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USGS2022

Incorporating habitat suitability, landscape distance, and resistant kernels to estimate conservation units for an imperiled terrestrial snake

Context Wildlife distributions are often subdivided into discrete conservation units to aid in implementing management and conservation objectives. Habitat suitability models, resistance surfaces, and resistant kernels provide tools for delineating spatially explicit conservation units but guidelines for parameterizing resistant kernels are generally lacking. Objectives We used the federally threatened eastern indigo snake ( Drymarchon couperi ) as a case study for calibrating resistant kernels using observed movement data and resistance surfaces to help delineate habitat-based conservation units. Methods We simulated eastern indigo snake movements under different resistance surface and resistant kernel parameterizations and selected the scenario that produced simulated movement distances that best approximated the maximum observed annual movement distance. We used our calibrated resistant kernel to model range-wide connectivity and compared delineated conservation units to Euclidean distance-based population units from the recent eastern indigo snake species status assessment (SSA). Results We identified a total of 255 eastern indigo snake conservation units, with numerous large (2500–5000 ha of suitable habitat) conservation units across the eastern indigo snake distribution. There was substantial variation in the degree of overlap with the SSA population units likely reflecting the spatial heterogeneity in habitat suitability and landscape resistance. Conclusion Our calibration approach is widely applicable to other systems for parameterizing biologically meaningful resistant kernels. Our conservation units can be used to prioritize future eastern indigo snake conservation efforts, identify areas where more survey work is needed, or identify small, isolated populations with high extinction risks.

Alabama, Florida, Georgia↗
USGS1998

Geospatial Technology Applications and Infrastructure in the Biological Resources Division

Executive Summary -- Automated spatial processing technology such as geographic information systems (GIS), telemetry, and satellite-based remote sensing are some of the more recent developments in the long history of geographic inquiry. For millennia, humankind has endeavored to map the Earth's surface and identify spatial relationships. But the precision with which we can locate geographic features has increased exponentially with satellite positioning systems. Remote sensing, GIS, thematic mapping, telemetry, and satellite positioning systems such as the Global Positioning System (GPS) are tools that greatly enhance the quality and rapidity of analysis of biological resources. These technologies allow researchers, planners, and managers to more quickly and accurately determine appropriate strategies and actions. Researchers and managers can view information from new and varying perspectives using GIS and remote sensing, and GPS receivers allow the researcher or manager to identify the exact location of interest. These geospatial technologies support the mission of the U.S. Geological Survey (USGS) Biological Resources Division (BRD) and the Strategic Science Plan (BRD 1996) by providing a cost-effective and efficient method for collection, analysis, and display of information. The BRD mission is 'to work with others to provide the scientific understanding and technologies needed to support the sound management and conservation of our Nation's biological resources.' A major responsibility of the BRD is to develop and employ advanced technologies needed to synthesize, analyze, and disseminate biological and ecological information. As the Strategic Science Plan (BRD 1996) states, 'fulfilling this mission depends on effectively balancing the immediate need for information to guide management of biological resources with the need for technical assistance and long-range, strategic information to understand and predict emerging patterns and trends in ecological systems.' Information sharing plays a key role in nearly everything BRD does. The Strategic Science Plan discusses the need to (1) develop tools and standards for information transfer, (2) disseminate information, and (3) facilitate effective use of information. This effort centers around the National Biological Information Infrastructure (NBII) and the National Spatial Data Infrastructure (NSDI), components of the National Information Infrastructure. The NBII and NSDI are distributed electronic networks of biological and geographical data and information, as well as tools to help users around the world easily find and retrieve the biological and geographical data and information they need. The BRD is responsible for developing scientifically and statistically reliable methods and protocols to assess the status and trends of the Nation's biological resources. Scientists also conduct important inventory and monitoring studies to maintain baseline information on these same resources. Research on those species for which the Department of the Interior (DOI) has trust responsibilities (including endangered species and migratory species) involves laboratory and field studies of individual animals and the environments in which they live. Researchboth tactical and strategicis conducted at the BRD's 17 science centers and 81 field stations, 54 Cooperative Fish and Wildlife Research Units in 40 states, and at 11 former Cooperative Park Study Units. Studies encompass fish, birds, mammals, and plants, as well as their ecosystems and the surrounding landscape. Biological Resources Division researchers use a variety of scientific tools in their endeavors to understand the causes of biological and ecological trends. Research results are used by managers to predict environmental changes and to help them take appropriate measures to manage resources effectively. The BRD Geospatial Technology Program facilitates the collection, analysis, and dissemination of data and informat

