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At least 649 records · Page 36Linked to original sources

Identifying sources of antibiotic resistance genes in the environment using the microbial Find, Inform, and Test framework

Introduction: Antimicrobial resistance (AMR) is an increasing public health concern for humans, animals, and the environment. However, the contributions of spatially distributed sources of AMR in the environment are not well defined. Methods: To identify the sources of environmental AMR, the novel microbial Find, Inform, and Test (FIT) model was applied to a panel of five antibiotic resistance-associated genes (ARGs), namely, erm(B), tet(W), qnrA, sul1, and intI1, quantified from riverbed sediment and surface water from a mixed-use region. Results: A one standard deviation increase in the modeled contributions of elevated AMR from bovine sources or land-applied waste sources [land application of biosolids, sludge, and industrial wastewater (i.e., food processing) and domestic (i.e., municipal and septage)] was associated with 34–80% and 33–77% increases in the relative abundances of the ARGs in riverbed sediment and surface water, respectively. Sources influenced environmental AMR at overland distances of up to 13 km. Discussion: Our study corroborates previous evidence of offsite migration of microbial pollution from bovine sources and newly suggests offsite migration from land-applied waste. With FIT, we estimated the distance-based influence range overland and downstream around sources to model the impact these sources may have on AMR at unsampled sites. This modeling supports targeted monitoring of AMR from sources for future exposure and risk mitigation efforts.

Wisconsin↗

Genetic variation and metapopulation structure inform recovery goals in a threatened species

Background: Monitoring genetic parameters is important for setting effective conservation and management strategies, particularly for small, fragmented, and isolated populations. Small, isolated populations face increased rates of genetic drift and inbreeding, which increase extinction risk especially when gene flow is limited. Methods: Here, we applied a Genotyping-in-Thousands by sequencing (GT-seq) panel to inform recovery action for the federally threatened northern Idaho ground squirrel ( Urocitellus brunneus ). We evaluated genetic diversity, structure, connectivity, and effective population size to address species recovery goals. Results: We delineated three types of conservation units: (1) three evolutionarily significant units that represent long-term population structure and variation, (2) nine management units that reflect current demographic connectivity and restrictions to gene flow, and (3) three adaptive units that capture adaptive differentiation across the species range. Effective population sizes per management unit were small overall (mean 38.16, range 2.3–220.9), indicating that recovery goals of 10 subpopulations with N e > 500 have not been reached. Conclusions: Our results support the maintenance of connectivity within evolutionarily significant units through the restoration of dispersal corridors. Next steps could include further sampling of some subpopulations with low sample sizes, unsampled subpopulations, and subpopulations that are geographically isolated. Genotyping future samples with the same GT-seq panel would help to detect dispersal, assess effective population size, monitor the effects of inbreeding, and evaluate adaptive differentiation to monitor the effects of management action and environmental change.

Idaho↗

Historical legacies, information and contemporary water science and management

Hydrologic science has largely built its understanding of the hydrologic cycle using contemporary data sources (i.e., last 100 years). However, as we try to meet water demand over the next 100 years at scales from local to global, we need to expand our scope and embrace other data that address human activities and the alteration of hydrologic systems. For example, the accumulation of human impacts on water systems requires exploration of incompletely documented eras. When examining these historical periods, basic questions relevant to modern systems arise: (1) How is better information incorporated into water management strategies? (2) Does any point in the past (e.g., colonial/pre-European conditions in North America) provide a suitable restoration target? and (3) How can understanding legacies improve our ability to plan for future conditions? Beginning to answer these questions indicates the vital need to incorporate disparate data and less accepted methods to meet looming water management challenges.

Water↗

Environmental DNA as a tool to help inform zebra mussel, Dreissena polymorpha, management in inland lakes

Zebra mussels ( Dreissena polymorpha ) are an aquatic invasive species that plague much of North America and are difficult to impossible to eradicate once they become established. Therefore, prevention and monitoring are key elements in the control of these organisms. Traditional microscopy is commonly used in monitoring but requires the presence of larval veligers. This limits the times when resource managers can monitor for the presence in northern lakes. A new monitoring tool, environmental DNA (eDNA), may allow for a more efficient and cost-effective monitoring program for zebra mussels. We developed and tested an environmental DNA assay in the fall and spring for zebra mussels in two Minnesota lakes, one heavily infested and another newly infested. We found that DNA copy numbers tended to be higher near the lake bottom and DNA was more concentrated in softer substrates. We also found that the amount of zebra mussel DNA sampling in winter resulted in similar results to when sampled in fall. This suggests that one could collect and analyze eDNA for zebra mussels during winter months to help inform future efforts in monitoring and control.

