USGS ScienceSearch

SEARCH · USGS Science

Results for “Nature Biodiversity Reviews”

Search indexed USGS publications on groundwater, aquifers, geologic maps, mineral resources and earthquakes. Explore source records by subject and place.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

63 records · Page 4Linked to original sources

Conservation paleobiology: Leveraging knowledge of the past to inform conservation and restoration

Humans now play a major role in altering Earth and its biota. Finding ways to ameliorate human impacts on biodiversity and to sustain and restore the ecosystem services on which we depend is a grand scientific and societal challenge. Conservation paleobiology is an emerging discipline that uses geohistorical data to meet these challenges by developing and testing models of how biota respond to environmental stressors. Here we ( a ) describe how the discipline has already provided insights about biotic responses to key environmental stressors, ( b ) outline research aimed at disentangling the effects of multiple stressors, ( c ) provide examples of deliverables for managers and policy makers, and ( d ) identify methodological advances in geohistorical analysis that will foster the next major breakthroughs in conservation outcomes. We highlight cases for which exclusive reliance on observations of living biota may lead researchers to erroneous conclusions about the nature and magnitude of biotic change, vulnerability, and resilience.

Annual Review of Earth and Planetary Sciences

Population genomic surveys for six rare plant species in San Diego County, California

San Diego County is a hotspot of biodiversity, situated at the intersection of the Baja peninsula, the California floristic province, and the desert southwest. This hotspot is characterized by a high number of rare and endemic species, which persist alongside a major urban epicenter. San Diego County has implemented a strategic management plan that identifies species, based on low numbers of occurrences or high level of threat, for which management practices are recommended. In creating a management plan for rare species, it is important to strike a balance between preserving locally adapted traits and maintaining genetic diversity, as species’ ranges fluctuate in response to a changing climate and habitat fragmentation. This project, in partnership with the San Diego Natural History Museum, aims to provide a reference point for the current status of genetic diversity of rare plant species that will inform future preservation and restoration efforts. We focused on six threatened or endangered plant species: Acanthomintha ilicifolia , Baccharis vanessae , Chloropyron maritimum ssp. maritimum , Deinandra conjugens , Dicranostegia orcuttiana , and Monardella viminea . For each species, botanists from the San Diego Natural History Museum visited all known occurrences in San Diego County and collected leaf tissue for genetic and cytological analysis. We then developed a panel of genetic markers to estimate genetic diversity and population structure. This population genetic survey provided insight into the amount of genetic differentiation across each species’ range, identified isolated occurrences potentially subject to inbreeding or genetic bottlenecks, and identified areas that are rich sources of allelic diversity. Finally, we convened a panel of experts to review results and compatible management options for each species. A summary of the management workshop is included in this report. Overall, we found low genetic differentiation among occurrences across the San Diego region for all species, with the exception of A. ilicifolia . Relative inbreeding was low and consistent across sites, and genetic diversity across sites was variable, with noted exceptions. These findings allow for a wide array of management options that are compatible with panmictic population structure in five of the six surveyed species.

California

Principles of riverscape health

Riverscapes are the integration of terrestrial and aquatic systems from headwaters to estuaries that provide habitat and ecosystem benefits when in good health. However, current riverscape degradation is pervasive, impairing the function and resulting benefits of these systems. Healthy riverscapes are adaptive and some can ‘heal’ after disturbance with minimal to no human assistance. As riverscape health is threatened, a need exists to address current degradation and understand the potential for riverscape restoration—concisely communicating what comprises healthy riverscapes is essential to direct limited resources and increase efficacy of restoration and conservation efforts. Healthy riverscapes have (i) space to interact within their valley bottom; (ii) natural flow, sediment, and vegetation regimes appropriate to the biophysical setting and river type; and (iii) structural forcing to support diversity and that creates varied residence times for water, sediment, and vegetation. These three principles are grounded in interdisciplinary science and lessons from riverscape scientists and restoration practitioners across the world. Understanding the context, anthropogenic influences, boundary conditions, and legacy effects influencing riverscapes is essential for the appropriate application of these principles in pursuit of achieving riverscape health. Emphasizing a holistic, biogeomorphic view of riverscapes through these principles can guide policies, restoration actions, and monitoring frameworks that ensure that riverscapes remain capable of accommodating and adjusting to disturbances while continuing to support biodiversity and human benefits.

