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USGS2021

Regional target loads of atmospheric nitrogen and sulfur deposition for the protection of stream and watershed soil resources of the Adirondack Mountains, USA

Acidic deposition contributes to a range of environmental impacts across forested landscapes, including acidification of soil and drainage water, toxic aluminum mobilization, depletion of available soil nutrient cations, and impacts to forest and aquatic species health and biodiversity. In response to decreasing levels of acidic deposition, soils and drainage waters in some regions of North America have become gradually less acidic. Thresholds of atmospheric deposition at which adverse ecological effects are manifested are called critical loads (CLs) and/or target loads (TLs). Target loads are developed based on approaches that account for spatial and temporal aspects of acidification and recovery. Exceedance represents the extent to which current or projected future levels of acidic deposition exceed the level expected to cause ecological harm. We report TLs of sulfur (S) and nitrogen (N) deposition and the potential for ecosystem recovery of watershed soils and streams in the Adirondack region of New York State, resources that have been less thoroughly investigated than lakes. Regional TLs were calculated by statistical extrapolation of hindcast and forecast simulations of 25 watersheds using the process-based model PnET-BGC coupled with empirical observations of stream hydrology and established sensitivity of sugar maple ( Acer saccharum ) to soil base saturation and brook trout ( Salvelinus fontinalis ) to stream acid neutralizing capacity (ANC). Historical impacts and the expected recovery timeline of regional soil and stream chemistry and fish community condition within the Adirondack Park were evaluated. Analysis suggests that many low-order Adirondack streams and associated watershed soils have low TLs (<40 meq/m 2 /yr of N+S deposition) to achieve specified benchmarks for recovery of soil base saturation or stream ANC. Acid-sensitive headwater and low-order streams and watershed soils in the region are expected to experience continued adverse effects from N and S deposition well into the future even under aggressive emissions reductions. Watershed soils and streams in the western Adirondack Park are particularly vulnerable to acidic deposition and currently in exceedance of TLs. The methods used for linking statistical and process-based models to consider chemical and biological response under varying flow conditions at the regional scale in this study can be applied to other areas of concern.

New York↗

USGS2022

Flow–recruitment relationships for Shoal Chub and implications for managing environmental flows

Objective Regulation of river flow regimes by dams and diversions impacts aquatic biota and ecosystems globally. However, our understanding of the ecological consequences of flow alteration and ecological benefits of flow restoration lags behind our ability to manipulate flows, and there is a need for broader development of flow–ecology relationships. Approaches for establishing flow–ecology relationships have recently shifted away from state-based methods that analyze snapshots of ecological conditions and towards rate-based methods focused on mechanisms that link hydrology with dynamics of important ecological components and processes. Methods We used a rate-based approach to validate environmental flow standards developed for the lower Brazos River, Texas, by analyzing the relationship between flow regime components and recruitment strength of imperiled Shoal Chub Macrhybopsis hyostoma , a fluvial specialist and pelagic-broadcast-spawning fish. We collected 254 age-0 Shoal Chub (9–40 mm total length), extracted their otoliths to estimate age in days, and used a generalized additive model to regress the number of captured recruits that hatched on a calendar date against flow regime metrics, such as pulse magnitude, flow rate of change, and pulse timing in relation to environmental flow standards proposed by a science advisory committee (Brazos Basin and Bay Area Expert Science Team). Result The model revealed that flow magnitude, rate of change, and timing were all significant predictors that collectively explained 60% of variation in the recruitment strength index. Hindcasting for 1919–2020 showed a general reduction in recruitment strength following commencement of flow regulation in the lower Brazos River and revealed that high recruitment correlated with years in which most or all proposed flow tiers were attained, whereas low recruitment correlated with years when less than half of the targeted tiers were attained. Conclusion Our work represents an effective validation method for environmental flow recommendations and reveals specific flow regimes that benefit an imperiled fish species.

New Mexico, Texas↗

USGS2009

Riparian and Associated Habitat Characteristics Related to Nutrient Concentrations and Biological Responses of Small Streams in Selected Agricultural Areas, United States, 2003-04

Physical factors, including both in-stream and riparian habitat characteristics that limit biomass or otherwise regulate aquatic biological condition, have been identified by previous studies. However, linking the ecological significance of nutrient enrichment to habitat or landscape factors that could allow for improved management of streams has proved to be a challenge in many regions, including agricultural landscapes, where many ecological stressors are strong and the variability among watersheds typically is large. Riparian and associated habitat characteristics were sampled once during 2003-04 for an intensive ecological and nutrients study of small perennial streams in five contrasting agricultural landscapes across the United States to determine how biological communities and ecosystem processes respond to varying levels of nutrient enrichment. Nutrient concentrations were determined in stream water at two different sampling times per site and biological samples were collected once per site near the time of habitat characterization. Data for 141 sampling sites were compiled, representing five study areas, located in parts of the Delmarva Peninsula (Delaware and Maryland), Georgia, Indiana, Ohio, Nebraska, and Washington. This report examines the available data for riparian and associated habitat characteristics to address questions related to study-unit contrasts, spatial scale-related differences, multivariate correlation structure, and bivariate relations between selected habitat characteristics and either stream nutrient conditions or biological responses. Riparian and associated habitat characteristics were summarized and categorized into 22 groups of habitat variables, with 11 groups representing land-use and land-cover characteristics and 11 groups representing other riparian or in-stream habitat characteristics. Principal components analysis was used to identify a reduced set of habitat variables that describe most of the variability among the sampled sites. The habitat characteristics sampled within the five study units were compared statistically. Bivariate correlations between riparian habitat variables and either nutrient-chemistry or biological-response variables were examined for all sites combined, and for sites within each study area. Nutrient concentrations were correlated with the extent of riparian cropland. For nitrogen species, these correlations were more frequently at the basin scale, whereas for phosphorus, they were about equally frequent at the segment and basin scales. Basin-level extents of riparian cropland and reach-level bank vegetative cover were correlated strongly with both total nitrogen and dissolved inorganic nitrogen (DIN) among multiple study areas, reflecting the importance of agricultural land-management and conservation practices for reducing nitrogen delivery from near-stream sources. When sites lacking segment-level wetlands were excluded, the negative correlation of riparian wetland extent with DIN among 49 sites was strong at the reach and segment levels. Riparian wetland vegetation thus may be removing dissolved nutrients from soil water and shallow groundwater passing through riparian zones. Other habitat variables that correlated strongly with nitrogen and phosphorus species included suspended sediment, light availability, and antecedent water temperature. Chlorophyll concentrations in seston were positively correlated with phosphorus concentrations for all sites combined. Benthic chlorophyll was correlated strongly with nutrient concentrations in only the Delmarva study area and only in fine-grained habitats. Current velocity or hydraulic scour could explain correlation patterns for benthic chlorophyll among Georgia sites, whereas chlorophyll in seston was correlated with antecedent water temperature among Washington and Delmarva sites. The lack of any consistent correlation pattern between habitat characteristics and organic material density (ash-free dry mass)

