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USGS2017

Archive of bathymetry data collected in South Florida from 1995 to 2015

Description Land development and alterations of the ecosystem in south Florida over the past 100 years have decreased freshwater and increased nutrient flows into many of Florida's estuaries, bays, and coastal regions. As a result, there has been a decrease in the water quality in many of these critical habitats, often prompting seagrass die-offs and reduced fish and aquatic life populations. Restoration of water quality in many of these habitats will depend partly upon using numerical-circulation and sediment-transport models to establish water-quality targets and to assess progress toward reaching restoration targets. Application of these models is often complicated because of complex sea floor topography and tidal flow regimes. Consequently, accurate and modern sea-floor or bathymetry maps are critical for numerical modeling research. Modern bathymetry data sets will also permit a comparison to historical data in order to help assess sea-floor changes within these critical habitats. New and detailed data sets also support marine biology studies to help understand migratory and feeding habitats of marine life. This data series is a compilation of 13 mapping projects conducted in south Florida between 1995 and 2015 and archives more than 45 million bathymetric soundings. Data were collected primarily with a single beam sound navigation and ranging (sonar) system called SANDS developed by the U.S. Geological Survey (USGS) in 1993. Bathymetry data for the Estero Bay project were supplemented with the National Aeronautics and Space Administration's (NASA) Experimental Advanced Airborne Research Lidar (EAARL) system. Data from eight rivers in southwest Florida were collected with an interferometric swath bathymetry system. The projects represented in this data series were funded by the USGS Coastal and Marine Geology Program (CMGP), the USGS South Florida Ecosystem Restoration Project- formally named Placed Based Studies, and other non-Federal agencies. The purpose of the data collection for all these projects was to support one or more of the following scientific aspects: numerical model applications, sea floor change analysis, or marine habitat investigations. This report serves as an archive of processed bathymetry sounding data, digital bathymetric contours, digital bathymetric maps, sea floor surface grids, and formal Federal Geographic Data Committee (FGDC) metadata. Refer to the Abbreviations page for explanations of acronyms and abbreviations used in this report. Since 2006, the USGS St. Petersburg Coastal and Marine Science Center (SPCMSC) assigns a unique identifier or Field Activity Number (FAN) for each field data collection. Projects described in this report conducted prior to 2006 do not have a FAN. Data from the 13 projects presented in this report provided critical hydrographic information to support multiple science projects in south Florida. The projects and the types of sounding data collected are: Florida Bay (1995-1999) - single-beam Lake Okeechobee (2001) - single-beam Tampa Bay (2001-2004) - single-beam Caloosahatchee River (2002)- single-beam Estero Bay to Matlacha Pass and offshore to Wiggins Pass (2003) - single-beam and airborne lidar North and Northwest Forks of the Loxahatchee and Lower St. Lucie Rivers (2003) - single-beam South Charlotte Harbor and offshore Sanibel Island (2003-2004) - single-beam Shark River and Trout Creek (2004) - single-beam and interferometric swath Southwest Florida Rivers (2004) - interferometric swath Offshore from Wiggins Pass to Cape Romano (2005) - single-beam Ten Thousand Islands (2009) - single-beam Lemon Bay (2011) - single-beam Southwest Florida Rivers (2015) - interferometric swath

Florida↗

USGS2017

Effectiveness of environmental flows for riparian restoration in arid regions: A tale of four rivers

