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USGS2007

Hierarchical spatiotemporal matrix models for characterizing invasions

The growth and dispersal of biotic organisms is an important subject in ecology. Ecologists are able to accurately describe survival and fecundity in plant and animal populations and have developed quantitative approaches to study the dynamics of dispersal and population size. Of particular interest are the dynamics of invasive species. Such nonindigenous animals and plants can levy significant impacts on native biotic communities. Effective models for relative abundance have been developed; however, a better understanding of the dynamics of actual population size (as opposed to relative abundance) in an invasion would be beneficial to all branches of ecology. In this article, we adopt a hierarchical Bayesian framework for modeling the invasion of such species while addressing the discrete nature of the data and uncertainty associated with the probability of detection. The nonlinear dynamics between discrete time points are intuitively modeled through an embedded deterministic population model with density-dependent growth and dispersal components. Additionally, we illustrate the importance of accommodating spatially varying dispersal rates. The method is applied to the specific case of the Eurasian Collared-Dove, an invasive species at mid-invasion in the United States at the time of this writing. ?? 2006, The International Biometric Society.

Biometrics↗

USGS2011

Rapid diagnosis of avian influenza virus in wild birds: Use of a portable rRT-PCR and freeze-dried reagents in the field

Wild birds have been implicated in the spread of highly pathogenic avian influenza (HPAI) of the H5N1 subtype, prompting surveillance along migratory flyways. Sampling of wild birds for avian influenza virus (AIV) is often conducted in remote regions, but results are often delayed because of the need to transport samples to a laboratory equipped for molecular testing. Real-time reverse transcriptase polymerase chain reaction (rRT-PCR) is a molecular technique that offers one of the most accurate and sensitive methods for diagnosis of AIV. The previously strict lab protocols needed for rRT-PCR are now being adapted for the field. Development of freeze-dried (lyophilized) reagents that do not require cold chain, with sensitivity at the level of wet reagents has brought on-site remote testing to a practical goal. Here we present a method for the rapid diagnosis of AIV in wild birds using an rRT-PCR unit (Ruggedized Advanced Pathogen Identification Device or RAPID, Idaho Technologies, Salt Lake City, UT) that employs lyophilized reagents (Influenza A Target 1 Taqman; ASAY-ASY-0109, Idaho Technologies). The reagents contain all of the necessary components for testing at appropriate concentrations in a single tube: primers, probes, enzymes, buffers and internal positive controls, eliminating errors associated with improper storage or handling of wet reagents. The portable unit performs a screen for Influenza A by targeting the matrix gene and yields results in 2-3 hours. Genetic subtyping is also possible with H5 and H7 primer sets that target the hemagglutinin gene. The system is suitable for use on cloacal and oropharyngeal samples collected from wild birds, as demonstrated here on the migratory shorebird species, the western sandpiper (Calidrus mauri) captured in Northern California. Animal handling followed protocols approved by the Animal Care and Use Committee of the U.S. Geological Survey Western Ecological Research Center and permits of the U.S. Geological Survey Bird Banding Laboratory. The primary advantage of this technique is to expedite diagnosis of wild birds, increasing the chances of containing an outbreak in a remote location. On-site diagnosis would also prove useful for identifying and studying infected individuals in wild populations. The opportunity to collect information on host biology (immunological and physiological response to infection) and spatial ecology (migratory performance of infected birds) will provide insights into the extent to which wild birds can act as vectors for AIV over long distances.

Journal of Visualized Experiments↗

USGS2017

Food-web structure in canyon and slope-associated fauna revealed by stable isotopes

Food webs and associated trophic linkages among organisms are central themes in ecology that provide insight into the structure and function of ecosystems. In the deep sea, food webs rely on particulate flux raining from surface waters for energy (Klages et al. 2003), except for chemosynthetic communities, which rely on in situ production via chemosynthesis (Van Dover 2007). In general, the deep sea is a food limited environment because only a small percentage of organic carbon produced in surface waters settles to the seafloor (Gage and Tyler 1991, Klages et al. 2003, De La Rocha and Passow 2007). In contrast, relative to more quiescent slope environments, canyons can experience dynamic flow and turbulence. Internal tides can enhance turbulent mixing near the canyon seafloor leading to resuspension of sediments. Channeling of organic matter in deepsea canyons can enhance benthic productivity leading to high biodiversity (Vetter and Dayton 1998, 1999) and trophic complexity (Stefanescu et al. 1994, Cartes and Sorbe 1999). Thus, there may be a decoupling between the benthic-productivity relationships in canyon environments where food limitation may not be a driving factor influencing community structure. However, there have been only a few studies, often limited in depth range and spatial scale, that have examined the trophic pathways of deepsea canyons relative to adjacent slope environments (Duineveld et al. 2001, Fanelli et al. 2009, Cartes et al. 2010, Jeffreys et al. 2011).

