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USGS2008

Ground-water quality data in the Kern County Subbasin study unit, 2006— Results from the California GAMA Program

Ground-water quality in the approximately 3,000 square-mile Kern County Subbasin study unit (KERN) was investigated from January to March, 2006, as part of the Priority Basin Assessment Project of the Groundwater Ambient Monitoring and Assessment (GAMA) Program. The GAMA Priority Basin Assessment project was developed in response to the Groundwater Quality Monitoring Act of 2001, and is being conducted by the California State Water Resources Control Board (SWRCB) in collaboration with the U.S. Geological Survey (USGS) and the Lawrence Livermore National Laboratory (LLNL). The Kern County Subbasin study was designed to provide a spatially unbiased assessment of raw (untreated) ground-water quality within KERN, as well as a statistically consistent basis for comparing water quality throughout California. Samples were collected from 50 wells within the San Joaquin Valley portion of Kern County. Forty-seven of the wells were selected using a randomized grid-based method to provide a statistical representation of the ground-water resources within the study unit. Three additional wells were sampled to aid in the evaluation of changes in water chemistry along regional ground-water flow paths. The ground-water samples were analyzed for a large number of man-made organic constituents (volatile organic compounds [VOCs], pesticides, and pesticide degradates), constituents of special interest (perchlorate, N-nitrosodimethylamine [NDMA], and 1,2,3-trichloropropane [1,2,3-TCP]), naturally occurring inorganic constituents (nutrients, major and minor ions, and trace elements), radioactive constituents, and microbial indicators. Naturally occurring isotopes (tritium, carbon-14, and stable isotopes of hydrogen, oxygen, nitrogen, and carbon) and dissolved noble gases also were measured to help identify the source and age of the sampled ground water. Quality-control samples (blanks, replicates, and laboratory matrix spikes) were collected and analyzed at approximately 10 percent of the wells, and the results for these samples were used to evaluate the quality of the data from the ground-water samples. Assessment of the quality-control information resulted in censoring of less than 0.4 percent of the data collected for ground-water samples. This study did not attempt to evaluate the quality of water delivered to consumers; after withdrawal from the ground, raw ground water typically is treated, disinfected, or blended with other waters to maintain acceptable water quality. Regulatory thresholds apply, not to the raw ground water, but to treated water that is served to the consumer. However, to provide some context for the results, concentrations of constituents measured in the raw ground water were compared with health-based thresholds established by the U.S. Environmental Protection Agency (USEPA) and the California Department of Public Health (CDPH), and as well as with thresholds established for aesthetic concerns (secondary maximum contaminant levels, SMCL-CA) by CDPH. VOCs and pesticides each were detected in approximately 60 percent of the grid wells, and detections of all compounds but one were below health-based thresholds. The fumigant, 1,2-dibromo-3-chloropropane (DBCP), was detected above the USEPA maximum contaminant level (MCL-US) in one sample. Detections of most inorganic constituents were also below health-based thresholds. Constituents detected above health-based thresholds include: nitrate, (MCL-US, 2 samples), arsenic (MCL-US, 2 samples), and vanadium (California notification level, NL-CA, 1 sample). All detections of radioactive constituents were below health-based thresholds, although nine samples had activities of radon-222 above the lower proposed MCL-US. Most of the samples from KERN wells had concentrations of major elements, total dissolved solids, and trace elements below the non-enforceable thresholds set for aesthetic concerns.

