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USGS1995

U.S. Geological Survey Federal-State Cooperative Water-Resources Program fiscal year 1994

The Federal-State Cooperative Program is a major U.S. Geological Survey (USGS) activity for the collection, analysis, and reporting of information on the quantity, quality, and use of the Nation's water resources. The fundamental characteristic of the program is that most of the work is undertaken by the USGS through joint-funding agreements, with State, regional, and local agencies providing at least one-half the funds. The main objectives of the program are (1) to collect, on a systematic basis, data needed for the continuing determination and evaluation of the quantity, quality, and use of the Nation's water resources; and (2) to appraise the availability and the physical, chemical, and biological characteristics of surface and ground water through data analysis and interpretive water-resources investigations and research. During fiscal year (FY)1994, Cooperative Program activities were underway in offices in every State, Puerto Rico, and several territories in concert with about 1,100 cooperating agencies. In FY 1994, Federal funding of $63.5 million was matched by cooperating agencies, which also provided more than $25 million unmatched for a total program of about $152 million. This amounted to nearly 40 percent of the total funds for the USGS's water-resources activities. This report presents examples of FY 1994 investigations, as well as updated information on hydrologic data collection activities.

Open-File Report↗

USGS2017

Evaluation of physicochemical and physical habitat associations for Cambarus callainus (Big Sandy crayfish), an imperilled crayfish endemic to the Central Appalachians

1. Crayfish represent one of the most imperilled animal groups on the planet. Habitat degradation, destruction and fragmentation, introduction of invasive crayfishes, and a lack of applied biological information have all been identified as agents thwarting crayfish conservation. 2. Cambarus callainus was warranted federal protection by the United States Fish and Wildlife Service (USFWS) in April, 2016. As part of the USFWS listing procedure, a survey for C. callainus in the Big Sandy River catchment was conducted to determine points of occurrence with a secondary objective of determining reach level physical habitat and physicochemical correlates of C. callainus presence and absence. 3. At each site, physicochemical and physical habitat data were collected to determine the influence of abiotic covariates on the presence of C. callainus . Cambarus callainus presence or absence and associated site covariates were modelled using logistic regression. 4. Survey results recorded C. callainus at 39 sites in the Upper Levisa Fork (ULF) and Tug Fork (TF) drainages of the Big Sandy River; no C. callainus were collected in the Lower Levisa Fork (LLF). An additive effects model of physical habitat quality (Basin + Boulder presence/embeddedness) was the only model selected, supporting an association of C. callainus with slab boulders, open interstitial spaces, and moderate to no sedimentation. All sites lacking C. callainus were experiencing some degree of sedimentation. Physicochemical covariates were not supported by the data. 5. Results indicated that good quality habitat was lacking in the LLF, but was present in the ULF and TF catchments, with ULF supporting the most robust populations and most suitable habitat. Effective conservation for C. callainus should focus on efforts that limit sedimentation as well as restore good quality instream habitat in the greater Big Sandy catchment.

Kentucky, Virginia, West Virginia↗

USGS2011

Objectives, priorities, reliable knowledge, and science-based management of Missouri River interior least terns and piping plovers

Supporting recovery of federally listed interior least tern (Sternula antillarum athalassos; tern) and piping plover (Charadrius melodus; plover) populations is a desirable goal in management of the Missouri River ecosystem. Many tools are implemented in support of this goal, including habitat management, annual monitoring, directed research, and threat mitigation. Similarly, many types of data can be used to make management decisions, evaluate system responses, and prioritize research and monitoring. The ecological importance of Missouri River recovery and the conservation status of terns and plovers place a premium on efficient and effective resource use. Efficiency is improved when a single data source informs multiple high-priority decisions, whereas effectiveness is improved when decisions are informed by reliable knowledge. Seldom will a single study design be optimal for addressing all data needs, making prioritization of needs essential. Data collection motivated by well-articulated objectives and priorities has many advantages over studies in which questions and priorities are determined retrospectively. Research and monitoring for terns and plovers have generated a wealth of data that can be interpreted in a variety of ways. The validity and strength of conclusions from analyses of these data is dependent on compatibility between the study design and the question being asked. We consider issues related to collection and interpretation of biological data, and discuss their utility for enhancing the role of science in management of Missouri River terns and plovers. A team of USGS scientists at Northern Prairie Wildlife Research Center has been conducting tern and plover research on the Missouri River since 2005. The team has had many discussions about the importance of setting objectives, identifying priorities, and obtaining reliable information to answer pertinent questions about tern and plover management on this river system. The objectives of this presentation are to summarize those conversations and to share insights about concepts that could contribute to rigorous science support for management of this river system.

