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USGS2022

High-density genomic data reveal fine-scale population structure and pronounced islands of adaptive divergence in lake whitefish (Coregonus clupeaformis) from Lake Michigan

Understanding patterns of genetic structure and adaptive variation in natural populations is crucial for informing conservation and management. Past genetic research using 11 microsatellite loci identified six genetic stocks of lake whitefish ( Coregonus clupeaformis ) within Lake Michigan, USA. However, ambiguity in genetic stock assignments suggested those neutral microsatellite markers did not provide adequate power for delineating lake whitefish stocks in this system, prompting calls for a genomics approach to investigate stock structure. Here, we generated a dense genomic dataset to characterize population structure and investigate patterns of neutral and adaptive genetic diversity among lake whitefish populations in Lake Michigan. Using Rapture sequencing, we genotyped 829 individuals collected from 17 baseline populations at 197,588 SNP markers after quality filtering. Although the overall pattern of genetic structure was similar to the previous microsatellite study, our genomic data provided several novel insights. Our results indicated a large genetic break between the northwestern and eastern sides of Lake Michigan, and we found a much greater level of population structure on the eastern side compared to the northwestern side. Collectively, we observed five genomic islands of adaptive divergence on five different chromosomes. Each island displayed a different pattern of population structure, suggesting that combinations of genotypes at these adaptive regions are facilitating local adaptation to spatially heterogenous selection pressures. Additionally, we identified a large linkage disequilibrium block of ~8.5 Mb on chromosome 20 that is suggestive of a putative inversion but with a low frequency of the minor haplotype. Our study provides a comprehensive assessment of population structure and adaptive variation that can help inform the management of Lake Michigan's lake whitefish fishery and highlights the utility of incorporating adaptive loci into fisheries management.

Michigan, Wisconsin↗

USGS2019

U.S. Geological Survey—Northern Prairie Wildlife Research Center 2017 research activity report

The mission of Northern Prairie Wildlife Research Center is to provide scientific information needed to conserve and manage the Nation’s natural capital for current and future generations, with an emphasis on migratory birds, Department of the Interior trust resources, and ecosystems of the Nation’s interior. This report provides an overview of the studies conducted at Northern Prairie during fiscal year 2017 in pursuit of this mission. Studies are organized under a framework developed by the U.S. Geological Survey Ecosystems Mission Area, identifying primary and secondary alignment with focal areas of research, and summarizing recent scientific products resulting from these studies. Partnerships with Federal, State, and non-Governmental organizations are essential to a robust program of applied ecological research, and we thank our many collaborators and colleagues whose contributions made this work possible.

Circular↗

USGS2020

U.S. Geological Survey—Northern Prairie Wildlife Research Center 2018 research activity report

The mission of Northern Prairie Wildlife Research Center is to provide scientific information needed to conserve and manage the Nation’s natural capital for current and future generations, with an emphasis on migratory birds, Department of the Interior trust resources, and ecosystems of the Nation’s interior. This report provides an overview of the studies conducted at Northern Prairie during fiscal year 2018 in pursuit of this mission. Studies are organized under a framework developed by the U.S. Geological Survey Ecosystems Mission Area, identifying primary and secondary alignment with focal areas of research, and summarizing recent scientific products resulting from these studies. Partnerships with Federal, State, and non-Governmental organizations are essential to a robust program of applied ecological research, and we thank our many collaborators and colleagues whose contributions made this work possible.

Circular↗

USGS2021

U.S. Geological Survey—Northern Prairie Wildlife Research Center 2019–20 research activity report

The mission of Northern Prairie Wildlife Research Center is to provide scientific information needed to conserve and manage the Nation’s natural capital for current and future generations, with an emphasis on migratory birds, Department of the Interior trust resources, and ecosystems of the Nation’s interior. This report provides an overview of the studies conducted at Northern Prairie during fiscal years 2019–20 in pursuit of this mission. Studies are organized under a framework developed by the U.S. Geological Survey Ecosystems Mission Area, identifying primary and secondary alignment with focal areas of research, and summarizing recent scientific products resulting from these studies. Partnerships with Federal, State, and non-Governmental organizations are essential to a robust program of applied ecological research, and we thank our many collaborators and colleagues whose contributions made this work possible.