California↗

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↗

USGS2007

Mountain Lions of the Flagstaff Uplands: 2003-2006 Progress Report

Executive Summary Stakeholders in management of mountain lions in the Flagstaff Uplands of northern Arizona have expressed increasing concern about both potential impacts of humans on lions and potential risks posed by lions to humans. A series of human-mountain lion encounters during 2000-2001 on Mt. Elden, immediately adjacent to Flagstaff, and similar incidents during 2004 near Tucson brought increased attention to management of human safety in mountain lion range. These human-centered concerns, together with long-standing questions about how the human infrastructure centered on Flagstaff might be affecting lion movements led us to initiate a mountain lion study in 2003 which we plan to continue through 2009. Our study focuses on movements and other behaviors of mountain lions, with the goal of providing information that can be used to increase human safety, decrease human impacts, and, overall, provide insight into the ecology of lions in this region. To serve this goal, we have focused on collecting data that will be the basis of explanatory models that can provide spatially-explicit predictions of mountain lion activity, specify the effects of human facilities, such as highways and urban areas, and provide insight into when, where, and how often different kinds of lions kill different kinds of prey. During 2003-2006, we captured six female and five male mountain lions in the Flagstaff Uplands, 10 of which we fitted with collars that collected up to six high-precision GPS fixes per day, transmitted daily to our offices via Argos satellites. This timely delivery of data allowed us to visit kill sites and other foci of localized activity to collect detailed information on lion behavior. By June 2006 we had obtained 9357 GPS locations and visited 394 sites, at which we documented 218 kills, 165 of which were by five females and 53 by five males. These data were the basis for preliminary analyses presented in this report. All lions during all seasons exhibited a strong selection for rough terrain and forest or woodland cover. Females differed from males by selecting more strongly for intermediate, rather than extreme, levels of terrain roughness, by selecting more strongly for chaparral vegetation and related rocky areas during winter, and by not selecting as strongly for areas near water sources. Overall, lions collared during this study strongly avoided flat open areas in private ownership. Male but not female lions exhibited pronounced selection for National Park Service jurisdictions. Both males and females year-round avoided residential areas and a zone outward to about 1-3 km and, when within this zone, moved more slowly and with less change in direction compared to when farther away. Collared lions have so far rarely crossed paved highways of any description - orders of magnitude less often than expected by chance. We observed only 3 crossings of an interstate highway, all on I17 and none on I40. Elk comprised the majority (52%) of kills by lions in our study, followed by mule deer (46%), and small mammals (15%). Adults comprised most of the mule deer kills (68%) and mesocarnivores, primarily coyotes (n = 21), comprised 73% of smaller prey. Calf and short-yearling elk comprised the largest single category of kills (29%). In addition to kills, we documented seven instances of scavenging, involving four different lions. Females differed from males by killing more mule deer and virtually all of the mesocarnivores, and by killing fewer elk of all ages. Intervals between kills averaged between 144 hrs (young females) to 221 hours (adult females), whereas average time spent on a kill ranged from 19 hrs (adult males) to 40 hrs (young males). Carcass mass had a strong effect on likelihood that a lion would bury or relocate a kill, the percentage of edibles consumed, and overall time spent feeding. Time spent feeding and likelihoods of carcass burial and relocation all peaked at intermediate carcass masses, suggesting an optimal mass in the range of 50-150 kg, likely dictated as much by handling efficiencies and competition from other scavengers as by a lion's shear ability to kill prey. Adult male lions exhibited a life strategy distinctly different from all other sex-age classes that entailed moving more rapidly over larger areas, and spending less time on kills in which they invested less energy handling, but from which they consumed tissue at a higher sustained rate.

Open-File Report↗

USGS2022

Section 5: Remote sensing of vegetation in the riparian corridor of the Colorado River’s delta 2013-2018

