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USGS2005

Coral disease and health workshop: Coral histopathology II, July 12-14, 2005

The health and continued existence of coral reef ecosystems are threatened by an increasing array of environmental and anthropogenic impacts. Coral disease is one of the prominent causes of increased mortality among reefs globally, particularly in the Caribbean. Although over 40 different coral diseases and syndromes have been reported worldwide, only a few etiological agents have been confirmed; most pathogens remain unknown and the dynamics of disease transmission, pathogenicity and mortality are not understood. Causal relationships have been documented for only a few of the coral diseases, while new syndromes continue to emerge. Extensive field observations by coral biologists have provided substantial documentation of a plethora of new pathologies, but our understanding, however, has been limited to descriptions of gross lesions with names reflecting these observations (e.g., black band, white band, dark spot). To determine etiology, we must equip coral diseases scientists with basic biomedical knowledge and specialized training in areas such as histology, cell biology and pathology. Only through combining descriptive science with mechanistic science and employing the synthesis epizootiology provides will we be able to gain insight into causation and become equipped to handle the pending crisis. One of the critical challenges faced by coral disease researchers is to establish a framework to systematically study coral pathologies drawing from the field of diagnostic medicine and pathology and using generally accepted nomenclature. This process began in April 2004, with a workshop titled Coral Disease and Health Workshop: Developing Diagnostic Criteria co-convened by the Coral Disease and Health Consortium (CDHC), a working group organized under the auspices of the U.S. Coral Reef Task Force, and the International Registry for Coral Pathology (IRCP). The workshop was hosted by the U.S. Geological Survey, National Wildlife Health Center (NWHC) in Madison, Wisconsin and was focused on gross morphology and disease signs observed in the field. A resounding recommendation from the histopathologists participating in the workshop was the urgent need to develop diagnostic criteria that are suitable to move from gross observations to morphological diagnoses based on evaluation of microscopic anatomy. As a continuation of building the foundation and framework for coral disease diagnostics, the CDHC convened the Coral Disease and Health Workshop: Coral Histopathology II in Charleston, South Carolina, July 11-14, 2005. The workshop was hosted by the Department of Pathology and Laboratory Medicine at the Medical University of South Carolina, Charleston, SC which provided expertise, facilities and equipment in support of the workshop. All of the histological slides and related photographs used in the discussions were prepared and supplied by the IRCP. This workshop brought together 15 experts in veterinary and medical pathology and coral biology from national and international research institutes and government laboratories. The mission was to devise a standardized approach to examining microscopic anatomy and pathology of corals and a standardized nomenclature to facilitate accurate descriptions of the microscopic morphology of corals and enhance communication among specialists investigating causes of coral death. 2 The participants of this workshop deliberated for 3 days to refine the nomenclature for gross and microscopic anatomy of corals and systematically described microscopic changes associated with selected coral diseases. The findings and recommendations from the deliberations will be submitted to the research community for peer review. The standardized nomenclature and descriptions produced at this workshop will ultimately be made available to the scientific community through a variety of media including the World Wide Web. An exciting highlight of this meeting was provided by Professor Robert Ogilvie (MUSC Department of Cell Biology and Anatomy) when he introduced participants to a new digital technology that is revolutionizing histology and histopathology in the medical field. The Virtual Slide technology creates digital images of histological tissue sections by computer scanning actual slides in high definition and storing the images for retrieval and viewing. Virtual slides now allow any investigator with access to a computer and the web to view, search, annotate and comment on the same tissue sections in real time. Medical and veterinary slide libraries across the country are being converted into virtual slides to enhance biomedical education, research and diagnosis. The coral health and disease researchers at this workshop deem virtual slides as a significant way to increase capabilities in coral histology and a means for pathology consultations on coral disease cases on a global scale.