Information and Technology Report↗
USGS2021

Carbon fluxes and potential soil accumulation within Greater Everglades cypress and pine forested wetlands

In forested wetlands, accumulation of organic matter in soil is partly governed by carbon fluxes where photosynthesis, respiration, lateral advection of waterborne carbon, fire-derived carbon emissions, and methanogenesis are balanced by changes in stored carbon. Stored carbon can eventually accumulate as soil over time if net primary productivity exceeds biomass decomposition. For this study, potential soil accumulation was estimated based on four years of continuous daily carbon cycling data and a one-dimensional mass-balance model of landscape-atmospheric exchange for cypress and pine forested wetlands in the Greater Everglades of south Florida. The mass-balance model was driven by eddy-covariance estimates of vertical net ecosystem exchange of carbon dioxide and methane. Key findings include confirmation of a basic premise of the historic Everglades restoration project; specifically, more water either from rainfall or water management encourages soil carbon accumulation and thus conservation of soils that support biologic activity and ecosystem services. For example, an anomalous wet season for south Florida that flooded the forested wetlands through the traditional dry season was followed by the most productive year for photosynthetic carbon uptake and potential soil accumulation. On the other hand, methane emissions were enhanced by the anomalous wet season and extended flooding – which confirmed a complex tradeoff to consider if wetlands are managed for both soil conservation and reduction of greenhouse gas emissions. Potential soil accumulation rates were about 1.7, 2.8, and 18 millimeters per year at the Dwarf Cypress, Cypress Swamp, and Pine Upland ecosystems, assuming soil C density values of 0.07, 0.09, and 0.02 grams of carbon per cubic centimeter, respectively. For these values of soil C density, the accumulation rates are considered a “best-case” upper limit because the lateral export of carbon in the canals and creeks that drain the study area were assumed negligible.

Florida↗
USGS2021

Intended consequences statement

As the biodiversity crisis accelerates, the stakes are higher for threatened plants and animals. Rebuilding the health of our planet will require addressing underlying threats at many scales, including habitat loss and climate change. Conservation interventions such as habitat protection, management, restoration, predator control, translocation, genetic rescue, and biological control have the potential to help threatened or endangered species avert extinction. These existing, well-tested methods can be complemented and augmented by more frequent and faster adoption of new technologies, such as powerful new genetic tools. In addition, synthetic biology might offer solutions to currently intractable conservation problems. We believe that conservation needs to be bold and clear-eyed in this moment of great urgency.

Conservation Science and Practice↗
USGS2011

Conservation in the face of climate change: The roles of alternative models, monitoring, and adaptation in confronting and reducing uncertainty

The broad physical and biological principles behind climate change and its potential large scale ecological impacts on biota are fairly well understood, although likely responses of biotic communities at fine spatio-temporal scales are not, limiting the ability of conservation programs to respond effectively to climate change outside the range of human experience. Much of the climate debate has focused on attempts to resolve key uncertainties in a hypothesis-testing framework. However, conservation decisions cannot await resolution of these scientific issues and instead must proceed in the face of uncertainty. We suggest that conservation should precede in an adaptive management framework, in which decisions are guided by predictions under multiple, plausible hypotheses about climate impacts. Under this plan, monitoring is used to evaluate the response of the system to climate drivers, and management actions (perhaps experimental) are used to confront testable predictions with data, in turn providing feedback for future decision making. We illustrate these principles with the problem of mitigating the effects of climate change on terrestrial bird communities in the southern Appalachian Mountains, USA.