OCS Study↗

USGS2020

Book review: Proceedings of the First International Snakehead Symposium

Snakehead fishes (family Channidae) are among the most maligned aquatic invasive species in the USA and some other countries where they have been introduced outside of their native range in Asia and Africa. Nevertheless, snakeheads continue to be widely exploited in the live‐food trade in aquaculture and wild‐capture fisheries, are highly sought by anglers, and are also popular in the aquarium trade (Courtenay and Williams 2004). The Northern Snakehead Channa argus is the most widespread of the three channid species that are currently naturalized in the USA. This species has generated much concern and controversy, a situation that is partly fueled by sensational media coverage and B‐grade science fiction horror films, such as “Frankenfish,” “Snakehead Terror,” and “Snakehead Swamp.” Media reports of snakehead introductions are often replete with provocative terms, such as “vicious,” “villain,” “voracious,” “monster,” “diabolical,” and even “ecological Armageddon.” When snakeheads first appeared in natural waters of the USA, fisheries professionals became increasingly interested in their status. Established populations rapidly expanded in the mid‐Atlantic region and Arkansas, with scattered reports of introduced snakeheads from isolated locations in Hawaii, California, North Carolina, Florida, the Upper Midwest, and New England. In 2002, snakeheads were added to the list of injurious fishes under the Lacey Act, thereby prohibiting their importation or transport across state lines without a permit. This symposium was conceived by the editors and other concerned fisheries professionals of the Mississippi River Basin Panel on Aquatic Invasive Species. The mission of the symposium, held in Alexandria, Virginia, in July 2018, was to bring together experts on snakehead biology and ecology and to synthesize existing information into summary papers. In this book, 35 authors contributed to 15 peer‐reviewed articles that detail the current state of knowledge about snakehead introductions in the USA. Additionally, 16 abstracts are included from meeting presentations that were not accompanied by full‐length manuscripts. Also included is a summary of a facilitated symposium panel discussion featuring eight experts representing state and federal natural resource agencies and private fishing organizations. The book is organized into six sections. In the first section (Distribution), three papers provide an overview of the Channa species introduced into the USA and historical accounts of occurrence and dispersal of the Northern Snakehead in the mid‐Atlantic region and Arkansas. The second section (Biology/Ecology) consists of two articles that examine growth and energetics of Northern Snakehead populations and two papers that investigate diet, diel feeding activity, and movement of this species in the Potomac River drainage. The third section (Monitoring/Response) includes a paper that models range expansion of the Northern Snakehead in the southeastern USA based on occurrence data and environmental conditions. Also included in this section is a paper summarizing an environmental DNA study to assess the status and range of the Bullseye Snakehead C. marulius in southern Florida. The fourth section (Management/Control) is comprised of four papers that address harvest, age and growth, and development of a stock–recruitment model to inform management decisions regarding control and mitigation for Northern Snakehead populations in the greater Chesapeake Bay area. The fifth section (Perspectives) includes a paper on the history of snakehead introductions in Japan and a thought‐provoking social commentary on the human dimensions of Northern Snakehead management. Abstracts in the final section provide brief summaries of a diversity of snakehead studies, including aspects of distribution, ecology, behavior, control and monitoring efforts, public outreach, and pathology. The summary of the panel discussion is an engaging dialogue about the challenges of snakehead management in the context of conflicts regarding snakeheads as injurious versus their value as game and food species. Most of this book is focused on the Northern Snakehead. Much has been done to document snakehead distributions and certain aspects of snakehead biology, such as diets, age, and growth. Less research has been devoted to understanding the ecological impacts of snakeheads to native aquatic communities and ecosystems. This book would have benefited from a chapter summarizing the current systematics and diversity of the Channidae to inform fisheries biologists about the morphological characteristics of the family, approximate numbers of genera and species, and taxonomic instability. Exemplifying the latter, recent molecular and morphological evidence indicates uncertainty regarding identification of the feral snakehead population in Florida (Adamson and Britz 2019). Those authors suggest that this population may have originated from western Thailand, a possibility that could have implications for understanding historical pathways of snakehead introductions into the USA. In comparison with many published AFS symposia, this volume is relatively narrow in scope and lacks cohesive integration. It will primarily be of interest to those fisheries professionals engaged in the study of snakeheads as well as other nonnative species for which there are contrasting social values regarding their management: whether to monitor and attempt control or eradication efforts or to maintain populations for harvest as game or food species. The book should serve to identify information gaps and guide future research.

