

The recent miniaturisation of implantable temperature recording tags has made measuring the water temperatures fish experience in the wild possible, but there may be a body size-dependent delay in implanted tag response time to changes in external temperature. To determine whether fish body size affects the response rate of implanted temperature tags, we implanted 20 Salvelinus fontinalis (127–228 mm fork length (FL), 15.1–120.4 g) with temperature recording tags and subjected them to rapid temperature changes (±8°C in less than 2 seconds) in the laboratory. We found that thermal transfer rates, and the lag in temperature tag response rate, was positively correlated with fish size, but the direction of temperature change (colder or warmer) had no significant effect. In fish exposed to a slower rate of temperature change (2°C h −1 ) implanted tags did not show a response lag. Understanding the limitations of this important technology is crucial to determining the utility of the data it produces and its ability to accurately measure fish thermal experience in the wild.

Ecology of Freshwater Fish↗
USGS2017

The future of fish passage science, engineering, and practice

Much effort has been devoted to developing, constructing and refining fish passage facilities to enable target species to pass barriers on fluvial systems, and yet, fishway science, engineering and practice remain imperfect. In this review, 17 experts from different fish passage research fields (i.e., biology, ecology, physiology, ecohydraulics, engineering) and from different continents (i.e., North and South America, Europe, Africa, Australia) identified knowledge gaps and provided a roadmap for research priorities and technical developments. Once dominated by an engineering‐focused approach, fishway science today involves a wide range of disciplines from fish behaviour to socioeconomics to complex modelling of passage prioritization options in river networks. River barrier impacts on fish migration and dispersal are currently better understood than historically, but basic ecological knowledge underpinning the need for effective fish passage in many regions of the world, including in biodiversity hotspots (e.g., equatorial Africa, South‐East Asia), remains largely unknown. Designing efficient fishways, with minimal passage delay and post‐passage impacts, requires adaptive management and continued innovation. While the use of fishways in river restoration demands a transition towards fish passage at the community scale, advances in selective fishways are also needed to manage invasive fish colonization. Because of the erroneous view in some literature and communities of practice that fish passage is largely a proven technology, improved international collaboration, information sharing, method standardization and multidisciplinary training are needed. Further development of regional expertise is needed in South America, Asia and Africa where hydropower dams are currently being planned and constructed.

Fish and Fisheries↗
USGS2026

A conceptual framework and methods for studying the connectivity of fishes

Connectivity is a multifaceted concept that has important implications for the management and conservation of marine and freshwater fishes. We developed a conceptual framework that encompasses multiple, interrelated categories of connectedness, including landscape (e.g., structural, functional) connectivity and ecological (e.g., trophic, genetic, demographic) connectivity, that together shape the flow of organisms, energy and information across ecosystems. We also synthesised six key methods that can be used to study connectivity of fishes: (1) telemetry, including satellite, acoustic, radio and passive integrated transponders (PIT), (2) mark-recapture, (3) environmental tracers, including stable isotopes and otolith-microchemistry, (4) genetics, (5) community structure analysis and (6) emerging technologies and tools (e.g., remote sensing and artificial intelligence). For each method, we describe the categories of connectivity it can assess and provide real-world examples where they have been effectively used. We also identify limitations of each method. This article highlights the diverse and evolving toolbox of methods used to assess fish connectivity, underscoring the need for continued collaboration, innovation and integration of new approaches to refine our understanding and address remaining challenges in this critical area of aquatic ecology and fisheries management.

Fish and Fisheries↗
USGS2021

Linking climate niches across seasons to assess population vulnerability in a migratory bird

Global loss of biodiversity has placed new urgency on the need to understand factors regulating species response to rapid environmental change. While specialists are often less resilient to rapid environmental change than generalists, species-level analyses may obscure the extent of specialization when locally adapted populations vary in climate tolerances. Until recently, quantification of the degree of climate specialization in migratory birds below the species level was hindered by a lack of genomic and tracking information, but recent technological advances have helped to overcome these barriers. Here we take a genome-wide genetic approach to mapping population-specific migratory routes and quantifying niche breadth within genetically distinct populations of a migratory bird, the willow flycatcher ( Empidonax traillii ), which exhibits variation in the severity of population declines across its breeding range. While our sample size is restricted to the number of genetically distinct populations within the species, our results support the idea that locally adapted populations of the willow flycatcher with narrow climatic niches across seasons are already federally listed as endangered or in steep decline, while populations with broader climatic niches have remained stable in recent decades. Overall, this work highlights the value of quantifying niche breadth within genetically distinct groups across time and space when attempting to understand the factors that facilitate or constrain the response of locally adapted populations to rapid environmental change.