WIREsWATER (Wiley Interdisciplinary Reviews Primer

Biosecurity Plan for Palmyra Atoll

This Biosecurity Plan for Palmyra Atoll was developed for The Nature Conservancy (TNC) Palmyra Program to refine and expand goals and objectives developed through the Conservation Action Plan process. The Biosecurity Plan is one in a series of adaptive management plans designed to achieve TNC's mission toward the protection and enhancement of native wildlife and habitat. The Biosecurity Plan focuses on ecosystem security, and specifically identifies and addresses issues related to non-native and potentially invasive species. The Plan attempts to identify pathways of invasion and strategies for preventing or reducing new introductions. Overall, the Biosecurity Plan provides a framework to implement and track the progress of conservation and restoration goals related to non-native species on Palmyra Atoll. Palmyra Atoll is one of the Northern Line Islands in the Pacific Ocean southwest of the Hawai`ian Islands. It consists of many heavily vegetated islets arranged in a horseshoe pattern around four lagoons and surrounded by a coral reef. At present, Palmyra Atoll harbors various non-native or invasive species in the terrestrial and marine ecosystems. The most notable examples of terrestrial invasive species include coconut trees (Cocos nucifera) and black rats (Rattus rattus). Although it is unclear whether they are non-native, coconut trees are currently the most dominant plant across Palmyra Atoll. They compete with native plant species for space and resources, and are potentially detrimental to seabirds dependent on native vegetation. Black rats are known to predate ground-nesting seabirds and are likely responsible for the lack of burrowing seabird reproduction on Palmyra Atoll. The most notable example of a marine invasive species is the corallimorph (Rhodactis howsei). Although Rhodactis howsei is a native species, it can take advantage of human-altered habitat and significantly change the natural habitat by aggressively outcompeting native corals. Although the extent and impacts of these and other non-native and (or) invasive species are not fully understood, they are clearly a threat to the native species and overall ecosystem integrity of Palmyra Atoll. In fact, non-native invasive species have been considered the most important threat to ecosystems in Hawai`i and the second most important threat to biodiversity world-wide. Palmyra Atoll is somewhat protected because of its remote location, but there are still potential pathways for the introduction of non-native and possibly invasive species. With the continued influx of aircraft and ocean vessels and their contents to and around Palmyra Atoll, we anticipate many more concerns related to the import and spread of non-native invasive species in the future. In terms of ecosystem security, prevention is the most effective and efficient tool for managing invasive species. There are various potential pathways for introduction and spread of non-native species within Palmyra Atoll's terrestrial and marine ecosystems. Identification of these pathways provides a first step in preventing introductions. We also recommend establishing, enhancing, and enforcing quarantine protocols to prevent future non-native species invasions. Other critical steps to minimize the impacts and spread of invasive species include early detection through inventory and monitoring, as well as containment, control, and management of non-native species already established at Palmyra Atoll. These efforts in combination with research and education will serve to inform management decisions related to ecosystem integrity. Along with reinstating ecosystem security, this Biosecurity Plan aims to evaluate new risk factors related to non-native and potentially invasive species. To that end, an adaptive management process of audit and review is highly recommended to ensure the implementation and efficacy of the management practices outlined above. In addition, it will be important to identify high r

Open-File Report

One Health: A perspective from wildlife and environmental health sectors

Loss of biodiversity, habitat fragmentation and pollution, and subsequent degradation of natural environments threaten the range of ecosystem services that support all life on this planet. These changes, among others, are also driving the emergence of infectious diseases, with negative health outcomes for humans, animals, and our shared environment. Historically, interventions aimed at human and agricultural health issues did not always integrate wildlife or environmental health as part of the solution, which has resulted in unintended consequences. One Health recognises the interdependence of humans, animals and their shared environment, and provides a conceptual framework for developing interventions that optimise outcomes for human, animal and environmental health. However, there is a need to clearly articulate the core values, goals, and objectives of One Health for all relevant sectors in order to maximise synergies for communication, coordination, collaboration, and, ultimately, for joint actions on disease control and prevention. Application of systems and harm reduction approaches, focusing on the socio-economic and environmental determinants of health, and ensuring good governance and effective leadership will also maximise the opportunities to develop ‘win-win-win’ solutions to global health and environmental challenges. These solutions would help propel One Health forward to reach its full potential and truly optimise health outcomes for all.

