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At least 685 records · Page 38Linked to original sources
USGS2023

A scuticociliate causes mass mortality of Diadema antillarum in the Caribbean Sea

Echinoderm mass mortality events shape marine ecosystems by altering the dynamics among major benthic groups. The sea urchin Diadema antillarum , virtually extirpated in the Caribbean in the early 1980s by an unknown cause, recently experienced another mass mortality beginning in January 2022. We investigated the cause of this mass mortality event through combined molecular biological and veterinary pathologic approaches comparing grossly normal and abnormal animals collected from 23 sites, representing locations that were either affected or unaffected at the time of sampling. Here, we report that a scuticociliate most similar to Philaster apodigitiformis was consistently associated with abnormal urchins at affected sites but was absent from unaffected sites. Experimentally challenging naïve urchins with a Philaster culture isolated from an abnormal, field-collected specimen resulted in gross signs consistent with those of the mortality event. The same ciliate was recovered from treated specimens postmortem, thus fulfilling Koch’s postulates for this microorganism. We term this condition D. antillarum scuticociliatosis.

Science Advances↗
USGS2007

Restoration technology branch

The mission of Leetown Science Center (LSC), Restoration Technology Branch (RTB) is to conduct research needed to restore or protect the chemical, physical and biological integrity of desirable aquatic systems.

Fact Sheet↗
USGS2000

Evaluation of biological data, Guanella Pass Area, Clear Creek and Park Counties, Colorado, water years 1995-97

Macroinvertebrate and algal community samples were collected during a 3-year period at sites located near Guanella Pass, Colorado, to provide baseline characterization data. Water-quality sampling and habitat evaluations were used to aid in the interpretation of the biological data. The study was part of an environmental investigation for a proposed roadway reconstruction project on Guanella Pass. Discharge was strongly affected by snowmelt during May–July. Habitat scores were optimal (147–199), as determined by U.S. Environmental Protection Agency Rapid Bioassessment Protocol methods. Generally, low median concentrations of nitrogen and phosphorus (less than 0.02 milligram per liter) were detected at all sites. The water temperatures ranged from 0.4 to 11.2 degrees Celsius. The average pH for all sites was neutral, and specific conductivities were dilute (less than 160 microsiemens per centimeter at 25 degrees Celsius). The median suspended-sediment concentration was less than 20 milligrams per liter at all sites. During the study, 100 macroinvertebrate taxa were identified. The dominant taxonomic groups of macroinvertebrates were Diptera (true flies), Ephemeroptera (mayflies), Plecoptera (stoneflies), and Trichoptera (caddisflies). Macroinvertebrate density ranged from 6.6 to 4,300 organisms per square meter at sampled sites. Shannon-Weaver diversity values for the macroinvertebrate samples ranged from 1.6 to 4.5. Collector-gatherers dominated the functional feeding groups at most sites. Average abundance of Ephemeroptera, Plecoptera, and Trichoptera (EPT) was 56.7 percent; EPT:Chironomidae ratios were greater than 2:1 for every site except during water years 1996 and 1997. Chironomids were greater than EPT at four sites in water year 1996 and at one site in water year 1997. The percentage of macroinvertebrate community similarity between site pairs varied from 0 to 80 percent. The number of algal taxa identified was 280. The dominant algal divisions, in terms of density, were Cyanophyta (blue-green algae), Chrysophyta (diatoms), Chlorophyta (green algae), Rhodophyta (red algae), and Euglenophyta (euglenoids). In general, diatom biovolumes dominated the algal assemblage, followed by blue-green algae, green algae, red algae, and euglenoids. Algal densities ranged from 3.1 X 10 2 to more than 4.7 X 10 6 cells per square centimeter, and algal biovolume ranged from 2.3 X 10 4 to 4.6 X 10 9 cells per cubic centimeter. Diversity values for diatoms ranged from 1.5 to 4.9. The pollution tolerance index (PTI) for diatoms ranged from 1.8 to 3.0. Sensitive diatoms were present at each site and ranged from 21 to 97 percent. The percentage of motile diatoms ranged from 0 to 13 percent. The presence of acid-tolerant diatoms ranged from less than 0.5 to greater than 20 percent. The percentage of community similarity between site pairs ranged from 1 to 97 percent. Overall, the biotic metrics that were evaluated during this study indicate that the macroinvertebrate and algal communities in the streams on Guanella Pass are not degraded by the existing road. Erosion may cause some localized effects but may not affect the overall health of the whole stream system. The degraded condition of Geneva Creek probably is due to natural effects as opposed to road effects. Although upper South Clear Creek, upstream from Naylor Creek, is located downstream from several sources of road runoff, the biological community at this site does not seem to be negatively affected.