Transactions of the American Fisheries Society↗

USGS2012

U.S. Geological Survey, National Wildlife Health Center, 2011 report of selected wildlife diseases

The National Wildlife Health Center (NWHC) was founded in 1975 to provide technical assistance in identifying, controlling, and preventing wildlife losses from diseases, conduct research to understand the impact of diseases on wildlife populations, and devise methods to more effectively manage these disease threats. The impetus behind the creation of the NWHC was, in part, the catastrophic loss of tens of thousands of waterfowl as a result of an outbreak of duck plague at the Lake Andes National Wildlife Refuge in South Dakota during January 1973. In 1996, the NWHC, along with other Department of Interior research functions, was transferred from the U.S. Fish and Wildlife Service to the U.S. Geological Survey (USGS), where we remain one of many entities that provide the independent science that forms the bases of the sound management of the Nation’s natural resources. Our mission is to provide national leadership to safeguard wildlife and ecosystem health through dynamic partnerships and exceptional science. The main campus of the NWHC is located in Madison, Wis., where we maintain biological safety level 3 (BSL–3) diagnostic and research facilities purposefully designed for work with wildlife species. The NWHC provides research and technical assistance on wildlife health issues to State, Federal, and international agencies. In addition, since 1992 we have maintained a field station in Hawaii, the Honolulu Field Station, which focuses on marine and terrestrial natural resources throughout the Pacific region. The NWHC conducts diagnostic investigations of unusual wildlife morbidity and mortality events nationwide to detect the presence of wildlife pathogens and determine the cause of death. This is also an important activity for detecting new, emerging and resurging diseases. The NWHC provides this crucial information on the presence of wildlife diseases to wildlife managers to support sound management decisions. The data and information generated also allows for further indepth analyses for determining the biological and ecological significance of disease events, detecting disease trends over time and space, as well as detecting any significant changes to how diseases manifest in the field. Moreover, this information allows us to gain insight into the significance of future wildlife disease events. The purpose of this report is to provide a sample of NWHC data that are available from our Laboratory Information Management System (LIMS). These data are presented in summary format with minimal statistical analysis and interpretation. The goal is to share these data with wildlife managers and other stakeholders, promote the use of NHWC data, and encourage the sharing of wildlife disease data to improve temporal and geographic surveillance coverage. Continued national surveillance for wildlife diseases is essential for providing early detection and warning of events that have the potential to result in harm to human health, economic losses, declines in wildlife populations, and subsequent ecological disturbances. Increased collaboration, coordination, and sharing of surveillance data will enhance this Nation’s ability to detect and respond to wildlife disease threats.

Scientific Investigations Report↗

USGS2001

Transboundary movement of airborne pollutants — A methodology for integrating spaceborne images and ground based data

The availability of relevant and accurate environmental information is essential for environmental policy-makers. Recent improvements in satellite remote sensing technologies, groundbased monitors, and data access have resulted in the ability to observe and assess major atmospheric and ecological events around the world on a timely basis Each of these monitoring technologies reveals different and useful information, yet rarely are the resulting data sets used together in an integrated manner. The U.S. Environmental Protection Agency (EPA) and the United Nations Environment Programme (UNEP) Global Resource Information Database (GRID) office in Sioux Falls identified an environmental issue of global interest as a test case for applying an integrated approach: the transboundary movement of atmospheric pollutants. Transboundary movement of atmospheric pollutants has ramifications for human and environmental health, as well as economic impacts. As a result, it is the focus of many bilateral, regional, and international policy efforts. A central question with atmospheric pollutant transport is how to monitor pollutant movement and how to merge different monitoring datasets into useful information. Highly visible regional plumes of dust, smoke, and urban haze can be seen with satellite sensors, while ground-based monitoring of air pollutants such as fine particulates, SO2 , and toxics occurs at the local level. Integration of these two kinds of measurements allows the user to remotely observe large environmental effects in many areas of the world, while obtaining more detailed information from ground-based monitors. Hence, the combination of satellite-based sensor data and ground-based monitoring data promotes greater understanding of the movement of pollutants than either data set alone. Combined data sets are important for use by both scientists and international policy-makers. A standard methodology did not exist to guide and encourage integrated use of satellite images and ground-based data to monitor and understand major pollution events, such as air pollution. Thus, a small team was assembled to develop a methodology for the integration of satellite images and ground-based data. First, we conducted a literature and project review covering past and current integrated remote and ground-based data projects, a literature search of published work, and a search of data sets and technologies that could be used in a combined form. Second, based on this search and documentation, a general methodology was developed for using integrated spaceborne and ground-based data sets, intended as a guide for general scientists and policy-makers. Third, we found an existing project that was willing to be a pilot for testing the methodology: a U.S. EPANOAA project that was using aerial and ground-based sampling to learn more about the airborne sources of mercury deposition in the Florida Everglades. This document presents the results of the literature and project review, the complete methodology, and the outcome of the Florida Everglades pilot project.