Scientific Investigations Report↗

USGS2017

Fuel-reduction management alters plant composition, carbon and nitrogen pools, and soil thaw in Alaskan boreal forest

Increasing wildfire activity in Alaska's boreal forests has led to greater fuel-reduction management. Management has been implemented to reduce wildfire spread, but the ecological impacts of these practices are poorly known. We quantified the effects of hand-thinning and shearblading on above- and belowground stand characteristics, plant species composition, carbon (C) and nitrogen (N) pools, and soil thaw across 19 black spruce ( Picea mariana ) dominated sites in interior Alaska treated 2-12 years prior to sampling. The density of deciduous tree seedlings was significantly higher in shearbladed areas compared to unmanaged forest (6.4 vs. 0.1 stems m −2 ), and unmanaged stands exhibited the highest mean density of conifer seedlings and layers (1.4 stems m −2 ). Understory plant community composition was most similar between unmanaged and thinned stands. Shearblading resulted in a near complete loss of aboveground tree biomass C pools while thinning approximately halved the C pool size (1.2 kg C m −2 compared to 3.1 kg C m −2 in unmanaged forest). Significantly smaller soil organic layer (SOL) C and N pools were observed in shearbladed stands (3.2 kg C m −2 and 116.8 g N m −2 ) relative to thinned (6.0 kg C m −2 and 192.2 g N m −2 ) and unmanaged (5.9 kg C m −2 and 178.7 g N m −2 ) stands. No difference in C and N pool sizes in the uppermost 10 cm of mineral soil was observed among stand types. Total C stocks for measured pools was 2.6 kg C m −2 smaller in thinned stands and 5.8 kg C m −2 smaller in shearbladed stands when compared to unmanaged forest. Soil thaw depth averaged 13 cm deeper in thinned areas and 46 cm deeper in shearbladed areas relative to adjacent unmanaged stands, although variability was high across sites. Deeper soil thaw was linked to shallower SOL depth for unmanaged stands and both management types, however for any given SOL depth, thaw tended to be deeper in shearbladed areas compared to unmanaged forest. These findings indicate that fuel-reduction management alters plant community composition, C and N pools, and soil thaw depth, with consequences for ecosystem structure and function beyond those intended for fire management.

Alaska↗

USGS2022

Influence of riparian thinning on trophic pathways supporting stream food webs in forested watersheds

Resource managers seek to thin second-growth riparian forests to address multiple stream and riparian management objectives, including enhancing aquatic productivity via light-mediated trophic pathways in watersheds of the Pacific Northwest (USA). However, such increases in aquatic productivity depend on complex food web dynamics that link riparian forests and streams. To evaluate how riparian forest thinning influences stream food webs, we conducted a replicated, manipulative field experiment in three northern California watersheds composed of second-growth redwood forests and tracked responses across multiple trophic levels (periphyton, macroinvertebrates, amphibians, and fish) 1 year pre- and post-treatment. Riparian thinning treatments increased light to the stream channel, yet we observed mixed responses by stream food webs. Thinning did not change stream periphyton biomass on natural substrates but increased periphyton accrual on ceramic tiles. Periphyton accrual appeared to be partially muted by top-down effects from invertebrate scrapers, which were more abundant in thinned reaches. Prey in the diets of top predators—coastal giant salamanders ( Dicamptodon tenebrosus ) and coastal cutthroat trout ( Oncorhynchus clarkii clarkii )—did not change in biomass, composition, or structure in response to thinning and instead varied more seasonally and between predators. Stable isotope analysis indicated that shifts in carbon (δ 13 C) signatures of stream periphyton associated with thinning were reflected to varying extents by primary consumers but did not propagate up to top predators. Top predator biomass responses varied between species, where salamander biomass remained unchanged, but cutthroat trout biomass increased slightly in thinned reaches. However, trout biomass responses were not supported by diets or isotopes and correlated weakly with changes in light associated with thinning, suggesting little evidence that responses could be attributed directly to changes in autotrophic pathways. Furthermore, we found no evidence that local trophic responses to thinning propagated into downstream reaches. Taken together, we observed that trophic pathways supporting stream food webs remained largely intact immediately after riparian thinning treatments. Collectively, these results suggest that riparian thinning does not necessarily enhance aquatic productivity in forested streams, indicating that contextual factors driving realized ecological responses should be accounted for when considering thinning as a restoration strategy for stream–riparian ecosystems.