Colorado↗
USGS2017

Methods used to characterize the chemical composition and biological activity of environmental waters throughout the United States, 2012-14

A vast array of chemical compounds are in wide commercial use in the United States, and the potential ecological and human-health effect of exposure to chemical mixtures has been identified as a high priority in environment health science. Awareness of the potential effects of low-level chemical exposures is rising. The U.S. Geological Survey, in cooperation with the U.S. Environmental Protection Agency, conducted a study in which samples were collected from 38 streams in 25 States to provide an overview of contaminants found in stream water across the Nation. Additionally, biological screening assays were used to help determine any potential ecological and human-health effects of these chemical mixtures and to prioritize target chemicals for future toxicological studies. This report describes the site locations and the sampling and analytical methods and quality-assurance procedures used in the study.

Open-File Report↗
USGS2007

Characterization of habitat and biological communities at fixed sites in the Great Salt Lake basins, Utah, Idaho, and Wyoming, water years 1999-2001

Habitat and biological communities were sampled at 10 sites in the Great Salt Lake Basins as part of the U.S. Geological Survey National Water-Quality Assessment program to assess the occurrence and distribution of biological organisms in relation to environmental conditions. Sites were distributed among the Bear River, Weber River, and Utah Lake/Jordan River basins and were selected to represent stream conditions in different land-use settings that are prominent within the basins, including agriculture, rangeland, urban, and forested. High-gradient streams had more diverse habitat conditions with larger substrates and more dynamic flow characteristics and were typically lower in discharge than low-gradient streams, which had a higher degree of siltation and lacked variability in geomorphic channel characteristics, which may account for differences in habitat. Habitat scores were higher at high-gradient sites with high percentages of forested land use within their basins. Sources and causes of stream habitat impairment included effects from channel modifications, siltation, and riparian land use. Effects of hydrologic modifications were evident at many sites. Algal sites where colder temperatures, less nutrient enrichment, and forest and rangeland uses dominated the basins contained communities that were more sensitive to organic pollution, siltation, dissolved oxygen, and salinity than sites that were warmer, had higher degrees of nutrient enrichment, and were affected by agriculture and urban land uses. Sites that had high inputs of solar radiation and generally were associated with agricultural land use supported the greatest number of algal species. Invertebrate samples collected from sites where riffles were the richest-targeted habitat differed in species composition and pollution tolerance from those collected at sites that did not have riffle habitat (nonriffle sites), where samples were collected in depositional areas, woody snags, or macrophyte beds. Invertebrate taxa richness, pollution tolerance, and trophic interactions at riffle and nonriffle sites responded differently to environmental variables. Fish communities were assessed in relation to the designated beneficial use for aquatic life for each site. Fish-community sites in basins where agriculture and urbanization were prevalent consistently had poorer conditions than sites with forest and rangeland uses. Warm temperatures appear to be limiting most native fish species, and more introduced, warm-water fish species were present at sites with warmer temperatures. Ranges of environmental conditions where native species were present or absent were identified. The farthest-upstream site in each of the three basins had better ecological condition overall, as indicated by the integrity of habitat and the presence of more sensitive algae, invertebrate, and fish species than were observed at sites downstream. The farthest-downstream site in each of the three basins showed the poorest ecological condition, with more tolerant organisms present, degraded habitat and water-quality conditions, and a high degree of effects from agriculture, grazing, and urbanization. Of the mid-basin sites, the site most affected by urbanization had more degraded biological condition than the agricultural indicator site of similar basin size.

Idaho, Utah, Wyoming↗
USGS2018

Bend-scale geomorphic classification and assessment of the Lower Missouri River from Sioux City, Iowa, to the Mississippi River for application to pallid sturgeon management