Missouri River↗

USGS2010

Intraspecific variation in gill morphology of juvenile Nile perch, Lates niloticus , in Lake Nabugabo, Uganda

Several studies have demonstrated intraspecific variation in fish gill size that relates to variation in dissolved oxygen (DO) availability across habitats. In Lake Nabugabo, East Africa, ecological change over the past 12 years has coincided with a shift in the distribution of introduced Nile perch such that a larger proportion of the population now inhabits waters in or near wetland ecotones where DO is lower than in open waters of the lake. In this study, we compared gill size of juvenile Nile perch between wetland and exposed (open-water) habitats of Lake Nabugabo in 2007, as well as between Nile perch collected in 1996 and 2007. For Nile perch of Lake Nabugabo [<20 cm total length (TL)], there was a significant habitat effect on some gill traits. In general, fish from wetland habitats were characterized by a longer total gill filament length and average gill filament length than conspecifics from exposed habitats. Nile perch collected from wetland areas in 2007 had significantly larger gills (total gill filament length) than Nile perch collected in 1996, but there was no difference detected between Nile perch collected from exposed sites in 2007 and conspecifics collected in 1996.

Lake Nabugabo↗

USGS2007

Geoenvironments from the vicinity of Arctowski Station, Admiralty Bay, King George Island, Antarctica: vulnerability and valuation assessment

The use of a geographic information system (GIS) allows the mapping and quantification of biotic and physical features of importance to the environmental planning of Antarctic areas. In this paper we examined the main aspects of the geoenvironments of Arctowski Station vicinity (Admiralty bay, Maritime Antartica), by means of a photointerpretation of an orthomosaic at 1:6000 scale, produced by non-conventional aerial photographs obtained by the Brazilian Cryosols project. We carried out a preliminary environmental valuation and vulnerability assessment of the area. Hence, geoenvironments were classified and ranked according with their biological valuation and vulnerability (fragility), mapping 20 units covering approximately 150 ha. The most fragile geoenvironmental units were former and present penguin rookeries with different vegetation covers, all very prone to degradation by over-trampling and human perturbations. The relationships between each geoenvironment were also explored, emphasizing the ecological aspects and their valuation. In quantitative terms, the most vulnerable and fragile units (classes 4 and 5) occupy nearly 22 % of the total area, being highly concentrated near the coastal areas. There, ornithogenic input is an important factor favoring the vegetation development.

Open-File Report↗

USGS2008

A Protocol for Aging Anurans Using Skeletochronology

Age distribution information can be an important part of understanding the biology of any population. Age estimates collected from the annual growth rings found in tooth and bone cross sections, often referred to as Lines of Arrested Growth (LAGs), have been used in the study of various animals. In this manual, we describe in detail all necessary steps required to obtain estimates of age from anuran bone cross sections via skeletochronological assessment. We include comprehensive descriptions of how to fix and decalcify toe specimens (phalanges), process a phalange prior to embedding, embed the phalange in paraffin, section the phalange using a microtome, stain and mount the cross sections of the phalange and read the LAGs to obtain age estimates.

Open-File Report↗

USGS2011

Summary of oceanographic and water–quality measurements in West Falmouth Harbor and Buzzards Bay, Massachusetts, 2009–2010

This data report presents oceanographic and water-quality observations made at six locations in West Falmouth Harbor and Buzzards Bay, Massachusetts, from August 2009 to September 2010. Both Buzzards Bay and West Falmouth Harbor are estuarine embayments; the input of freshwater on the eastern margin of Buzzards Bay adjacent to Cape Cod and West Falmouth Harbor is largely due to groundwater. In West Falmouth Harbor, the groundwater that seeps into the harbor is characterized by relatively high levels of nitrate. This high nitrate load has modified the ecology of the harbor (Howes and others, 2006) and may be a significant source of nitrate to Buzzards Bay during seasons with low biological nitrate uptake. The U.S. Geological Survey undertook these measurements to improve understanding of circulation, residence time, and water quality in the harbor and bay. We set up and monitored multiple sites in both Buzzards Bay and West Falmouth Harbor, measuring depth, water velocity,salinity, pH, dissolved oxygen, chlorophyll-a, and nitrate concentration. In this report we present the processed time-series data at these locations and provide access to the data and metadata. The results will be used to understand circulation mechanisms and verify numerical models of hydrodynamics and biogeochemistry.