California↗

USGS2012

Phosphorus and groundwater: Establishing links between agricultural use and transport to streams

Phosphorus is a highly reactive element that is essential for life and forms a variety of compounds in terrestrial and aquatic ecosystems. In water, phosphorus may be present as the orthophosphate ion (PO 4 3- ) and is also present in all life forms as an essential component of cellular material. In natural ecosystems, phosphorus is derived from the erosion of rocks and is conserved for plant growth as it is returned to the soil through animal waste and the decomposition of plant and animal tissue; but in agricultural systems, a portion of the phosphorus is removed with each harvest, especially since phosphorus is concentrated in the seeds and fruit. Phosphorus is added to soil by using chemical fertilizers, manure, and composted materials. Agricultural use of chemical phosphorus fertilizer, in the United States, in 2008 was 4,247,000 tons, which is an increase of 25 percent since 1964 (http://www.ers.usda.gov/Data/FertilizerUse/). Widely grown corn, soybeans, and wheat use the greatest amount of phosphorus fertilizer among agricultural crops. Phosphorus is largely retained in soil by a process called adsorption. Soils have a limited capacity to store phosphorus, and once the capacity of soil to adsorb phosphorus is exceeded, the excess will dissolve and move more freely with water either directly to a stream or downward to an aquifer. Surface-water runoff from rainstorms or excess irrigation is the primary way that phosphorus or soil containing phosphorus is transported to streams in most watersheds. There is a growing awareness that long-term over-application of manure and chemical fertilizer contributes to phosphorus movement into the groundwater system, resulting in a significant groundwater source of phosphorus to streams and lakes, as well as potential contamination of the groundwater resources. Leaching of applied fertilizer and surface runoff of phosphorus from the soil can contribute to excess growth of algae in downstream water bodies, a condition known as eutrophication. Excessive amounts of algae in eutrophic water bodies can cause large daily changes in the amount of dissolved oxygen in the water because oxygen concentrations tend to be high during daylight hours as a result of photosynthetic activity but then decrease at night. Low concentrations of dissolved oxygen can stress or kill sensitive species living in the water. This study examined concentrations and movement of phosphorus in the soils and groundwater in five agricultural settings across the United States characterized by differences in soil geochemistry, climate, irrigation usage, and cropping systems to assess potential phosphorus movement in the soil and groundwater under common agricultural conditions. The study design included assessment of a variety of agricultural practices, especially cropping patterns and irrigation, so that the factors that contribute to phosphorus movement to groundwater, or sequestration of the phosphorus to soil could be compared and examined. This type of information could potentially be used to formulate best management practices to limit the transport of phosphorus from the agricultural fields.

Fact Sheet↗

USGS2024

Annotated bibliography of scientific research on Taeniatherum caput-medusae published from January 2010 to January 2022

Integrating recent scientific knowledge into management decisions supports effective natural resource management and can lead to better resource outcomes. However, finding and accessing scientific knowledge can be time consuming and costly. To assist in this process, the U.S. Geological Survey is creating a series of annotated bibliographies on topics of management concern for western lands. Previously published reports introduced a methodology for preparing annotated bibliographies to facilitate the integration of recent, peer-reviewed science into resource management decisions. Therefore, relevant text from those efforts is reproduced here to frame the presentation. Invasive annual grasses are widely distributed throughout the western United States and threaten native ecosystems by altering fire regimes, replacing native plants, and altering grazing patterns, often with tremendous associated costs. One invasive annual grass, Taeniatherum caput-medusae (hereafter, medusahead), was first documented in the United States in 1887 and has been identified as a species of management concern. Medusahead’s life history traits allow it to quickly and effectively dominate native plant communities, and it has already taken over millions of acres in western North America. Although medusahead can spread widely and disrupt ecosystem function, it has been studied less than other western invasive grass species. We compiled and summarized peer-reviewed journal articles, data products, and formal technical reports (such as U.S. Department of Agriculture Forest Service General Technical Reports and U.S. Geological Survey Open-File Reports) on medusahead, published between January 2010 and January 2022. We first performed a systematic search of three reference databases and three government databases using the search phrase “medusahead” OR “medusa head” OR “ Taeniatherum caput-medusae ” OR “ Taeniatherum caputmedusae ” OR “ Taeniatherum asperum .” We refined the initial list of products by removing (1) duplicates, (2) products not written in English, (3) publications that were not focused on North America, (4) publications that were not published as research, data products, or scientific review articles in peer-reviewed journals or as formal technical reports, and (5) products for which medusahead was not a research focus, or the study did not present new data or findings about medusahead. We summarized each product using a consistent structure (background, objectives, methods, location, findings, and implications) and identified the management topics (for example, species and population characteristics; habitat; and control and management efforts) addressed by each product. We also noted which publications included new geospatial data. The review process for this annotated bibliography included an initial internal colleague review of each summary, requesting input on each summary from an author of the original publication, and a formal peer review. Our initial searches resulted in 4,245 total products, of which 211 met our criteria for inclusion. The most commonly addressed management topics addressed in products summarized in the annotated bibliography were as follows: nonnative invasive plants, weed management, site-scale habitat characteristics, habitat restoration or reclamation, and cultural management of weeds. All published bibliographies, including the online version of this bibliography, are available at the Science for Resource Managers ( https://apps.usgs.gov/science-for-resource-managers ). This database is searchable by topic, location, and year and includes links to each original publication. The studies compiled and summarized here may inform planning and management actions that seek to maintain and restore sagebrush landscapes and associated native species across the western United States.