Management actions intended to increase growth and survival of pallid sturgeon ( Scaphirhynchus albus ) age-0 larvae on the Lower Missouri River require a comprehensive understanding of the geomorphic habitat template of the river. The study described here had two objectives relating to where channel-reconfiguration projects should be located to optimize effectiveness. The first objective was to develop a bend-scale (that is, at the scale of individual bends, defined as “cross-over to cross-over”) geomorphic classification of the Lower Missouri River to help in the design of monitoring and evaluation of such projects. The second objective was to explore whether geomorphic variables could provide insight into varying capacities of bends to intercept drifting larvae. The bend-scale classification was based on geomorphic and engineering variables for 257 bends from Sioux City, Iowa, to the confluence with the Mississippi River near St. Louis, Missouri. We used k-means clustering to identify groupings of bends that shared the same characteristics. Separate 3-, 4-, and 6-cluster classifications were developed and mapped. The three classifications are nested in a hierarchical structure. We also explored capacities of bends to intercept larvae through evaluation of linear models that predicted persistent sand area or catch per unit effort (CPUE) of age-0 sturgeon as a function of the same geomorphic variables used in the classification. All highly ranked models that predict persistent sand area contained mean channel width and standard deviation of channel width as significant variables. Some top-ranked models also included contributions of channel sinuosity and density of navigation structures. The sand-area prediction models have r-squared values of 0.648–0.674. In contrast, the highest-ranking CPUE models have r-squared values of 0.011–0.170, indicating much more uncertainty for the biological response variable. Whereas the persistent sand model documents that physical processes of transport and accumulation are systematic and predictable, the poor performance of the CPUE models indicate that additional processes will need to be considered to predict biological transport and accumulation.

Iowa, Missouri↗
USGS2020

The Everglades Depth Estimation Network (EDEN) surface-water interpolation model, version 3

The Everglades Depth Estimation Network (EDEN) is an integrated network of water-level gages, interpolation models that estimate daily water-level data at ungaged locations, and applications that generate derived hydrologic data across the freshwater part of the Greater Everglades landscape. Version 3 (V3) of the EDEN interpolation surface-water model is the most recent update, replacing the version 2 (V2) model released in 2011. The primary revision for the V3 model is the switch to the R programming language to create a more efficient and portable EDEN code relative to V2, without reliance on proprietary software. Using R, the interpolation script runs over 10 times faster and is more easily updated, for example, to accommodate changes in the gage network or to incorporate R software updates. Additional revisions made for the V3 model include updates to the interpolation model, the gage network, and groundwater-level estimations. The EDEN model domain in the Greater Everglades and Big Cypress National Preserve is divided into subdomains that are based on hydrologic boundaries. In the V3 model, the number of subdomains was increased from five to eight, which allows hydrologic boundaries, such as levees and canals, to be better represented in the interpolation scheme. Five pseudogages were added to constrain the water-level surface at subdomain boundaries. Changes made to the water-level gage network between the implementation of the V2 and V3 models are incorporated, and groundwater-level estimations are added, which are important information for hydrologic and ecological studies. Summary model performance statistics indicate similar accuracy in water-level surfaces generated by the V3 and V2 models, with a root mean square error of 4.78 centimeters for both interpolation models against independent water-level measurements. Providing stability and continuity for the EDEN user community, the V3 model closely replicates the V2 model, with a root mean square difference of 3.87 centimeters for interpolated surfaces from April 1, 2014, to March 31, 2018. The additional groundwater levels provide a realistic estimate of the saturated groundwater surface continuous with the surface-water surface for Water Conservation Areas 2A and 2B from 2000 to 2011. This continuous surface is a more accurate estimation of the spatial distribution of water in the hydrologic system than before, providing needed information for ecological studies in areas where depth to water table affects habitats. Development of the EDEN V3 model advances the tools available to scientists and resource managers for guiding large-scale field operations, describing hydrologic changes, and supporting biological and ecological assessments.

Florida↗
USGS2005

Water resources data, Wyoming, water year 2004; Volume 1. Surface water; with List of discontinued and active surface-water, water-quality, sediment, and biological stations

Water resources data for the 2004 water year for Wyoming consist of records of stage, discharge and water quality of streams; stage and contents of lakes and reservoirs, and water levels and water quality of ground water. Volume 1 of this report contains discharge records for 164 gaging stations; water quality for 43 gaging stations and 45 ungaged stations, and stage and contents for one reservoir. Volume 2 of this report contains water levels records for 64 wells. Additional water data were collected at various sites, not part of the systematic data collection program, and are published as miscellaneous measurements. These data represent part of the National Water Information System operated by the U.S. Geological Survey and cooperating State and Federal agencies in Wyoming.

Water Data Report↗
USGS2003

Texture, Carbonate Content, and Preliminary Maps of Surficial Sediments of the Flower Garden Banks Area, Northwestern Gulf of Mexico Outer Shelf

The purpose of this report is to release texture and carbonate content analyses of 107 seafloor sediments collected within and near the East and West Flower Garden Banks areas of the Sanctuary and to show relationships between these data and existing bathymetric data. The sediment data, in conjunction with previously collected geological, geophysical and biological data were used to construct a reconnaissance-scale map of the distribution of seafloor sediment types. This map will be useful for resource managers and can be used, with additional data, as a basis for future habitat mapping.

