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Ecological genetics at the USGS National Wetlands Research Center

The Ecological Genetics Program at the USGS National Wetlands Research Center (NWRC) employs state-of-the-art DNA fingerprinting technologies in characterizing critical management aspects of the population biology of species of concern ( fig. 1 ). The overarching themes of this program have been (1) the critical role that genetic diversity plays in maintaining population viability and (2) how management strategies might incorporate genetic information in preventing the decline of desirable species or in controlling the spread of invasive species.

Fact Sheet

Multi-taxa database data dictionary

The conservation of biological resources relies on the successful management of ecological and physiological research data. The Western Ecological Research Center of the U.S. Geological Survey is working with researchers, land managers, and decision makers from non-government organizations and city, county, state, and federal resource agencies to develop data management methods. Access to the most current and applicable research data available in making sound decisions to conserve species diversity is foundational. We sought to accomplish several goals in developing the data management strategy used in the Multi-Taxa database. Data persistence and availability are primary goals of well-developed databases. By documenting and sharing the structure and definitions of Multi-Taxa database, we hope to further the successful management of these crucial data.

Techniques and Methods

A preliminary report of ongoing research of the ecology of Black-capped Petrel (Pterodroma hasitata) in Sierra de Bahoruco, Dominican Republic – I: GPS tracking of breeding adults

The Black-capped Petrel (also known regionally as Diablotin) is a gadfly petrel endemic to the Caribbean. Population estimates based on at-sea observations range from 2,000 to 4,000 individuals, with a fragmented breeding population estimated at 500 to 1,000 pairs. At sea, the expansive marine range of the species exposes it to many conservation threats including fisheries activity, offshore energy development, marine pollution including mercury bio-accumulation, and climate change. Such disturbances at sea have been under-studied although they are likely to impact the survival of the species.

Sierra de Bahoruco

Facilitating comparable research in seedling functional ecology

Ecologists have worked to ascribe function to the variation found in plant populations, communities and ecosystems across environments for at least the past century. The vast body of research in functional ecology has drastically improved understanding of how individuals respond to their environment, communities are assembled and ecosystems function. However, with limited exceptions, few studies have quantified differences in plant function during the earliest stages of the plant life cycle, and fewer have tested how this early variability shapes populations, communities and ecosystems. Drawing from the literature and our collective experience, we describe the current state of knowledge in seedling functional ecology and provide examples of how this subdiscipline can enrich our fundamental understanding of plant function across levels of organisation. To inspire progressive work in this area, we also outline key considerations involved in seedling functional research (who, what, when, where and how to measure seedling traits) and identify remaining challenges and gaps in understanding around methodological approaches. Within this conceptual synthesis, we highlight three critical areas in seedling ecology for future research to target. First, given wide variation in the definition of a ‘seedling’, we provide a standard definition based on seed reserve dependence while emphasising the need to measure ontogenetic variation more clearly both within and following the seedling stage. Second, studies demonstrate that seedlings can be studied in multiple media (e.g. soil, agar, filter paper) and conditions (e.g. field, greenhouse, laboratory). We recommend that researchers select methods based on explicit goals, yet follow standard guidelines to reduce methodological noise across studies. Third, research is critically needed to assess the implications of different methodologies on trait measurement and compatibility across studies. By highlighting the importance of seedling functional ecology and suggesting pathways to address key challenges, we aim to inspire future research that generates useful and comparable data on seedling functional ecology. This work is critical to explain variation within and among populations, communities and ecosystems and integrate this most vulnerable stage of plant life into ecological frameworks.

Methods in Ecology & Evolution

Structure and vulnerability of Pacific Northwest tidal wetlands – A summary of wetland climate change research by the Western Ecology Division, U.S. EPA

Climate change poses a serious threat to the tidal wetlands of the Pacific Northwest (PNW) region of the U.S. In response to this threat, scientists at the Western Ecology Division of the U.S. EPA at and the Western Fisheries Research Center of the U.S. Geological Survey, along with other partners, initiated a series of studies on the structure and vulnerability of tidal wetlands to climate change. One research thrust was to evaluate community structure of PNW marshes, experimentally assess the vulnerability of marsh plants to inundation and salinity stress (as would happen with sea level rise), and evaluate the utility of the National Wetland Inventory (NWI) classification system. Another research thrust was to develop tools that provide insights into possible impacts of climate change. This effort included enhancing the Sea Level Affecting Marshes Model (SLAMM) to predict the effects of sea level rise on submerged aquatic vegetation (Zostera marina) distributions, evaluating changes in river flow into coastal estuaries in response to precipitation changes, and synthesizing Pacific Coast estuary, watershed, and climate data in a downloadable tool. Because the research resulting from these efforts was published in multiple venues, we summarized them in this document. We anticipate that future research efforts by the U.S. EPA will continue with a focus on climate change impacts on a regional scale.