Southern Appalachian Mountains↗
USGS2004

Monitoring programs need to take into account imperfect species detectability

Biodiversiry monitoring is important to identify biological units in need of conservation and to check the effectiveness of conservation actions. Programs generally monitor species richness and its changes (trend). Usually, no correction is made for imperfect species detectability. Instead, it is assumed that each species present has the same probability of being recorded and that there is no difference in this detectability across space and time, e.g. among observers and habitats. Consequently, species richness is determined by enumeration as the sum of species recorded. In Switzerland, the federal government has recently launched a comprehensive program that aims at detecting changes in biodiversity at all levels of biological integration. Birds are an important part of that program. Since 1999, 23 visits per breeding season are made to each of >250 1 km2 squares to map the territories of all detected breeding bird species. Here, we analyse data from three squares to illustrate the use of capture-recapture models in monitoring to obtain detectability-corrected estimates of species richness and trend. Species detectability averaged only 85%. Hence an estimated 15% of species present remained overlooked even after three visits. Within a square, changes in detectability for different years were of the same magnitude when surveys were conducted by the same observer as when they were by different observers. Estimates of trend were usually biased and community turnover was overestimated when based on enumeration. Here we use bird data as an illustration of methods. However, species detectability for any taxon is unlikely ever to be perfect or even constant across categories to be compared. Therefore, monitoring programs should correct for species detectability.

Basic and Applied Ecology↗
USGS2023

Range-wide trends in tiger conservation landscapes, 2001 - 2020

Of all the ways human beings have modified the planet over the last 10,000 years, habitat loss is the most important for other species. To address this most critical threat to biodiversity, governments, non-governmental actors, and the public need to know, in near real-time, where and when habitat loss is occurring. Here we present an integrated habitat modelling system at the range-wide scale for the tiger ( Panthera tigris ) to measure and monitor changes in tiger habitat at range-wide, national, biome, and landscape scales, as often as the underlying inputs change. We find that after nearly 150 years of decline, effective potential habitat for the tiger seems to have stabilized at around 16% of its indigenous extent (1.817 million km 2 ). As of the 1st of January 2020, there were 63 Tiger Conservation Landscapes in the world, covering 911,920 km 2 shared across ten of the 30 modern countries which once harbored tiger populations. Over the last 20 years, the total area of Tiger Conservation Landscapes (TCLs) declined from 1.025 million km 2 in 2001, a range-wide loss of 11%, with the greatest losses in Southeast Asia and southern China. Meanwhile, we documented expansions of modelled TCL area in India, Nepal, Bhutan, northern China, and southeastern Russia. We find significant potential for restoring tigers to existing habitats, identified here in 226 Restoration Landscapes. If these habitats had sufficient prey and were tigers able to find them, the occupied land base for tigers might increase by 50%. Our analytical system, incorporating Earth observations, in situ biological data, and a conservation-oriented modelling framework, provides the information the countries need to protect tigers and enhance habitat, including dynamic, spatially explicit maps and results, updated as often as the underlying data change. Our work builds on nearly 30 years of tiger conservation research and provides an accessible way for countries to measure progress and report outcomes. This work serves as a model for objective, range-wide, habitat monitoring as countries work to achieve the goals laid out in the Sustainable Development Goals, the 30×30 Agenda, and the Kunming-Montreal Global Biodiversity Framework.

Frontiers in Conservation Science↗
USGS2006

A highly conserved N-terminal sequence for teleost vitellogenin with potential value to the biochemistry, molecular biology and pathology of vitellogenesis

N-terminal amino acid sequences for vitellogenin (Vtg) from six species of teleost fish (striped bass, mummichog, pinfish, brown bullhead, medaka, yellow perch and the sturgeon) are compared with published N-terminal Vtg sequences for the lamprey, clawed frog and domestic chicken. Striped bass and mummichog had 100% identical amino acids between positions 7 and 21, while pinfish, brown bullhead, sturgeon, lamprey, Xenopus and chicken had 87%, 93%, 60%, 47%, 47-60%) for four transcripts and had 40% identical, respectively, with striped bass for the same positions. Partial sequences obtained for medaka and yellow perch were 100% identical between positions 5 to 10. The potential utility of this conserved sequence for studies on the biochemistry, molecular biology and pathology of vitellogenesis is discussed.

Journal of Fish Biology↗
USGS2024

Review of the life history and conservation of federally endangered plant species of the Lower Rio Grande Valley, Texas, U.S.A.