Scientific and Technical Review

Setting limits: Using air pollution thresholds to protect and restore U.S. ecosystems

More than four decades of research provide unequivocal evidence that sulfur, nitrogen, and mercury pollution have altered, and will continue to alter, our nation's lands and waters. The emission and deposition of air pollutants harm native plants and animals, degrade water quality, affect forest productivity, and are damaging to human health. Many air quality policies limit emissions at the source but these control measures do not always consider ecosystem impacts. Air pollution thresholds at which ecological effects are observed, such as critical loads, are effective tools for assessing the impacts of air pollution on essential ecosystem services and for informing public policy. U.S. ecosystems can be more effectively protected and restored by using a combination of emissions-based approaches and science-based thresholds of ecosystem damage. Based on the results of a comprehensive review of air pollution thresholds, we conclude: ??? Ecosystem services such as air and water purification, decomposition and detoxification of waste materials, climate regulation, regeneration of soil fertility, production and biodiversity maintenance, as well as crop, timber and fish supplies are impacted by deposition of nitrogen, sulfur, mercury and other pollutants. The consequences of these changes may be difficult or impossible to reverse as impacts cascade throughout affected ecosystems. ??? The effects of too much nitrogen are common across the U.S. and include altered plant and lichen communities, enhanced growth of invasive species, eutrophication and acidification of lands and waters, and habitat deterioration for native species, including endangered species. ??? Lake, stream and soil acidification is widespread across the eastern United States. Up to 65% of lakes within sensitive areas receive acid deposition that exceeds critical loads. ??? Mercury contamination adversely affects fish in many inland and coastal waters. Fish consumption advisories for mercury exist in all 50 states and on many tribal lands. High concentrations of mercury in wildlife are also widespread and have multiple adverse effects. ??? Air quality programs, such as those stemming from the 1990 Clean Air Act Amendments, have helped decrease air pollution even as population and energy demand have increased. Yet, they do not adequately protect ecosystems from long-term damage. Moreover they do not address ammonia emissions. ??? A stronger ecosystem basis for air pollutant policies could be established through adoption of science-based thresholds. Existing monitoring programs track vital information needed to measure the response to policies, and could be expanded to include appropriate chemical and biological indicators for terrestrial and aquatic ecosystems and establishment of a national ecosystem monitoring network for mercury. The development and use of air pollution thresholds for ecosystem protection and management is increasing in the United States, yet threshold approaches remain underutilized. Ecological thresholds for air pollution, such as critical loads for nitrogen and sulfur deposition, are not currently included in the formal regulatory process for emissions controls in the United States, although they are now considered in local management decisions by the National Park Service and U.S. Forest Service. Ecological thresholds offer a scientifically sound approach to protecting and restoring U.S. ecosystems and an important tool for natural resource management and policy. ?? The Ecological Society of America.

Issues in Ecology

No detection of Batrachochytrium salamandrivorans after non-native salamander putative pet release in Massachusetts, USA