This remote sensing section is based on Nagler et al. (in preparation for the journal Hydrological Processes) and is a summary of the USGS preliminary findings to date. This report documents the changes in green foliage density (greenness) as measured by satellite vegetation index (VI) data and corresponding evapotranspiration (ET) in the riparian corridor of the Colorado River delta associated with the Minutes 319 and 323 environmental water deliveries using time-series data from 2013 through 2018. The report focuses on what happened only within the riparian corridor’s seven reaches since the 2014 flows, and despite being a continuation of measuring greenness and ET after the 2017 end of Minute 319, this study continued the tracking of these two variables, greenness and ET, in these original riparian corridor focal areas. Two spatial scales are used here: (1) Landsat satellite imagery at 30 m pixels and (2) the EOS-1 satellite sensor the Moderate Resolution Imaging Spectrometer (MODIS) with a resolution of 250 m pixels. The focal period includes 2013 (prepulse flow) and the years 2014-2018, with a focus on imagery collected from the Summer growing seasons 2014 through 2018 (one-year, pre-pulse and several post-pulse years, respectively). This report re-creates the 2013-2017 Landsat-based results from Jarchow et al. (2017a, b) by using the same region of interest (ROI). The report now provides revised and re-created results using all new imagery acquisition and processing techniques, as well as extraction code, created by the Vegetation Index and Phenology (VIP) Lab of the Biosystems Engineering Department of the University of Arizona (UofA). In 2018, methods employed by the VIP lab (and not ArcGIS) were used. ArcGIS was only used in the newly processed data to display the final difference maps. The entire spatial tile data from NASA was downloaded and processed at the VIP Lab using satellite imagery at two resolutions: 250 m MODIS and 30 m Landsat using three sensors, Landsat 5, Landsat 7 ETM+ and Landsat 8 Operational Land Imager (OLI), with added scenes for each year based on new clear atmosphere requirements. The VIP lab clipped the river boundary and seven riparian reaches from the previously existing ROI used in Jarchow et al. (2017 a, b) for the analyses done under Minute 319. The NASA image datasets for this riparian corridor ROI in seven reaches were re-processed to produce additional vegetation index (VI) information for years 2013 to 2018 for this report. At the same time, the report acquired and processed imagery from 2000- 2018 (data outside the scope of this report and data not shown here). The additional VIs (NDVI, scaled NDVI, EVI, EVI2) were analyzed so that new assessments of greenness and ET could be produced from the imagery datasets following methods in Nagler et al. (2013). These VI choices were based on previous performance comparisons between biophysical ground-based data and radiometric satellite-based data collected from this riparian ecosystem (Nagler et al., 2001) as well as performance related to ET estimation (Nagler et al., 2005a, b) and current advancements in VIs such as EVI2.

Colorado River Delta↗

USGS2022

Assessment of habitat availability for juvenile Chinook salmon (Oncorhynchus tshawytscha) and steelhead (O. mykiss) in the Willamette River, Oregon

The Willamette River, Oregon, is home to two salmonid species listed as threatened under the Endangered Species Act, Upper WIllamette River spring Chinook salmon ( Oncorhynchus tshawytscha ) and Upper Willamette River winter steelhead ( O. mykiss ). Streamflow in the Willamette River is regulated by upstream dams, 13 of which are operated by the U.S. Army Corps of Engineers (USACE) as part of the Willamette Valley Project. In 2008, these dams were determined to have a deleterious effect on Endangered Species Act-listed salmonids, resulting in USACE taking actions to mitigate those effects. Mitigation actions included setting seasonal streamflow targets at various locations along the river to improve survival and migration of juvenile salmonids. Although these targets were established with the best available information at the time, recent data and models have advanced understanding of Willamette River bathymetric, hydraulic, and thermal conditions, allowing for a more robust analysis of the effect of streamflow on downstream habitat. This study integrates those recent advances to build high-resolution models of usable habitat for juvenile Chinook salmon and steelhead to assess variation in spatial and seasonal patterns of habitat availability. Specifically, this study develops detailed maps of habitat availability for juvenile Chinook salmon and steelhead for two size classes (fry and pre-smolt). Habitat availability is modeled in a three-step process whereby (1) two-dimensional hydraulic models are paired with literature-supplied data on habitat preferences to create spatially explicit maps of rearing habitats for a wide range of streamflows; (2) reach-specific relations between streamflow and habitat area are developed and paired with streamgage records to create habitat time series for 2011, 2015, and 2016, which reflect “cool and wet,” “hot and dry,” and “warm but average precipitation” conditions, respectively; (3) temperature models are coupled with literature-based thermal thresholds to determine time periods and locations along the river corridor when rearing habitat has optimal, harmful, or lethal temperature conditions; (4) finally, habitat availability is summarized at several spatial scales to characterize longitudinal and seasonal patterns. Findings show that modeled area of rearing habitat for Chinook salmon and steelhead responds non-uniformly to streamflow, where habitat in some reaches of the Willamette River consistently increase with additional streamflow, while in other reaches, habitat area decreases when streamflows increase from low to moderate flows. Modeled differences in flow-habitat relations are primarily explained by local geomorphology in each reach and resulting hydraulic conditions that arise with different streamflows. These are most pronounced when comparing laterally active, multi-channel reaches upstream from Corvallis with downstream reaches that are laterally stable with single-channel planforms. The reaches upstream from Corvallis generally have more habitat available per unit stream distance than downstream reaches, but all reaches display greatest amounts of habitat at the highest streamflows. Finally, results show that warm water temperature in summer greatly decreases the utility of habitat available to the focal species, particularly downstream from Corvallis. Together, these findings serve to inform flow management by characterizing spatial and seasonal patterns of habitat availability for juvenile spring Chinook salmon and winter steelhead and provide a quantitative assessment of the effects of streamflow on rearing habitat.

