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Report to the fish farmers: Status of warmwater fish farming and progress in fish farming research
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Use of banding data in migratory game bird research and management
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Biology and conservation of the common murre in California, Oregon, Washington, and British Columbia: Vol. 1, Natural history and population trends
Over the past 30 years, the common murre ( Uria aalge californica ) has been recognized as a prominent indicator of marine conservation issues in California, Oregon, Washington, and British Columbia, especially regarding oil pollution, certain fisheries, and human disturbance. To assist the effective management of the common murre and the marine environments in which they live, this summary of available information on the biology and regional status of the common murre has been sponsored by the U.S. Fish and Wildlife Service (Division of Migratory Bird Management). In Volume 1 (Chapter 1), the natural history of the common murre is summarized, drawing heavily on breeding studies from the South Farallon Islands, California, plus a host of detailed breeding studies from the North Atlantic Ocean. Population trends of the common murre are summarized in Volume 1 (Chapter 2), focusing on changes in whole-colony counts determined from aerial photographs between the late 1970s and 1995 in California, Oregon and Washington. Historical data and human impacts to murre colonies since the early nineteenth century are also summarized. Volume 2 will summarize population threats, conservation, and management. Information presented in Volume 1 has been obtained and recorded by a large number of researchers and natural historians over two centuries. From the 1960s to 1995, most work in California, Oregon, and Washington was sponsored by the U.S. Fish and Wildlife Service, Minerals Management Service, and California Department of Fish and Game. Important breeding biology studies were conducted at the South Farallon Islands (Farallon National Wildlife Refuge) by the Point Reyes Bird Observatory, in coordination with the U.S. Fish and Wildlife Service (San Francisco Bay National Wildlife Refuge). Colony surveys in California were conducted mainly by the U.S. Fish and Wildlife Service (San Francisco Bay National Wildlife Refuge), U.S. Geological Survey (Western Ecological Research Center, Dixon Field Station), Humboldt State University, and University of California (Santa Cruz). Colony surveys in Oregon and Washington were conducted mainly by the U.S. Fish and Wildlife Service (Oregon Coast National Wildlife Refuge and Washington Maritime National Wildlife Refuges). In British Columbia, most work from the 1960s to 1995 was sponsored and conducted by the Canadian Wildlife Service and Royal British Columbia Museum.
Susitna Hydroelectric Project: terrestrial environmental workshop and preliminary simulation model
The technical feasibility, economic viability, and environmental impacts of a hydroelectric development project in the Susitna River Basin are being studied by Acres American, Inc. on behalf of the Alaska Power Authority. As part of these studies, Acres American recently contracted LGL Alaska Research Associates, Inc. to coordinate the terrestrial environmental studies being performed by the Alaska Department of Fish and Game and, as subcontractors to LGL, several University of Alaska research groups. LGL is responsible for further quantifying the potential impacts of the project on terrestrial wildlife and vegetation, and for developing a plan to mitigate adverse impacts on the terrestrial environment. The impact assessment and mitigation plan will be included as part of a license application to the Federal Energy Regulatory Commission (FERC) scheduled for the first quarter of 1983. The quantification of impacts, mitigation planning, and design of future research is being organized using a computer simulation modelling approach. Through a series of workshops attended by researchers, resource managers, and policy-makers, a computer model is being developed and refined for use in the quantification of impacts on terrestrial wildlife and vegetation, and for evaluating different mitigation measures such as habitat enhancement and the designation of replacement lands to be managed by wildlife habitat. This report describes the preliminary model developed at the first workshop held August 23 -27, 1982 in Anchorage.