The disease caused by the amphibian chytrid fungus Batrachochytrium salamandrivorans (Bsal) has caused mass mortality of salamanders across Europe (Stegen et al. 2017; amphibians are not known to be susceptible to the disease (Martel et al. 2014). Bsal puts North American amphibian biodiversity at risk (Martel et al. 2014; Gray et al. 2015) despite imports of potentially infected amphibians (USFWS 2016; WAPTR 2018; Grear et al. 2021). Recently, the U.S. has announced the finalization of the 2016 interim rule to the Lacey Act (USFWS 2016) to restrict imports of all species of salamanders from 20 genera to the list of injurious amphibians and has added 16 genera to the injurious amphibian list in a new interim rule in response to updated research on salamander susceptibility to Bsal infection (USFWS 2025). A large-scale survey across the USA failed to detect Bsal in over 10,000 individuals (Waddle et al. 2020), and ongoing efforts by North American colleges and universities are similarly conducting Bsal surveillance without more recent detection (e.g., Hyman and Hill 2024). Concerned amphibian and disease specialists nevertheless are preparing for a Bsal invasion into North America (Grant et al. 2017; Olson et al.2024). Despite the initial survey results, the risk of Bsal incursion into North America remains due to broad host susceptibility of North American amphibian species (Gray et al. 2023). The major driver of Bsal introduction risk in the U.S. is expected to be captive amphibian release (Cunningham et al. 2015; Grear et al. 2021). Bsal primarily affects salamanders but anuran species can also be vectors (e.g., Towe et al. 2021; Monzon et al. 2022; Gray et al. 2023; Olson et al. 2024), increasing the risk of a released amphibian carrying Bsal into the natural environment (Grear et al. 2021). An early survey of pet salamanders in the United States did not detect Bsal (Klocke et al. 2017), but even one animal released with Bsal could have a major effect on local amphibians. Early detection and rapid response can improve host outcomes (Bletz et al. 2024; Gray et al. 2018), but the lack of timely knowledge about unwanted release of non-native pets to natural systems causes inevitable delay. Herein, we describe our experience responding to a report of a released non-native amphibian species, common in the pet trade (Gerson 2012; Maximo et al. 2021). We suggest improvements to early detection and rapid response efforts for amphibians and amphibian disease

Massachusetts

Small creatures, big challenge: A review of current knowledge and assessment of research needs to inform water withdrawal management for the Duck River's freshwater mussel fauna

The Duck River is a remarkable national resource, boasting outstanding biodiversity (Ahlstedt et al. 2017). It contains 151 fish species, over 60 mussel species, and 22 snail species, many of which are federally listed (Etnier and Starnes 1993; Johnson et al. 2013; Ahlstedt et al. 2017; Womble and Rosenberger 2025a). The Duck River watershed is at a pivotal time in its management and ecological history due to significant growth in human population and economic activity. The consequent increase in surface water demand presents challenges for sustainable water resource management. The Tennessee Department of Environment and Conservation (TDEC) has permitted or proposed to permit eight water utilities to withdraw over 77 million gallons per day (mgd) from the Duck River, representing > 40% increase from previously permitted amounts (USFWS 2025). On November 20, 2024, Tennessee Governor Bill Lee signed Executive Order No 108 to ensure long-term stability of the Duck River watershed through balancing economic growth, water resource management, and environmental conservation. Some primary components of this plan are the creation of a Comprehensive Regional Drought Management Plan, the development of a Habitat Conservation Plan, and the establishment of the Duck River Watershed Planning Partnership (DRWPP). Although the planning partnership is not focused on a sole aspect of the Duck River, but the watershed as a whole, the mussel assemblages of the Duck River have been a particular focus due to their importance in providing ecosystem services, sensitivity to water quality, conservation status, and sensitivity to periodic drought conditions in this system. With multiple state and federal agencies involved in managing the Duck River’s unique water resources, a focused review on how future water management could affect the freshwater mussel communities in the Duck River will contribute to this process. Our objectives of this review are to: 1. Review the effects of changing flow regimes on mussels, with emphasis on the effect of droughts/low flows, highlighting key processes/factors affecting mussels. 