Environmental flows have become important restoration tools on regulated rivers. However, environmental flows are often constrained by other demands within the river system and thus typically are comprised of smaller water volumes than the natural flows they are meant to replace, which can limit their functional efficacy. We review environmental flow programs aimed at restoring riparian vegetation on four arid zone rivers: the Tarim River in China; the Bill Williams River in Arizona, U.S.; the delta of the Colorado River in Mexico; and the Murrumbidgee River in southern Australia. Our goal is to determine what worked and what did not work to accomplish restoration goals. The lower Tarim River in China formerly formed a “green corridor” across the Taklamakan Desert. The riparian zone deteriorated due to diversion of surface and groundwater for irrigated agriculture. A massive restoration program began in 2000 with release of 1038 million cubic meters of water over the first three years. Groundwater levels rose but the ecological response was less than expected politically, socially and within the scientific community. However, releases continued and by 2015 portions of the original iconic Populus euphratica (Euphrates poplar) forest were reestablished. The natural flow regime of the Bill Williams River was disrupted by construction of a dam in 1968, dramatically reducing peak flows along with associated fluvial processes. As a result, the channel narrowed and riparian vegetation expanded and was comprised largely of an introduced shrub species ( Tamarix spp.). Environmental flow releases including small, managed floods and sustained base flows have been implemented since the mid 1990’s to promote establishment and maintenance of native riparian trees (cottonwoods and willows) and have been successful, although in a “downsized” portion of the valley bottom. Experience from the Bill Williams was used to help design the Minute 319 environmental flow in the delta of the Colorado River in 2014. Water was released as a short, one-time pulse during spring with the intent of starting new cohorts of cottonwood and willow. However, fluvial disturbance was limited by the relatively small magnitude pulse, low flows did not continue throughout the growing season in some reaches, native tree recruitment was low, and most of the new plants recruited were Tamarix . The inundated portion of the floodplain did respond with a temporary increase in greenness as measured by satellite vegetation indices, however. The Murrumbidgee River in Australia is a tributary in the Murray-Darling River Basin, which supports iconic red gum ( Eucalyptus camaldulensis ) forests that depend on near-yearly floods for maintenance. During the recent Millennial Drought (2000–2010) environmental flows were provided on an experimental basis to small portions of the Yanga National Forest to see how much water was needed. As with the Colorado River delta, gains in vegetation vigor as measured by satellite vegetation indices following the flows were temporary. Environmental flows in the Bill Williams were able to restore enough overbank flooding and fluvial disturbance to promote some establishment of new cohorts of trees, but on the Colorado and Murrumbidgee Rivers larger volumes of total flows released over longer periods and targeted restoration will be needed to restore the ecosystems. A measure of success in restoring the Euphrates poplar forest on the Tarim and germinating new chorts of willows on the Bill Williams has been achieved after 15–20 years of environmental flows, but the Colorado River delta and Murrumbidgee Rivers have only received one or two flows. Success in enhancing native trees in the Colorado delta has been achieved in restoration plots, but the Murrumbidgee will require large overbank flows on a continuing schedule to rejuvenate the red gum forest.

Ecological Engineering↗

USGS2025

Infrasonic directivity of monopole, dipole, and bipole ground-surface reflected sources

Infrasound (acoustic waves below 20 Hz) can be used to detect, locate and quantify activity in the atmosphere such as volcanic eruptions and anthropogenic explosions. Attempts to quantify volcanic eruption parameters such as exit velocity, plume height and mass flow rate using infrasound data depend strongly on assumptions of the acoustic source type. Infrasonic sources may produce omnidirectional or directional wavefields, while propagation effects, such as interaction with topography, can induce further wavefield directivity that is measured by field instrumentation. Limited sampling of these wavefields can hinder our ability to infer the underlying source, and thus our understanding of the eruption characteristics. Equivalent sources are often used to represent acoustic source mechanisms and resultant wavefields. In this study, we review equivalent acoustic sources as they pertain to infrasonic scale and wavelengths commonly encountered in very local ( ⁠< 5 km range) geophysical field deployments. We highlight the equivalent infrasonic bipole source that can be induced by ground-reflection of an elevated monopole; we are not aware of any prior infrasound studies that use the bipole source concept. We use analytical and numerical methods to explore source directivity of monopole, dipole and bipole ground-reflected sources at infrasonic frequencies as well as the additional directivity complications introduced by interactions with topography. We illustrate that for typical volcano-infrasound wavelengths, increasing height above the ground as well as increasing source frequency leads to increased wavefield directivity. Numerical modelling using a simple omnidirectional monopole source embedded in topography further illustrates that both horizontal and vertical infrasound directionality can be induced by topography at the distance scales appropriate for local volcano infrasound monitoring. Information summarized in this analytical and numerical exploration of infrasound directivity may be used to help guide future volcano-infrasound field deployments intended to estimate source parameters or quantify wavefield directivity. Analytic solutions for simple whole-space or half-space atmospheres provide useful formulations for planning or initially analysing geophysical field-scale experimental data; however, especially at very local distances from the source ( ⁠< 5 km), 3-D simulations are necessary to account for complex topography commonly encountered in volcano-infrasound applications.