Minnesota↗

Information on black-footed ferret biology collected within the framework of ferret conservation

Once feared to be extinct, black-footed ferrets ( Mustela nigripes ) were rediscovered near Meeteetse, Wyoming, in 1981, resulting in renewed conservation and research efforts for this highly endangered species. A need for information directly useful to recovery has motivated much monitoring of ferrets since that time, but field activities have enabled collection of data relevant to broader biological themes. This special feature is placed in a context of similar books and proceedings devoted to ferret biology and conservation. Articles include general observations on ferrets, modeling of potential impacts of ferrets on prairie dogs ( Cynomys spp.), discussions on relationships of ferrets to prairie dog habitats at several spatial scales (from individual burrows to patches of burrow systems) and a general treatise on the status of black-footed ferret recovery.

Wyoming↗

A female black bear denning habitat model using a geographic information system

We used the Mahalanobis distance statistic and a raster geographic information system (GIS) to model potential black bear ( Ursus americanus ) denning habitat in the Ouachita Mountains of Arkansas. The Mahalanobis distance statistic was used to represent the standard squared distance between sample variates in the GIS database (forest cover type, elevation, slope, aspect, distance to streams, distance to roads, and forest cover richness) and variates at known bear dens. Two models were developed: a generalized model for all den locations and another specific to dens in rock cavities. Differences between habitat at den sites and habitat across the study area were represented in 2 new GIS themes as Mahalanobis distance values. Cells similar to the mean vector derived from the known dens had low Mahalanobis distance values, and dissimilar cells had high values. The reliability of the predictive model was tested by overlaying den locations collected subsequent to original model development on the resultant den habitat themes. Although the generalized model demonstrated poor reliability, the model specific to rock dens had good reliability. Bears were more likely to choose rock den locations with low Mahalanobis distance values and less likely to choose those with high values. The model can be used to plan the timing and extent of management actions (e.g., road building, prescribed fire, timber harvest) most appropriate for those sites with high or low denning potential.

Arkansas↗

Assessing habitat selection in Spring by male American Woodcock in Maine with a geographic information system

Geographic information system (GIS) technology was used to identify habitats available to and used by male American woodcock (Scolopax minor) equipped with radio transmitters--54 in 1987, 51 in 1988, 46 in 1989 at Moosehorn National Wildlife Refuge, Maine. Woodcock were monitored from time of capture (25 March-15 April) to 15 June each year. To determine habitat selection by male woodcock, the following habitat characteristics were measured: land cover, age and stocking density of the forest overstory, soil drainage and texture, aspect, and percent slope. Habitat selection was examined as affected by the covariates weather and age-class of woodcock, and among years for diurnal and crepuscular periods of the breeding period. Multivariate techniques that compare use and availability of habitats were not available, so a statistical model was developed to rate importance of multiple habitat characteristics selected by woodcock. The most critical period for woodcock in terms of survival was from arrival to: mid-April. Second-year and after-second-year woodcock did not select different (P > 0.05) habitat types, but they did select different types among years and within breeding intervals (P < 0.05). In years when weather was moderate, woodcock selected young, dense stands of speckled alder (Alnus rugosa) and hardwoods, interspersed with forest openings. Suitable habitat can be maintained by creating an uneven-aged forest managed in even-aged blocks composed of several hardwood species. Managers can now quantify suitable woodcock habitat in a GIS and plan large-scale forest-harvesting strategies using data on several habitat characteristics (e.g., land cover, stand age, stocking density, soil drainage and texture, and aspect).

Book chapter↗

Enhancing bird banding information sharing across the western hemishpere

Bird banding and marking provide indispensable tools for ornithological research, management, and conservation of migratory birds and their habitats along migratory routes, breeding and non-breeding grounds. With the growing interest in international coordination of tracking bird movements, coordination amongst developing and existing programs is essential for effective data management. The North American Bird Banding Program (Canadian Bird Banding Office and U.S. Bird Banding Laboratory and the Mexican government) has been working to enhance collaboration with other Western Hemisphere countries to establish a voluntary bird banding communication network. This network addresses challenges, such as: demonstrating how sharing banding expertise and information management can support the stewardship of Western Hemisphere migratory birds, ensuring that valuable banding and encounter data are captured and shared. With increasing numbers of international scientific and conservation initiatives, bird banding and marking programs must provide essential international coordination functions as well as support local activities by facilitating access to bands, training, data management and encounter reporting.