Global Change Biology↗
USGS2014

Crustal permeability: Introduction to the special issue

The topic of crustal permeability is of broad interest in light of the controlling effect of permeability on diverse geologic processes and also timely in light of the practical challenges associated with emerging technologies such as hydraulic fracturing for oil and gas production (‘fracking’), enhanced geothermal systems, and geologic carbon sequestration. This special issue of Geofluids is also motivated by the historical dichotomy between the hydrogeologic concept of permeability as a static material property that exerts control on fluid flow and the perspective of economic geologists, geophysicists, and crustal petrologists who have long recognized permeability as a dynamic parameter that changes in response to tectonism, fluid production, and geochemical reactions. Issues associated with fracking, enhanced geothermal systems, and geologic carbon sequestration have already begun to promote a constructive dialog between the static and dynamic views of permeability, and here we have made a conscious effort to include both viewpoints. This special issue also focuses on the quantification of permeability, encompassing both direct measurement of permeability in the uppermost crust and inferential permeability estimates, mainly for the deeper crust.

Geofluids↗
USGS2017

Instrumentation development for In Situ 40Ar/39Ar planetary geochronology

The chronology of the Solar System, particularly the timing of formation of extra-terrestrial bodies and their features, is an outstanding problem in planetary science. Although various chronological methods for in situ geochronology have been proposed (e.g., Rb-Sr, K-Ar), and even applied (K-Ar), the reliability, accuracy, and applicability of the 40 Ar/ 39 Ar method makes it by far the most desirable chronometer for dating extra-terrestrial bodies. The method however relies on the neutron irradiation of samples, and thus a neutron source. Herein, we discuss the challenges and feasibility of deploying a passive neutron source to planetary surfaces for the in situ application of the 40 Ar/ 39 Ar chronometer. Requirements in generating and shielding neutrons, as well as analysing samples are described, along with an exploration of limitations such as mass, power and cost. Two potential solutions for the in situ extra-terrestrial deployment of the 40 Ar/ 39 Ar method are presented. Although this represents a challenging task, developing the technology to apply the 40 Ar/ 39 Ar method on planetary surfaces would represent a major advance towards constraining the timescale of solar system formation and evolution.

Geostandards and Geoanalytical Research↗
USGS2020

Evaluating the utility of principal component analysis on EDS x-ray maps to determine bulk mineralogy

Due to advances in EDS technology, electron microscopy techniques have become an important tool to determine the relative abundance of mineral phases. However, few studies have directly compared EDS X‐ray mineralogy with traditional techniques for assessing bulk mineralogy and elemental composition. We show that analysing a limited area (~ 0.5–3.2 mm 2 ) of fine‐grained metal extraction samples using EDS X‐ray principal component analysis phase mapping yields results that agree within 10% with more traditional techniques for mineral phases present at greater than 5% m / m . Electron beam sensitive minerals, such as the carbonates, have poor correlations between EDS and X‐ray Diffraction (XRD) and/or WD‐XRF. Likewise, poor correlations between methods can be expected for particles that are smaller than the interaction volume of the electron beam (~ 1.5 µm); this strongly affected the phyllosilicates. One strength of EDS phase mapping is that it can identify phases present below the detection limit of powder XRD (< 1%). Our results demonstrate that EDS phase mapping is sufficient to estimate bulk sample mineralogy. If polished thin sections have been prepared, this approach may save time and/or money relative to the more traditional approaches of preparing separate subsamples for XRD and/or WD‐XRF.