North Dakota↗

USGS2024

U.S. Geological Survey—Northern Prairie Wildlife Research Center 2021–23 research activity report

The mission of Northern Prairie Wildlife Research Center is to provide scientific information needed to conserve and manage the Nation’s natural capital for current and future generations, with an emphasis on migratory birds, Department of the Interior trust resources, and ecosystems of the Nation’s interior. This report provides an overview of the studies conducted at Northern Prairie during fiscal years 2021–23 in pursuit of this mission. Studies are organized under a framework developed by the U.S. Geological Survey Ecosystems Mission Area, identifying primary and secondary alignment with focal areas of research, and summarizing recent scientific products resulting from these studies. Partnerships with Federal, State, and non-Governmental organizations are essential to a robust program of applied ecological research, and we thank our many collaborators and colleagues whose contributions made this work possible.

Circular↗

USGS2008

Management and research applications of long-range surveillance radar data for birds, bats, and flying insects

There is renewed interest in using long-range surveillance radar as a biological research tool due to substantial improvements in the network of radars within the United States. Technical improvements, the digital nature of the radar data, and the availability of computing power and geographic information systems, enable a broad range of biological applications. This publication provides a summary of long-range surveillance radar technology and applications of these data to questions about movement patterns of birds and other flying wildlife. The intended audience is potential radar-data end users, including natural-resource management and regulatory agencies, conservation organizations, and industry. This summary includes a definition of long-range surveillance radar, descriptions of its strengths and weaknesses, information on applications of the data, cost, methods of calibration, and what end users need to do, and some key references and resources.

Texas↗

USGS2013

Public-policy issues associated with the SAFRR Tsunami Scenario

The SAFRR (Science Application for Risk Reduction) tsunami scenario simulates a tsunami generated by a hypothetical magnitude 9.1 earthquake that occurs offshore of the Alaska Peninsula (Kirby and others, 2013). In addition to the work performed by the authors on public-policy issues associated with the SAFRR tsunami scenario, this section of the scenario also reflects the policy discussions of the State of California’s Tsunami Policy Work Group, a voluntary advisory body formed in October 2011, which operates under the California Natural Resources Agency (CNRA), Department of Conservation, and is charged with identifying, evaluating, and making recommendations to resolve issues that are preventing full and effective implementation of tsunami hazard mitigation and risk reduction throughout California’s coastal communities. It also presents the analyses of plans and hazard policies of California’s coastal counties, incorporated cities, and major ports performed by the staff of the California Geological Survey (CGS) and Lauren Prehoda, Office of Environmental and Government Affairs, California Department of Conservation. It also draws on the policy framework and assessment prepared for the ARkStorm Pacific Coast winter storm and catastrophic flooding (Topping and others, 2010).

Open-File Report↗

USGS1983

Seasonal energetics and behavior of captive canvasbacks (Aythia valisineria)

Dramatic changes in the food habits and distribution of Chesapeake Bay canvasbacks (Aythya valisineria) generated a desire to better understand the energetics and behavior of this species on its wintering grounds. Captive canvasbacks were maintained ad libitum on 5 diets during the winters of 1978-80 to evaluate varying protein and energy levels in the diets. Food consumption, weight, blood, and behavior were variables measured to assess affect of diet. Food consumption was higher (P<0.05) for canvasbacks on the low energy (1543 kcal/kg) diets than birds on the high energy (3638 kcal/kg) diets, but body weights did not differ (P<0.05) between diets for males or females. Food consumption and body weights were greatest in November and April and least in January and February. Canvas backs lost weight and ate less during the most stressful periods in spite of adequate food supplies. Blood parameters and behavior of captive canvasbacks did not differ between diets, although differences (P<0.05) were detected for some blood parameters and behaviors between sexes, ages, and seasons. Canvasbacks were more inactive during the coldest months. Changes in behavior, weight, and food consumption appear to be a mechanism to conserve energy at a time when natural food supplies are less plentiful or less available. Aquatic vegetation has declined in quantity making canvasbacks more dependent on invertebrates. Availability of low energy food (e.g. clams) may be the limiting factor in regard to the winter survival of wild canvasbacks.