California, Oregon, Washington

The interactions between vegetation and erosion: new directions for research at the interface of ecology and geomorphology

Vegetation and processes of erosion and deposition are interactive. An objective of this paper is to review selected studies that emphasize the interdependencies. The reviews suggest new directions for research uniting ecology and geomorphology – the sub‐discipline of biogeomorphology. The research, which recently has become vigorous, includes the sources, movement, and fates of fluvial loads of sediment, organic carbon, nutrients, contaminants, and woody debris to low‐energy storage sites; the function of biota in causing soil evolution, stability, and sequestration of carbon; the development of new methods to characterize watersheds based on edaphic conditions; and the refinement of current empirical and conceptual models and dendrochronological techniques to measure landscape change. These well acknowledged topics and others less well anticipated ensure that biogeomorphology will remain vibrant.

Earth Surface Processes and Landforms

Research on polar bears in Alaska, 1983-1985

Research on the ecology and status of polar bear populations in Alaska has continued since 1967. Research was a joint U.S. Fish and Wildlife Service/Alaska Department of Fish and Game effort until passage of the Marine Mammal Protection Act in 1972, and has been largely a Federal effort since then. In 1985, Alaskan polar beer research continues to be carried out by the Research Division of the U.S. Fish and Wildlife Service (DOI). A recent reorganization removed authority for ecological research in Alaska from the Denver Wildlife Research Center, and vested it with the newly created Alaska Office of Fish and Wildlife Research. This new research office is the center for Federal fish and Wildlife related research throughout the state of Alaska and in its coastal waters. Although the responsibility for polar bear research lies with the U.S. Fish and Wildlife Service, numerous other organizations and agencies deserve mention for their cooperation and support of the ongoing research. These include: the U.S. National Oceanic and Atmospheric Administration (DOC), The U.S. Minerals Management Service (DOI), The Canadian Wildlife Service, The Northwest Territories Wildlife Service, the Yukon Wildlife Service, Dome Petroleum Ltd, Gulf Canada, and the Alaska Department of Fish and game.

Alaska

Conflicting research on the demography, ecology, and social behavior of Gunnison's prairie dogs ( Cynomys gunnisoni )

Gunnison's prairie dogs ( Cynomys gunnisoni ) are rare, diurnal, colonial, burrowing, ground-dwelling squirrels. Studies of marked individuals living under natural conditions in the 1970s, 1980s, and 1990s showed that males are heavier than females throughout the year; that adult females living in the same territory are consistently close kin; and that females usually mate with the sexually mature male(s) living in the home territory. Research from 2007 through 2010 challenges all 3 of these findings. Here we discuss how different methods might have led to the discrepancies.

Journal of Mammalogy

Bridging the research-management gap: Landscape ecology in practice on public lands in the western United States

The field of landscape ecology has grown and matured in recent decades, but incorporating landscape science into land management decisions remains challenging. Many lands in the western United States are federally owned and managed for multiple uses, including recreation, conservation, and energy development. We argue for stronger integration of landscape science into the management of these public lands. We open by outlining the relevance of landscape science for public land planning, management, and environmental effects analysis, including pertinent laws and policies. We identify challenges to integrating landscape science into public land management, including the multijurisdictional nature and complicated spatial pattern of public lands, the capacity of agencies to identify and fill landscape science needs, and public perceptions about the meaning of landscape approaches to management. We provide several recent examples related to landscape monitoring, restoration, reclamation, and conservation in which landscape science products were developed specifically to support decision-making. We close by highlighting three actions - elevating the importance of science-management partnerships dedicated to coproducing actionable landscape science products, identifying where landscape science could foster efficiencies in the land-use planning process, and developing scenario-based landscape models for shrublands - that could improve landscape science support for public land planners and managers.