Oregon↗

USGS2022

A summary of water-quality and salt marsh monitoring, Humboldt Bay, California

This report summarizes data-collection activities associated with the U.S. Geological Survey Humboldt Bay Water-Quality and Salt Marsh Monitoring Project. This work was undertaken to gain a comprehensive understanding of water-quality conditions, salt marsh accretion processes, marsh-edge erosion, and soil-carbon storage in Humboldt Bay, California. Multiparameter sondes recorded water temperature, specific conductance, and turbidity at a 15-minute timestep at two U.S. Geological Survey water-quality stations: (1) Mad River Slough near Arcata, California (U.S. Geological Survey station 405219124085601) and (2) Hookton Slough near Loleta, California (U.S. Geological Survey station 404038124131801). At each station, discrete water samples were collected to develop surrogate regression models that were used to compute a continuous time series of suspended-sediment concentration from continuously measured turbidity. Data loggers recorded water depth at a 6-minute timestep in the primary tidal channels (Mad River Slough and Hookton Slough) in two adjacent marshes (Mad River marsh and Hookton marsh). The marsh monitoring network included five study marshes. Three marshes (Mad River, Manila, and Jacoby) are in the northern embayment of Humboldt Bay and two marshes (White and Hookton) are in the southern embayment. Surface deposition and elevation change were measured using deep rod surface elevation tables and feldspar marker horizons. Sediment characteristics and soil-carbon storage were measured using a total of 10 shallow cores, distributed across 5 study marshes, collected using an Eijkelkamp peat sampler. Rates of marsh edge erosion (2010–19) were quantified in four marshes (Mad River, Manila, Jacoby, and White) by estimating changes in the areal extent of the vegetated marsh plain using repeat aerial imagery and light detection and ranging (LiDAR)-derived elevation data. During the monitoring period (2016–19), the mean suspended-sediment concentration computed for Hookton Slough (50±20 milligrams per liter [mg/L]) was higher than Mad River Slough (18±7 mg/L). Uncertainty in mean suspended-sediment concentration values is reported using a 90-percent confidence interval. Across the five study marshes, elevation change (+1.8±0.6 millimeters per year [mm/yr]) and surface deposition (+2.5±0.5 mm/yr) were lower than published values of local sea-level rise (4.9±0.8 mm/yr), and mean carbon density was 0.029±0.005 grams of carbon per cubic centimeter. From 2010 to 2019, marsh edge erosion and soil carbon loss were greatest in low-elevation marshes with the marsh edge characterized by a gentle transition from mudflat to vegetated marsh (herein, ramped edge morphology) and larger wind-wave exposure. Jacoby Creek marsh experienced the greatest edge erosion. In total, marsh edge erosion was responsible for 62.3 metric tons of estuarine soil carbon storage loss across four study marshes. Salt marshes are an important component of coastal carbon, which is frequently referred to as “blue carbon.” The monitoring data presented in this report provide fundamental information needed to manage blue carbon stocks, assess marsh vulnerability, inform sea-level rise adaptation planning, and build coastal resiliency to climate change.

California↗

USGS2025

Grfin Tools—User guide and methods for modeling landslide runout and debris-flow growth and inundation