NOAA Technical Memorandum↗
USGS2014

Biological soil crusts (biocrusts) as a model system in community, landscape and ecosystem ecology

Model systems have had a profound influence on the development of ecological theory and general principles. Compared to alternatives, the most effective models share some combination of the following characteristics: simpler, smaller, faster, general, idiosyncratic or manipulable. We argue that biological soil crusts (biocrusts) have unique combinations of these features that should be more widely exploited in community, landscape and ecosystem ecology. In community ecology, biocrusts are elucidating the importance of biodiversity and spatial pattern for maintaining ecosystem multifunctionality due to their manipulability in experiments. Due to idiosyncrasies in their modes of facilitation and competition, biocrusts have led to new models on the interplay between environmental stress and biotic interactions and on the maintenance of biodiversity by competitive processes. Biocrusts are perhaps one of the best examples of micro-landscapes—real landscapes that are small in size. Although they exhibit varying patch heterogeneity, aggregation, connectivity and fragmentation, like macro-landscapes, they are also compatible with well-replicated experiments (unlike macro-landscapes). In ecosystem ecology, a number of studies are imposing small-scale, low cost manipulations of global change or state factors in biocrust micro-landscapes. The versatility of biocrusts to inform such disparate lines of inquiry suggests that they are an especially useful model system that can enable researchers to see ecological principles more clearly and quickly.

Biodiversity and Conservation↗
USGS2015

Coastal landforms and processes at the Cape Cod National Seashore, Massachusetts—A primer

Anyone who spends more than a few days on Cape Cod (the Cape) quickly becomes a coastal geologist, quickly learning the rhythms of daily tides and the seasonal cycles of beaches growing and being swept away by storms; swimmers and surfers track how the breakers appear, and dog-walkers notice the hard-packed sand blanketed overnight by an airy layer that leaves deep labored tracks. Careful observers whose paths wander to the ocean’s edge will observe many of the landforms and coastal processes described in this book and if we have done our job well, the stories told here will seem familiar. Watchful experience brings insights; indeed, this is how scientists and perhaps how artists work, describing patterns that explain and predict. When is the next high tide? What will the winter bring? Where do we build, fish, swim? How do wind and waves offshore in the North Atlantic help arrange the plants and dunes and hollows on the beach? And most of all, as human animals drawn to live and play on the edge of the ocean, how do we get the benefits of this complex natural system of geology and biology? How do we affect coastal processes; how is the coast changing now and how is the coast likely to change in years ahead with climate warming and climate change? This book is about the highly dynamic coastal landforms of Cape Cod—the beaches, bluffs, spits, dunes, barrier beaches, estuaries, and salt marshes. What they are, why they are where they are, how they behave with respect to the greater Cape Cod coastal system—how the landforms respond to day-to-day and long-term geologic processes, such as waves and currents, change in sediment transport, relative sea-level rise, and meteorological processes such as hurricanes, nor’easters, and cold front passages. It is also about how the landforms got to be where they are and the way they are and where they are headed in the near future with the predicted effects of global climate warming and change. Our objective is to provide a single source of understandable and readable scientific information for those who live, play, and work on outer Cape Cod and at the Cape Cod National Seashore, as well as to provide an introduction to Cape Cod’s coastal landforms for anyone with an interest in Earth science and nature who wants a better understanding of coastal systems and processes. Basic to an understanding of coastal landforms is the fact that they work together—they interact—as elements of many systems, and therefore our ultimate concern is not the individual landform itself but rather the geologic systems that make up Cape Cod and the Cape Cod National Seashore. Much of this discussion can be applied as well to Nantucket, Martha’s Vineyard, and other coastal regions. The coast of outer Cape Cod, about 15,000 years old and about 30 miles (mi; 50 kilometers [km]) long, is but a tiny piece of the global Earth system that operates within a much larger realm of space and time. Cape Cod’s coastal landforms are temporary holding patterns within a continual interplay of land, sea, atmosphere, climate, ice, and life, including a variety of human activities that both affect and are affected by these processes. These interactions produce the landforms, and the landforms alter the interactions. The resulting landforms provide habitats for a wide variety of coastal plants and animals. The habitats along with their inhabitants and the interacting environmental factors controlling them constitute the Cape’s complex and varied ecosystems. But for now, we are here to enjoy it. We welcome you to delight and wonder at the perpetually changing handshake between the ocean and shore at New England’s Great Beach.