Book chapter↗

Surveys for presence of Oregon spotted frog (Rana pretiosa): background information and field methods

The Oregon spotted frog (Rana pretiosa) is the most aquatic of the native frogs in the Pacific Northwest. The common name derives from the pattern of black, ragged-edged spots set against a brown or red ground color on the dorsum of adult frogs. Oregon spotted frogs are generally associated with wetland complexes that have several aquatic habitat types and sizeable coverage of emergent vegetation. Like other ranid frogs native to the Northwest, Oregon spotted frogs breed in spring, larvae transform in summer of their breeding year, and adults tend to be relatively short lived (3-5 yrs). Each life stage (egg, tadpole, juvenile and adult) has characteristics that present challenges for detection. Breeding can be explosive and completed within 1-2 weeks. Egg masses are laid in aggregations, often in a few locations in large areas of potential habitat. Egg masses can develop, hatch, and disintegrate in <2 weeks during warm weather. Tadpoles can be difficult to identify, have low survival, and spend most of their 3-4 months hidden in vegetation or flocculant substrates. Juveniles and adults are often difficult to capture and can spend summers away from breeding areas. Moreover, a substantial portion of extant populations are of limited size (<100 breeding adults), and field densities of all life stages are often low. An understanding of the biology of the species and use of multiple visits are thus important for assessing presence of Oregon spotted frogs. This report is meant to be a resource for USDA Region 6 Forest Service (FS) and OR/WA Bureau of Land Management (BLM) personnel tasked with surveying for the presence of Oregon spotted frogs. Our objective was to summarize information to improve the efficiency of field surveys and increase chances of detection if frogs are present. We include overviews of historical and extant ranges of Oregon spotted frog. We briefly summarize what is known of Oregon spotted frog habitat associations and review aspects of behavior and ecology that are likely to affect detectability in the field. We summarize characteristics that can help differentiate Oregon spotted frog life stages from other northwestern ranid frogs encountered during surveys. Appendices include examples of data collection formats and a protocol for disinfecting field gear.

Interagency Special Status / Sensitive Species Pro↗

Indicators and protocols for monitoring impacts of formal and informal trails in protected areas

Trails are a common recreation infrastructure in protected areas and their conditions affect the quality of natural resources and visitor experiences. Various trail impact indicators and assessment protocols have been developed in support of monitoring programs, which are often used for management decision-making or as part of visitor capacity management frameworks. This paper reviews common indicators and assessment protocols for three types of trails, surfaced formal trails, unsurfaced formal trails, and informal (visitor-created) trails. Monitoring methods and selected data from three U.S. National Park Service units are presented to illustrate some common trail impact indicators and assessment options.

Journal of Tourism and Leisure Studies↗

Informal and formal trail monitoring protocols and baseline conditions: Acadia National Park

At Acadia National Park, changing visitor use levels and patterns have contributed to an increasing degree of visitor use impacts to natural and cultural resources. To better understand the extent and severity of these resource impacts and identify effective management techniques, the park sponsored this research to develop monitoring protocols, collect baseline data, and identify suggestions for management strategies. Formal and informal trails were surveyed and their resource conditions were assessed and characterized to support park planning and management decision-making.

Report↗

Evolution of the MOSS geographic information system for 32-bit computer systems

The authors discuss the current status and plans regarding the 32-bit implementation of the Map Overly and Statistical System (MOSS) geographic information system. Increasing interest in this system is promoting significant expansion of its capabilities, but any such enhancements will require careful analysis and planning to ensure that the resulting system is functionally complete and efficient yet flexible enough to adapt to a variety of user requirements and systems. All enhancements must be coordinated among centers of development in order to ensure the continued viability of a single MOSS. A baseline software configuration must be defined, and procedures must be developed to ensure coordination of any modifications to the baseline. Finally, there is significant interest in maintaining the public-domain aspects of MOSS to promote its shared use in the Department of the Interior. For these reasons, coordination efforts such as those initiated by the IDCCC and the MOSS Users Workshop should be strongly supported by the MOSS user community.

Conference Paper↗

UTILIZATION OF GEOGRAPHIC INFORMATION SYSTEMS TECHNOLOGY IN THE ASSESSMENT OF REGIONAL GROUND-WATER QUALITY.

The U. S. Geological Survey (USGS) in cooperation with the U. S. Environmental Protection Agency Office of Pesticide Programs and several State agencies in Oregon has prepared a digital spatial database at 1:500,000 scale to be used as a basis for evaluating the potential for ground-water contamination by pesticides and other agricultural chemicals. Geographic information system (GIS) software was used to assemble, analyze, and manage spatial and tabular environmental data in support of this project. Physical processes were interpreted relative to published spatial data and an integrated database to support the appraisal of regional ground-water contamination was constructed. Ground-water sampling results were reviewed relative to the environmental factors present in several agricultural areas to develop an empirical knowledge base which could be used to assist in the selection of future sampling or study areas.