Poultry Science↗

USGS1994

The natural history of Caroline Atoll, Southern Line Islands. Part II. Seabirds, other terrestrial animals, and conservation

conclusion: Lushly wooded Caroline Atoll, with the majority of its 39 islets (399 ha of land) either in near-pristine condition or having recovered remarkably from past disturbance, is one of the least spoiled atolls in the Pacific. Uninhabited, it harbors plant ecosystems and breeding seabirds (Pt. II) of national and international importance. Its marine and terrestrial ecosystems are prime outdoor ecological laboratories for research on geological processes including ground water, sea level changes, the dynamics of motu formation, fish poisoning, and numerous facets of ecology including plant succession and Pisonia growth rates. Caroline boasts prime coral reefs thickly studded with Tridacna clams, substantial numbers of coconut crabs, breeding sites for green turtles, wintering grounds for shorebirds including the rare Bristle-thighed Curlew, ancient Tuamotuan marae, and a crystalline, unpolluted lagoon. The variety, abundance, and quality of its flora and fauna qualify it for status as an officially recognized international preserve (Pt. II, Sect. G). Efforts toward its conservation have thus far been unsuccessful: in 1992 it was leased to a private French businessman who is currently fishing the reefs for commercial profit, as well as disturbing seabird, turtle and coconut crab populations.

Atoll Research Bulletin↗

USGS2021

Enhanced between-site biosecurity to minimize herpetofaunal disease-causing pathogen transmission

Pathogens and their associated diseases have the potential to severely affect wildlife populations, including herpetofauna. Concern is increasing for transmission pathways of herpetofaunal diseases, especially for amphibians affected by the fungal pathogens Batrachochytrium dendrobatidis (Bd: Longcore et al. 1999) and B. salamandrivorans (Bsal: Martel et al. 2013), and amphibians and reptiles affected by Iridoviruses of the genus Ranavirus (Rv: Gray and Chinchar 2015) for which global human-mediated pathogen transmission is increasingly implicated (e.g., Fisher and Garner 2007; Picco and Collins 2008; Walker et al. 2008; Schloegel et al. 2009; Auliya et al. 2016; Martel et al. 2013, 2014; Fisher et al. 2012; Nguyen et al. 2017; O’Hanlon et al. 2018). Preventing the novel introductions of emerging infectious diseases is of paramount importance (Gray et al. 2015; Grant et al. 2016), as once they gain a foothold, they can be “essentially unstoppable” (Fisher et al. 2012). In order to minimize anthropogenic influences on disease dynamics, biosecurity procedures and decision-support systems for biosecurity prioritization have been developed. In general, such procedures for herpetofaunal emerging infectious diseases have been framed relative to the stages of pathogen emergence (pre-arrival, invasion front, epidemic, and establishment: e.g., Garner et al. 2016; Grant et al. 2017) as well as the intertwining contexts of herpetological research, natural resource management activities, integrated biodiversity conservation practices, and the human dimension of transmission of novel pathogens, (e.g., Gray et al. 2018; More et al. 2018).

Herpetological Review↗

USGS2002

Wildlife disease in the Colorado Delta as an indicator of ecosystem health

Ecosystem health and management are relatively new paradigms for environmental management (Costanza et al., 1992) and will be continually redefined and reevaluated relative to their purpose and utility in serving human society (Costanza et al., 1992; Sutter, 1993; Grumbine, 1994; Lackey, 1998, 1999). The stimulus for ecosystem management is often associated with sustaining or restoring ecosystem health to provide values sought by humans (Costanza et al., 1992). We accept the concepts of ecosystem health and management as useful precepts. However, we argue that the orientation in serving human values often has resulted in inadequate attention being given to nonhuman species. The need to address ecosystem health for the benefit of all species that share Planet Earth is noted by Merchant (1997). This humanistic viewpoint also has economic benefits that are part of the wealth that we will pass on to future generations (Pulliam, 1995). Despite the viewpoints just noted, disease occurrence in wildlife receives inadequate consideration with regard to perspectives of ecosystem health and as a focus for ecosystem management. Evidence for this view is the limited resources allocated for wildlife disease programs and prevention efforts, and persistent attitudes within the wildlife conservation community that disease is a “natural event,” not influenced by environmental conditions or anthropogenic insults.