Massachusetts↗
USGS2017

Application of paleoecology to ecosystem restoration: A case study from south Florida’s estuaries

Paleoecological analyses of biotic assemblages from cores collected throughout south Florida’s estuaries indicate gradually increasing salinities over approximately the last 2000 years, consistent with rising sea level. Around the beginning of the twentieth century these gradual patterns of change began to shift, corresponding to the beginning of human alteration of the environment via canal construction, railroad construction and other land use changes. Between 1950 and 1960, at a time of significant construction of water management structures another distinctive shift in the biological assemblages occurred. Analysis of the assemblages provides essential information on long-term patterns of change in the estuaries and provides a basis for predicting future trajectories of change. Paleosalinity estimates derived from the cores are providing input to linear regression models to determine related freshwater flow into the estuaries of south Florida. These analyses are being used to help establish performance measures and targets for the Comprehensive Everglades Restoration, established following an Act of Congress in 2000. Restoration of south Florida’s ecosystems is slated to be a 30–50 year effort that will require detailed knowledge of past decadal to centennial-scale changes in climate, freshwater flow and salinity. This historical perspective provides information that allows land managers to set realistic and sustainable goals for restoration, and provides insight into the potential response of south Florida’s ecosystem to various future scenarios of global change.

Florida↗
USGS2015

Accounting for multiple climate components when estimating climate change exposure and velocity

The effect of anthropogenic climate change on organisms will likely be related to climate change exposure and velocity at local and regional scales. However, common methods to estimate climate change exposure and velocity ignore important components of climate that are known to affect the ecology and evolution of organisms. We develop a novel index of climate change (climate overlap) that simultaneously estimates changes in the means, variation and correlation between multiple weather variables. Specifically, we estimate the overlap between multivariate normal probability distributions representing historical and current or projected future climates. We provide methods for estimating the statistical significance of climate overlap values and methods to estimate velocity using climate overlap. We show that climates have changed significantly across 80% of the continental United States in the last 32 years and that much of this change is due to changes in the variation and correlation between weather variables (two statistics that are rarely incorporated into climate change studies). We also show that projected future temperatures are predicted to be locally novel (<1·5% overlap) across most of the global land surface and that exposure is likely to be highest in areas with low historical climate variation. Last, we show that accounting for changes in the variation and correlation between multiple weather variables can dramatically affect velocity estimates; mean velocity estimates in the continental United States were between 3·1 and 19·0 km yr −1 when estimated using climate overlap compared to 1·4 km yr −1 when estimated using traditional methods. Our results suggest that accounting for changes in the means, variation and correlation between multiple weather variables can dramatically affect estimates of climate change exposure and velocity. These climate components are known to affect the ecology and evolution of organisms, but are ignored by most measures of climate change. We conclude with a set of future directions and recommend future work to determine which measures of climate change exposure and velocity are most related to biological responses to climate change.

Methods in Ecology and Evolution↗
USGS2014

Land-margin ecosystem hydrologic data for the coastal Everglades, Florida, water years 1996-2012

Mangrove forests and salt marshes dominate the landscape of the coastal Everglades (Odum and McIvor, 1990). However, the ecological effects from potential sea-level rise and increased water flows from planned freshwater Everglades restoration on these coastal systems are poorly understood. The National Park Service (NPS) proposed the South Florida Global Climate Change Project (SOFL-GCC) in 1990 to evaluate climate change and the effect from rising sea levels on the coastal Everglades, particularly at the marsh/mangrove interface or ecotone (Soukup and others, 1990). A primary objective of SOFL-GCC project was to monitor and synthesize the hydrodynamics of the coastal Everglades from the upstream freshwater marsh to the downstream estuary mangrove. Two related hypotheses were set forward (Nuttle and Cosby, 1993): 1. There exists hydrologic conditions (tide, local rainfall, and upstream water deliveries), which characterize the location of the marsh/mangrove ecotone along the marine and terrestrial hydrologic gradient; and 2. The marsh/mangrove ecotone is sensitive to fluctuations in sea level and freshwater inflow from inland areas. Hydrologic monitoring of the SOFL-GCC network began in 1995 after startup delays from Hurricane Andrew (August 1992) and organizational transfers from the NPS to the National Biological Survey (October 1993) and the merger with the U.S. Geological Survey (USGS) Biological Research Division in 1996 (Smith, 2004). As the SOFL-GCC project progressed, concern by environmental scientists and land managers over how the diversion of water from Everglades National Park would affect the restoration of the greater Everglades ecosystem. Everglades restoration scenarios were based on hydrodynamic models, none of which included the coastal zone (Fennema and others, 1994). Modeling efforts were expanded to include the Everglades coastal zone (Schaffranek and others, 2001) with SOFL-GCC hydrologic data assisting the ecological modeling needs. In 2002, as a response for a more interdisciplinary science approach to understanding the coastal Everglades ecological system, the SOFL-GCC hydrology project was integrated into the “Dynamics of Land-Margin Ecosystems: Historical Change, Hydrology, Vegetation, Sediment, and Climate” study (Smith and others, 2002). Data from the ongoing study has been useful in providing an empirical hydrologic baseline for the greater Everglades ecosystem restoration science and management needs. The hydrology network consisted of 13 hydrologic gaging stations installed in the southwestern coastal region of Everglades National Park along three transects: Shark River (Shark or SH) transect, Lostmans River (Lostmans or LO) transect, and Chatham River (Chatham or CH) transect (fig. 1). There were five paired surface-water/groundwater gaging stations on the Shark transect (SH1, SH2, SH3, SH4, and SH5) and one stage gaging station (BSC) in the Big Sable Creek; four paired surface-water/groundwater gaging stations on the Lostmans transect (LO1, LO2, LO3, and LO4); and three paired surface-water/groundwater gaging stations on the Chatham transect (CH1, CH2, and CH3). Both surface-water and groundwater levels, salinities, and temperatures were monitored at the paired gaging stations. Rainfall was recorded at marsh and open canopy gaging stations. This report details the study introduction, method, and description of data collected, which are accessible through the final instantaneous hydrologic dataset stored in the USGS South Florida Information Access (SOFIA) South Florida Hydrology Database website, http://sofia.usgs.gov/exchange/sfl_hydro_data/location.html#brdlandmargin .