Geophysical Journal International↗

USGS2011

U.S. Geological Survey Karst Interest Group Proceedings, Fayetteville, Arkansas, April 26-29, 2011

Karst aquifer systems are present throughout parts of the United States and some of its territories and are developed in carbonate rocks (primarily limestone and dolomite) that span the entire geologic time frame. The depositional environments, diagenetic processes, and post-depositional tectonic events that form carbonate rock aquifers are varied and complex, involving both biological and physical processes that can influence the development of permeability. These factors, combined with the diverse climatic regimes under which karst development in these rocks has taken place result in the unique dual or triple porosity nature of karst aquifers. These complex hydrologic systems often present challenges to scientists attempting to study groundwater flow and contaminant transport. The concept for developing a Karst Interest Group evolved from the November 1999 National Groundwater Meeting of the U.S. Geological Survey (USGS), Water Resources Division. As a result, the Karst Interest Group was formed in 2000. The Karst Interest Group is a loose-knit grass-roots organization of USGS employees devoted to fostering better communication among scientists working on, or interested in, karst hydrology studies. The mission of the Karst Interest Group is to encourage and support interdisciplinary collaboration and technology transfer among USGS scientists working in karst areas. Additionally, the Karst Interest Group encourages cooperative studies between the different disciplines of the USGS and other Federal agencies, and university researchers or research institutes. This fifth workshop is a joint workshop of the USGS Karst Interest Group and University of Arkansas HydroDays workshop, sponsored by the USGS, the Department of Geosciences at the University of Arkansas in Fayetteville. Additional sponsors are: the National Cave and Karst Research Institute, the Edwards Aquifer Authority, San Antonio, Texas, and Beaver Water District, northwest Arkansas. The majority of funding for the proceedings preparation and workshop was provided by the USGS Groundwater Resources Program, National Cooperative Mapping Program, and the Regional Executives of the Northeast, Southeast, Midwest, South Central and Rocky Mountain Areas. The University of Arkansas provided the rooms and facilities for the technical and poster presentations of the workshop, vans for the field trips, and sponsored the HydroDays banquet at the Savoy Experimental Watershed on Wednesday after the technical sessions.

Scientific Investigations Report↗

USGS1979

Connector well experiment to recharge the Floridan Aquifer, East Orange County, Florida

An experimental connector well, screened in the shallow sand aquifer, finished with open hole in the Floridan aquifer, and cased through the confining layer between the two aquifers, was drilled in east Orange County, Florida, to obtain information on the nature and function of the shallow aquifer as related to connector well operation. The potentiometric surface of the shallow aquifer is about 45 feet higher than the potentiometric surface of the Floridan aquifer; hence water flows by gravity from the shallow aquifer to the Floridan aquifer through the well ' connecting ' the two aquifers. Continuous flow measurement over 10 months shows the well discharge varies seasonally and averages slightly more than 50 gallons per minute. Observation wells show that, except for seasonal variation water levels within the area of influence have reached steady state within measurable limits. Vertical anisotrophy in the shallow aquifer is apparently caused by the shape and (or) arrangement of the sand grains that comprise the shallow aquifer , rather than distinct confining layers of different lithology. Transmissivity of the shallow aquifer at the site is about 600 square feet per day. Extensive dewatering of wetlands in east Orange County by connector wells alone is probably not feasible. Nevertheless, large amounts of water could be channeled to the Floridan aquifer by connector wells. The results of the connector well experiment imply that water is being captured from evapotranspiration and runoff in the vicinity of the connector well. (Woodard-USGS)

Florida↗

USGS1997

Chemical element concentrations in four lichens on a transect entering Voyageurs National Park

A three factor transect study was conducted to test the hypothesis that chemical elements from air emissions in the vicinity of International Falls, Minnesota could not be detected in lichens along a 24 km transect reaching into Voyageurs National Park. It was hypothesized that element concentrations in lichens would decline exponentially downwind and would reach background values at a distance before the park boundary. Four species ( Cladina rangiferina, Evernia mesomorpha, Hypogymnia physodes , and Parmelia sulcata ) were sampled at ten sites for 3 years and 17 chemical elements were measured. The most notable result was a curvilinear geographic trend for many elements, which decreased from International Falls and then increased towards the park. This trend was significant for many anthropogenic elements, including S, Hg, Cd, and Cr, and for all four species. This type of distribution pattern has been observed in Hypogymnia physodes in other studies downwind of a steel mill and an oil refinery. Cladina , a ground-dwelling lichen, generally had lower tissue concentrations of the elements than the three epiphytic species. Tissue concentrations over the 3 years of sampling declined an average of 12%. Sufficient evidence exists to conclude that lichen tissue element concentrations in the vicinity of International Falls may be related to local air emissions, and that an exponential decline of element concentrations downwind of the sources does not apply to this situation.