California↗

USGS2024

Cooperative conservation actions improve sage-grouse population performance within the Bi-State Distinct Population Segment

Developing a robust monitoring framework that integrates efficacy assessments of cooperative conservation and restoration actions in relation to population viability is critical for successful long-term recovery of target ecosystems and species. However, often it is difficult to quantify conservation action efficacy because of the complex, dynamic nature of ecosystem processes and practical limitations associated with assessing target species’ population dynamics. Here, we present an analytical framework that allows for quantification of conservation action efficacy using greater sage-grouse ( Centrocercus urophasianus ; hereafter, sage-grouse) within the Bi-State Distinct Population Segment which borders Nevada and California. This framework utilizes web-based repositories of conservation efforts carried out in sagebrush ecosystems and readily fits within contemporary sagebrush conservation design strategies. We employed a state-space model within a Bayesian framework to estimate abundance (N) as inputs for a progressive change before-after-control-impact paired series (BACIPS) design. Count data from 57 leks (monitored between 2003–2021) coupled with 85 unique actions (initiated between 2012–2019) provided clear evidence that conservation actions increased population abundance, on average, by 4.4% annually across the study area, resulting in a 37.4% cumulative increase since 2012. Population gains varied by the type of conservation action and according to the number of lag years following its implementation.

California, Nevada↗

USGS2024

Applying portfolio theory to benefit endangered amphibians in coastal wetlands threatened by climate change, high uncertainty, and significant investment risk

The challenge of selecting strategies to adapt to climate change is complicated by the presence of irreducible uncertainties regarding future conditions. Decisions regarding long-term investments in conservation actions contain significant risk of failure due to these inherent uncertainties. To address this challenge, decision makers need an arsenal of sophisticated but practical tools to help guide spatial conservation strategies. Theory asserts that managing risks can be achieved by diversifying an investment portfolio to include assets – such as stocks and bonds – that respond inversely to one another under a given set of conditions. We demonstrate an approach for formalizing the diversification of conservation assets (land parcels) and actions (restoration, species reintroductions) by using correlation structure to quantify the degree of risk for any proposed management investment. We illustrate a framework for identifying future habitat refugia by integrating species distribution modeling, scenarios of climate change and sea level rise, and impacts to critical habitat. Using the plains coqui ( Eleutherodactylus juanariveroi ), an endangered amphibian known from only three small wetland populations on Puerto Rico’s coastal plains, we evaluate the distribution of potential refugia under two model parameterizations and four future sea-level rise scenarios. We then apply portfolio theory using two distinct objective functions and eight budget levels to inform investment strategies for mitigating risk and increasing species persistence probability. Models project scenario-specific declines in coastal freshwater wetlands from 2% to nearly 30% and concurrent expansions of transitional marsh and estuarine open water. Conditional on the scenario, island-wide species distribution is predicted to contract by 25% to 90%. Optimal portfolios under the first objective function – benefit maximization – emphasizes translocating frogs to existing protected areas rather than investing in the protection of new habitat. Alternatively, optimal strategies using the second objective function – a risk-benefit tradeoff framework – include significant investment to protect parcels for the purpose of reintroduction or establishing new populations. These findings suggest that leveraging existing protected areas for species persistence, while less costly, may contain excessive risk and could result in diminished conservation benefits. Although our modeling includes numerous assumptions and simplifications, we believe this framework provides useful inference for exploring resource dynamics and developing robust adaptation strategies using an approach that is generalizable to other conservation problems which are spatial or portfolio in nature and subject to unresolvable uncertainty.

Puerto Rico↗

USGS2016

Mitigating amphibian chytridiomycosis in nature

Amphibians across the planet face the threat of population decline and extirpation caused by the disease chytridiomycosis. Despite consensus that the fungal pathogens responsible for the disease are conservation issues, strategies to mitigate their impacts in the natural world are, at best, nascent. Reducing risk associated with the movement of amphibians, non-amphibian vectors and other sources of infection remains the first line of defence and a primary objective when mitigating the threat of disease in wildlife. Amphibian-associated chytridiomycete fungi and chytridiomycosis are already widespread, though, and we therefore focus on discussing options for mitigating the threats once disease emergence has occurred in wild amphibian populations. All strategies have shortcomings that need to be overcome before implementation, including stronger efforts towards understanding and addressing ethical and legal considerations. Even if these issues can be dealt with, all currently available approaches, or those under discussion, are unlikely to yield the desired conservation outcome of disease mitigation. The decision process for establishing mitigation strategies requires integrated thinking that assesses disease mitigation options critically and embeds them within more comprehensive strategies for the conservation of amphibian populations, communities and ecosystems.