Ecological consequences of mountain pine beetle outbreaks for wildlife in western North American forests
Mountain pine beetle ( Dendroctonus ponderosae ) (MPB) outbreaks are increasingly prevalent in western North America, causing considerable ecological change in pine ( Pinus spp.) forests with important implications for wildlife. We reviewed studies examining wildlife responses to MPB outbreaks and postoutbreak salvage logging to inform forest management and guide future research. Our review included 16 studies describing MPB outbreak relationships with 89 bird species and 6 studies describing relationships with 11 mammalian species, but no studies of reptiles or amphibians. We included studies that compared wildlife response metrics temporally (before versus after the outbreak) and spatially (across sites that varied in severity of outbreak) in relation to beetle outbreaks. Outbreaks ranged in size from 20,600 to ≥10 7 ha and studies occurred 1‐30 years after the peak MPB outbreak, but most studies were conducted over the short-term (i.e., ≤6 years after the peak of MPB-induced tree mortality). Birds were the only taxa studied frequently; however, high variability existed among those studies to allow many inferences, although some patterns were evident. Avian studies concluded that cavity-nesting species responded more favorably to beetle-killed forests than species with open-cup nests, and species nesting in the shrub layer favored outbreak forests compared with ground and open-cup canopy nesters that generally showed mixed relationships. Bark-drilling species as a group clearly demonstrated a positive short-term association with MPB epidemics compared with that of other foraging assemblages. Cavity-nesting birds that do not consume bark beetles (i.e., secondary cavity-nesting species and nonbark-drilling woodpeckers) also exhibited some positive responses to MPB outbreaks, although not as pronounced or consistent as those of bark-drilling woodpeckers. Mammalian responses to MPB outbreaks were mixed. Studies consistently reported negative effects of MPB outbreaks on red squirrels ( Tamiasciurus hudsonicus ). However, there is evidence that red squirrels can persist after an outbreak under some conditions, e.g., when nonhost tree species are present. For small mammal species associated with forest understories, responses may be most pronounced during the postepidemic period (>6 years after the peak of beetle-induced tree mortality) when snags fall to produce coarse woody debris. Postoutbreak salvage logging studies ( n = 6) reported results that lacked consensus. Postoutbreak salvage logging may have an impact on fewer wildlife species than postfire salvage logging, probably because only host-specific tree species are removed after beetle outbreaks.
Spatial capture–recapture for categorically marked populations with an application to genetic capture–recapture
Recently introduced unmarked spatial capture–recapture (SCR), spatial mark–resight (SMR), and 2‐flank spatial partial identity models (SPIMs) extend the domain of SCR to populations or observation systems that do not always allow for individual identity to be determined with certainty. For example, some species do not have natural marks that can reliably produce individual identities from photographs, and some methods of observation produce partial identity samples as is the case with remote cameras that sometimes produce single‐flank photographs. Unmarked SCR, SMR, and SPIM share the feature that they probabilistically resolve the uncertainty in individual identity using the spatial location where samples were collected. Spatial location is informative of individual identity in spatially structured populations because a sample is more likely to have been produced by an individual living near the trap where it was recorded than an individual living further away from the trap. Further, the level of information about individual identity that a spatial location contains is related to two key ecological concepts, population density and home range size, which we quantify using a proposed Identity Diversity Index (IDI). We show that latent and partial identity SCR models produce imprecise and biased density estimates in many high IDI scenarios when data are sparse. We then extend the unmarked SCR model to incorporate categorical, partially identifying covariates, which reduce the level of uncertainty in individual identity, increasing the reliability and precision of density estimates, and allowing reliable density estimation in scenarios with higher IDI values and with more sparse data. We illustrate the performance of this “categorical SPIM” via simulations and by applying it to a black bear data set using microsatellite loci as categorical covariates, where we reproduce the full data set estimates with only slightly less precision using fewer loci than necessary for confident individual identification. We then discuss how the categorical SPIM can be applied to other wildlife sampling scenarios such as remote camera surveys, where natural or researcher‐applied partial marks can be observed in photographs. Finally, we discuss how the categorical SPIM can be added to SMR, 2‐flank SPIM, or other latent identity SCR models.