Open-File Report↗

USGS2013

Evidence that acidification-induced declines in plant diversity and productivity are mediated by changes in below-ground communities and soil properties in a semi-arid steppe

Anthropogenic acid deposition–induced soil acidification is one of the major threats to biodiversity, ecosystem functioning and services. Few studies, however, have explored in detail how above-ground changes in plant species richness and productivity resulting from soil acidification are mediated by effects on below-ground biota and soil properties. To increase our understanding of this linkage, we collected data on below- and above-ground communities and soil properties in a 3-year field experiment with seven levels of acid addition rate to build-up broad intensities of soil acidification in the semi-arid Inner Mongolian grassland. Acid addition directly elevated concentrations of soil Al 3+ ions, decreased the base cations Ca 2+ , Mg 2+ and Na + , and increased soil moisture and available phosphorus. Acid addition also appears to have altered the soil microbial community via changes in H + and Al 3+ ions and altered the nematode community via changes in H + ions and soil moisture. The observed changes in soil N availability (i.e. net N mineralization, NO 3 - -N and NH 4 + -N) could be explained by mediating changes in the H + and Al 3+ ions, microbial community (i.e. community structure, bacteria and fungi/bacteria as indicated by phospholipid fatty acids analysis) and the nematode community (i.e. total abundance, taxa richness and maturity index). Declines in plant species richness and productivity were greater at high intensities of soil acidification in the second sampling year than in the first sampling year. The changes in plant community observed were mostly explained by soil nutrient pathways (e.g. N availability or base mineral cations), which were in turn regulated by the soil microbial or nematode communities as well as by the direct effects of the increase in H + or Al 3+ ions. Synthesis. Our results suggest that the below-ground microbial and nematode communities are more sensitive to soil acidification than the plant communities are, and further that soil acidification–induced changes in plants are mediated by changes in below-ground communities and soil nutrients. These findings improve our understanding of the links between below- and above-ground communities in the Inner Mongolia grassland, especially in the context of anthropogenic acid enrichment.

Inner Mongolia↗

USGS2014

Spatial patterns of lacustrine fish assemblages in a catchment of the Mississippi Alluvial Valley

In the alluvial valley of the lower Mississippi River, floodplain lakes form isolated aquatic fragments that retain differing degrees of connectivity to neighbouring rivers. Within these floodplain lakes it was hypothesized that fish species composition, relative abundance, and biodiversity metrics would be shaped largely by aquatic connectivity within a catchment. Fish assemblages in 13 floodplain lakes (five on-channel; eight off-channel) were assessed with electrofishing in 2006–2012 in the Bear Creek catchment, Mississippi, USA. Bear Creek spans approximately 80 km before draining into the Yazoo River, a tributary of the Mississippi River. Fish assemblages in on-channel and off-channel lakes were different, and fish assemblages in on-channel lakes were as a group more homogeneous than off-channel lakes. Moreover, a longitudinal gradient in fish assemblages occurred in on-channel lakes. The observed patterns in fish assemblages are linked largely to differing intensities in connectivity among lakes within the catchment. Lakes with irregular connections have greater individuality, whereas lakes with continuous or chronic connection are more similar. The wide variation in connectivity could be a key to the distinctive biodiversity of catchments and the focus of fish conservation programmes. Off-channel floodplain lakes are among the first landscape elements to vanish as a consequence of agricultural development. These habitats tend to accumulate sediments at fast rates and are converted to agricultural land as soon as suitable drainage can be attained. Considering that off-channel lakes with limited connectivity contribute greatly to the heterogeneity of fish assemblages, such losses pose great concerns to conservation of biodiversity.

Mississippi↗

USGS2021

Annotated bibliography of scientific research on Ventenata dubia published from 2010 to 2020

Integrating recent science into management decisions supports effective natural resource management and can lead to better resource outcomes. However, finding and accessing science information can be time consuming and costly. To assist in this process, the U.S. Geological Survey (USGS) is creating a series of annotated bibliographies on topics of management concern for western lands. Previously published reports introduced a methodology for preparing annotated bibliographies to facilitate the integration of recent, peer-reviewed science into resource management decisions. Therefore, relevant text from those efforts is reproduced here to frame the presentation. Invasive annual grasses are widely distributed throughout the western United States and threaten native ecosystems by altering fire regimes, replacing native plants, and altering grazing patterns, often with tremendous associated costs. One invasive annual grass, Ventenata dubia (hereafter, ventenata), was first introduced to the United States in the 1950s and has recently been identified as a management concern. Ventenata has a wide native geographic range, from Africa to northern Europe, and could thus potentially spread widely in the United States if left unmanaged. We compiled and summarized peer-reviewed journal articles, government reports, and data products on ventenata published between January 1, 2010, and August 27, 2020. We first conducted a systematic search of three reference databases and three government databases using the search phrase: “ventenata” OR “Ventenata dubia.” We refined the initial list of products by removing (1) duplicates, (2) products not written in English, (3) publications that were not focused in North America, (4) publications that were not published as research, data products, or scientific review articles in peer-reviewed journals or as formal technical reports, and (5) products for which ventenata was not a research focus or for which the study did not present new data or findings about ventenata. We summarized each product using a consistent structure (background, objectives, methods, location, findings, and implications) and identified the management topics (for example, species and population characteristics, habitat, control and management efforts) addressed by each product. We also noted which publications included new geospatial data. The review process for this annotated bibliography included an initial internal colleague review of each summary, requesting input on each summary from an author of the original publication, and a formal peer review. Our initial searches resulted in 505 total products, of which 29 met our criteria for inclusion. Nonnative invasive plants; weed management; behavior or demographics; dispersal, spread, vectors and pathways; site-scale habitat characteristics; survival; and weed management subtopic: herbicides were the management topics most commonly addressed. The online version of this annotated bibliography will be searchable by topic, location, and year; it will also include links to each original publication, where available. The studies compiled and summarized here may inform planning and management actions that seek to maintain and restore landscapes and control nonnative invasive species across the western United States.