Florida↗
USGS2022

Environmental filtering controls soil biodiversity in wet tropical ecosystems

The environmental factors controlling soil biodiversity along resource gradients remain poorly understood in wet tropical ecosystems. Aboveground biodiversity is expected to be driven by changes in nutrient availability in these ecosystems, however, much less is known about the importance of nutrient availability in driving soil biodiversity. Here, we combined a cross-continental soil survey across tropical regions with a three decades' field experiment adding nitrogen (N) and phosphorus (P) (100 kg N ha −1 y −1 and 100 kg P ha −1 y −1 ) to Hawai'ian tropical forests with contrasting substrate ages (300 and 4,100,000 years) to investigate the influence of nutrient availability to explain the biodiversity of soil bacteria, fungi, protists, invertebrates and key functional genes. We found that soil biodiversity was driven by soil acidification during long-term pedogenesis and across environmental gradients, rather than by nutrient limitations. In fact, our results showed that experimental N additions caused substantial acidification in soils from Hawai'i. These declines in pH were related to large decreases in soil biodiversity from tropical ecosystems in four continents. Moreover, the microbial activity did not change in response to long-term N and P additions. We concluded that environmental filtering drives the biodiversity of multiple soil organisms, and that the acidification effects associated with N additions can further create substantial undesired net negative effects on overall soil biodiversity in naturally tropical acid soils. This knowledge is integral for the understanding and management of soil biodiversity in tropical ecosystems globally.

Hawai'i↗
USGS2024

Refuge identification as a climate adaptation strategy to promote fish persistence during drought

Climate change is leading to global increases in extreme events, such as drought, that threaten the persistence of freshwater biodiversity. Identification and management of drought refuges, areas that promote resistance and resilience to drought, will be critical for preserving and recovering aquatic biodiversity in the face of climate change and increasing human water use. Although several reviews have addressed the effects of droughts and highlighted the role of refuges, a need remains on how to identify functional refuges that can be used in a drought management framework to support fish assemblages. We synthesize literature on drought refuges and propose a framework to identify and manage functional refuges that incorporate species physiological tolerances, behaviours and life-history strategies. Stream pools, perennial reaches and off-channel habitat were identified as important drought refuges for fish. The ability of refuges to improve species resistance and resilience to drought requires careful consideration of the biology of the target species and targeted management to promote persistence, quality and connectivity of refuges. Case studies illustrate that management of drought refuges can be challenging because of competing demands for water, incomplete knowledge of ecological requirements for target species and the increasing occurrence of multi-year droughts. Climate adaptation is increasingly important, and drought refuges can increase fish resistance and resilience to climate-related drought across the riverscape.