This review aims to summarize information critical to the conservation of the federally listed endangered species of South Texas, which occur along the border of Texas and Mexico. This paper describes the characteristics, habitat, population status, distribution, life history, threats, and restoration of endangered plant species of the Lower Rio Grande Valley, Texas, which includes Cameron, Willacy, Hildago, and Starr County. Seven federally listed species are considered including Ambrosia cheiranthifolia, Asclepias prostrata, Astrophytum asterias, Ayenia limitaris, Manihot walkerae, Lesquerella thamnophila (syn. Physaria thamnophila), and Thymophylla tephroleuca. An eighth species, Physostegia correllii is under consideration for federal listing by the U.S. Fish and Wildlife Service. This paper assembles information on the background, biological status, major threats, and conservation to aid managers and the scientific community in restoring and managing these species.

Texas↗
USGS2021

The local responses of aquatic ecosystems to adjacent grassland conservation: Can streams of dreams exist in a degraded riverscape?

Landscape homogenization and the removal of riparian areas have altered stream ecosystems worldwide. Numerous conservation programmes attempt to improve water quality and increase instream habitat heterogeneity to elicit desired biological responses. However, the effectiveness of many conservation efforts on isolated stream fragments remains unknown, especially in grassland regions. The effects of grassland conservation practices and the re-establishment of riparian corridors in the James River basin, South Dakota (USA) on stream water quality, habitat availability and aquatic macroinvertebrate and fish assemblages were studied in an agriculturally dominated prairie landscape. Grassland conservation efforts may have repaired riparian condition, reduced turbidity and created more diverse instream habitat complexes at conservation sites based on comparisons with paired reference reaches. Reference sites were relatively homogeneous, with prevalent siltation, bank erosion and disturbances to the riparian vegetation. Owing to significant riparian vegetation development, overhanging and aquatic vegetation, benthic detritus and woody materials were significantly more common at conservation reaches. Restoration efforts that assume ‘if you (re-)build it, they will come’ (i.e. the ‘field of dreams’ hypothesis) underestimate other important barriers to biodiversity restoration in dynamic, grassland riverscapes. Although aquatic organisms in grassland ecosystems are adapted to rapidly inhabit available habitats, the development of niche space at conservation reaches did not directly result in colonization by aquatic life. Grassland management actions did not address stream connectivity issues or overcome land use influences elsewhere in the riverscape that may govern the responses of aquatic macroinvertebrates and fish. Stream fragmentation and continuing, damaging land use patterns seemed to exceed the positive effects of restoring isolated stream reaches in these heavily degraded catchments. Catchment-scale management strategies that combine reach-level restoration actions with efforts to improve connectivity are likely to be more successful in degraded riverscapes.

South Dakota↗
USGS2020

Genetic diversity targets and indicators in the CBD post-2020 Global Biodiversity Framework must be improved

The 196 parties to the Convention on Biological Diversity (CBD) will soon agree to a post-2020 global framework for conserving the three elements of biodiversity (genetic, species, and ecosystem diversity) while ensuring sustainable development and benefit sharing. As the most significant global conservation policy mechanism, the new CBD framework has far-reaching consequences- it will guide conservation actions and reporting for each member country until 2050. In previous CBD strategies, as well as other major conservation policy mechanisms, targets and indicators for genetic diversity (variation at the DNA level within species, which facilitates species adaptation and ecosystem function) were undeveloped and focused on species of agricultural relevance. We assert that, to meet global conservation goals, genetic diversity within all species, not just domesticated species and their wild relatives, must be conserved and monitored using appropriate metrics . Building on suggestions in a recent Letter in Science (Laikre et al., 2020) we expand argumentation for three new, pragmatic genetic indicators and modifications to two current indicators for maintaining genetic diversity and adaptive capacity of all species, and provide guidance on their practical use. The indicators are: 1) the number of populations with effective population size above versus below 500, 2) the proportion of populations maintained within species, 3) the number of species and populations in which genetic diversity is monitored using DNA-based methods. We also present and discuss Goals and Action Targets for post-2020 biodiversity conservation which are connected to these indicators and underlying data. These pragmatic indicators and goals have utility beyond the CBD; they should benefit conservation and monitoring of genetic diversity via national and global policy for decades to come.