The interaction of groundwater with prairie pothole wetlands in the Cottonwood Lake area, east-central North Dakota 1979-1990
The interaction of ground water with prairie wetlands in the Cottonwood Lake area has been the focus of research by the U.S. Geological Survey and the U.S. Fish and Wildlife Service since 1977. During this time, climatic conditions at the site ranged from near the driest to near the wettest of the century. Water levels in wetlands and in water-table wells throughout the study area responded to these changing climate conditions in a variety of ways. The topographically highest wetlands recharged ground water whenever they received water from precipitation. The wetland of principal interest, Wetland P1, which is at an intermediate altitude, received ground-water discharge much of the time, but it also had transpiration-induced seepage from it along parts of its perimeter during all but the wettest year. The large fluctuations of the water table in response to recharge and transpiration reflect the ease with which water moves vertically through the fractured till. Lateral movement of ground water is much slower; pore-water moves vertically through the fractured till. Lateral movement of ground water is much slower; pore-water velocities are generally less than 3 m yr −1 . The water supply to the wetlands is largely from precipitation during fall, winter, and spring. During these periods, precipitation either falls directly on the wetland, or precipitation that falls on the upland runs over frozen soils or saturated soils into the wetland. The average ratio of stage rise to total overwinter precipitation was 2.59 for the 12-year study period. After plants leaf out, precipitation generally results in much lower rises of the wetland water level. The average ratio of stage rise to over-summer precipitation was less than 1.0.
Retrospective: Adjusting contaminant concentrations in bird eggs to account for moisture and lipid Loss during their incubation
By the 1960s, research and monitoring efforts on chlorinated pesticide residues in tissues of wildlife were well underway in North America and Europe. Conservationists and natural resource managers were attempting to resolve whether pesticide exposure and accumulated residues were related to population declines in several species of predatory and scavenging birds (e.g., bald eagle Haliaeetus leucocephalus , peregrine falcon Falco peregrinus , brown pelican Pelecanus occidentalis and osprey Pandion haliaetus ). The avian egg was a favored sampling matrix even before the realization that eggshell thinning was linked to population declines (Ratcliffe 1967 ; Hickey and Anderson 1968 ) and that the concentration of p,p ’-DDE in an egg was associated with the shell thinning phenomenon (e.g., Blus et al. 1972 ; Wiemeyer et al. 1988 ). The necessity for making wet-weight concentration adjustments to account for natural moisture loss during incubation of viable eggs was realized. Correction for the more dramatic moisture loss in non-viable decaying eggs was recognized as being paramount. For example, the ∑DDT residues in osprey eggs were reported to vary by as much as eightfold without accounting for moisture loss adjustments (Stickel et al. 1965 ). In the absence of adjusting concentrations to the fresh wet-weight that was present at the time of egg laying, the uncorrected values exaggerated contaminant concentrations, yielding artifactual results and ultimately incorrect conclusions. The adjustment to fresh wet-weight concentration is equally important for many other persistent contaminants including PCBs, dioxins, furans, and brominated diphenyl ethers.
Land application of biosolid, livestock, and drilling wastes to US farmland: A potential pathway for the redistribution of contaminants in the environment
In the United States (U.S.), waste byproducts generated from the treatment of municipal waste (biosolids), production of livestock (livestock waste), and drilling of oil and gas wells (drilling waste) are commonly applied to agricultural lands. Although this can be a cost-effective reuse/disposal practice, there is limited research on the potential for contaminant exposures and effects on ecosystems, wildlife, and human health from such land applications. In this study, we conducted extensive chemical, microbial, and toxicity analyses of biosolid, livestock, and drilling wastes just prior to land application on agricultural lands at 34 sites across the U.S. Twenty-two analytical methods were used to determine potential contaminant exposures profiles for 452 organic and 114 inorganic chemicals, nine microbial groups, estrogenicity, and cytotoxicity. Analytical results document unique and substantial chemical, microbial, and toxicity profiles for these land-applied wastes. Of the three waste byproducts, biosolids contained the greatest concentrations of household chemicals, pesticides, pharmaceuticals, per-/polyfluoroalkyl substances, calcium, and phosphorus. Livestock waste contained the greatest concentrations of total and leachable dissolved organic carbon, biogenic hormones, mycotoxins, plant estrogens, total inorganic nitrogen, and potassium. Drilling waste contained the greatest concentrations of BTEX compounds (benzene, toluene, ethylbenzene, and xylenes), polycyclic aromatic hydrocarbons, rare-earth elements, barium, strontium, and uranium–thorium series radioisotopes. Biosolid and livestock wastes had greater culturable heterotrophic bacteria, halophilic bacteria, Escherichia coli ( E. coli ), enterococci, and staphylococci concentrations, and greater microbial diversity than drilling waste. Bioassay analyses indicated that exposure to contaminants in livestock wastes and biosolids could result in estrogenic effects, whereas exposure to contaminants in drilling waste could result in cytotoxic effects. Our study documents that current reuse/disposal practices for biosolid, livestock, and drilling wastes on agricultural lands could provide a potential pathway for the redistribution of unique and complex contaminant mixtures into the environment that have bioactive, endocrine disrupting, and carcinogenic characteristics. Results of this study provide a snapshot of chemical compositions and concentrations that can be used to inform the development of best-management practices to help maximize beneficial reuse of these wastes and minimize risk to the environment and human health.