Conference Paper↗

Geographic information system as country-level development and monitoring tool, Senegal example

Geographic information systems (GIS) allow an investigator the capability to merge and analyze numerous types of country-level resource data. Hypothetical resource analysis applications in Senegal were conducted to illustrate the utility of a GIS for development planning and resource monitoring. Map and attribute data for soils, vegetation, population, infrastructure, and administrative units were merged to form a database within a GIS. Several models were implemented using a GIS to: analyze development potential for sustainable dryland agriculture; prioritize where agricultural development should occur based upon a regional food budget; and monitor dynamic events with remote sensing. The steps for implementing a GIS analysis are described and illustrated, and the use of a GIS for conducting an economic analysis is outlined. Using a GIS for analysis and display of results opens new methods of communication between resource scientists and decision makers. Analyses yielding country-wide map output and detailed statistical data for each level of administration provide the advantage of a single system that can serve a variety of users.

Conference Paper↗

How much velocity information is necessary to predict sediment suspension in the surf zone?

Instantaneous horizontal water velocity, or velocity to a power, does not contain enough information to predict suspension in the surf zone. Unlike steady uniform flow, more one than one velocity is necessary to parameterize pick-up and mixing of sediment into the water column. Using a velocity history improves predictions of suspension by more carefully specifying flow conditions (including accelerations and changes in accelerations) responsible for suspension. Suspension in the future is better predicted than suspension at the same instant as velocity measurements. Incorporating such a lag between velocity and concentration improved predictions, with optimum lag time increasing with elevation above the sea bed. These lags are largely due to the time for an observed flow event to effect the bed and mix sediment upward.

Conference Paper↗

Assessment of information on ground-water/surface-water interactions in the northern midcontinent

Ground-water/surface-water interactions are important to the hydrology of shallow aquifers, streams, lakes, and wetlands. Information on ground-water/surface-water interactions in the northern midcontinent was assessed. The ground-water/surface-water interactions in physiographic and climatic areas that contain many wetlands differed from the interactions in areas that consisted predominantly of alluvial aquifers along large streams. In both types of areas, however, the interactions are complex. The distribution of shallow ground-water observation wells in the northern midcontinent and the frequency of measurement were evaluated. Most shallow wells are located adjacent to major streams, especially in areas where wetlands are not a dominant surface-water feature. The frequency of measurement was inconsistent between states.

Conference Paper↗

Mapping the changing landscape of fish-related journals: Setting a course for successful communication of scientific information

In the last 25 years, the number and scope of fish-related journals have changed. New and existing journals are increasingly specialized. Journals that are read and cited are changing because of differential accessibility via electronic databases. In this review, we examine shifts in numbers and foci of existing fish-related journals. We ask how these fish-related metrics differ across type of application, ecological system, taxa, and discipline. Although many journals overlap to some extent in content, there are distinct groups of journals for authors to consider. By systematically reviewing the focus of an individual manuscript, comparing it to the suite of journals available and examining the audience for the manuscript, we believe that authors can make informed decisions about which journals are most suitable for their work. Our goal here is to help authors find relevant journals and deliver scientific publications to the appropriate readership.

Fisheries↗

Rock slope stability analysis along the North Carolina section of the Blue Ridge Parkway: Using a geographic information system (GIS) to integrate site data and digital geologic maps

In 2008, the North Carolina Geological Survey (NCGS) completed a five-year geologic and geohazards inventory of the 406-km long North Carolina segment of the Blue Ridge Parkway (BRP). The ArcGIS™ format deliverables for rock slopes include a slope movement and slope movement deposit database and maps and site-specific rock slope stability assessments at 158 locations. Database entries for known and potential rock slope failures include: location data, failure modes and dimensions, activity dates and levels, structural and lithologic data, the occurrence of sulfide minerals and acid-producing potential test results. Rock slope stability assessments include photographs of the rock cuts and show locations and orientations of rock data, seepage zones, and kinematic stability analyses. Assigned preliminary geologic hazard ratings of low, moderate and high indicate the generalized relative probability of rock fall and/or rock slide activity at a given location. Statistics compiled based on the database indicate some general patterns within the data. This information provides the National Park Service with tools that can aid in emergency preparedness, and in budgeting mitigation, maintenance and repair measures.

Conference Paper↗