Open-File Report↗
USGS2016

Report A: Fish and habitat assessment in Rock Creek, Klickitat County, Washington, June 2013-December 2015

The U.S. Geological Survey (USGS) and the Yakama Nation have collaborated in the Rock Creek subbasin, southeastern, Washington since 2009 to assess steelhead (Oncorynchus mykiss) populations and habitat conditions. Rock Creek, flows south to the Columbia River at river kilometer (rkm) 368. During 2015, a habitat survey was conducted, and monitoring of Passive Integrated Transponder (PIT)-tagged salmonids in the Rock Creek subbasin continued. Two multiplexing PIT-tag interrogation systems (PTISs) were installed in Rock Creek in the fall of 2009 to evaluate timing and degree of salmonid movement, smolting success, stray rates, and other life history attributes. These have been monitored every year since, during the spring, fall, and winter months. Returning adult steelhead detection histories are summarized from past Rock Creek PIT-tagging efforts. Detection histories and detection efficiencies were used to estimate a smolt-to-adult return rate (SAR) for Rock Creek PIT-tagged steelhead (tagged from 2009 to 2012) that ranged from 2.2% to 5.5%. Additionally, a SAR was also estimated for Rock Creek PIT-tagged steelhead returning to Bonneville Dam, Columbia River (rkm 235). The SAR rate to Bonneville Dam was always higher (2.4% to 10.4%), indicating straying of adults to other sites for spawning potentially further upstream or in other tributaries, or pre-spawn mortality. Twenty-two Rock Creek PIT-tagged steelhead were detected returning to Rock Creek and 35 were detected at Bonneville Dam from past tagging efforts (2009 – 2012). Monitoring of the Rock Creek PTISs [Rock Creek Lower (RCL) and Rock Creek Squaw (RCS)] provide evidence for PIT-tagged salmonid use from fish tagged outside of Rock Creek subbasin (out-of-basin) origins. A total of 82 out-of-basin PIT-tagged fish have been detected at the Rock Creek PTISs since installation. The habitat survey was conducted in Rock Creek from September 16 to October 7, 2015. The survey started at rkm 2 and continued upstream to rkm 29.3, and included portions of the major tributaries, ranging from 1 to 9 rkm survey length upstream from their confluence. During the survey, we measured the lengths of all dry and non-pool wet sections, and for pools: the length, wetted width, average residual depth, maximum residual depth, and temperature. During the 2015 survey of Rock Creek, 38% of the river between rkm 2 and 29 was classified as dry, with a higher relative proportion (57%) of dry being in the lower river section (rkm 2-13) than the upper river section (33%, rkm 14-22). This was higher than during survey years 2010 to 2012, which ranged from 29% to 43% in the lower river. As a result of the increase in dry area the percent of non-pool wet habitat was less (22%) than previous years (range 34% to 43%), as well as the percent of pools (21%). However, more river kilometers were surveyed in the lower river section (rkm 2-13) than previous years. For the 2015 survey length (rkm 2 to 29), 19% was classified as pools and 43% was non-pool wet. This work informs potential restoration actions by identifying the persistent pools across years and in years of low water flow (i.e., 2015). This work also provides a baseline to evaluate effectiveness of future restoration actions. Potential restoration actions could include headwater and upland restoration to improve base flows and pool habitat enhancement, through increased structure and vegetation plantings for increased cover. The Rock Creek steelhead population remains to be an important cultural resource for the Rock Creek Band of the Yakama Nation Tribe. The Rock Creek steelhead population is part of the Cascades Eastern Slope major population group (MPG), one of four MPGs contributing to the Middle Columbia steelhead distinct population segment (DPS). The National Marine Fisheries Service recovery plan for Rock Creek (NMFS 2009a) identifies an overall biological recovery goal for Rock Creek steelhead to contribute to recovery of the Mid-Columbia D

Washington↗
USGS1998

Study design and interpretation of mammalian carnivore density estimates

Ecological theory and wildlife management often depend on reliable comparison and interpretation of population density estimates. A synthesis of 1,772 mammalian carnivore population estimates (713 unique to reference, species, site, and size of study area) from 74 species revealed global patterns among aspects of study and interpretive design that undermine the reliability and usefulness of density comparisons. The spatial extent of the study area could explain most of the variation in density, probably because study areas are typically delineated around population clusters. We related the scale-defined density estimates (regression residuals) to 28 other variables measured from the published literature, but none provided convincing biological explanation of the variation in density. Many aspects of study and interpretive design were possibly ill-suited to identifying the factor(s) influencing density. Study attributes and findings were reported inconsistently, and were subject to ideological motivations. Descriptions of vegetation were most difficult to relate to density. More intensive sampling and estimation methods produced above-average density estimates, but the differences were slight and the evidence lacking for concluding whether these more intensive methods were also more accurate. The first underlying factor extracted from principle-components analysis described the growing recognition of population declines and range reductions among large-bodied carnivores, which has also influenced study design. Another factor described an increasing trend for density to be compared and extrapolated to larger areas, but without adjusting for the effect of scale. To understand the factors influencing carnivore distribution and abundance, sampling and reporting methods (e.g., site description with maps) will need to represent the available pool of species, locations, and ecological conditions at larger-than-conventional spatial and temporal scales.