Utilizing high-resolution genetic markers to track population-level exposure of migratory birds to renewable energy development
With new motivation to increase the proportion of energy demands met by zero-carbon sources, there is a greater focus on efforts to assess and mitigate the impacts of renewable energy development on sensitive ecosystems and wildlife, of which birds are of particular interest. One challenge for researchers, due in part to a lack of appropriate tools, has been estimating the effects from such development on individual breeding populations of migratory birds. To help address this, we utilize a newly developed, high-resolution genetic tagging method to rapidly identify the breeding population of origin of carcasses recovered from renewable energy facilities and combine them with maps of genetic variation across geographic space (called ‘genoscapes’) for five species of migratory birds known to be exposed to energy development, to assess the extent of population-level effects on migratory birds. We demonstrate that most avian remains collected were from the largest populations of a given species. In contrast, those remains from smaller, declining populations made up a smaller percentage of the total number of birds assayed. Results suggest that application of this genetic tagging method can successfully define population-level exposure to renewable energy development and may be a powerful tool to inform future siting and mitigation activities associated with renewable energy programs.
Effects of West Nile Virus
USGS scientists are embarking on bold new research to better understand the consequences this disease may have on wildlife and human health.
U.S. Department of the Interior Climate Science Centers and U.S. Geological Survey National Climate Change and Wildlife Science Center—Annual report for 2015
2015 was another great year for the Department of the Interior (DOI) Climate Science Centers (CSCs) and U.S. Geological Survey (USGS) National Climate Change and Wildlife Science Center (NCCWSC) network. The DOI CSCs and USGS NCCWSC continued their mission of providing the science, data, and tools that are needed for on-the-ground decision making by natural and cultural resource managers to address the effects of climate change on fish, wildlife, ecosystems, and communities. Our many accomplishments in 2015 included initiating a national effort to understand the influence of drought on wildlife and ecosystems; providing numerous opportunities for students and early career researchers to expand their networks and learn more about climate change effects; and working with tribes and indigenous communities to expand their knowledge of and preparation for the impacts of climate change on important resources and traditional ways of living. Here we illustrate some of these 2015 activities from across the CSCs and NCCWSC.
Golden Eagle predation of an adult turkey vulture
The Golden Eagle (Aquila chrysaetos) is a large, apex predator that occurs at low densities, has a long life span, experiences delayed maturity, has low reproductive rates, and has no natural predators (Watson 1997, Kochert et al. 2002). Golden Eagles are sensitive to anthropogenic driven landscape changes in land cover and land use (Hunt 2002, Kochert and Steenhof 2002). Landscape level alterations, such as encroachment of woody vegetation in eagle foraging areas, may result in decreased abundance of suitable prey or interfere with the eagle’s ability to see or capture prey. Currently, there is substantial concern for Golden Eagle conservation due to widespread anthropogenic changes to landscapes across much of the species distribution (U.S. Fish and Wildlife Service 2013). In particular, the rapid expansion of wind energy development has led to heightened concerns for Golden Eagle conservation, as the species is susceptible to mortality through collision with turbines (Hunt 2002, U.S. Fish and Wildlife Service 2013). This has resulted in a recent increase in research to develop a better understanding of the species’ ecology.