Fish and Fisheries↗
USGS2025

Living with uncertainty: Using multi-model large ensembles to assess emperor penguin extinction risk for the IUCN Red List

Improved methods for identifying species at risk are needed to strengthen climate change vulnerability assessments, as current estimates indicate that up to one million species face extinction due to environmental changes. Integrating multiple sources of uncertainty enhances the robustness of Red List of Threatened Species assessments, providing a more comprehensive understanding of species’ risks. We present a comprehensive framework that incorporates uncertainties, including measurement error, structural uncertainty, natural variability, future climate emissions scenario, and extreme events of sea ice loss, to evaluate the extinction risk of the emperor penguin ( Aptenodytes forsteri ), currently classified as Near-Threatened. We apply three ecological models, one bioclimatic and two metapopulation models, combined with a multi-model large ensemble (MMLE) of climate projections from general circulation models, to conduct a Red List evaluation at both global, regional and colony levels. Our results show that emperor penguins could be classified under a range of Red List categories depending on the ecological model, Intergovernmental Panel on Climate Change (IPCC) climate emissions scenario, and extreme event frequency. Under Criterion A, global classifications vary from Vulnerable to Critically Endangered. Severe declines are projected in the Indian and East Pacific sectors, Dronning Maud Land and the Amundsen-Bellingshausen Sea, with Criterion E indicating that 24% to 100% of colonies meet Endangered status thresholds, depending on huddling thresholds and ecological models. This study represents the first application of an MMLE coupled with an ecological ensemble approach to project climate change impacts on a species, capturing a comprehensive range of uncertainties and offering a framework for improving forecasting and decision-making under climate change.

Biological Conservation↗
USGS2014

Guidelines for use of fishes in research: Revised and expanded

The Guidelines for the Use of Fishes in Research (2014; 2014 Guidelines ), now available through the American fisheries Society (AFS) website and in print from the AFS bookstore, is a resource to aid researchers and regulatory authorities regarding responsible, scientifically valid research on fish and aquatic wildlife. The Guidelines for the Use of Fishes in Field Research (American Society of Ichthyologists and Herpetologists [ASIH] et al. 1987, 1988) emphasized field research and was followed by the 2004 Guidelines including laboratory research topics. Each version of the Guidelines has been jointly endorsed and/or published by the ASIH, the American Institute of Fishery Research Biologists (AIFRB), and AFS--each focusing on the scientific understanding, global conservation, and sustainability of aquatic animals, fisheries, and ecosystems. Changes with time necessitate revisions to make the Guidelines consistent with contemporary practices and scientific literature so to remain relevant as a technical resource. This document provides not only general principles relevant for field and laboratory research endeavors but includes specific requirements for researchers working within the United States and outside of the country. Within the scope of their expertise, the 2014 Uses of Fishers in Research (UFR) Committee members updated and revised sections, resulting in a 90-page 2014 Guidelines having undergone through peer review. As before, topical areas were addressed (see Table of Contents on page 416). Expanded coverage was provided on U.S. and international agencies and programs relevant to research with fishes. The Surgical Procedures and the Marking and Tagging section received special focus by a UFR Subcommittee. Feeds and Feeding and the Administration of Drugs, Biologics and Other Chemicals are just some of the newly added topics. The 2014 Guidelines is user-friendly by way of hyperlinks to external Internet sites, intradocument sections, and tables of acronyms with corresponding terms, low regulatory priority drugs, and Office of International des Epizooties notifiable disease agents. Again, the Institutional Animal Care and Use Committee (IACUC) role is explained, expectations for research are provided, and a brief checklist for IACUC readiness is included. Overall, the ,i>2014 Guidelines is the taxon-specific resource for our professional societies and is a principal document for standards on the care and use of fish and aquatic vertebrates in research.

Fisheries↗
USGS1997

Gradients, vegetation and climate: spatial and temporal dynamics in the Olympic Mountains, USA

The steep environmental gradients of mountains result in the juxtaposition of diverse vegetation associations with narrow ecotones because life zones are compressed. Variation in geologic substrate, landforms, and soils, in combination with steep environmental gradients, create habitat diversity across spatial scales from 10 6 ha to <10 m 2 . This leads to higher biodiversity in a smaller space than in landscapes with less topographic variation. Mountains are often considered to be refuges for biological diversity at the regional scale, although variation in landscape features creates refuges at a fine scale as well. Mountains should also be considered a source of biological diversity, because they provide the germplasm for migration into lowland areas following glacial recession. Many taxa are distributed over a broad range of elevations and habitats, which maximizes the potential to respond to environmental perturbations. Reorganization of species distribution and abundance as a result of climatic change may be impacted considerably by human-caused fragmentation of landscape features, especially at lower elevations. This paper uses palaeoecological and biogeographical data to investigate the spatial and temporal vegetation dynamics of a steep maritime range, the Olympic Mountains (USA). The role of resource management in protecting vegetation in a fragmented landscape is discussed, with emphasis on how to address uncertainties such as climatic change.