Philosophical Transactions of the Royal Society B:↗

USGS2021

Using the Landsat Burned Area products to derive fire history relevant for fire management and conservation in the state of Florida, southeastern USA

Development of comprehensive spatially explicit fire occurrence data remains one of the most critical needs for fire managers globally, and especially for conservation across the southeastern United States. Not only are many endangered species and ecosystems in that region reliant on frequent fire, but fire risk analysis, prescribed fire planning, and fire behavior modeling are sensitive to fire history due to the long growing season and high vegetation productivity. Spatial data that map burned areas over time provide critical information for evaluating management successes. However, existing fire data have undocumented shortcomings that limit their use when detailing the effectiveness of fire management at state and regional scales. Here, we assessed information in existing fire datasets for Florida and the Landsat Burned Area products based on input from the fire management community. We considered the potential of different datasets to track the spatial extents of fires and derive fire history metrics (e.g., time since last burn, fire frequency, and seasonality). We found that burned areas generated by applying a 90% threshold to the Landsat burn probability product matched patterns recorded and observed by fire managers at three pilot areas. We then created fire history metrics for the entire state from the modified Landsat Burned Area product. Finally, to show their potential application for conservation management, we compared fire history metrics across ownerships for natural pinelands, where prescribed fire is frequently applied. Implications of this effort include increased awareness around conservation and fire management planning efforts and an extension of derivative products regionally or globally.

Florida↗

USGS2014

Why bother about wildlife disease?

In most developed countries, the maintenance of the numbers of wildlife 1 is vested in the natural resource agencies of those countries. During earlier times, game species were the primary focus of natural resource agencies 2,3 however, current wildlife conservation continues to transition towards a more holistic focus on biodiversity 4 and environmental health 5,6 . Nevertheless, that transition lags behind in addressing wildlife disease in “…the struggle for existence between different forms of life…”. 7 Thus, the primary objective of this presentation is to provide a pragmatic assessment of wildlife disease that is irrespective of one’s orientation towards wildlife conservation. A secondary objective is to highlight the changing role of disease over time as a wildlife conservation factor. That transition is relevant to the insights provided for current and future efforts focused on sustaining global biodiversity and desired levels of wildlife populations in nature.

Circular↗

USGS2025

A case for assemblage-level conservation to address the biodiversity crisis

Traditional conservation efforts have centred on safeguarding individual species, but these strategies have limitations in a world where entire ecosystems are rapidly changing. Ecosystem conservation can maintain critical ecological functions, but often lacks the detail necessary for the effective conservation of threatened or endangered species. The conservation of such species is mandated by policies and remains a dominant focus of natural resource management. In this Perspective, we propose that assemblage-level conservation targeting groups of taxonomically related or functionally similar species can bridge the gap between species and ecosystems and help to address global biodiversity loss. This approach has previously been limited by data and methodological constraints, but the ongoing growth of biodiversity data, advances in ecological modelling and breakthroughs in computational power have now made effective assemblage-level conservation feasible. Community models provide insights at both the species level and the assemblage level while appropriately accounting for species variability in detection during sampling and uncertainty in biological inferences. Assemblage-level conservation can link both species-specific needs and broader ecological dynamics, ultimately enabling effective strategies for conserving threatened species, ecological communities and ecosystem functions.

Nature Reviews Biodiversity↗

USGS2023

The extent of buildings in wildland vegetation of the conterminous U.S. and the potential for conservation in and near National Forest private inholdings

Development in natural areas is a leading threat to biodiversity. Global conservationists have called for the expansion of protected areas to preserve wildlands that are free from buildings, and in the U.S., the ‘America the Beautiful’ initiative aims to protect 30% of land and water areas by 2030 (known as the ‘30x30’ target). Here, we determined opportunities and limitations for conservation in the conterminous U.S. by assessing the extent of buildings in wildland vegetation. We focused specifically on National Forest lands, as these contain numerous private inholdings where development may occur. Using a newly available building footprint dataset, we determined 1) whether buildings were present and 2) numbers of buildings within three distances of wildland vegetation (100, 250, and 500 m), representing varying magnitudes of ecological impact. Our findings revealed that 29% of wildland vegetation nationwide was within 500 m of a building, 15% was within 250 m, and 5% was within 100 m. National Forest lands were less affected by building disturbance, but a substantial proportion (12%) of wildland vegetation area was within 500 m of a building. Of National Forest lands that were within 500 m of an inholding, 76% was not yet in proximity to a building; consequently, ∼10% of National Forest lands (143,474 km 2 ) are susceptible to impacts from future development on inholdings. We conclude that National Forest inholdings are therefore important opportunity areas for 30x30 conservation goals. Our assessments can inform where conservation efforts can limit impacts from present and future development on biodiversity.

Landscape and Urban Planning↗