Arizona, California, Colorado, Idaho, Montana, New

The ecology of cormorants: some research needs and recommendations

Concerns about Double-crested Cormorants (Phalacrocorax auritus) have arisen because of their rapid population increase across North America and their economic impact on several aquaculture and commercial fish industries. In spite of the concern for cormorants, little published research is available that addresses either basic population biology questions or management issues. Based on a literature review, I recommend that research be conducted in four areas. First, a large-scale banding and marking program should be initiated so that population models can be used to estimate age- and sex-specific survival and fecundity (as has been done for the Shag [P. aristotelis] in Europe). By marking individual birds, survival and movement rates can be estimated between nesting colonies, which will provide information about potential source versus sink colonies. Second, studies of movements during migration and winter are required. Presently, no data are available on habitat use during migration or on the length-of-stay by individual birds. This has important implications to how cormorants interact with other fish and wildlife species over a broad range. Studies of movements during winter with radio-marked birds should indicate whether the 'problem birds' at aquaculture sites are merely a few specialists. Third, limiting factors, such as contaminants and disease, should receive further investigation, especially in light of recent concerns over the outbreak of Newcastle disease. The relationship between contaminant levels and developmental abnormalities in young cormorants in certain areas of the Great Lakes in Canada and the United States remains equivocal. Fourth, further studies are needed to document the economic impacts of cormorants on Channel Catfish (Ictalurus punctatus) and other cultured fishes and to determine ways to reduce predation by fish-eating birds. Mesocosm experiments should be conducted to evaluate how different fish extraction rates affect final productivity of fish. Controlled experiments with different exclusion and scaring devices are needed. With radio-marked birds, it should be determined what the behavioral responses are to the different scaring devises. Also, providing alternative wetland feeding sites in regions of fish farm depredation might alleviate some of the pressure on farmers. Studies with radio-marked birds could evaluate effects of manipulation of 'natural' wetlands on use by birds during the winter period. Finally, any research directed at the Double-crested Cormorant should also evaluate its interactions with other fisheating waterbirds.

Book chapter

Democratizing macroecology: Integrating unoccupied aerial systems with the National Ecological Observatory Network

Macroecology research seeks to understand ecological phenomena with causes and consequences that accumulate, interact, and emerge across scales spanning several orders of magnitude. Broad-extent, fine-grain information (i.e., high spatial resolution data over large areas) is needed to adequately capture these cross-scale phenomena, but these data have historically been costly to acquire and process. Unoccupied aerial systems (UAS or drones carrying a sensor payload) and the National Ecological Observatory Network (NEON) make the broad-extent, fine-grain observational domain more accessible to researchers by lowering costs and reducing the need for highly specialized equipment. Integration of these tools can further democratize macroecological research, as their strengths and weaknesses are complementary. However, using these tools for macroecology can be challenging because mental models are lacking, thus requiring large up-front investments in time, energy, and creativity to become proficient. This challenge inspired a working group of UAS-using academic ecologists, NEON professionals, imaging scientists, remote sensing specialists, and aeronautical engineers at the 2019 NEON Science Summit in Boulder, Colorado, to synthesize current knowledge on how to use UAS with NEON in a mental model for an intended audience of ecologists new to these tools. Specifically, we provide (1) a collection of core principles for collecting high-quality UAS data for NEON integration and (2) a case study illustrating a sample workflow for processing UAS data into meaningful ecological information and integrating it with NEON data collected on the ground—with the Terrestrial Observation System—and remotely—from the Airborne Observation Platform. With this mental model, we advance the democratization of macroecology by making a key observational domain—the broad-extent, fine-grain domain—more accessible via NEON/UAS integration.

Ecosphere

Santa Barbara area coastal ecosystem vulnerability assessment

The Santa Barbara Area Coastal Ecosystem Vulnerability Assessment (SBA CEVA) is a multidisciplinary research project that investigates future changes to southern Santa Barbara County climate, beaches, watersheds, wetland habitats and beach ecosystems. The target audience is local land use planners and decision makers. The main objective is to provide information that assists the Cities of Santa Barbara, Carpinteria, and Goleta, the County of Santa Barbara, and UC Santa Barbara in climate adaptation planning with a clear focus on coastal ecosystems. Led by California Sea Grant, SBA CEVA was developed from the work of three of the state’s leading ecological and climatological research programs: UCSB’s Santa Barbara Coastal Long-Term Ecological Research (LTER) Program, the UCSD Scripps Institution of Oceanography (SIO) and their activities within the California and Nevada Applications Program Regional Integrated Science and Assessment (CNAP RISA), the California 4th Climate Assessment and the Southwest Climate Science Center Program, and USGS Coastal Storm Modeling System (CoSMoS)