Minnesota↗

USGS2004

LIDAR optical rugosity of coral reefs in Biscayne National Park, Florida

The NASA Experimental Advanced Airborne Research Lidar (EAARL), a temporal waveform-resolving, airborne, green wavelength LIDAR (light detection and ranging), is designed to measure the submeter-scale topography of shallow reef substrates. Topographic variability is a prime component of habitat complexity, an ecological factor that both expresses and controls the abundance and distribution of many reef organisms. Following the acquisition of EAARL coverage over both mid-platform patch reefs and shelf-margin bank reefs within Biscayne National Park in August 2002, EAARL-based optical indices of topographic variability were evaluated at 15 patch reef and bank reef sites. Several sites were selected to match reefs previously evaluated in situ along underwater video and belt transects. The analysis used large populations of submarine topographic transects derived from the examination of closely spaced laser spot reflections along LIDAR raster scans. At all 15 sites, each LIDAR transect was evaluated separately to determine optical rugosity (Rotran), and the average elevation difference between adjacent points (Av(??E ap)). Further, the whole-site mean and maximum values of Ro tran and Av(??Eap) for the entire population of transects at each analysis site, along with their standard deviations, were calculated. This study revealed that the greater habitat complexity of inshore patch reefs versus outer bank reefs results in relative differences in topographic complexity that can be discerned in the laser returns. Accordingly, LIDAR sensing of optical rugosity is proposed as a complementary new technique for the rapid assessment of shallow coral reefs. ?? Springer-Verlag 2004.

Coral Reefs↗

USGS1994

Airborne remote sensing for geology and the environment; present and future

In 1988, a group of leading experts from government, academia, and industry attended a workshop on airborne remote sensing sponsored by the U.S. Geological Survey (USGS) and hosted by the Branch of Geophysics. The purpose of the workshop was to examine the scientific rationale for airborne remote sensing in support of government earth science in the next decade. This report has arranged the six resulting working-group reports under two main headings: (1) Geologic Remote Sensing, for the reports on geologic mapping, mineral resources, and fossil fuels and geothermal resources; and (2) Environmental Remote Sensing, for the reports on environmental geology, geologic hazards, and water resources. The intent of the workshop was to provide an evaluation of demonstrated capabilities, their direct extensions, and possible future applications, and this was the organizational format used for the geologic remote sensing reports. The working groups in environmental remote sensing chose to present their reports in a somewhat modified version of this format. A final section examines future advances and limitations in the field. There is a large, complex, and often bewildering array of remote sensing data available. Early remote sensing studies were based on data collected from airborne platforms. Much of that technology was later extended to satellites. The original 80-m-resolution Landsat Multispectral Scanner System (MSS) has now been largely superseded by the 30-m-resolution Thematic Mapper (TM) system that has additional spectral channels. The French satellite SPOT provides higher spatial resolution for channels equivalent to MSS. Low-resolution (1 km) data are available from the National Oceanographic and Atmospheric Administration's AVHRR system, which acquires reflectance and day and night thermal data daily. Several experimental satellites have acquired limited data, and there are extensive plans for future satellites including those of Japan (JERS), Europe (ESA), Canada (Radarsat), and the United States (EOS). There are currently two national airborne remote sensing programs (photography, radar) with data archived at the USGS' EROS Data Center. Airborne broadband multispectral data (comparable to Landsat MSS and TM but involving several more channels) for limited geographic areas also are available for digital processing and analysis. Narrow-band imaging spectrometer data are available for some NASA experiment sites and can be acquired for other locations commercially. Remote sensing data and derivative images, because of the uniform spatial coverage, availability at different resolutions, and digital format, are becoming important data sets for geographic information system (GIS) analyses. Examples range from overlaying digitized geologic maps on remote sensing images and draping these over topography, to maps of mineral distribution and inferred abundance. A large variety of remote sensing data sets are available, with costs ranging from a few dollars per square mile for satellite digital data to a few hundred dollars per square mile for airborne imaging spectrometry. Computer processing and analysis costs routinely surpass these expenses because of the equipment and expertise necessary for information extraction and interpretation. Effective use requires both an understanding of the current methodology and an appreciation of the most cost-effective solution.

Bulletin↗

USGS2022

Assessing runoff and erosion on woodland-encroached sagebrush steppe using the Rangeland Hydrology and Erosion Model