The software package, Grfin Tools, can estimate potential runout from landslides or inundation from geophysical mass flows such as debris flows, lahars from volcanoes, and rock avalanches within a digital elevation model (DEM). Grfin is an acronym of gr owth + f low + in undation. The tools within this package apply simple, well-tested, empirical models of runout that are computationally efficient and require minimal parameters. These tools can be used individually (for example, to estimate debris-flow inundation) or in combination to represent a more complete series of linked processes, from landslide source areas, to unchannelized transport, to channelized flows. Grfin Tools can rapidly assess potential runout and inundation over large areas and the results are readily visualized in a geographic information system. Tools for assessing areas affected by runout and flow inundation include a height-to-length ( H / L ) ratio, angle-of-reach approach for estimating open-slope, unchannelized landslide runout, and volume-area scaling relations for assessing flow inundation in channels. Potential landslide areas that constitute the sources of runout or inundation can be delineated with topographic features, such as slope and (or) curvature, derived by the software package, or by employing potential sources derived from other landslide susceptibility models. Grfin Tools also has the capability to assess inundation from flows that grow volumetrically downstream. This is a vital feature, as larger flows commonly result in longer runout and larger inundation. The software uses empirically derived growth factors applied over upslope contributing source areas or upstream channel lengths to integrate the effects of various growth processes, such as channel entrainment, streambank failures, adjacent landslides, and hillslope erosion. Inundation follows a drainage network defined with a separate tool that uses topographic curvature to identify channel initiation locations. This document includes information on using Grfin Tools, the basis and methods underlying the tools and models, detailed descriptions of the software input and output files, and tips for handling special conditions such as roads and large water bodies. Multiple detailed examples illustrating different applications are also presented. Grfin Tools relies on the freely available TauDEM software package (Tarboton, 2005). The Grfin Tools software release is available from Cronkite-Ratcliff and others (2025).

Techniques and Methods↗

USGS2022

Wind River subbasin restoration: Annual Report of U.S. Geological Survey activities January 2020 through December 2020