Washington↗
USGS2023

The Searsville Lake Site (California, USA) as a candidate Global boundary Stratotype Section and Point for the Anthropocene series

Cores from Searsville Lake within Stanford University’s Jasper Ridge Biological Preserve, California, USA, are examined to identify a potential GSSP for the Anthropocene: core JRBP2018-VC01B (944.5 cm-long) and tightly correlated JRBP2018-VC01A (852.5 cm-long). Spanning from 1900 CE ± 3 years to 2018 CE, a secure chronology resolved to the sub-annual level allows detailed exploration of the Holocene-Anthropocene transition. We identify the primary GSSP marker as first appearance of 239,240 Pu (372–374 cm) in JRBP2018-VC01B and designate the GSSP depth as the distinct boundary between wet and dry season at 366 cm (6 cm above the first sample containing 239,240 Pu) and corresponding to October-December 1948 CE. This is consistent with a lag of 1–2 years between ejection of 239,240 Pu into the atmosphere and deposition. Auxiliary markers include: first appearance of 137 Cs in 1958; late 20th-century decreases in δ 15 N; late 20th-century elevation in SCPs, Hg, Pb, and other heavy metals; and changes in abundance and presence of ostracod, algae, rotifer and protozoan microfossils. Fossil pollen document anthropogenic landscape changes related to logging and agriculture. As part of a major university, the Searsville site has long been used for research and education, serves users locally to internationally, and is protected yet accessible for future studies and communication about the Anthropocene.

California↗
USGS2011

Biological dimensions of tern management-a case study of the least tern in Sonora, Mexico, and a comparative analysis of reproductive investment in terns

Least terns (Sternula antillarum) are threatened by rapid human development on the northern coast of Sonora, Mexico. Terns are bellwethers for changes along the world's coastlines, as their coastal breeding habitat is vulnerable to flooding and development. We conducted targeted ground and aerial surveys for least tern colonies along 160 kilometers of coast, and document our findings on colony sizes at nine sites over 3 years in the first portion of this report. Like many taxa, terns lay larger clutches at higher latitudes. In the second portion of this report, we evaluate least tern breeding lifespan, food availability, and nest predation as potential ecological reasons behind this differing clutch-size pattern. After correcting for phylogenetic relationships, we found that food availability, not breeding lifespan or nest predation rate, was related to reproductive investment across 46 species and populations of terns. We conclude that coastal development may have a greater impact on nesting terns in tropical regions as compared to temperate breeding locations, because global oceanic patterns of decreased food availability reduce reproductive investment in the tropics.

Open-File Report↗
USGS2015

Targeting climate diversity in conservation planning to build resilience to climate change

Climate change is raising challenging concerns for systematic conservation planning. Are methods based on the current spatial patterns of biodiversity effective given long-term climate change? Some conservation scientists argue that planning should focus on protecting the abiotic diversity in the landscape, which drives patterns of biological diversity, rather than focusing on the distribution of focal species, which shift in response to climate change. Climate is one important abiotic driver of biodiversity patterns, as different climates host different biological communities and genetic pools. We propose conservation networks that capture the full range of climatic diversity in a region will improve the resilience of biotic communities to climate change compared to networks that do not. In this study we used historical and future hydro-climate projections from the high resolution Basin Characterization Model to explore the utility of directly targeting climatic diversity in planning. Using the spatial planning tool, Marxan, we designed conservation networks to capture the diversity of climate types, at the regional and sub-regional scale, and compared them to networks we designed to capture the diversity of vegetation types. By focusing on the Conservation Lands Network (CLN) of the San Francisco Bay Area as a real-world case study, we compared the potential resilience of networks by examining two factors: the range of climate space captured, and climatic stability to 18 future climates, reflecting different emission scenarios and global climate models. We found that the climate-based network planned at the sub-regional scale captured a greater range of climate space and showed higher climatic stability than the vegetation and regional based-networks. At the same time, differences among network scenarios are small relative to the variance in climate stability across global climate models. Across different projected futures, topographically heterogeneous areas consistently show greater climate stability than homogenous areas. The analysis suggests that utilizing high-resolution climate and hydrological data in conservation planning improves the likely resilience of biodiversity to climate change. We used these analyses to suggest new conservation priorities for the San Francisco Bay Area.