Biological Conservation↗
USGS2018

Concentrations of environmental DNA (eDNA) reflect spawning salmon abundance at fine spatial and temporal scales

Developing fast, cost-effective assessments of wild animal abundance is an important goal for many researchers, and environmental DNA (eDNA) holds much promise for this purpose. However, the quantitative relationship between species abundance and the amount of DNA present in the environment is likely to vary substantially among taxa and with ecological context. Here, we report a strong quantitative relationship between eDNA concentration and the abundance of spawning sockeye salmon in a small stream in Alaska, USA, where we took temporally- and spatially-replicated samples during the spawning period. This high-resolution dataset suggests that (1) eDNA concentrations vary significantly day-to-day, and likely within hours, in the context of the dynamic biological event of a salmon spawning season; (2) eDNA, as detected by species-specific quantitative PCR probes, seems to be conserved over short distances (tens of meters) in running water, but degrade quickly over larger scales (ca. 1.5 km); and (3) factors other than the mere presence of live, individual fish — such as location within the stream, live/dead ratio, and water temperature — can affect the eDNA-biomass correlation in space or time. A multivariate model incorporating both biotic and abiotic variables accounted for over 75% of the eDNA variance observed, suggesting that where a system is well-characterized, it may be possible to predict species' abundance from eDNA surveys, although we underscore that species- and system-specific variables are likely to limit the generality of any given quantitative model. Nevertheless, these findings provide an important step toward quantitative applications of eDNA in conservation and management.

Alaska↗
USGS2018

Molecular and morphological data reveal non-monophyly and speciation in imperiled freshwater mussels (Anodontoides and Strophitus)

Accurate taxonomic placement is vital to conservation efforts considering many intrinsic biological characteristics of understudied species are inferred from closely related taxa. The rayed creekshell, Anodontoides radiatus (Conrad, 1834), exists in the Gulf of Mexico drainages from western Florida to Louisiana and has been petitioned for listing under the Endangered Species Act. We set out to resolve the evolutionary history of A. radiatus, primarily generic placement and species boundaries, using phylogenetic, morphometric, and geographic information. Our molecular matrix contained 3 loci: cytochrome c oxidase subunit I, NADH dehydrogenase subunit I, and the nuclear-encoded ribosomal internal transcribed spacer I. We employed maximum likelihood and Bayesian inference to estimate a phylogeny and test the monophyly of Anodontoides and Strophitus. We implemented two coalescent-based species delimitation models to test seven species models and evaluate species boundaries within A. radiatus. Concomitant to molecular data, we also employed linear morphometrics and geographic information to further evaluate species boundaries. Molecular and morphological evidence supports the inclusion of A. radiatus in the genus Strophitus, and we resurrect the binomial Strophitus radiatus to reflect their shared common ancestry. We also found strong support for polyphyly in Strophitus and advocate the resurrection of the genus Pseudodontoideus to represent ‘Strophitus’ connasaugaensis and ‘Strophitus’ subvexus. Strophitus radiatus exists in six well-supported clades that were distinguished as evolutionary independent lineages using Bayesian inference, maximum likelihood, and coalescent-based species delimitation models. Our integrative approach found evidence for as many as 4 evolutionary divergent clades within S. radiatus. Therefore, we formally describe two new species from the S. radiatus species complex (Strophitus williamsi and Strophitus pascagoulaensis) and recognize the potential for a third putative species (Strophitus sp. cf. pascagoulaensis). Our findings aid stakeholders in establishing conservation and management strategies for the members of Anodontoides, Strophitus, and Pseudodontoideus.

Alabama, Florida, Louisiana, Mississippi↗
USGS1997

Conservation of Mexican wetlands: role of the North American Wetlands Conservation Act

Mexico's wetlands support a tremendous biological diversity and provide significant natural resource benefits to local communities. Because they are also critical stopover and wintering grounds for much of North America's waterfowl and other migratory birds, Mexico has become an important participant in continental efforts to conserve these resources through the North American Wetlands Conservation Act. Funding from the Act has supported partnerships in a number of Mexico's priority wetlands to conduct data analyses and dissemination, mapping, environmental education, wetland restoration, development of sustainable economic alternatives for local people, and reserve planning and management. These partnerships, with the close involvement of Mexico's Federal Government authority, the Instituto Nacional de Ecologia, have advanced conservation in a uniquely Mexican model that differs from that employed in the United States and Canada.