Report↗

USGS2010

Relationship between fibropapillomatosis and environmental quality: A case study with Chelonia mydas off Brazil

We documented the presence of fibropapillomatosis (FP), a debilitating tumor-forming disease, in marine turtles in Espírito Santo Bay (Brazil) from March 2007 to April 2008, and assessed the value of a specific environmental index for predicting the prevalence of FP. Turtles were captured monthly with entanglement nets and scored for presence and severity of FP. For the assessment of habitat quality, we used the ecological evaluation index (EEI) based on benthic macrophytes. The FPfree control area was classified as good quality (EEI = 8) and the study area, with high FP prevalence, was classified as bad quality (EEI = 2). Prevalence of FP in the study area was 58.3% with an average of 40 tumors per individual, and prevalence varied positively with curved carapace length (CCL). No FP was seen in the control area. The number of turtles heavily afflicted (tumor score category 3) was 10 times larger than those lightly affected (tumor score category 1). Most tumors were found on or near the front and rear flippers; no oral tumors or internal tumors were found. At recapture, 41% of formerly tumor-free turtles revealed FP, often increasing in severity with time, and very few turtles showed signs of disease regression. From the results of this study we concluded that FP is particularly severe in Espírito Santo Bay. Future studies should focus on evaluating how widespread FP is in Brazil, whether prevalence is increasing or decreasing, and elucidating the pathology and pathogenesis of FP in sea turtles in Brazil.

Diseases of Aquatic Organisms↗

USGS2018

A comparison of the chemical sensitivities between in vitro and in vivo propagated juvenile freshwater mussels: Implications for standard toxicity testing

Unionid mussels are ecologically important and are globally imperiled. Toxicants contribute to mussel declines, and toxicity tests using juvenile mussels—a sensitive life stage—are valuable in determining thresholds used to set water quality criteria. In vitro culture methods provide an efficient way to propagate juveniles for toxicity testing, but their relative chemical sensitivity compared with in vivo propagated juveniles is unknown. Current testing guidelines caution against using in vitro cultured juveniles until this sensitivity is described. Our objective was to evaluate the relative sensitivity of juvenile mussels produced from both in vitro and in vivo propagation methods to selected chemicals. We conducted 96-h acute toxicity tests according to ASTM International guidelines with 3 mussel species and 6 toxicants: chloride, nickel, ammonia, and 3 copper-based compounds. Statistically significant differences between in vitro and in vivo juvenile 96-h median effect concentrations were observed in 8 of 17 tests, and in vitro juveniles were more sensitive in 6 of the 8 significant differences. At 96 h, 4 of the 8 statistically different tests for a given chemical were within a factor of 2, which is the intralaboratory variation demonstrated in a recent evaluation of mussel toxicity tests. We found that although differences in chemical sensitivity exist between in vitro and in vivo propagated juvenile mussels, they are within normal toxicity test variation. Therefore, in vitro propagated juvenile mussels may be appropriate for use in ASTM International-based toxicity testing.

Environmental Toxicology and Chemistry↗

USGS2022

Analysis of provisioning ecosystem services and perceptions of climate change for indigenous communities in the Western Himalayan Gurez Valley, Pakistan

Climate change is a significant threat to people living in mountainous regions. It is essential to understand how montane communities currently depend especially on the provisioning ecosystem services (ES) and the ways in which climate change will impact these services, so that people can develop relevant adaptation strategies. The ES in the Gurez Valley, in the Western Himalayas of Pakistan, provide a unique opportunity to explore these questions. This understudied area is increasingly exposed not only to climate change but also to the overexploitation of resources. Hence, this study aimed to (a) identify and value provisioning ES in the region; (b) delineate indigenous communities’ reliance on ES based on valuation; and (c) measure the perceptions of indigenous communities of the impact of climate change on the ES in Gurez Valley. Semi-structured interviews and focus group discussions were used to classify the provisioning ES by using the ‘Common International Classification on Ecosystem Services’ (CICES) table and applying the ‘Total Economic Valuation (TEV)’ Framework. Results indicate that the indigenous communities are highly dependent on ES, worth 6730 ± 520 USD/Household (HH)/yr, and perceive climate change as a looming threat to water, crops, and rearing livestock ESS in the Gurez Valley. The total economic value of the provisioning ES is 3.1 times higher than a household’s average income. Medicinal plant collection is a significant source of revenue in the Valley for some households, i.e., worth 766 ± 134.8 USD/HH/yr. The benefits of the sustainable use of ES and of climate change adaptation and mitigation, are culturally, economically, and ecologically substantial for the Western Himalayans.