Open-File Report↗

USGS2020

Long term persistence of aspen in snowdrift-dependent ecosystems

Quaking aspen (Populus tremuloides) forests throughout the western United States have experienced significant mortality in recent decades, much of which has been influenced by climate variability, especially drought. In the western portion of its range, where most precipitation arrives during winter as snowfall and summers are dry, snowdrifts that persist into the growing season provide soil moisture recharge that sustain many aspen groves that are important locations of biodiversity within the landscape. There is growing concern that reduced snowpack due to climate change may reduce the long-term persistence and productivity of aspen communities in these regions. In this study, we evaluated the potential for climate change and drought to reduce or eliminate isolated aspen communities in southwestern Idaho. We used a landscape simulation model integrated with inputs from an empirically derived biogeochemical model of growth, and a species distribution model of regeneration to forecast how changes in climate, declining snowpack, and competition with a conifer species is likely to affect aspen occupancy over the next 85-years. We found that simulated reductions in snowpack depth (and associated increases in climatic water deficit) caused a reduction in aspen persistence; aspen occupancy was reduced under all high emissions climate scenarios. Douglas-fir (Pseudotsuga menziesii) occupancy also declined under all future climates. Aspen regeneration declined over the course of all simulations, with an ensemble ratio of mortality/establishment increasing over the course of both low and high emissions climate scenarios. Climate-induced mortality of aspen clones increased in frequency under all climate scenarios and, under the most severe emissions scenarios, contributed to a substantial decline of aspen cover. Our research suggests that snowbanks will be an important determinant of long-term persistence of aspen under changing climate in the region.

Forest Ecology and Management↗

USGS2012

USGS Environmental health science strategy: providing environmental health science for a changing world: Public review release

America has an abundance of natural resources. We have bountiful clean water, fertile soil, and unrivaled national parks, wildlife refuges, and public lands. These resources enrich our lives and preserve our health and wellbeing. These resources have been maintained because of our history of respect for their value and an enduring commitment to their vigilant protection. Awareness of the social, economic, and personal value of the health of our environment is increasing. The emergence of environmentally driven diseases caused by environmental exposure to contaminants and pathogens is a growing concern worldwide. New health threats and patterns of established threats are affected by both natural and anthropogenic changes to the environment. Human activities are key drivers of emerging (new and re-emerging) health threats. Societal demands for land and natural resources, a better quality of life, improved economic prosperity, and the environmental impacts associated with these demands will continue to increase. Natural earth processes, climate trends, and related climatic events will add to the environmental impact of human activities. These environmental drivers will influence exposure to disease agents, including viral, bacterial, prion, and fungal pathogens, parasites, natural earth materials, toxins and other biogenic compounds, and synthetic chemicals and substances. The U.S. Geological Survey (USGS) defines environmental health science broadly as the interdisciplinary study of relations among the quality of the physical environment, the health of the living environment, and human health. The interactions among these three spheres are driven by human activities, ecological processes, and natural earth processes; the interactions affect exposure to contaminants and pathogens and the severity of environmentally driven diseases in animals and people. This definition provides USGS with a framework for synthesizing natural science information from across the Bureau and providing it to environmental, natural resource, agricultural, and public-health managers. The USGS is a Federal science agency with a broad range of natural science expertise relevant to environmental health. USGS provides scientific information and tools as a scientific basis for management and policy decision making. USGS specializes in science at the environment-health interface, by characterizing the processes that affect the interaction among the physical environment, the living environment, and people, and the resulting factors that affect ecological and human exposure to disease agents. This report describes a 10-year strategy that encompasses the portfolio of USGS environmental health science. It summarizes national environmental health priorities that USGS is best suited to address, and will serve as a strategic framework for USGS environmental health science goals, actions, and outcomes for the next decade. Implementation of this strategy is intended to aid coordination of USGS environmental health activities and to provide a focal point for disseminating information to stakeholders. The "One Health" paradigm advocated by the World Health Organization (WHO, 2011), and the American Veterinary Medicine Association (AVMA, 2008), among others, is based on a general recognition that the health of humans, animals, and the environment are inextricably linked. Thus, successful efforts to protect that health will require increased interdisciplinary research and increased communication and collaboration among the broader scientific and health community. This strategy is built upon that paradigm. The vision, mission, and five cornerstone goals of the USGS Environmental Health Science Strategy were developed with significant input from a wide range of stakeholders. Vision - The USGS is a premier source of the environmental health science needed to safeguard the health of the environment, fish, wildlife, and people. Mission - The mission of USGS in environmental health science is to contribute scientific information to environmental, natural resource, agricultural, and public-health managers, who use that science to support sound decision making. USGS provides the science to: - Goal 1: Identify, prioritize, and detect contaminants and pathogens of emerging environmental concern. - Goal 2: Reduce the impact of contaminants on the environment, fish, wildlife, and people. - Goal 3: Reduce the impact of pathogens on the environment, fish, wildlife, and people. - Goal 4: Discover the complex interactions and combined effects of exposure to contaminants and pathogens. - Goal 5: Prepare for and respond to environmental impacts and related health threats of natural and anthropogenic disasters. Goals 1 through 4 are intended to provide science to address environmental health threats in a logical order, from informing prevention and preparedness, to supporting systematic management response to environmental health issues. Goal 4 addresses the interaction among contaminants and pathogens, an issue of emerging concern in environmental health science. Goal 5 acknowledges the fact that natural and anthropogenic disasters can cause immediate and prolonged adverse environmental health threats. This strategy proposes that USGS take the following strategic science actions to achieve each of the five goals of this strategy: Goal 1: Identify, prioritize, and detect contaminants and pathogens of emerging environmental concern. - Strategic Science Action 1. - Prioritize contaminants and pathogens of emerging concern to guide research, detection, and management activities. - Strategic Science Action 2. - Conduct surveillance and monitoring to provide early warning of emerging health threats. - Strategic Science Action 3. - Develop approaches and tools that identify vulnerable environmental settings, ecosystems, and species. Goal 2: Reduce the impact of contaminants on the environment, fish, wildlife, and people. - Strategic Science Action 1. - Systematically characterize the sources, occurrence, transport and fate of environmental contaminants to guide efforts to manage and mitigate contamination. - Strategic Science Action 2. - Evaluate the threats of contamination on the health of the environment, fish, wildlife, and people, and inform the associated management and protection efforts. - Strategic Science Action 3. - Characterize potential human exposure to support establishment of health-based standards or guidelines and contamination-reduction efforts. Goal 3: Reduce the impact of pathogens on the environment, fish, wildlife, and people. - Strategic Science Action 1. - Determine the biotic and abiotic factors that control the ecology of infectious diseases affecting natural populations of aquatic and terrestrial species and potential transmission to other animals and humans. - Strategic Science Action 2. - Establish how natural and anthropogenic environmental changes affect the distribution and severity of infectious diseases in natural populations of aquatic and terrestrial species and potential transmission to other animals and humans. - Strategic Science Action 3. - Develop surveillance systems to identify changing patterns of disease activity in priority geographic areas. Goal 4: Discover the complex interactions and combined effects of exposure to contaminants and pathogens. - Strategic Science Action 1. - Identify how exposure to one class of disease agents (contaminants or pathogens) can make an organism more susceptible to effects from exposure to the other class of disease agents. - Strategic Science Action 2. - Implement interdisciplinary studies that characterize the effects of combined exposure to pathogens and contaminants. Goal 5: Prepare for and respond to the environmental impacts and related health threats of natural and anthropogenic disasters. - Strategic Science Action 1. - Establish a formal interdisciplinary science capability to rapidly assess the environmental health risks associated with disasters. - Strategic Science Action 2. - Enhance methods to anticipate, prepare for, and identify environmental, ecological, and related health impacts of future disasters. This strategy is one of seven USGS science strategies developed concurrently: - Climate and Land Use Change - Core Science Systems - Ecosystems - Energy and Mineral Resources - Environmental Health - Natural Hazards - Water. This strategy describes how USGS will address the highest priority environmental health issues facing the Nation. The ultimate intended outcome of this science strategy is prevention and reduction of adverse impacts to the quality of the environment, the health of our living resources, and human health. Communication with, and receiving input from, partners and stakeholders regarding their science needs is essential for successful implementation of this strategy. It is incumbent on USGS to reach out to all stakeholders to ensure that USGS efforts are focused on the highest priority environmental health issues and that products are provided in the most timely and usable form to all those who can use them. USGS must reach out to the scientific community, internally and externally, to ensure that our efforts are integrated with and take full advantage of the activities of others.