Ecosphere↗
USGS2012

February 2012 workshop jumpstarts the Mekong Fish Monitoring Network

The Mekong River in Southeast Asia travels through a basin rich in natural resources. The river originates on the northern slope of the world's tallest mountains, the Himalaya Range, and then drops elevation quickly through steep mountain gorges, tumbling out of China into Myanmar (Burma) and the Lao People's Democratic Republic (Lao PDR). The precipitous terrain of Lao PDR and Thailand generates interest in the river and its tributaries for hydropower development. The terrain, soils, water, and climate make it one of the world's most biologically rich regions. The Mekong's bounty is again on display in the Mekong River Delta, where rice production has successfully been increased to high levels making Vietnam second only to Thailand as the world's largest rice exporters. At least 800 fish species contribute to the natural resource bounty of the Mekong River and are the basis for one of the world's most productive fisheries that provide the primary protein source to more than 50 million people. Against this backdrop of rich natural resources, the U.S. Geological Survey (USGS) is working with the consulting firm FISHBIO, colleagues from the international Delta Research and Global Observation Network (DRAGON) Institute, and a broad contingent of Southeast Asian representatives and partners from abroad to increase knowledge of the Mekong River fisheries and to develop the capacity of permanent residents to investigate and understand these fisheries resources. With the Lower Mekong Basin (LMB) region facing the likelihood of significant environmental changes as a result of both human activities and global climate change, enhancing environmental understanding is critical. To encourage cooperation among the LMB scientists and managers in the study of the Mekong River's fisheries, FISHBIO and the USGS, with generous support from the U.S. State Department, hosted a workshop in Phnom Penh, Cambodia, in February 2012. Workshop participants were from Lao PDR, Thailand, Cambodia, and Vietnam. Representatives from the governments, universities, nongovernmental organizations, and the Mekong River Commission discussed current and potential methods and mechanisms of the Mekong Fish Monitoring Network. The goals of the workshop were to determine if the Network and associated databases were of interest and value to the LMB nations, to determine if future fisheries monitoring data would be comparable among the nations, and to establish methods and an organizational structure for collaborating on future monitoring and research. The participants in this international workshop agreed that the Network would be useful but would require additional funding to secure their full participation. The USGS and FISHBIO are collaboratively seeking additional funding to expand research participation and projects in all four LMB nations. If the Network can facilitate cooperation among many fisheries researchers in the LMB, the basin would become a model of cooperative international fishery studies and would increase the understanding of a river basin rich in natural resources.

Phnom Penh↗
USGS2022

Comparison of methods for estimating density and population trends for low-density Asian bears

Populations of bears in Asia are vulnerable to extinction and effective monitoring is critical to measure and direct conservation efforts. Population abundance (local density) or growth (λ ) are the most sensitive metrics to change. We discuss the value in implementing spatially explicit capture-recapture (SCR), the current gold standard for density estimation, and open population SCR (OPSCR) to monitor changes in density over time. We provide guidance for designing studies to provide estimates with sufficient power to detect changes. Because of the wide availability of camera traps and interest in their use, we consider six density estimation methods and their extensions developed for use with camera traps, with specific consideration of assumptions and applications for monitoring Asian bears. We conducted a power analysis to calculate the precision in estimates needed to detect changes in populations with reference to IUCN Red List criteria. We performed a systematic review of empirical studies implementing camera trap abundance estimation methods and considered sample sizes, effort, and model assumptions required to achieve adequate precision for population monitoring. We found SCR and OPSCR, reliant on “marked” individuals, are currently the only methods with enough power to reliably detect even moderate to major (20–80%) declines. Camera trap methods with unmarked individuals rarely achieved precision sufficient to detect even large declines (80–90%), although with some exceptions (e.g., situations with moderate population densities, large number of sampling sites, or inclusion of ancillary local telemetry data. We describe additional estimation options including line transects, direct observations, monitoring age-specific survival and reproductive rates, and hybrid/integrated methodologies that may have potential to work for some Asian bear populations. We conclude monitoring changes in abundance or density is possible for most Asian bear populations but will require collaboration among researchers over broad spatial extents and extensive financial investment to overcome biological and logistical constraints. We strongly encourage practitioners to consider study design and sampling effort required to meet objectives by conducting simulations, power analyses, and assumption checks prior to implementing monitoring efforts, and reporting standardized dispersion measures such as coefficients of variation to allow for assessment of precision. Our guidance is relevant to other low-density and wide-ranging species.