Gurez Valley, Himalaya↗

USGS2005

Effects of physical processes on structure and transport of thin zooplankton layers in the coastal ocean

Thin layers of plankton are recurrent features in a variety of coastal systems. These layers range in thickness from a few centimeters to a few meters. They can extend horizontally for kilometers and have been observed to persist for days. Densities of organisms found within thin layers are far greater than those above or below the layer, and as a result, thin layers may play an important role in the marine ecosystem. The paramount objective of this study was to understand the physical processes that govern the dynamics of thin layers of zooplankton in the coastal ocean. We deployed instruments to measure physical processes and zooplankton distribution in northern Monterey Bay; during an 11 d period of persistent upwelling-favorable winds, 7 thin zooplankton layers were observed. These zooplankton layers persisted throughout daylight hours, but were observed to dissipate during evening hours. These layers had an average vertical thickness of 1.01 m. No layers were found in regions where the Richardson number was <0.25. In general, when the Richardson number is <0.25 the water column is unstable, and incapable of supporting thin layers. Thin zooplankton layers were also located in regions of reduced flow. In addition, our observations show that the vertical depth distribution of thin zooplankton layers is modulated by high-frequency internal waves, with periods of 18 to 20 min. Results from this study clearly show an association between physical structure, physical processes and the presence of thin zooplankton layers in Monterey Bay. With this new understanding we may identify other coastal regions that have a high probability of supporting thin layers.

Marine Ecology Progress Series↗

USGS2016

San Pedro River Aquifer Binational Report

The United States and Mexico share waters in a number of hydrological basins and aquifers that cross the international boundary. Both countries recognize that, in a region of scarce water resources and expanding populations, a greater scientific understanding of these aquifer systems would be beneficial. In light of this, the Mexican and U.S. Principal Engineers of the International Boundary and Water Commission (IBWC) signed the “Joint Report of the Principal Engineers Regarding the Joint Cooperative Process United States-Mexico for the Transboundary Aquifer Assessment Program" on August 19, 2009 (IBWC-CILA, 2009). This IBWC “Joint Report” serves as the framework for U.S.-Mexico coordination and dialogue to implement transboundary aquifer studies. The document clarifies several details about the program such as background, roles, responsibilities, funding, relevance of the international water treaties, and the use of information collected or compiled as part of the program. In the document, it was agreed by the parties involved, which included the IBWC, the Mexican National Water Commission (CONAGUA), the U.S. Geological Survey (USGS), and the Universities of Arizona and Sonora, to study two priority binational aquifers, one in the San Pedro River basin and the other in the Santa Cruz River basin. This report focuses on the Binational San Pedro Basin (BSPB). Reasons for the focus on and interest in this aquifer include the fact that it is shared by the two countries, that the San Pedro River has an elevated ecological value because of the riparian ecosystem that it sustains, and that water resources are needed to sustain the river, existing communities, and continued development. This study describes the aquifer’s characteristics in its binational context; however, most of the scientific work has been undertaken for many years by each country without full knowledge of the conditions on the other side of the border. The general objective of this study is to use new and existing research to define the general hydrologic framework of the Binational San Pedro Aquifer (BSPA), to gather hydrogeological and other relevant data in preparation for future work such as an updated groundwater conceptual model and budget and to establish the basis for a binational numerical model. The specific objectives are as follows: Understand the current state of knowledge with respect to climate, geology, soils, land cover, land use, and hydrology of the aquifer in its binational context; Compile and create a database of scientific information from both countries; Identify data gaps and identify what data would be necessary to update, in a subsequent phase, the hydrologic model of the aquifer system, including surface- and groundwater interactions on a binational level. The BSPB is one of the most studied basins in the region, and a database of publications has been compiled as part of this project. Previous studies include topics that range from geophysics and hydrogeology to biology and ecosystem services. The economic drivers on each side of the border are quite different. In the Arizona 4 portion of the basin military and tourism dominate while in the Sonoran portion, mining is the most important industry. Water management is also different in the two countries. In Mexico, primary authority for management of water resources devolves from the federal government. In the United States, primary authority rests with the states except in cases of interstate surface waters. Binational waters are not currently jointly managed by the two countries except in cases where treaties have been negotiated such as for the Rio Grande and Colorado Rivers. Thus, there is currently no binational coordination or treaty governing the management of groundwater.