Geostandards and Geoanalytical Research↗
USGS2013

A small-diameter NMR logging tool for groundwater investigations

A small-diameter nuclear magnetic resonance (NMR) logging tool has been developed and field tested at various sites in the United States and Australia. A novel design approach has produced relatively inexpensive, small-diameter probes that can be run in open or PVC-cased boreholes as small as 2 inches in diameter. The complete system, including surface electronics and various downhole probes, has been successfully tested in small-diameter monitoring wells in a range of hydrogeological settings. A variant of the probe that can be deployed by a direct-push machine has also been developed and tested in the field. The new NMR logging tool provides reliable, direct, and high-resolution information that is of importance for groundwater studies. Specifically, the technology provides direct measurement of total water content (total porosity in the saturated zone or moisture content in the unsaturated zone), and estimates of relative pore-size distribution (bound vs. mobile water content) and hydraulic conductivity. The NMR measurements show good agreement with ancillary data from lithologic logs, geophysical logs, and hydrogeologic measurements, and provide valuable information for groundwater investigations.

Groundwater↗
USGS2016

A fractured rock geophysical toolbox method selection tool

Geophysical technologies have the potential to improve site characterization and monitoring in fractured rock, but the appropriate and effective application of geophysics at a particular site strongly depends on project goals (e.g., identifying discrete fractures) and site characteristics (e.g., lithology). No method works at every site or for every goal. New approaches are needed to identify a set of geophysical methods appropriate to specific project goals and site conditions while considering budget constraints. To this end, we present the Excel-based Fractured-Rock Geophysical Toolbox Method Selection Tool (FRGT-MST). We envision the FRGT-MST (1) equipping remediation professionals with a tool to understand what is likely to be realistic and cost-effective when contracting geophysical services, and (2) reducing applications of geophysics with unrealistic objectives or where methods are likely to fail.

Groundwater↗
USGS2017

Groundwater development stress: Global-scale indices compared to regional modeling

The increased availability of global datasets and technologies such as global hydrologic models and the Gravity Recovery and Climate Experiment (GRACE) satellites have resulted in a growing number of global-scale assessments of water availability using simple indices of water stress. Developed initially for surface water, such indices are increasingly used to evaluate global groundwater resources. We compare indices of groundwater development stress for three major agricultural areas of the United States to information available from regional water budgets developed from detailed groundwater modeling. These comparisons illustrate the potential value of regional-scale analyses to supplement global hydrological models and GRACE analyses of groundwater depletion. Regional-scale analyses allow assessments of water stress that better account for scale effects, the dynamics of groundwater flow systems, the complexities of irrigated agricultural systems, and the laws, regulations, engineering, and socioeconomic factors that govern groundwater use. Strategic use of regional-scale models with global-scale analyses would greatly enhance knowledge of the global groundwater depletion problem.

Groundwater↗
USGS2004

Movements and habitat use by PIT-tagged Atlantic salmon parr in early winter: The influence of anchor ice

1. Movements and habitat use by Atlantic salmon parr in Catamaran Brook, New Brunswick, were studied using Passive Integrated Transponder technology. The fish were tagged in the summer of 1999, and a portable reading system was used to collect data on individual positions within a riffle-pool sequence in the early winter of 1999. Two major freezing events occurred on November 11-12 (Ice 1) and November 18-19 (Ice 2) that generated significant accumulations of anchor ice in the riffle. 2. Individually tagged parr (fork length 8.4-12.6 cm, n = 15) were tracked from 8 to 24 November 1999. Over this period, emigration (40%) was higher from the pool than from the riffle. Of the nine parr that were consistently located, seven parr moved <5 m up- or downstream, and two parr moved more than 10 m (maximum 23 m). Parr moved significantly more by night than by day, and diel habitat shifts were more pronounced in the pool with some of the fish moving closer to the bank at night. 3. During Ice 2, there was relatively little movement by most of the parr in the riffle beneath anchor ice up to 10 cm in thickness. Water temperature was 0.16??C above the freezing point beneath anchor ice, suggesting the existence of suitable habitats where salmon parr can avoid supercooling conditions and where they can have access to low velocity shelters. To our knowledge, these are the first data on habitat use by Atlantic salmon parr under anchor ice.

Freshwater Biology↗