California

Imperiled Great Basin terminal lakes: Synthesizing ecological and hydrological science gaps and research needs for waterbird conservation

Terminal lakes are declining globally because of human water demands, drought, and climate change. Through literature synthesis and feedback from the resource and conservation community, we review the state of research for terminal lakes in the Great Basin of the United States, which support millions of waterbirds annually, to prioritize ecological and hydrologic information needs. From an ecological perspective, research priorities include measuring the underlying differences in waterbird resource selection and distribution, migratory connectivity, abiotic factors that interact with prey densities to affect prey availability, and waterbird fitness or demography. Integrated links between water availability, water quality, and food webs are lacking in the literature. Scarce water availability data hinder the current knowledge of water extraction and evapotranspiration rates. Research that can address these priorities would help advance our understanding of how the Great Basin terminal lakes function as an interrelated system and support conservation efforts to reverse the decline of these critical lakes.

California, Nevada, Oregon, Utah

Estimating species-specific suvival and movement when species identification is uncertain

Incorporating uncertainty in the investigation of ecological studies has been the topic of an increasing body of research. In particular, mark-recapture methodology has shown that incorporating uncertainty in the probability of detecting individuals in populations enables accurate estimation of population-level processes such as survival, reproduction, and dispersal. Recent advances in mark-recapture methodology have included estimating population-level processes for biologically important groups despite the misassignment of individuals to those groups. Examples include estimating rates of apparent survival despite less than perfect accuracy when identifying individuals to gender or breeding state. Here we introduce a method for estimating apparent survival and dispersal in species that co-occur but that are difficult to distinguish. We use data from co-occurring populations of meadow voles (Microtus pennsylvanicus) and montane voles (M. montanus) in addition to simulated data to show that ignoring species uncertainty can lead to biased estimates of population processes. The incorporation of species uncertainty in mark-recapture studies should aid future research investigating ecological concepts such as interspecific competition, niche differentiation, and spatial population dynamics in sibling species.

Ecology

Understanding the ecology of disease in Great Lakes fish populations

Disease may be an important factor affecting wild fish population dynamics in the Great Lakes, but a lack of information on the ecology of fish disease currently precludes the prediction of risks to fish populations. Here we propose a conceptual framework for conducting ecologically-oriented fish health research that addresses the inter-relationships among fish health, fish populations, and ecosystem dysfunction in the Great Lakes. The conceptual framework describes potential ways in which disease processes and the population-level impacts of disease may relate to ecosystem function, and suggests that functional ecosystems are more likely to be resilient with respect to disease events than dysfunctional ecosystems. We suggest that ecosystem- or population-level research on the ecology of fish disease is necessary to understand the relationships between ecosystem function and fish health, and to improve prediction of population-level effects of diseases on wild fish populations in the Great Lakes. Examples of how the framework can be used to generate research questions are provided using three disease models of current interest in the Great Lakes: thiamine deficiency complex, botulism, and bacterial kidney disease.

Great Lakes

A 2.5 km movement by a potentially ill white-tailed deer along Nantasket Beach in suburban Massachusetts, USA

White-tailed deer ( Odocoileus virginianus ) ecology has received significant research attention, yet there is a need for further synthetic work on the species across environmental contexts and research areas. Opportunistic natural history accounts can help identify new conceptual links and research directions by offering new observations and ideas, synthesizing context from the literature, and highlighting gaps in understanding. We provide an opportunistic account of a 2.5 km movement of a white-tailed deer walking, wading, and swimming along Nantasket Beach in a suburban context in Massachusetts, USA. The deer displayed behaviors that could potentially be reflective of trauma, disorientation, or illness, including possibly symptomatic head movements and crouching behavior. The behavior of the deer may also have been influenced by the coastal and suburban context in which the observation took place. Our account explores swimming, deer behavior, and possible illness in a coastal, suburban context. We highlight the need for additional research on the ecology and management of white-tailed deer, including swimming and disease in coastal, marine, and developed contexts, and intersections across these areas.

Massachusetts