Report↗

USGS2020

Smallmouth buffalo (Ictiobus bubalus) growth across a 1200km human use and ecological disturbance gradient in the Upper Mississippi River System

Smallmouth buffalo (Ictiobus bubalus) is a common and widely distributed large-bodied species of the family Catostomidae. It inhabits large rivers and reservoirs of the eastern continental United States (east of the continental Divide) and is most abundant and common in the large rivers of the Midwest and Central Plains, though it does occur as far north and east as the Hudson Bay drainage and as far south and west as Arizona (Edwards and Twoney 1982). Historically, smallmouth buffalo were an important component of commercial fisheries on both the Mississippi and Illinois Rivers. However, following the introduction of common carp (Cyprinus carpio) in the mid-1800s (Carlander 1954), the construction of a system of navigation dams on Upper Mississippi and Illinois River in the 1930s (USGS 1999), and water quality/pollution issues through the 1980s (Weiner 2010), the role of smallmouth buffalo in the overall UMRS fish community and commercial fishery has generally diminished relative to historical standards. Still, smallmouth buffalo remains an important and valued component of the UMRS commercial fishery. The study area is represented by three study reaches on the Illinois River and three study reaches on the Upper Mississippi River (Figure 1). Collectively, these study reaches represent nearly 1200 river km and exist across strong and pronounced ecological and disturbance gradients. For example, habitat composition, water quality, commercial navigation intensity, aquatic plant prominence, and the number and abundance of nonnative fish species vary strongly across the study domain, with northern Mississippi River reaches exhibiting less navigation traffic, better water quality, markedly greater aquatic plant prominence, more diverse habitat composition, and comparably much smaller numbers of nonnative species than the lower Mississippi River study reach and those on the Illinois River (USGS 1999; Johnson and Hagerty [eds] 2008; Irons et al. 2009). Long term monitoring efforts conducted under the auspices of the Upper Mississippi River Restoration program over the past 27 years have provided tremendous insights into shifts and changes of the overall UMRS fish community (Ickes et al. 2005; Garvey et al. 2010; Schramm and Ickes 2016). However, these monitoring efforts observe only the most basic aspects of the UMRS fish community (i.e., catch, length, weight, distribution, and occurrence). To gain a greater understanding of forces driving community level shifts and changes, more directed study is needed on the functional attributes of fish populations (i.e., growth, mortality, recruitment). Collectively, these functional attributes of populations are termed population dynamics and/or vital rates. It is important to note, the population dynamics of fishes in large rivers is generally poorly understood, especially for non-game species (Ickes 2018). The prevailing view is that abiotic factors largely govern inter-annual population dynamics, typically based upon rather short-term observations and correlations with assorted abiotic river attributes that vary on a seasonal or annual basis (for example, Risotto and Turner 1985). However, the role that longer-term abiotic factors play in regulating population abundance, or that biotic factors internal to the population (e.g., spawner-recruit dynamics, growth dynamics) or external to the population (e.g., predator-prey dynamics, sympatric competitors, disease) remain poorly understood. Achieving a greater understanding of these dynamics is important for stock, game, and invasive species management. In 2017, as part of a larger study designed to gain vital population rate information for smallmouth buffalo in the Upper Mississippi and Illinois Rivers (“Smallmouth Buffalo population demographics of the Upper Mississippi River System”; UMRR LTRM 2018SOW project items 2018MMBF1-2018MMBF6) annual growth patterns in smallmouth buffalo were determined and evaluated. This was accomplished by measuring growth histories recorded in annual growth increments on hard bony parts (here otoliths), a method known generically as biochronology, and somewhat analogous to dendrochronology practiced by foresters. These methods allow one to generate time-series of annual growth histories that depend upon age, year class (i.e., cohort), and annual environmental conditions experienced by the population over time (Weisberg, 1993). Biochronology methods were used to develop a 36-year time series of smallmouth buffalo growth in the Upper Mississippi and Illinois Rivers across a 1200 km ecological and human use disturbance gradient. Annual growth intervals were identified and measured from otoliths to determine fish age and growth history. A mixed model that parses the growth increment into age and year effects was fit to these data. Given the pronounced ecological and disturbance gradients inherent to the UMRS and the study domain, an a priori expectation of differing patterns in growth is accepted as a null hypothesis to test. The goal of this study was to model smallmouth buffalo growth as a function of the age of the fish and the growth year in which the growth was gained. The primary modeling objective was to parse growth observed on each annulus into a portion attributable to the age of the fish and the portion attributable to the year in which the growth was gained. In effect, this modeling approach removes the somewhat trivial age effects on growth so that a non-confounded growth year effect can be gained. Results attributable to growth year provide a time series of growth information that is of the same duration as the oldest fish observed and solely reflects environmental influences on growth. These model responses can then be investigated relative to environmental covariate time-series suspected of influencing growth of smallmouth buffalo in the Upper Mississippi and Illinois Rivers (e.g., temperature, discharge, population density, population mortality, forage availability, sympatric competition, habitat composition, navigation intensity, nonnative fish prominence, etc.). Thus, the primary scientific objective was to investigate if and how smallmouth buffalo growth varies in accordance with innate ecological and disturbance gradients across the study domain.