Open-File Report↗

USGS2023

Annotated bibliography of scientific research on greater sage-grouse published from October 2019 to July 2022

Integrating recent scientific knowledge into management decisions supports effective natural resource management and can lead to better resource outcomes. However, finding and accessing scientific knowledge can be time consuming and costly. To assist in this process, the U.S. Geological Survey (USGS) created a series of annotated bibliographies on topics of management concern for western lands. Previously published reports introduced a methodology for preparing annotated bibliographies to facilitate integration of recent, peer-reviewed science into resource management decisions. Therefore, relevant text from those efforts is reproduced here and built on to incorporate new information. The greater sage-grouse (Centrocercus urophasianus; hereafter “GRSG”) has been a focus of scientific investigation and management action for the past two decades. The 2015 U.S. Fish and Wildlife Service listing determination of “not warranted” under the Endangered Species Act was in part a result of a large-scale collaborative effort to develop strategies to conserve GRSG populations and their habitat and to reduce threats to both. New scientific information augments existing knowledge and can help inform updates or modifications to existing plans for managing GRSG and sagebrush ecosystems. However, the sheer number of scientific publications can be a challenge for managers tasked with evaluating and determining the need for potential updates to existing planning documents. To assist in this process, the USGS has reviewed and summarized the scientific literature published since January 1, 2015. Our most recent GRSG literature summary was published in 2020 (Carter and others, 2020) and included products published through October 2, 2019. Here, we consider products published between October 2, 2019, and July 21, 2022. We compiled and summarized peer-reviewed journal articles, data products, and formal technical reports (such as U.S. Department of Agriculture Forest Service General Technical Reports and USGS Open-File Reports) on greater sage-grouse. We first systematically searched three reference databases and three government databases using the search phrase “greater sage-grouse.” We refined the initial list of products by removing (1) duplicates, (2) publications not published as research, data products, or scientific review articles in peer-reviewed journals or as formal technical reports, and (3) products for which greater sage-grouse was not a research focus or the study did not present new data or findings about greater sage-grouse. We summarized each product using a consistent structure (background, objectives, methods, location, findings, and implications) and identified management topics addressed by each product; for example, species and population characteristics. We also identified projects that provided new geospatial data. The review process for this annotated bibliography included two initial internal colleague reviews of each summary, requesting input on each summary from an author of the original publication, and formal peer review. Our initial searches resulted in 221 total products, of which 147 met our criteria for inclusion. Across products summarized in the annotated bibliography, broad-scale habitat characteristics, behavior or demographics, site-scale habitat characteristics, habitat selection, and population estimates or targets were the most commonly addressed management topics. The online version of this bibliography, which will be available on the Science for Resource Managers tool ( https://apps.usgs.gov/science-for-resource-managers ), will be searchable by topic, location, and year, and will include links to each original publication. The studies compiled and summarized here may inform planning and management actions that seek to maintain and restore sagebrush landscapes and GRSG populations across the GRSG range.