2. Highlight critical data gaps that could allow future, evidence-based water management decisions in this system. 3. Propose research topics to address critical data gaps and enable evidence-based water management decisions that consider the needs of freshwater mussels. Freshwater mussels are a critical component of riverine ecosystems, providing ecosystem services including water filtration, nutrient cycling, and habitat provision (Vaughn et al. 2004; Haag 2012) that benefit human communities. Environmental flows, also referred to as ecological or e-flows, refer to the quantity, timing, and quality of water flows necessary to maintain the ecological health of rivers, wetlands, and other aquatic ecosystems (Acreman and Dunbar 2004; Acreman 2016). For freshwater mussels, environmental flows include maintaining a flow regime and associated water quality regimes that are favorable for both juveniles and adults while also seasonally supporting host fish and the survival of settling glochidia (i.e., larval mussels) in suitable environments (Gates et al. 2015). Freshwater mussels are adapted to the natural flow regime of their native streams, including seasonal variability in flows. As sedentary filter feeders, mussels require adequate water flow to provide oxygen and food (Allen and Vaughn 2009); however, they also require periods of low flow to increase access to fish hosts and to ensure juveniles are not displaced (Gates et al 2015). Mussels are sensitive to water quality conditions, including pollutants, sedimentation, and artificial alterations of temperature and pH (Strayer and Malcom 2012). Mussel community characteristics, including presence, abundance, and species richness, generally increase with stream size (e.g., stream order); however, responses to changes in flow conditions are often species-specific, and the magnitude and timing of extreme flow conditions have more predictive power for mussel community response than general changes in flow (Lopez and Vaughn 2021). Complex hydraulic variables, such as relative shear stress and Reynolds number, can be strong predictors of mussel community responses because they combine simple hydraulic variables (e.g., velocity, depth) with stream channel characteristics, such as substrate composition and dynamics. Droughts directly and indirectly affect mussels by influencing their physiology, behavior, reproduction, and ecosystem roles. Mass mussel die-offs during droughts and low water conditions are widely documented (Vaughn et al. 2015; Sousa et al. 2018; Dubose et al. 2019). Droughts can also lead to a shift in mussel community composition, with drought-tolerant species becoming more dominant while more sensitive species experience declines (Galbraith et al, 2010; Lopez et al. 2022; Vaughn and Atkinson 2025). Droughts affect mussels through direct mortality from stranding as well as physiological stress from altered water temperature and quality, reduced habitat and food availability and quality, increased predation and competition, disruption of reproductive cycles, and increased susceptibility to disease and pathogens. Although the effects of droughts, water withdrawals, and low flow conditions on mussels are an increasing area of study, there is a general paucity of data-driven consensus regarding optimal mitigation approaches and strategies (Cushway et al. 2024). Long-term management decisions regarding water withdrawals, particularly during extended or multi-year drought conditions, may consider factors beyond direct mortality such as the sublethal effects of drought and low flow conditions on freshwater mussels for a comprehensive understanding of the effects of prolonged low flows on freshwater mussels and aquatic communities.