Illinois, Iowa, Minnesota, Missouri, Wisconsin↗

USGS2020

Agricultural land-use change alters the structure and diversity of Amazon riparian forests

Riparian forests play key roles in protecting biodiversity and water resources , making them priorities for conservation in human-dominated landscapes, but fragmentation associated with expanding tropical croplands threatens their ecological integrity. We compared the structure of tropical riparian forests within intact and cropland catchments in a region of intensive soybean production in the southeastern Brazilian Amazon. We studied forest plots (varying from 120 to 210 m long) that bisected riparian zone forests and headwater streams in ten catchments. Four plots were within large areas of intact primary forest and six were in bands of protected riparian forest along streams within croplands as required by the Brazilian Forest Code. We found that riparian forests in croplands harbored fewer species of trees and seedlings/saplings, and had higher proportions of opportunistic, pioneer tree species. We also found greater variation in tree species composition, and higher internal dissimilarity in croplands compared with forests. The observed patterns in tree species composition were driven mainly by differences between riparian forest-cropland edges and those bordering intact upland forests. Forests nearest to streams in cropland and forested catchments were more similar to one another. Results suggest that wider buffers are needed at the edges of croplands to maintain riparian forest structure. The minimum 30-m riparian buffers now required by the Brazilian Forest Code may thus be insufficient to prevent long-term shifts in riparian forest species composition and structure.

Biological Conservation↗

USGS2022

Multidecadal trends in body size of Puget Sound Chinook Salmon: Analysis of data from the Tengu Derby, a culturally unique fishery

In Pacific salmon Oncorhynchus spp., downward trends in size and abundance have been reported for species and stocks for over 40 years, but the patterns are inconsistent among regions and species. Interpretation of these trends is complicated by many possible contributing factors, including short time series, data comprising a mix of stocks, and varying gear types. Here, we present data on the mass of individual Chinook Salmon Oncorhynchus tshawytscha caught in the winter from 1946 to 2019 in central Puget Sound, Washington, by participants in what may be the longest running Pacific salmon derby in North America, the Tengu Derby. In this annual recreational fishing competition, established by Japanese Americans immediately after release from internment camps at the end of World War II, participants follow strict gear, area, and methods regulations and catch almost exclusively salmonids originating from and remaining in Puget Sound. Records revealed an overall decline in fish mass over the decades, with a high degree of variability throughout the time series. Specifically, resident Chinook Salmon exhibited several shifts, including a decrease in size from a high in the 1950s to a low around 1980, followed by an increase to another high around 1990 and then a decline over the most recent 30 years. These size trends of residents differed from those of Puget Sound Chinook Salmon as a whole. We infer that the resident fish experienced ecological conditions affecting their growth that were distinct from those of fish feeding along the Pacific Ocean in the same periods. These distinct trends in size of Chinook Salmon from common origins indicate that the different migration patterns of fish within stocks must be considered in the analysis and interpretation of body size trends and also in patterns of survival.

Washington↗

USGS2025

Sinoatrial contracaeciasis in Johnny Darters ( Etheostoma nigrum ) and Plains Topminnow ( Fundulus sciadicus ) from the South Platte drainage, Colorado

Intra-sinoatrial nematodes were incidentally recognized in wild-caught Colorado Johnny Darters ( Etheostoma nigrum , JD) in 2020–2021 and in Colorado Plains Topminnow ( Fundulus sciadicus , PTM) in 2023-2024. PTM and JD were evaluated histologically. Nematodes dissected from PTM were used for morphologic evaluation and molecular identification. The first and second internal transcribed spacers (ITS1 and ITS2) of ribosomal DNA were sequenced. Sinoatrial nematodes were found in two of 1232 JD (0.2%) and nine of 110 PTM (8.2%). Worms caused dilation or aneurysm of the sinus venosus. One JD had severe sinus venosus phlebitis. Morphologic, histologic and molecular features were diagnostic for Contracaecum spp. This is the first identification of larval Contracaecum in PTM, the first record of an intravascular nematode in this species, and the first documentation of vascular localization of Contracaecum larvae in JD. Vascular pathology could result in increased susceptibility to predation and favour the completion of the nematode life cycle. Parasites could become detrimental to population survival, especially those that are stressed by ecological and anthropogenic factors.