Open-File Report↗

USGS2022

Annotated bibliography of scientific research on pygmy rabbits published from 1990 to 2020

Integrating recent scientific knowledge into management decisions supports effective natural resource management and can lead to better resource outcomes. However, finding and accessing scientific knowledge can be time consuming and costly. To assist in this process, the U.S. Geological Survey (USGS) is creating a series of annotated bibliographies on topics of management concern for western lands. Previously published reports introduced a methodology for preparing annotated bibliographies to facilitate the integration of recent, peer-reviewed science into resource management decisions. Therefore, relevant text from those efforts is reproduced here to frame the presentation. Sagebrush ecosystems throughout North America face management challenges including habitat loss and fragmentation. Brachylagus idahoensis (pygmy rabbits) are a sagebrush-obligate species that has experienced population declines and range contraction in recent decades. A disjunct population of pygmy rabbits in the Columbia Basin in Washington was listed as federally endangered in 2003. Due to their specialized habitat requirements and low dispersal ability, pygmy rabbits are a high priority for managers throughout their range. We compiled and summarized peer-reviewed journal articles, data products, and formal technical reports (such as U.S. Forest Service General Technical Reports and U.S. Geological Survey Open-File Reports) on pygmy rabbits published between January 1, 1990 and December 31, 2020. We first conducted a structured search of three reference databases and three government databases using the phrase “pygmy rabbit” or “ Brachylagus idahoensis .” We refined the initial list of products by removing (1) duplicates, (2) products not written in English, (3) publications that were not focused on North America, (4) publications that were not published as research, data products, or scientific review articles in peer-reviewed journals or as formal technical reports, and (5) products for which pygmy rabbits were not a research focus or for which the study did not present new data or findings about pygmy rabbits. We summarized each product using a consistent structure (background, objectives, methods, location, findings, and implications) and identified the management topics (for example, captive breeding, habitat characteristics, and population estimates) addressed by each product. We also noted which publications included new publicly available geospatial data. The review process for this annotated bibliography included an initial internal colleague review of each summary, requesting input on each summary from an author of the original publication, and a formal peer review. Our initial searches resulted in 2,285 total products, of which 105 met our criteria for inclusion. Sensitive/rare wildlife, behavior or demographics, site-scale habitat characteristics, habitat selection, and effects distances or spatial scale were the management topics most commonly addressed. The online version of this bibliography, Science for Resource Managers, will be searchable by topic, location, and year; it will include links to each original publication, where available. The studies compiled and summarized here may inform planning and management actions that seek to maintain and restore sagebrush landscapes and associated native species across the western United States.

Open-File Report↗

USGS2011

Bat ecology and public health surveillance for rabies in an urbanizing region of Colorado

We describe use of Fort Collins, Colorado, and nearby areas by bats in 2001–2005, and link patterns in bat ecology with concurrent public health surveillance for rabies. Our analyses are based on evaluation of summary statistics, and information-theoretic support for results of simple logistic regression. Based on captures in mist nets, the city bat fauna differed from that of the adjacent mountains, and was dominated by big brown bats ( Eptesicus fuscus ). Species, age, and sex composition of bats submitted for rabies testing locally and along the urbanizing Front Range Corridor were similar to those of the mist-net captures and reflected the annual cycle of reproduction and activity of big brown bats. Few submissions occurred November- March, when these bats hibernated elsewhere. In summer females roosted in buildings in colonies and dominated health samples; fledging of young corresponded to a summer peak in health submissions with no increase in rabies prevalence. Roosting ecology of big brown bats in buildings was similar to that reported for natural sites, including colony size, roost-switching behavior, fidelity to roosts in a small area, and attributes important for roost selection. Attrition in roosts occurred from structural modifications of buildings to exclude colonies by citizens, but without major effects on long-term bat reproduction or survival. Bats foraged in areas set aside for nature conservation. A pattern of lower diversity in urban bat communities with dominance by big brown bats may occur widely in the USA, and is consistent with national public health records for rabies surveillance.

Colorado↗

USGS2025

Methodology for quantifying biodiversity

Protected and Conserved Areas (PCAs) are usually created and managed for multiple values, with biodiversity conservation being the primary value for most PCAs (see Chapter 1). When using Natural Climate Solutions (NCS) or Ecosystem-based Management (EBM) approaches to climate change mitigation, it is important to ensure that there are no unintended negative consequences on biodiversity and co-benefits for biodiversity are sought. This requires baseline biodiversity information and periodic monitoring. The Convention on Biological Diversity (CBD) has developed a monitoring framework to measure progress (CBD COP 15 2022) towards the GBF. The framework consists of: • headline indicators for national, regional and global monitoring; • global level indicators (collated from yes/no responses in national reports and used to provide a count of the number of countries having undertaken specific activities); • component indicators (which are a list of optional indicators that may apply at global, regional, national and sub-national levels); • complementary indicators (which are a list of optional indicators for thematic or in-depth analysis of each goal and target). Further details of the monitoring framework can be found in Decision 15/5: Monitoring framework for the Kunming-Montreal Global Biodiversity Framework (CBD COP 15, 2022). See Table 5.1 for headline indicators and related targets that they measure. These indicators are used to track national progress towards the GBF. However, those designing sub-national or regional PCA frameworks can use them as well. Biodiversity can be measured at different scales, both spatially and temporally, and at different levels and attributes of biological organisation (Noss, 1990). The Kunming-Montreal Global Biodiversity Framework (GBF) (Convention on Biological Diversity, 2022, December 18) includes goals and targets across scales, with Targets 1 and 3 focused on spatial planning and PCA creation, Targets 2 and 4 focused on restoration and species management to prevent extinction, Target 5 focused on fish stocks, Target 8 on minimising climate change impacts, Target 11 on ecosystem services, and Target 21 on biodiversity information for monitoring the GBF.