Massachusetts↗

USGS2020

FLOwPER user guide—For collection of FLOw PERmanence field observations

The accurate mapping of streams and their streamflow conditions in terms of presence or absence of surface water is important to both understanding physical, chemical, and biological processes in streams and to managing land, water, and ecological resources. This document describes a field form, FLOwPER (FLOw PERmanence), available within a mobile application (app), for standardized data collection of the presence or absence of surface flow in streams. The FLOwPER Database is a publicly available geodataset that can be used for research and management applications. This document provides instructions on how to (1) access and download the FLOwPER field form within the mobile app service, (2) use and complete a FLOwPER field form, and (3) view and download data from the FLOwPER Database.

Open-File Report↗

USGS2024

Monitoring animal populations with cameras using open, multistate, N-mixture models

Remote cameras have become a mainstream tool for studying wildlife populations. For species whose developmental stages or states are identifiable in photographs, there are opportunities for tracking population changes and estimating demographic rates. Recent developments in hierarchical models allow for the estimation of ecological states and rates over time for unmarked animals whose states are known. However, this powerful class of models has been underutilized because they are computationally intensive, and model outputs can be difficult to interpret. Here, we use simulation to show how camera data can be analyzed with multistate, Dail-Madsen (hereafter multistate DM) models to estimate abundance, survival, and recruitment. We evaluated four commonly encountered scenarios arising from camera trap data (low and high abundance and 25% and 50% missing data) each with 18 different sample size combinations (camera sites = 40, 250; surveys = 4, 8, and 12; and years = 2, 5, 10) and evaluated the bias and precision of abundance, survival, and recruitment estimates. We also analyzed our empirical camera data on moose ( Alces alces ) with multistate DM models and compared inference with telemetry studies from the same time and region to assess the accuracy of camera studies to track moose populations. Most scenarios recovered the known parameters from our simulated data with higher accuracy and increased precision for scenarios with more sites, surveys, and/or years. Large amounts of missing data and fewer camera sites, especially at higher abundances, reduced accuracy, and precision of survival and recruitment. Our empirical analysis provided biologically realistic estimates of moose survival and recruitment and recovered the pattern of moose abundance across the region. Multistate DM models can be used for estimating demographic parameters from camera data when developmental states are clearly identifiable. We discuss several avenues for future research and caveats for using multistate DM models for large-scale population monitoring.

New Hampshire, Vermont↗

USGS2013

Water temperature and baseflow discharge of streams throughout the range of Rio Grande cutthroat trout in Colorado and New Mexico—2010 and 2011

This study characterized the thermal regime in a number of Colorado and New Mexico streams that contain populations of Rio Grande cutthroat trout (Oncorhynchus clarkii virginalis) and had no previous record of continual temperature records. When compared to Colorado’s water temperature criteria (Cold Tier 1), a portion of these populations appeared to be at risk from elevated stream temperatures, as indicated by exceedance of both acute (17–22 percent) and chronic (2–9 percent) water quality metrics. Summer water temperature profiles recorded at sites within current Rio Grande cutthroat trout habitat indicated that although the majority of currently occupied conservation streams have temperatures that fall well below these biologically based acute and chronic thermal thresholds, several sites may be at or approaching water temperatures considered stressful to cutthroat trout. Further, water temperatures should be considered in decisions regarding the current and future thermal suitability of potential Rio Grande cutthroat trout restoration sites. Additionally, baseflow discharge sampling indicated that a majority of the sampled stream segments containing Rio Grande cutthroat trout have flows less than 1.0 cubic feet per second (cfs) in both 2010 (74 percent) and 2011 (77 percent). The relative drought sensitivity of these low baseflow streams containing Rio Grande cutthroat trout could be further evaluated to assess their probable sustainability under possible future drought conditions.