Colorado↗

USGS2024

Potential for spatial coexistence of a transboundary migratory species and wind energy development

Global expansion in wind energy development is a notable achievement of the international community’s effort to reduce carbon emissions during energy production. However, the increasing number of wind turbines have unintended consequences for migratory birds and bats. Wind turbine curtailment and other mitigation strategies can reduce fatalities, but improved spatial and temporal data are needed to identify the most effective way for wind energy development and volant migratory species to coexist. Mexican free-tailed bats ( Tadarida brasiliensis mexicana ) account for a large proportion of known bat fatalities at wind facilities in the southwestern US. We examined the geographic concordance between existing wind energy generation facilities, areas of high wind potential amenable for future deployment of wind facilities, and seasonally suitable habitat for these bats. We used ecological niche modeling to determine species distribution during each of 4 seasons. We used a multi-criteria GIS-based approach to produce a wind turbine siting suitability map. We identified seasonal locations with highest and lowest potential for the species’ probability of occurrence, providing a potential explanation for the higher observed fatalities during fall migration. Thirty percent of 33,606 wind turbines within the southwestern US occurred in highly suitable areas for Mexican free-tailed bats, primarily in west Texas. There is also broad spatial overlap between areas of high wind potential and areas of suitable habitat for Mexican free-tailed bats. Because of this high degree of overlap, our results indicate that post-construction strategies, such as curtailing the timing of operations and deterrents, would be more effective for bat conservation than strategic siting of new wind energy installations.

Scientific Reports↗

USGS2009

LANDFIRE: A nationally consistent vegetation, wildland fire, and fuel assessment

LANDFIRE is a 5-year, multipartner project producing consistent and comprehensive maps and data describing vegetation, wildland fuel, fire regimes and ecological departure from historical conditions across the United States. It is a shared project between the wildland fire management and research and development programs of the US Department of Agriculture Forest Service and US Department of the Interior. LANDFIRE meets agency and partner needs for comprehensive, integrated data to support landscape-level fire management planning and prioritization, community and firefighter protection, effective resource allocation, and collaboration between agencies and the public. The LANDFIRE data production framework is interdisciplinary, science-based and fully repeatable, and integrates many geospatial technologies including biophysical gradient analyses, remote sensing, vegetation modelling, ecological simulation, and landscape disturbance and successional modelling. LANDFIRE data products are created as 30-m raster grids and are available over the internet at www.landfire.gov , accessed 22 April 2009. The data products are produced at scales that may be useful for prioritizing and planning individual hazardous fuel reduction and ecosystem restoration projects; however, the applicability of data products varies by location and specific use, and products may need to be adjusted by local users.

International Journal of Wildland Fire↗

USGS2016

Assessment of canyon wall failure process from multibeam bathymetry and Remotely Operated Vehicle (ROV) observations, U.S. Atlantic continental margin

Over the last few years, canyons along the northern U.S. Atlantic continental margin have been the focus of intensive research examining canyon evolution, submarine geohazards, benthic ecology and deep-sea coral habitat. New high-resolution multibeam bathymetry and Remotely Operated Vehicle (ROV) dives in the major shelf-breaching and minor slope canyons, provided the opportunity to investigate the size of, and processes responsible for, canyon wall failures. The canyons cut through thick Late Cretaceous to Recent mixed siliciclastic and carbonate-rich lithologies which impart a primary control on the style of failures observed. Broad-scale canyon morphology across much of the margin can be correlated to the exposed lithology. Near vertical walls, sedimented benches, talus slopes, and canyon floor debris aprons were present in most canyons. The extent of these features depends on canyon wall cohesion and level of internal fracturing, and resistance to biological and chemical erosion. Evidence of brittle failure over different spatial and temporal scales, physical abrasion by downslope moving flows, and bioerosion, in the form of burrows and surficial scrape marks provide insight into the modification processes active in these canyons. The presence of sessile fauna, including long-lived, slow growing corals and sponges, on canyon walls, especially those affected by failure provide a critical, but as yet, poorly understood chronological record of geologic processes within these systems.

Book chapter↗