The transition of sagebrush-dominated ( Artemisia spp.) shrublands to pinyon ( Pinus spp.) and juniper ( Juniperus spp.) woodlands markedly alters resource-conserving vegetation structure typical of these landscapes. Land managers and scientists in the western United States need knowledge and predictive tools for assessment and effective targeting of tree-removal treatments to conserve or restore sagebrush vegetation and associated hydrologic function. This study developed modeling approaches to quantify the hydrologic vulnerability and erosion potential of sagebrush rangelands in the later stages of woodland encroachment and in response to commonly applied tree-removal treatments. Using experimental data from multiple sites in the Great Basin Region, USA, and process-based knowledge from decade-long vegetation and rainfall simulation studies at those sites, we (1) assessed the capability of the Rangeland Hydrology and Erosion Model (RHEM) to accurately predict patch-scale (12 m 2 ) measured runoff and erosion from tree canopy and intercanopy hydrologic functional units in untreated and burned woodlands 9 years postfire, and (2) developed and evaluated multiple RHEM approaches/frameworks to model aggregated effects of tree canopy and intercanopy areas on patch- and hillslope-scale (50 m length) runoff and erosion processes in untreated and treated (burned, cut, and masticated) woodlands. The RHEM accurately predicted measured runoff and sediment yield from patch-scale rainfall simulations as partitioned on untreated and treated tree canopy and intercanopy areas and effectively parameterized the dominant controls on runoff and erosion process in woodlands. With few exceptions, evaluated hillslope-scale RHEM frameworks similarly predicted reduced hydrologic vulnerability and erosion potential for conditions 9 years following tree removal by burning, cutting, and mastication treatments. Regressions of RHEM-predicted hillslope runoff, sediment, and hydraulic/erosion parameters with bare ground and ground cover attributes indicate all RHEM frameworks effectively represented the dominant controls on hydrologic and erosion processes for rangelands and woodlands. The results provide RHEM frameworks and recommendations for assessing hydrologic vulnerability and erosion potential on woodland-encroached sites and predicting the effectiveness of tree removal to reestablish a water and soil resource-conserving vegetation structure on sagebrush rangelands. We anticipate our RHEM or similar modeling approaches may be applicable to analogous water-limited landscapes elsewhere subject to woody plant encroachment.

Nevada, Utah↗

USGS1983

Connector well experiment to recharge the Floridan aquifer, east Orange County, Florida

An experimental connector well, screened in the shallow sand aquifer, finished with open hole in the Floridan aquifer and cased through the confining layer between the two aquifers, was drilled in east Orange County, Fla., to obtain information on the nature and function of the shallow aquifer as related to connector well operation. The potentiometric surface of the shallow aquifer is about 45 feet higher than the potentiomettic surface of the Floridan aquifer; hence water flows by gravity from the shallow aquifer to the Floridan aquifer through the well 'connecting' the two aquifers. Continuous flow measurement over 10 months shows the well discharge varies seasonally and averages slightly more than 50 gallons per minute. Observation wells show that, except for seasonal variation, water levels within the area of influence have reached steady state within measurable limits. Vertical anisotropy in the shallow aquifer is apparently caused by the shape and (or) arrangement of the sand grains that comprise the shallow aquifer, rather than because of distinct confining layers of different lithology. Transmissivity of the shallow aquifer at the site is about 600 square feet per clay. Extensive dewatering of wetlands in east Orange County by connector wells alone probably is not feasible. Nevertheless, large amounts of water could be channeled to the Floridan aquifer by connector wells. The results of the connector well experiment imply that water is being captured from evapotranspiration and interception of water that would have discharged to swamps in the vicinity of the connector well. However, the data available from this experiment do not permit a quantitative expression of the net gain in recharge to the Floridan aquifer resulting from operation of the connector well.

Water Supply Paper↗

USGS2025

Effects of riparian forest thinning on resident salmonid fishes in coastal northern California catchments

Resource managers are interested in whether thinning second-growth forests may be a viable restoration strategy for stream and riparian habitats, but may be concerned about the potential impacts that increases in stream temperature associated with riparian thinning treatments may have on cold-water salmonid fishes. We evaluated the effects of riparian forest thinning on resident populations of coastal cutthroat trout ( Oncorhynchus clarkii clarkii ) in coastal northern California catchments using a manipulative field experiment with a replicated before-after-control-impact design (pre-treatment data collected in 2016, thinning treatments occurred in 2017, and post-treatment data collected in 2018). Experimental thinning treatments reduced riparian shade by 20%–30% along five 150–200 m stream reaches. To provide a process-based evaluation of the implications of riparian thinning for coastal cutthroat trout, we combined seasonal observations of trout density, biomass, and growth with bioenergetics modelling. Cutthroat trout density increased by 8%–31% and biomass increased by 27%–111% in thinned reaches 1 year post-treatment, but responses varied widely across sites and seasons so did not always differ statistically. Growth rates of cutthroat trout varied more among seasons than among reach types (upstream reference, thinned, and downstream), peaking in spring and overwinter relative to summer. Bioenergetics modelling indicated that cutthroat trout responded to thinning-induced increases in stream temperature and shifts in prey energy density via higher consumption rates (i.e., fish fed more frequently) in thinned reaches. Additionally, reach-scale consumption estimates indicated that the energy intake of cutthroat trout increased at the population level in thinned reaches. However, thinned reaches exhibited relatively small changes in consumption, suggesting that riparian thinning was unlikely to enhance growth opportunities for cutthroat trout, supporting our empirical growth observations. Collectively, our field experiment suggests that salmonid fishes may be resilient to thinning second-growth riparian forests when treatments do not substantially increase water temperatures. Moreover, our results highlight that pairing empirical data with bioenergetics modelling can provide valuable insights into the mechanisms driving fish responses to riparian forest restoration.