IUCN WCPA Protected Area Technical Report Series↗

USGS1996

Empirical Bayes estimation of proportions with application to cowbird parasitism rates

Bayesian models provide a structure for studying collections of parameters such are considered in the investigation of communities, ecosystems, and landscapes. This structure allows for improved estimation of individual parameters by considering them in the context of a group of related parameters. Individual estimates are differntially adjusted toward in overall mean, with the magnitude of their adjustment based on their precision. Consequently, Bayesian estimation allows for a more reliable ranking of parameters and, in particular, a more credible identification of extreme values from a collection of estimates. In Bayesian models, individual parameters are regarded as values sampled from a specified probability distribution, called a prior. The requirements that the prior be known is often regarded as an unattractive feature of Bayesian analysis and may be the reason Bayesian analyses are not frequently applied in ecological studies. Empirical Bayes methods provide an alternative approach that incorporates the structural advantages of Bayesian models while requirng a less stringent specification of prior knowledge. Empirical Bayes methods require only that the prior be in a certain family of distributions, indexed by hyperparameters that can be estimated from the available data. This structur is of interest per se, in addition to its value in allowing for improved estimation of individual parameters; for example, hypothese regarding the existence of distinct subgroups in a collection of paramet ers can be considered under the empirical Bayes framework by allowing the hyperparameters to vary among subgroups. We describe the empirical Bayes approach in application to estimation of proportions, using data obtained in a community—wide study Brown—headed Cowbird paratism rates for illustration. Empirical Bayes estimates identify those species for which there is the greatest evidence of extreme parasitism rates. Subgroup analysis of our data on cowbird parasitism rates indicates that parasitisms rates for neotropical migrants as a group are no greater than those of resident/short—distance migrant in this forest community. Our data and analyses demonstrate that the parasitism rates for certain neotropical migrant species (Wood Thrush and Rose—breasted Grosbeak) are remarkably low while those for others (Ovenbird and Red—eyed Vireo) are remarkably high.

Ecology↗

USGS2015

California State Waters map series — Offshore of Scott Creek, California

Introduction In 2007, the California Ocean Protection Council initiated the California Seafloor Mapping Program (CSMP), designed to create a comprehensive seafloor map of high-resolution bathymetry, marine benthic habitats, and geology within the 3-nautical-mile limit of California’s State Waters. The CSMP approach is to create highly detailed seafloor maps through collection, integration, interpretation, and visualization of swath sonar data, acoustic backscatter, seafloor video, seafloor photography, high-resolution seismic-reflection profiles, and bottom-sediment sampling data. The map products display seafloor morphology and character, identify potential marine benthic habitats, and illustrate both the surficial seafloor geology and shallow subsurface geology. The Offshore of Scott Creek map area is located in central California, on the Pacific Coast about 65 km south of San Francisco and 12 km northwest of Santa Cruz. The onshore part of the map area is sparsely populated; the only cultural center is Davenport, a small community with a population of less than 500. The hilly coastal area is virtually undeveloped, and a large percentage of coastal land is incorporated in open-space trusts. Agricultural land is almost entirely limited to coastal areas between the shoreline and the northwest-trending Santa Cruz Mountains, on Pleistocene alluvial fan deposits and the lowest emergent marine terrace. The Santa Cruz Mountains are part of the northwest-trending Coast Ranges that run roughly parallel to the San Andreas Fault Zone. The map area is cut by the San Gregorio Fault Zone, and it lies a few kilometers southwest of the San Andreas Fault Zone. Regional folding and uplift along the coast has been attributed to a westward bend in the San Andreas Fault Zone and also to right-lateral movement along the San Gregorio Fault Zone. The irregular coastal geomorphology of this area, which consists of low, rocky cliffs and sparse, small pocket beaches backed by low, terraced hills, is partly attributable to this ongoing deformation. The shelf in the map area is underlain by variable amounts (0 to 25 m) of upper Quaternary shelf, nearshore, and fluvial sediments deposited as sea level fluctuated in the late Pleistocene. The northernmost part of the map area is characterized by the presence of uplifted bedrock that has been linked to a local transpressional zone in the San Gregorio Fault Zone. This uplift, coupled with high wave energy, has resulted in little or no sediment cover in this area where exposures of bedrock are present at water depths of as much as 45 m. The thickest deposits of sediment lie offshore of both Davenport and the mouth of Waddell Creek. Coastal sediment transport in the map area is characterized by north-to-south littoral transport of sediment that is derived mainly from streams in the Santa Cruz Mountains and also from local coastal erosion. Shoreline-change studies indicate long-term erosion; within the region between San Francisco and Davenport, the highest long- and short-term coastal-erosion rates occur north of the map area, just north of Point Año Nuevo. During the last approximately 300 years, as much as 18 million cubic yards (14 million cubic meters) of sand-sized sediment has been eroded from the area between Año Nuevo Island and Point Año Nuevo and transported south. Once widened by this pulse of eroded sediment, beaches in the map area are now narrowing as the tail end of this mass of sand progresses farther south. The Offshore of Scott Creek map area lies within the cold-temperate biogeographic zone that is called either the “Oregonian province” or the “northern California ecoregion.” This biogeographic province is maintained by the long-term stability of the southward-flowing California Current, the eastern limb of the North Pacific subtropical gyre that flows from southern British Columbia to Baja California. At its midpoint off central California, the California Current transports subarctic surface (0–500 m deep) waters southward, about 150 to 1,300 km from shore. Seasonal northwesterly winds that are, in part, responsible for the California Current, generate coastal upwelling. The south end of the Oregonian province is at Point Conception (about 320 km south of the map area), although its associated phylogeographic group of marine fauna may extend beyond to the area offshore of Los Angeles in southern California. The ocean off of central California has experienced a warming over the last 50 years that is driving an ecosystem shift away from the productive subarctic regime towards a depopulated subtropical environment. Seafloor habitats in the Offshore of Scott Creek map area, which lie within the Shelf (continental shelf) megahabitat, range from significant rocky outcrops that support kelp-forest communities nearshore to rocky-reef communities in deeper water. Biological productivity resulting from coastal upwelling supports populations of Sooty Shearwater, Western Gull, Common Murre, Cassin’s Auklet, and many other less populous bird species. In addition, an observable recovery of Humpback and Blue Whales has occurred in the area; both species are dependent on coastal upwelling to provide nutrients. The large extent of exposed inner shelf bedrock supports large forests of “bull kelp,” which is well adapted for high-wave-energy environments. The kelp beds are the northernmost known habitat for the population of southern sea otters. Common fish species found in the kelp beds and rocky reefs include lingcod and various species of rockfish and greenling.

California↗