We sampled juvenile wild Steelhead Trout Oncorhynchus mykiss in headwater streams of the Wind River, WA, to characterize population attributes and investigate life-history metrics, particularly migratory patterns, and early life-stage survival. We used passive integrated transponder (PIT) tagging and a series of instream PIT-tag interrogation systems (PTISs) to track juveniles and adults. The Wind River subbasin is considered a wild Steelhead refuge by Washington Department of Fish and Wildlife (WDFW). No hatchery Steelhead Trout have been released in the Wind River subbasin since 1997, and hatchery adults are estimated at less than one percent of spawners in most years. Over twenty years of Steelhead Trout status and trend monitoring and research in the subbasin is contributing to understanding of population response to numerous restoration actions in the subbasin, including removal of Hemlock Dam from Trout Creek in 2009, which had an outdated adult ladder and contributed to increased water temperatures reducing performance of juvenile Steelhead Trout. Data from our study, and companion work by Washington Department of Fish and Wildlife, are contributing to Bonneville Power Administration’s (BPA) Research, Monitoring, and Evaluation (RM&E) Program Strategy of Fish Population Status Monitoring (https://www.cbfish.org/ProgramStrategy.mvc/Index). Specifically, this work addresses the substrategies of 1) Assessing the Status and Trends of Diversity of Natural Origin Fish Populations and Uncertainties Research regarding differing life histories of a wild Steelhead Trout population, 2) Assessing the Status and Trend of Adult Natural Origin Fish Populations, and 3) Monitoring and Evaluating the Effectiveness of Tributary Habitat Actions Relative to Environmental, Physical, or Biological Performance Objectives. During summer and fall 2020, we PIT-tagged 1,415 Steelhead parr (age-0 and age-1) in the Trout Creek and upper Wind River watersheds. Recaptures and detections of PIT-tagged Steelhead Trout parr happened through repeat headwater sampling, smolt trap operations, and instream PTISs and Columbia River PIT-tag detection infrastructure. Throughout the year, we maintained a series of six instream PTISs to monitor movement of tagged Steelhead Trout parr, smolts, and adults, providing data to population assessments, and life-cycle research and modeling. Detection data from PIT-tagged adult Steelhead Trout at PTISs allow assessment of adult escapement to tributary watersheds within the Wind River subbasin. Adult Steelhead Trout detection efficiency estimates at our primary PTIS in Trout Creek have been greater than 92 percent during eight of the past nine years and have exceeded 90% at our primary PTIS in the Wind River the past three years. Adult escapement estimates to tributary watersheds are helping evaluate the efficacy of the 2009 removal of Hemlock Dam from rkm 2.0 of Trout Creek. The dam had potential negative effects on Steelhead Trout populations in Trout Creek due to hydrologic impairment, increased temperatures, and adult passage issues. Hemlock Dam was laddered for adult passage, but not to modern standards, which likely resulted in avoidance by some adult Steelhead Trout. We continue to improve our PTISs in the Wind River subbasin. The improvements in siting and addition of grid power to the upper Wind River PTIS (site code WRU, rkm 27.6) during 2016 and 2017, and the addition of the Mine Reach site (site code MIN, rkm 36.0) have much improved PIT-tagged fish monitoring in the upper Wind River watershed. The paired PTIS design in the upper Wind River watershed (sites WRU and MIN), matches that in the Trout Creek watershed (sites TRC and TC4) and will allow comparisons of Steelhead Trout population metrics between the two watersheds as response to Hemlock Dam removal continues and future restoration efforts occur in Trout Creek. We installed two new PTISs during 2020. Both were installed downstream of our primary interrogation sites on Trout Creek and in the mainstem Wind River. We hope the two new sites will provide interrogations information that will allow us to better estimate detection efficiencies of downstream moving juvenile Steelhead Trout at the primary interrogation sites. The additional interrogations will be particularly important for those fish tagged with 9-mm PIT tags as less information from downstream locations is available from them. These sites and other status and trend data will allow evaluation of further planned restoration within the watershed, particularly that proposed for the headwaters of Trout Creek. Detections at the instream PTISs have demonstrated trends of age-0 and age-1 parr emigration from natal areas during summer and fall, in addition to the expected movement of parr and smolts in spring. We have estimated that from 15 to 51% of parr tagged as age-0 fish in headwater areas make downstream migrations at age 1 for additional rearing during both spring and fall. We have estimated that up to 27% of Steelhead Trout parr, tagged as age-1 fish, make downstream migrations during fall. These findings raise questions about where parr most successfully rear and whether migrations are density or habitat quality driven. Broader monitoring programs would give a more comprehensive understanding of juvenile Steelhead Trout production and rearing and productivity contribution. Repeat sampling at consistent locations in the subbasin has enabled assessment of juvenile Steelhead Trout growth patterns. Growth rates (relative change in weight) of age-0 PITtagged parr during summer were similar across the subbasin but lower for age-1 parr in the Trout Creek watershed than the upper Wind River watershed. Yearly relative growth for parr tagged at age-0 is similar across the subbasin. Non-native Brook Trout Salvelinus confluentus are present in the subbasin, chiefly the Trout Creek watershed, and repeat sampling has allowed us to index their prevalence. Mean percent-of-catch that is Brook Trout, at four sample sites in Trout Creek, has declined from the period 1998 – 2003 to the period 2011 – 2020. Percent-of-catch and number of Brook Trout at the Trout Creek sites from 2011 through 2020 declined, though both metrics increased in 2018. Evaluation and planning of restoration efforts are critical to ensure efficient use of resources. Assessing Steelhead Trout life history variation in the Wind River subbasin will inform research and tracking of many populations and help inform habitat restoration and water allocation planning. Movement of Steelhead Trout parr from natal areas to other rearing areas raises questions regarding juvenile abundance, origin, and habitat use within watersheds. Improved PTISs and focused PIT tagging of age-0 and age-1 Steelhead Trout parr allow investigation of such questions. Increasingly detailed viable salmonid population information, such as that provided by PIT-tagging and instream PTIS networks like those in the Wind River can provide data to inform fisheries policy and management and understand life-history strategies and limiting factors. Such efforts also provide assessment of long-term effects of habitat restoration actions such as the removal of Hemlock Dam on Trout Creek, and the proposed Stage-0 restoration effort for upper Trout Creek, which would be a large-scale effort to reset sections of stream within their floodplain, restoring connectivity and interaction with surrounding landscape.

Washington↗

USGS1995

Preliminary analysis of down-core biotic assemblages Bob Allen Keys, Everglades National Park, Florida Bay