Global Ecology and Conservation↗
USGS2024

Mechanisms, detections, and impacts of species redistributions under climate change

Shifts in species distributions are a common ecological response to climate change, and global temperature rise is often hypothesized as the primary driver. However, the directions and rates of distribution shifts are highly variable across species, systems, and studies, complicating efforts to manage and anticipate biodiversity responses to anthropogenic change. In this Review, we summarize approaches to documenting species range shifts, discuss why observed range shifts often do not match our expectations, and explore the impacts of species range shifts on nature and society. The majority (59%) of documented range shifts are directionally consistent with climate change, based on the BioShifts database of range shift observations. However, many observed species have not shifted or have shifted in directions opposite to temperature-based expectations. These lagging or expectation-contrary shifts might be explained by additional biotic or abiotic factors driving range shifts, including additional non-temperature climatic drivers, habitat characteristics, and species interactions, which are not normally considered in range shift documentations. Understanding and managing range shifts will require increasing and connecting observational biological data, generalizing range shift patterns across systems, and predicting shifts at management-relevant timescales.

Nature Reviews Earth & Environment↗
USGS2022

Global genetic diversity status and trends: Towards a suite of Essential Biodiversity Variables (EBVs) for genetic composition

Biodiversity underlies ecosystem resilience, ecosystem function, sustainable economies, and human well-being. Understanding how biodiversity sustains ecosystems under anthropogenic stressors and global environmental change will require new ways of deriving and applying biodiversity data. A major challenge is that biodiversity data and knowledge are scattered, biased, collected with numerous methods, and stored in inconsistent ways. The Group on Earth Observations Biodiversity Observation Network (GEO BON) has developed the Essential Biodiversity Variables (EBVs) as fundamental metrics to help aggregate, harmonize, and interpret biodiversity observation data from diverse sources. Mapping and analyzing EBVs can help to evaluate how aspects of biodiversity are distributed geographically and how they change over time. EBVs are also intended to serve as inputs and validation to forecast the status and trends of biodiversity, and to support policy and decision making. Here, we assess the feasibility of implementing Genetic Composition EBVs (Genetic EBVs), which are metrics of within-species genetic variation. We review and bring together numerous areas of the field of genetics and evaluate how each contributes to global and regional genetic biodiversity monitoring with respect to theory, sampling logistics, metadata, archiving, data aggregation, modeling, and technological advances. We propose four Genetic EBVs: ( i ) Genetic Diversity; ( ii ) Genetic Differentiation; ( iii ) Inbreeding; and ( iv ) Effective Population Size ( N e ). We rank Genetic EBVs according to their relevance, sensitivity to change, generalizability, scalability, feasibility and data availability. We outline the workflow for generating genetic data underlying the Genetic EBVs, and review advances and needs in archiving genetic composition data and metadata. We discuss how Genetic EBVs can be operationalized by visualizing EBVs in space and time across species and by forecasting Genetic EBVs beyond current observations using various modeling approaches. Our review then explores challenges of aggregation, standardization, and costs of operationalizing the Genetic EBVs, as well as future directions and opportunities to maximize their uptake globally in research and policy. The collection, annotation, and availability of genetic data has made major advances in the past decade, each of which contributes to the practical and standardized framework for large-scale genetic observation reporting. Rapid advances in DNA sequencing technology present new opportunities, but also challenges for operationalizing Genetic EBVs for biodiversity monitoring regionally and globally. With these advances, genetic composition monitoring is starting to be integrated into global conservation policy, which can help support the foundation of all biodiversity and species' long-term persistence in the face of environmental change. We conclude with a summary of concrete steps for researchers and policy makers for advancing operationalization of Genetic EBVs. The technical and analytical foundations of Genetic EBVs are well developed, and conservation practitioners should anticipate their increasing application as efforts emerge to scale up genetic biodiversity monitoring regionally and globally.

Biological Reviews↗