Wildlife Society Bulletin↗
USGS2025

Integrating climate change, biological invasions, and infectious wildlife diseases

Climate change is likely to affect infectious diseases that are facilitated by biological invasions, with repercussions for wildlife conservation and zoonotic risks. Current invasion management and policy are underprepared for the future risks associated with such invasion-related wildlife diseases. By considering evidence from bioclimatology, invasion biology, and disease research, we illustrate how climate change is anticipated to affect disease agents (parasites and pathogens), hosts, and vectors across the different stages of invasions. We highlight the opportunity to integrate these disciplines to identify the effects of climate change on invasion related wildlife diseases. In addition, shifting to a proactive stance in implementing management and policy, such as by incorporating climate-change effects either into preventative and mitigation measures for biosecurity or with rapid response protocols to limit disease spread and impacts, could help to combat future ecological, economic, and human health risks stemming from invasion-related wildlife diseases.

Frontiers in Ecology and the Environment↗
USGS2016

Increased body mass of ducks wintering in California's Central Valley

Waterfowl managers lack the information needed to fully evaluate the biological effects of their habitat conservation programs. We studied body condition of dabbling ducks shot by hunters at public hunting areas throughout the Central Valley of California during 2006–2008 compared with condition of ducks from 1979 to 1993. These time periods coincide with habitat increases due to Central Valley Joint Venture conservation programs and changing agricultural practices; we modeled to ascertain whether body condition differed among waterfowl during these periods. Three dataset comparisons indicate that dabbling duck body mass was greater in 2006–2008 than earlier years and the increase was greater in the Sacramento Valley and Suisun Marsh than in the San Joaquin Valley, differed among species (mallard [ Anas platyrhynchos ], northern pintail [ Anas acuta ], America wigeon [ Anas americana ], green-winged teal [ Anas crecca ], and northern shoveler [ Anas clypeata ]), and was greater in ducks harvested late in the season. Change in body mass also varied by age–sex cohort and month for all 5 species and by September–January rainfall for all except green-winged teal. The random effect of year nested in period, and sometimes interacting with other factors, improved models in many cases. Results indicate that improved habitat conditions in the Central Valley have resulted in increased winter body mass of dabbling ducks, especially those that feed primarily on seeds, and this increase was greater in regions where area of post-harvest flooding of rice and other crops, and wetland area, has increased. Conservation programs that continue to promote post-harvest flooding and other agricultural practices that benefit wintering waterfowl and continue to restore and conserve wetlands would likely help maintain body condition of wintering dabbling ducks in the Central Valley of California.

California↗
USGS2021

Could climate change benefit invasive snakes? Modelling the potential distribution of the California Kingsnake in the Canary Islands

The interaction between climate change and biological invasions is a global conservation challenge with major consequences for invasive species management. However, our understanding of this interaction has substantial knowledge gaps; this is particularly relevant for invasive snakes on islands because they can be a serious threat to island ecosystems. Here we evaluated the potential influence of climate change on the distribution of invasive snakes on islands, using the invasion of the California kingsnake ( Lampropeltis californiae ) in Gran Canaria. We analysed the potential distribution of L. californiae under current and future climatic conditions in the Canary Islands, with the underlying hypothesis that the archipelago might be suitable for the species under these climate scenarios. Our results indicate that the Canary Islands are currently highly suitable for the invasive snake, with increased suitability under the climate change scenarios tested here. This study supports the idea that invasive reptiles represent a substantial threat to near-tropical regions, and builds on previous studies suggesting that the menace of invasive reptiles may persist or even be exacerbated by climate change. We suggest future research should continue to fill the knowledge gap regarding invasive reptiles, in particular snakes, to clarify their potential future impacts on global biodiversity.

Journal of Environmental Management↗