California↗

USGS2011

Passage and behavior of adult American shad in an experimental louver bypass system

We tested 436 adult American shad Alosa sapidissima in an experimental louver bypass system, which was similar to a system operating at Holyoke Dam, Massachusetts, to determine guidance and passage efficiency and to study fish response to stimuli from physical structures, light intensity, and water velocity. Groups of 5–29 fish were exposed to combinations of two bypass exits (wide-shallow and vertical-slot sharp-crested weirs) and two louver arrays (7.6- and 15.2-cm slat spacing) oriented 20° to water flow direction. Underwater video observations showed fish responded to louvers as a physical barrier during the day, when they stayed 30–55 cm (1.3 cm/5 klx) away from and oriented parallel to louvers, and as a behavioral barrier at night, when they moved closer to louvers and oriented into the current. Both louver arrays guided fish effectively, (i.e., prevented fish from passing through the slats) 100% for narrow spacing and 97% for wide spacing. Adults avoided moving closer than 0.5 m to either exit type; instead, fish remained 0.8–1.4 bodylengths upstream, depending on light intensity (farther upstream during daytime, similar to behavior at louvers). At exits, water velocity increased from 0.4 m/s to 0.8 m/s or more in a distance of 0.9 m (rate of velocity increase, 0.44 m/s per meter). This rapid velocity increase elicited an avoidance response by fish that resulted in few fish (5%) passing. Our results provide behavioral explanations for the efficient guidance of adult American shad by louvers and for the fishes' avoidance of the exit at the Holyoke Dam. From this, we provide suggestions on how to prevent fish avoidance of exits.

Massachusetts↗

USGS2003

A simple analytical procedure to replace HPLC for monitoring treatment concentrations of chloramine-T on fish culture facilities

Concentrations of chloramine-T must be monitored during experimental treatments of fish when studying the effectiveness of the drug for controlling bacterial gill disease. A surrogate analytical method for analysis of chloramine-T to replace the existing high-performance liquid chromatography (HPLC) method is described. A surrogate method was needed because the existing HPLC method is expensive, requires a specialist to use, and is not generally available at fish hatcheries. Criteria for selection of a replacement method included ease of use, analysis time, cost, safety, sensitivity, accuracy, and precision. The most promising approach was to use the determination of chlorine concentrations as an indicator of chloramine-T. Of the currently available methods for analysis of chlorine, the DPD ( N , N -diethyl- p -phenylenediamine) colorimetric method best fit the established criteria. The surrogate method was evaluated under a variety of water quality conditions. Regression analysis of all DPD colorimetric analyses with the HPLC values produced a linear model ( Y =0.9602 X +0.1259) with an r 2 value of 0.9960. The average accuracy (percent recovery) of the DPD method relative to the HPLC method for the combined set of water quality data was 101.5%. The surrogate method was also evaluated with chloramine-T solutions that contained various concentrations of fish feed or selected densities of rainbow trout. When samples were analyzed within 2 h, the results of the surrogate method were consistent with those of the HPLC method. When samples with high concentrations of organic material were allowed to age more than 2 h before being analyzed, the DPD method seemed to be susceptible to interference, possibly from the development of other chloramine compounds. However, even after aging samples 6 h, the accuracy of the surrogate DPD method relative to the HPLC method was within the range of 80–120%. Based on the data comparing the two methods, the U.S. Food and Drug Administration has concluded that the DPD colorimetric method is appropriate to use to measure chloramine-T in water during pivotal efficacy trials designed to support the approval of chloramine-T for use in fish culture.