Oecologia↗
USGS2018

Using the value of information to improve conservation decision making

Conservation decisions are challenging, not only because they often involve difficult conflicts among outcomes that people value, but because our understanding of the natural world and our effects on it is fraught with uncertainty. Value of Information (VoI) methods provide an approach for understanding and managing uncertainty from the standpoint of the decision maker. These methods are commonly used in other fields (e.g., economics, public health) and are increasingly used in biodiversity conservation. This decision analytical approach can identify the best management alternative to select where the effectiveness of interventions is uncertain, and can help to decide when to act and when to delay action until after further research. We review the use of VoI in the environmental domain, reflect on the need for greater uptake of VoI, particularly for strategic conservation planning, and suggest promising areas for new research. We also suggest common reporting standards as a means of increasing the leverage of this powerful tool. The environmental science, ecology and biodiversity categories of the Web of Knowledge were searched using the terms ‘Value of Information,’ ‘Expected Value of Perfect Information,’ and the abbreviation ‘EVPI.’ Google Scholar was searched with the same terms, and additionally the terms decision and biology, biodiversity conservation, fish, or ecology. We identified 1225 papers from these searches. Included studies were limited to those that show an application of VoI in biodiversity conservation rather than simply describing the method. All examples of use of VOI were summarised regarding the application of VoI, the management objectives, the uncertainties, models used, how the objectives were measured, and the type of VoI. While the use of VoI appears to be on the increase in biodiversity conservation, the reporting of results is highly variable, which can make it difficult to understand the decision context and which uncertainties were considered. Moreover, it was unclear if, and how, the papers informed management and policy interventions, which is why we suggest a range of reporting standards that would aid the use of VoI. The use of VoI in conservation settings is at an early stage. There are opportunities for broader applications, not only for species-focussed management problems, but also for setting local or global research priorities for biodiversity conservation, making funding decisions, or designing or improving protected area networks and management. The long-term benefits of applying VoI methods to biodiversity conservation include a more structured and decision-focused allocation of resources to research.

Biological Reviews↗
USGS2001

Citizen knowledge and perception of black-tailed prairie dog management: Report to respondents

What do citizens know about black-tailed prairie dogs, and where do they get their information? When management decisions need to be made regarding an animal such as the black-tailed prairie dog, an understanding of the species and its relationship to humans is necessary. This includes knowing the biology of the animal, where it lives, and how it interacts with other animals. But it is equally important for those making decisions about the species to understand citizens’ knowledge and perceptions so managers can effectively communicate with the public and help the public participate in planning and decision making activities. Unfortunately, what is known about public knowledge, perception, and preferences concerning prairie dog management is limited to data from only a few areas. This study attempts to answer the question: What do people in the short-grass prairie region of the United States know and think about black-tailed prairie dogs? In the summer of 2000, we sent a survey by mail to citizens of rural, urban, and suburban counties in the short-grass prairie region of the United States. This area includes all or part of 11 states: Arizona, Colorado, Kansas, Montana, Nebraska, New Mexico, North Dakota, Oklahoma, South Dakota, Texas, and Wyoming (see Figure 1, p. 4). A total of 1933 citizens completed the survey for a 56% response rate (Table 1). This report provides a summary of the answers for all the questions in the survey. (Extra copies of this report can be downloaded from our website: http://www.mesc.usgs.gov/seias.) The results show that although people do not believe prairie dogs are a big environmental issue, they favor a balanced approach when dealing with such problems. When asked about their views on environmental policy, respondents reported being more conservative than liberal: 40% reported slightly conservative or conservative environmental views, 24% reported moderate environmental views, and 19% reported slightly liberal or liberal environmental views. Ninteen percent (19%) said they did not know or had not thought about their environmental values. When asked how important black-tailed prairie dogs are compared to other environmental problems, 69% said they are less important than other issues or not an issue at all. Thirty one percent (31%) said prairie dogs are about the same or more important than other issues.

Open-File Report↗