Tennessee

Prevention, early detection and containment of invasive, nonnative plants in the Hawaiian Islands: current efforts and needs

Introduction: Invasive, non-native plants (or environmental weeds) have long been recognized as a major threat to the native biodiversity of oceanic islands (Cronk & Fuller, 1995; Denslow, 2003). Globally, several hundred non-native plant species have been reported to have major impacts on natural areas on oceanic islands (Kueffer et al ., 2009). In Hawaii, at least some 50 non-native plant species reach dominance in natural areas (Kueffer et al ., 2009) and many of them are known to impact ecosystem processes or biodiversity. One example is the invasive Australian tree fern ( Cyathea cooperi ), which has been shown to be very efficient at utilizing soil nitrogen and can grow six times as rapidly in height, maintain four times more fronds, and produce significantly more fertile fronds per month than the native Hawaiian endemic tree ferns, Cibotium spp. (Durand & Goldstein, 2001a, b). Additionally, while native tree ferns provide an ideal substrate for epiphytic growth of many understory ferns and flowering plants, the Australian tree fern has the effect of impoverishing the understory and failing to support an abundance of native epiphytes (Medeiros & Loope, 1993). Other notorious examples of invasive plant species problematic for biodiversity and ecosystem processes in Hawaii include miconia ( Miconia calvescens ), strawberry guava ( Psidium cattleianum ), albizia ( Falcataria moluccana ), firetree ( Morella faya ), clidemia ( Clidemia hirta ), kahili ginger ( Hedychium gardnerianum ), and fountain grass ( Pennisetum setaceum ), to name just a few. Fireweed ( Senecio madagascariensis ) is a recent example of a seriously problematic invasive species for Hawaii’s agriculture and is damaging certain high-elevations native ecosystems as well. The threat of invasive plants has long been recognized in Hawaii and is well documented (e.g. Cox, 1999; Loope & Kraus, 2009 in press; Loope et al ., 2004; Mooney & Drake, 1986; Stone & Scott, 1985; Stone et al. , 1992). In many respects, Hawaii may be near the forefront among national and international efforts to address the burgeoning threat of invasive plants, perhaps especially in the field of outreach and education (Holt, 1996; Van Driesche & Van Driesche, 2000). However, given the scale of the problem many challenges still need to be addressed and gaps in the existing management system need to be identified. In particular, it appears that new non-native plant species are still introduced to the Hawaiian Islands at a high rate with little or no regard for their potential invasiveness. In fact, a Pacific-wide and a global survey of non-native plants on oceanic islands have both shown that on Hawaii among all archipelagos by far the highest number of problematic invasive species known from other areas in the world is already present (Denslow et al . 2009, Kueffer et al . 2009). Hawaii lacks an effective mechanism for tracking what species are present or incoming. For instance, early detection nursery surveys conducted on Maui in 2008 found over 300 species of cultivated vascular plants that have not previously been recorded in Hawaii (Starr et al. , in prep.). In spite of an innovative Hawaii Biological Survey (e.g. Eldredge & Evenhuis, 2003), there is no mechanism for recording presence of a species until it becomes naturalized. Some of these new introductions may quickly become serious pests. Fireweed, first recorded in Hawaii on the Big Island in the early 1980s, is now considered one of the Kueffer & Loope 2009 5/48 worst weeds of pastures and is also invading natural areas from near sea level to above 10,000 feet. Although the cultivated and as yet non-invasive Cortaderia selloana has been present in Hawaii for 50 years or more, the morphologically similar Cortaderia jubata was simultaneously found to be present on Maui and invading on a large scale in 1989. It played an important role in inspiring the establishment of the Maui Invasive Species Committee (MISC) in 1997, and MISC now spends roughly $200,000 per year removing and containing C. jubata to keep it from becoming widespread in high elevation conservation lands of East and West Maui. The existence of many similar examples shows that to date regulatory action to prevent new invasive plant species from establishing and spreading in Hawaii has not yet been as successful as it needs to be. In particular, because some problematic invasive species known from other areas in the world (Kueffer et al ., 2009; Weber, 2003) have not yet been recorded from Hawaii, preventive measures against the introduction and spread of such likely invasive species is therefore an urgent need for Hawaii. Indeed, regulation of importation and early detection and eradication of introduced species before they become abundant and widespread are widely considered the most cost-efficient and often only effective measures against the threat of new invasive species (Kueffer & Hirsch Hadorn, 2008; Wittenberg & Cock, 2001). Timing seems favorable for Hawaii to achieve effective protection against the threat of new invasive species through prevention, early detection, and eradication/containment. Through the establishment and evolution of Invasive Species Committees (ISCs) on each major Hawaiian island, the institutional capacity has been built up for prevention, early detection, containment, and outreach at an island scale. Weed risk assessment (Daehler et al ., 2004) and early detection methodologies (Starr et al. , in review-a, b) have been developed and tested specifically for Hawaii. Containment strategies have been successful (e.g., Special Ecological Areas in Hawaii Volcanoes National Park), and so have eradications of particular species on an island scale (e.g. mullein ( Verbascum thapsus ) and other species on Maui, fireweed ( Senecio madagascariensis ) on Kauai). These successful management strategies may be further strengthened through recently developed novel approaches in research (e.g. remote sensing, species distribution modelling, and molecular genetics tools). Another major recent achievement is the gained support of the plant industry for preventive measures against invasive species (see p. 13ff). Last but not least, regulatory action is also moving forward. Passage of House Bill 2517 by the 2008 Hawaii House and Senate and prompt signing of the bill into law by the Governor provides hope that action to ban the sale of a meaningful suite of restricted weeds can quickly proceed through the rulemaking phase into the implementation phase. This report documents these achievements and experiences and provides a range of perspectives on how to further develop prevention, early detection and containment of invasive species in Hawaii. The report is based on a symposium and workshop held at the 2008 Hawaii Conservation Conference in Honolulu on 31 July 2008.

Hawaii