Colorado;New Mexico;Texas↗

USGS2014

Quality-assurance and data-management plan for water-quality activities in the Kansas Water Science Center, 2014

As the Nation’s largest water, earth, and biological science and civilian mapping information agency, the U.S. Geological Survey is relied on to collect high-quality data, and produce factual and impartial interpretive reports. This quality-assurance and data-management plan provides guidance for water-quality activities conducted by the Kansas Water Science Center. Policies and procedures are documented for activities related to planning, collecting, storing, documenting, tracking, verifying, approving, archiving, and disseminating water-quality data. The policies and procedures described in this plan complement quality-assurance plans for continuous water-quality monitoring, surface-water, and groundwater activities in Kansas.

Kansas↗

USGS1989

National Research Program of the Water Resources Division, U.S. Geological Survey: Fiscal Year 1988

The National Research Program (NRP) of the US Geological Survey 's Water Resources Division (WRD) had its beginnings in the late 1950 's when ' core research ' was added as a line item to the Congressional budget. Since that time, the NRP has grown to encompass a broad spectrum of scientific investigations. The sciences of hydrology, mathematics, chemistry, physics, ecology, biology, geology, and engineering are used to gain a fundamental understanding of the processes that affect the availability, movement, and quality of the Nation 's water resources. The NRP is located principally in Reston, VA, Denver, CO, and Menlo Park , CA. The NRP is subdivided into six disciplines as follows: (1) Ecology; (2) Geomorphology and Sediment Transport; (3) Groundwater Chemistry; (4) Groundwater Hydrology; (5) Surface Water Chemistry; and (6) Surface Water Hydrology. The report provides current information about the NRP on an annual basis. Organized by the six research disciplines, the volume contains a summary of the problem, objective, approach, and progress for each project that was active during fiscal year 1988.

Open-File Report↗

USGS1996

U.S. Geological Survey federal-state cooperative water-resources program, fiscal year 1995

The Federal-State Cooperative Program is a major U.S. Geological Survey (USGS) activity for the collection, analysis, and reporting of information on the quantity, quality, and use of the Nation's water resources. The fundamental characteristic of the program is that most of the work is undertaken by the USGS through joint-funding agreements, with State, regional, and local agencies providing at least one-half the funds. The main objectives of the program are (1) to collect, on a systematic basis, data needed for the continuing determi- nation and evaluation of the quantity, quality, and use of the Nation's water resources; and (2) to appraise the availability and the physical, chemical, and biological characteristics of surface and ground water through data analysis and interpretive water-resources investigations and research. During fiscal year (FY) 1995, Cooperative Program activities were underway in offices in every State, Puerto Rico, and several territories in concert with about 1,100 cooperating agencies. In FY 1995, Federal funding of $62.1 million as matched by cooperating agencies, which also provided more than $28.2 million unmatched for a total program of about $152 million. This amounted to nearly 38 percent of the total funds for the USGS's water-resources activities. This report presents examples of FY 1995 investigations, as well as information on hydrologic data collection and water-use activities.

Open-File Report↗

USGS2015

Erratum to: Estimates of vital rates for a declining loggerhead turtle ( Caretta caretta ) subpopulation: implications for management

Erratum to: Mar Biol (2014) 161:2659–2668 DOI 10.1007/s00227-014-2537-0 The Open Robust Model methods used for analysis in this study were developed by Kendall and Bjorkland ( 2001 ) and Kendall ( 2010 ). The language used in this manuscript to describe formatting and implementation of data for these analyses was derived heavily from Phillips et al. ( 2014 ). Therefore, the wording in the last paragraph of the ‘Materials and methods’ (p. 2662) and in the last paragraph of the ‘Results’ (p. 2663) of our publication is largely identical to the corresponding sections on pp. 865–866 in Phillips et al. ( 2014 ). Unfortunately, we did not indicate this adequately, thus proper credit was not given to the contribution of Phillips et al. ( 2014 ) in our publication.