Spatial and temporal variation in marine birds in the north Gulf of Alaska: The value of marine bird monitoring within Gulf Watch Alaska
Birds offer useful insights into marine ecosystems. Marine birds are responsive to spatial and temporal variation in the environment, that often originates with fluctuations in oceanographic and climatic drivers and permeates up through food webs to conspicuous top predators such as seabirds (Coyle and Pinchuk 2005, Speckman et al. 2005, Gonzales-Solis et al. 2009, Cushing et al., this report). In that way, marine birds are excellent assimilators, samplers, and indicators of the status of marine environments (Montevecchi 1993, Piatt et al. 2007b, Zador et al. 2013). Marine bird responses to dynamic marine ecosystems can be detected in a variety of metrics, including abundance, distribution, and productivity. For example, in the northern Gulf of Alaska (GOA), decadal-scale variation in oceanographic conditions has been associated with dramatic shifts in prey composition and abundance (Anderson and Piatt 1999). In turn, these shifts were more closely correlated with changes in abundance of fish-eating birds of Prince William Sound (PWS), such as pigeon guillemots (Golet et al. 2002) and marbled and Kittlitz’s murrelets (Kuletz et al. 2011a, 2011b), than in the abundance of species that primarily consume plankton or benthic prey (Agler et al. 1999, Cushing et al., this report). Birds also are responsive to anthropogenic influences in marine environments, including commercial fishing, contamination, introduction of non-native species, coastal development, offshore resource extraction, and vessel traffic. A major anthropogenic perturbation in the northern GOA was the 1989 Exxon Valdez oil spill, in which marine birds suffered high immediate mortality (Piatt and Ford 1996). Additionally, several species showed long-term evidence of declines in the oiled areas of PWS (Lance et al. 2001), as well as impacts to reproductive success years later (Golet et al. 2002). However, the degree of direct impact and vulnerability to chronic injury, which was related to exposure to lingering oil, varied widely among species (see Esler et al., this report). Research and monitoring directed at documenting the timelines and mechanisms of wildlife recovery following the Exxon Valdez oil spill led to an unprecedented understanding of oil spill effects on marine birds, as well as previously unknown information about marine bird ecology in the northern GOA. Quantifying effects of anthropogenic influences requires an understanding of variation in marine bird abundance, distribution, and productivity, in relation to naturally occurring dynamics in marine environments continued marine bird work as part of Gulf Watch Alaska will facilitate this. In addition to their value as indicators of marine conditions and anthropogenic influences, marine birds are protected under the Migratory Bird Treaty Act and are managed by the U.S. Fish and Wildlife Service (USFWS). Marine birds have high societal value from a wide variety of interests (e.g., tourism, bird watching, hunting, mythology), and are an important source of subsistence foods in Alaska (Naves and Braem 2014). Because of the conservation interest in marine birds, as well as their value for indicating the status of marine ecosystems, monitoring of marine birds is an important component of many ocean monitoring programs, including Gulf Watch Alaska.
Terrestrial fauna are agents and endpoints in ecosystem restoration following dam removal
Dam removal is an effective and increasingly applied river restoration strategy. This has led to heightened calls for research and monitoring aimed at understanding physical and ecological outcomes following dam removal. While such research programs have increased, roles of terrestrial fauna in the restoration process remain poorly understood, although wildlife and invertebrate fauna are key components of restored ecosystems. Wildlife play reciprocal roles in restoration: they benefit from restored habitats and their activities affect restoration trajectories. Dam removal exposes substrates on former reservoirs and reconnects river corridors, providing new habitat and food resources for terrestrial fauna. Conversely, many wildlife may influence the river restoration process, with both short-term and long-term consequences for community composition, nutrient transfer, and ecosystem function. We assert that considering terrestrial fauna more directly in river restoration research and planning can enhance restoration outcomes. We illustrate these concepts by describing short-term patterns and potential future processes expected from the recent removal of two large dams on the Elwha River in Washington State, the largest dam removal effort ever undertaken. We conclude that an ecosystem-level understanding of restoration following dam removal is critical to fully assessing the impacts and benefits of restoration. This includes measuring the roles and responses of terrestrial fauna to these ecologically and culturally significant restoration projects.