Aquaculture↗

USGS2017

Critical zone properties control the fate of nitrogen during experimental rainfall in montane forests of the Colorado Front Range

Several decades of research in alpine ecosystems have demonstrated links among the critical zone, hydrologic response, and the fate of elevated atmospheric nitrogen (N) deposition. Less research has occurred in mid-elevation forests, which may be important for retaining atmospheric N deposition. To explore the fate of N in the montane zone, we conducted plot-scale experimental rainfall events across a north–south transect within a catchment of the Boulder Creek Critical Zone Observatory. Rainfall events mimicked relatively common storms (20–50% annual exceedance probability) and were labeled with 15 N-nitrate ( NO 3 − "> NO − 3 NO3− ) and lithium bromide tracers. For 4 weeks, we measured soil–water and leachate concentrations of Br − , 15 NO 3 − , "> 15 NO − 3 , 15NO3−, and NO 3 − "> NO − 3 NO3− daily, followed by recoveries of 15 N species in bulk soils and microbial biomass. Tracers moved immediately into the subsurface of north-facing slope plots, exhibiting breakthrough at 10 and 30 cm over 22 days. Conversely, little transport of Br − or 15 NO 3 − "> 15 NO − 3 15NO3− occurred in south-facing slope plots; tracers remained in soil or were lost via pathways not measured. Hillslope position was a significant determinant of soil 15 N- NO 3 − "> NO − 3 NO3− recoveries, while soil depth and time were significant determinants of 15 N recovery in microbial biomass. Overall, 15 N recovery in microbial biomass and leachate was greater in upper north-facing slope plots than lower north-facing (toeslope) and both south-facing slope plots in August; by October, 15 N recovery in microbial N biomass within south-facing slope plots had increased substantially. Our results point to the importance of soil properties in controlling the fate of N in mid-elevation forests during the summer season.

Biogeochemistry↗

USGS2007

Evaluation of an experimental LiDAR for surveying a shallow, braided, sand-bedded river

Reaches of a shallow (<1.0m), braided, sand-bedded river were surveyed in 2002 and 2005 with the National Aeronautics and Space Administration's Experimental Advanced Airborne Research LiDAR (EAARL) and concurrently with conventional survey-grade, real-time kinematic, global positioning system technology. The laser pulses transmitted by the EAARL instrument and the return backscatter waveforms from exposed sand and submerged sand targets in the river were completely digitized and stored for postflight processing. The vertical mapping accuracy of the EAARL was evaluated by comparing the ellipsoidal heights computed from ranging measurements made using an EAARL terrestrial algorithm to nearby (<0.5m apart) ground-truth ellipsoidal heights. After correcting for apparent systematic bias in the surveys, the root mean square error of these heights with the terrestrial algorithm in the 2002 survey was 0.11m for the 26 measurements taken on exposed sand and 0.18m for the 59 measurements taken on submerged sand. In the 2005 survey, the root mean square error was 0.18m for 92 measurements taken on exposed sand and 0.24m for 434 measurements on submerged sand. In submerged areas the waveforms were complicated by reflections from the surface, water column entrained turbidity, and potentially the riverbed. When applied to these waveforms, especially in depths greater than 0.4m, the terrestrial algorithm calculated the range above the riverbed. A bathymetric algorithm has been developed to approximate the position of the riverbed in these convolved waveforms and preliminary results are encouraging. ?? 2007 ASCE.

Journal of Hydraulic Engineering↗

USGS2011

Removal of nonnative slider turtles (Trachemys scripta) and effects on native Sonora mud turtles (Kinosternon sonoriense) at Montezuma Well, Yavapai County, Arizona

The National Park Service (NPS) estimates that 234 national parks contain nonnative, invasive animal species that are of management concern (National Park Service, 2004). Understanding and controlling invasive species is thus an important priority within the NPS (National Park Service, 1996). The slider turtle (Trachemys scripta) is one such invasive species. Native to the Southeastern United States (Ernst and Lovich, 2009), as well as Mexico, Central America, and portions of South America (Ernst and Barbour, 1989), the slider turtle has become established throughout the continental United States and in other locations around the world (Burke and others, 2000). Slider turtle introductions have been suspected to be a threat to native turtles (Holland 1994; da Silva and Blasco, 1995), however, there has not been serious study of their effects until recently. Cadi and Joly (2003) found that slider turtles outcompeted European pond turtles (Emys orbicularis) for preferred basking sites under controlled experimental conditions, demonstrating for the first time direct competition for resources between a native and an exotic turtle species. Similarly, Spinks and others (2003) suggested that competition for basking sites between slider turtles and Pacific pond turtles (Actinemys marmorata) was partly responsible for the decline of Pacific pond turtles observed at their study site in California. They concluded that the impact of introduced slider turtles was 'almost certainly negative' for the western pond turtle. In the most recent critical study to assess the effects of introduced slider turtles on native turtles, Cadi and Joly (2004) demonstrated that European pond turtles that were kept under experimentally controlled conditions with slider turtles lost body weight and exhibited higher rates of mortality than in control groups of turtles comprised of the same species, demonstrating potential population-level effects on native species. Slider turtles are not native to Arizona but have been introduced in several areas in the southern and central part of the State, including Montezuma Well (the Well). The only native turtle at the Well is the Sonora mud turtle (Kinosternon sonoriense). Interactions between sliders and mud turtles have not been investigated at the Well or elsewhere. However, basking sites preferred by aquatic turtles are rare at the Well, suggesting one potential avenue for resource competition between sliders and Sonora mud turtles. In this study, we collected data on both species to evaluate the possible effects of slider turtles on Sonora mud turtles at Montezuma Well. During live trapping in the spring, summer, and early fall of 2007 and 2008, we removed slider turtles that we captured in the Well. We also collected ecological data on the mud turtles captured in the trapping effort. Separate behavioral observations of the turtles in the Well provided additional information on the ecology of the two species in the unusual environment of the Well, and also of interactions between the sliders and mud turtles. In this report, we describe the results of 2 yr of study of the turtles of Montezuma Well. We incorporate older data on the mud turtles in the Well to assess long-term population trends and potential response to the introduced slider turtles. We also report on aspects of basic ecology for the poorly understood Sonora mud turtle. The National Park Service requested that we incorporate public outreach as part of this research effort, so we also describe the outreach efforts associated with the turtle study.