Marine Biology↗

USGS2022

FishStan: Hierarchical Bayesian models for fisheries

Fisheries managers and ecologists use statistical models to estimate population-level relations and demographic rates (e.g., length-maturity curves, growth curves, and mortality rates). These relations and rates provide insight into populations and inputs for other models. For example, growth curves may vary across lakes showing fish populations differ due to management actions or underlying environmental conditions. A fisheries manager could use this information to set lake-specific harvest limits or an ecologist could use this information to test scientific hypotheses about fish populations. The above example also demonstrates how populations exist within hierarchical structures where sub-populations may be nested within a meta-population. More generally, these hierarchical structures may be both biological (e.g., different lakes or river pools) and statistical (e.g., correlated error structures). Currently, limited options exist for fitting these hierarchical models and people seeking to use them often must program their own implementations. Furthermore, many fisheries managers and researchers may not have Bayesian programming skills, but many can use interactive languages such as R. Additionally, programs such as JAGS often require long run times (e.g., hours if not days) to fit hierarchical models and programs such as Stan can be more difficult to program because it is a compiled language. We created fishStan to share hierarchical models for fisheries and ecology in an easy-to-use R package.

Journal of Open Source Software↗

USGS2013

Mercury and water-quality data from Rink Creek, Salmon River, and Good River, Glacier Bay National Park and Preserve, Alaska, November 2009-October 2011

Glacier Bay National Park and Preserve (GBNPP), Alaska, like many pristine high latitude areas, is exposed to atmospherically deposited contaminants such as mercury (Hg). Although the harmful effects of Hg are well established, information on this contaminant in southeast Alaska is scarce. Here, we assess the level of this contaminant in several aquatic components (water, sediments, and biological tissue) in three adjacent, small streams in GBNPP that drain contrasting landscapes but receive similar atmospheric inputs: Rink Creek, Salmon River, and Good River. Twenty water samples were collected from 2009 to 2011 and processed and analyzed for total mercury and methylmercury (filtered and particulate), and dissolved organic carbon quantity and quality. Ancillary stream water parameters (discharge, pH, dissolved oxygen, specific conductance, and temperature) were measured at the time of sampling. Major cations, anions, and nutrients were measured four times. In addition, total mercury was analyzed in streambed sediment in 2010 and in juvenile coho salmon and several taxa of benthic macroinvertebrates in the early summer of 2010 and 2011.

Alaska↗

USGS1994

U. S. Geological Survey Federal-State Cooperative Water-Resources Program Fiscal Year 1993

The Federal-State Cooperative Program is a part- nership between the U.S. Geological Survey and State and local agencies. It provides a balanced approach to the study and resolution of water- related problems and to acquiring hydrologic data. The principal program objectives are to: (1) collect, on a systematic basis, data needed for the continuing determination and evaluation of the quantity, quality, and use of the Nation's water resources, and (2) appraise the availa- bility and the physical, chemical, and biological characteristics of surface and ground water through analytical and interpretive investi- gations. During fiscal year 1993, hydrologic data collection, interpretive investigations, and research were conducted by Geological Survey personnel in offices in every State, Puerto Rico, and in several territories in cooperation with about 1,100 local, State, and regional agencies. In fiscal year 1993, Federal funding of $63.5 million was matched by cooperating agencies, which also provided almost $23 million unmatched for a total program of about $150 million. This amounted to nearly 40 percent of the total funds for Geological Survey water- resources activities. This report presents examples of current (1993) investigations. It also provides updated information on Cooperative Program investigations related to agricultural activities.

Open-File Report↗

USGS1995

Water-quality, discharge, and biologic data for streams and springs in the Highland Rim Escarpment of southeastern Bedford County, Tennessee

From November 1994 through April 1995, streams and springs in 9 drainage basins were observed and sampled at 176 sites to obtain information on environmental quality near the Quail Hollow landfill, Bedford County, Tennessee. Reconnaissance data were collected to establish a regional pattern. Water samples from 26 seepage sites were analyzed to determine water-quality conditions. During the reconnaissance, conductivity ranged regionally from 17 to 617 microsiemens per centimeter. The greatest biologic diversity was in Bennett Branch, followed by Daniel Hollow, Prince, Powell and Renegar, County Line, and Anthony Branches, Hurricane Creek, and Anderton Branch, respectively. In general, conductivity was less than 50 microsiemens per centimeter at and upstream of the Chattanooga Shale but increased downstream to between 200 and 300 microsiemens per centimeter. Of the constituents and properties analyzed, only pH and four metals at six sites had values that were not within the limits set by the State of Tennessee for drinking water. Chloride and dissolved manganese concentrations were highest for a spring and a seep adjacent to the landfill. Scans indicated the presence of about 37 unidentified organic compounds at these same two sites.

Tennessee↗