Exploring and mitigating plague for One Health purposes
Purpose of Review In 2020, the Appropriations Committee for the U.S. House of Representatives directed the CDC to develop a national One Health framework to combat zoonotic diseases, including sylvatic plague, which is caused by the flea-borne bacterium Yersinia pestis . This review builds upon that multisectoral objective. We aim to increase awareness of Y. pestis and to highlight examples of plague mitigation for One Health purposes (i.e., to achieve optimal health outcomes for people, animals, plants, and their shared environment). We draw primarily upon examples from the USA, but also discuss research from Madagascar and Uganda where relevant, as Y. pestis has emerged as a zoonotic threat in those foci. Recent Findings Historically, the bulk of plague research has been directed at the disease in humans. This is not surprising, given that Y. pestis is a scourge of human history. Nevertheless, the ecology of Y. pestis is inextricably linked to other mammals and fleas under natural conditions. Accumulating evidence demonstrates Y. pestis is an unrelenting threat to multiple ecosystems, where the bacterium is capable of significantly reducing native species abundance and diversity while altering competitive and trophic relationships, food web connections, and nutrient cycles. In doing so, Y. pestis transforms ecosystems, causing “shifting baselines syndrome” in humans, where there is a gradual shift in the accepted norms for the condition of the natural environment. Eradication of Y. pestis in nature is difficult to impossible, but effective mitigation is achievable; we discuss flea vector control and One Health implications in this context. Summary There is an acute need to rapidly expand research on Y. pestis , across multiple host and flea species and varied ecosystems of the Western US and abroad, for human and environmental health purposes. The fate of many wildlife species hangs in the balance, and the implications for humans are profound in some regions. Collaborative multisectoral research is needed to define the scope of the problem in each epidemiological context and to identify, refine, and implement appropriate and effective mitigation practices.
A Study of the Connection Among Basin-Fill Aquifers, Carbonate-Rock Aquifers, and Surface-Water Resources in Southern Snake Valley, Nevada
The Secretary of the Interior through the Southern Nevada Public Lands Management Act approved funding for research to improve understanding of hydrologic systems that sustain numerous water-dependent ecosystems on Federal lands in Snake Valley, Nevada. Some of the streams and spring-discharge areas in and adjacent to Great Basin National Park have been identified as susceptible to ground-water withdrawals (Elliott and others, 2006) and research has shown a high potential for ground-water flow from southern Spring Valley into southern Snake Valley through carbonate rocks that outcrop along a low topographic divide known as the Limestone Hills (Welch and others, 2007). Comprehensive geologic, hydrologic, and chemical information will be collected and analyzed to assess the hydraulic connection between basin-fill aquifers and surface-water resources, water-dependent ecological features, and the regional carbonate-rock aquifer, the known source of many high-discharge springs. Understanding these connections is important because proposed projects to pump and export ground water from Spring and Snake Valleys in Nevada may result in unintended capture of water currently supplying springs, streams, wetlands, limestone caves, and other biologically sensitive areas (fig. 1). The methods that will be used in this study may be transferable to other areas in the Great Basin. The National Park Service, Bureau of Land Management, U.S. Fish and Wildlife Service, and U.S. Forest Service submitted the proposal for funding this research to facilitate science-based land management. Scientists from the U.S. Geological Survey (USGS) Water Resources and Geologic Disciplines, and the University of Nevada, Reno, will accomplish four research elements through comprehensive data collection and analysis that are concentrated in two distinct areas on the eastern and southern flanks of the Snake Range (fig. 2). The projected time line for this research is from July 2008 through September 2011.