Open-File Report↗

USGS2011

Specificity of DNA vaccines against the U and M genogroups of infectious hematopoietic necrosis virus (IHNV) in rainbow trout (Oncorhynchus mykiss)

Infectious hematopoietic necrosis virus (IHNV) is a fish rhabdovirus that causes significant mortality in salmonid species. In North America IHNV has three major genogroups designated U, M, and L. Host-specificity of the M and U genogroups of IHNV has been established both in the field and in experimental challenges, with M isolates being more prevalent and more virulent in rainbow trout (Oncorhynchus mykiss), and U isolates being more prevalent and highly virulent in sockeye salmon (Oncorhynchus nerka). In this study, efficacy of DNA vaccines containing either M (pM) or U (pU) virus glycoprotein genes was investigated during intra- and cross-genogroup challenges in rainbow trout. In virus challenges at 7 days post-vaccination (early antiviral response), both pM and pU were highly protective against either M or U IHNV. In challenges at 28 days post-vaccination (specific antiviral response), both pM and pU were protective against M IHNV but the homologous pM vaccine was significantly more protective than pU in one of two experiments. At this stage both pM and pU induced comparably high protection against U IHNV challenge. Correlates of protection were also investigated by assessing the expression of the interferon-stimulated gene Mx-1 and the production of neutralizing antibodies (NAbs) following pM or pU DNA vaccination. Mx-1 gene expression, measured at 4 and 7 days post-vaccination as an indicator of the host innate immune response, was found to be significantly higher after pM than pU vaccination in some cases. Neutralizing antibody was produced in response to the two vaccines, but antibody titers did not show consistent correlation with protection. The results show that the rainbow trout innate and adaptive immune responses have some ability to distinguish between the U and M genogroup IHNV, but overall the pM and pU vaccines were protective against both homologous and cross-genogroup challenges.

Fish and Shellfish Immunology↗

USGS1999

The diving physiology of bottlenose dolphins (Tursiops truncatus). III. Thermoregulation at depth

During diving, marine mammals initiate a series of cardiovascular changes that include bradycardia and decreased peripheral circulation. Because heat transfer from thermal windows located in peripheral sites of these mammals depends on blood flow, such adjustments may limit their thermoregulatory capabilities during submergence. Here, we demonstrate how the thermoregulatory responses of bottlenose dolphins ( Tursiops truncatus ) are coordinated with the diving response. Heart rate, skin temperature and heat transfer from the dorsal fin and flank were measured while dolphins rested on the water surface, stationed 5–50 m under water and floated at the surface immediately following a dive. The results showed that heat flow ranged from 42.9±7.3 to 126.2±23.1 W m −2 and varied with anatomical site and diving activity. Upon submergence, heat flow declined by 35 % from the dorsal fin and by 24 % from the flank. An immediate increase in heat flow to levels exceeding pre-dive values occurred at both sites upon resurfacing. Changes in heart rate during diving paralleled the thermoregulatory responses. Mean pre-dive heart rate (102.0±2.6 beats min −1 , N =26) decreased by 63.4 % during dives to 50 m and immediately returned to near resting levels upon resurfacing. These studies indicate that heat dissipation by dolphins is attenuated during diving. Rather than challenge the diving response, heat transfer is delayed until post-dive periods when the need for oxygen conservation is reduced.

Journal of Experimental Biology↗