Introduction A series of short piston cores (< 2m) were taken from eleven stations in Florida Bay in May, 1994 by researchers from the U.S. Geological Survey (St. Petersburg, FL., Woods Hole, MA., and Denver CO.) in cooperation with South Florida Water Management District, and the Everglades National Park, and the National Oceanic and Atmospheric Administration (NOAA). Core 6A from Bob Allen Keys (25° 1.391” N, 80°39.41” W) penetrated 172 cm of Holocene sediments in 0.6 m of water on a grass covered mud bank, approximately 1.75 miles (2.82 km) east of the water monitoring station on the southern end of the Bob Allen Keys. Core 6A was sampled for particle size, insoluble residue, water content, loss on ignition, Pb 210 , Rasup>222, and paleontologic analyses. Here we present the results of the preliminary paleontologic analyses of the biotic components from core #6A. The Everglades/Florida Bay ecosystem has formed over the last 5000 years at the southern tip of peninsular Florida. Here it has been influenced by Atlantic, Caribbean and Gulf of Mexico waters, and by tropical and subtropical climatic regimes. This location ensures that over time the ecosystem has undergone climatic changes on both a seasonal and long term basis, and that it has been subjected to many major storms. Additionally, in the last century, the hydrologic regime of the region has been altered profoundly through construction of a canal system to control flooding in southern Florida. This system regulates the timing and amount of freshwater flow into Florida Bay. Recently, algal blooms, seagrass, and sponge die-offs, and declining numbers of shellfish, have been reported in Florida Bay; although it has been assumed that these changes have resulted from human alteration of freshwater flow into the bay, this assumption has not been rigorously tested. The research described here is part of a project designed to examine the history of the Everglades/Florida Bay ecosystem over the last 150 years and to test assumptions of cause and effect. The purpose of the project is two-fold; first, to determine the characteristics of the ecosystem prior to significant human-induced alteration, including the natural range of variation in the ecosystem. This information will establish a baseline for restoration of the system. Second, the project aims to establish the extent, range, and timing of changes to the ecosystem over the last 150 years, and to determine whether these changes correlate with human alteration of the environment, or meteorological patterns, such as precipitation and major storms, or a combination of factors.

Florida↗

USGS2012

Estimation of baseline daily mean streamflows for ungaged locations on Pennsylvania streams, water years 1960-2008

Water-resource managers use daily mean streamflows to generate streamflow statistics and analyze streamflow conditions. An in-depth evaluation of flow regimes to promote instream ecological health often requires streamflow information obtainable only from a time series hydrograph. Historically, it has been difficult to estimate daily mean streamflow for an ungaged location. The U.S. Geological Survey (USGS), in cooperation with the Pennsylvania Department of Environmental Protection, Susquehanna River Basin Commission, and The Nature Conservancy, has developed the Ba seline S treamflow E stimator (BaSE) to estimate baseline streamflow at a daily time scale for ungaged streams in Pennsylvania using data collected during water years 1960–2008. Baseline streamflow is minimally altered by regulation, diversion, or mining, and other anthropogenic activities. Daily mean streamflow is estimated in BaSE using a methodology that equates streamflow as a percentile from a flow duration curve for a particular day at an ungaged location with streamflow as a percentile from the flow duration curve for the same day at a reference streamgage that is considered to be hydrologically similar to the ungaged location. An appropriate reference streamgage is selected using map correlation, in which variogram models are developed that correlate streamflow at one streamgage with streamflows at all other streamgages. The percentiles from a flow duration curve for the ungaged location are converted to streamflow through the use of regression equations. Regression equations used to predict 17 flow-duration exceedance probabilities were developed for Pennsylvania using geographic information system-derived basin characteristics. The standard error of prediction for the regression equations ranged from 11 percent to 92 percent with the mean of 31 percent. The map correlation method for estimating streamflow was tested at locations within two pilot basins, the Upper Delaware River Basin and the Lower Susquehanna River Basin, before being applied statewide. Reference streamgages within the pilot basins were used as ungaged locations for analyzing the map correlation method. Correlation using Spearman’s rho and centroid distance performed as well as, or better than, the method using the closest streamgage as a reference streamgage. Map correlation using the correlation metrics identified in the pilot basins was applied to 156 streamgages in and near Pennsylvania. BaSE uses the map correlation method and flow-duration exceedance probability regression equations to estimate baseline daily mean streamflow for an ungaged location. The output from BaSE is a Microsoft Excel® report file that summarizes the reference streamgage and ungaged location information, including basin characteristics, percent difference in basin characteristics between the two locations, any warning associated with the basin characteristics, mean and median streamflow for the ungaged location, and a daily hydrograph of streamflow for water years 1960–2008 for the ungaged location. The daily mean streamflow for the ungaged location can be exported as a text file to be used as input into other statistical software packages. BaSE estimates daily mean streamflow for baseline conditions only, and any alterations to streamflow from regulation, large water use, or substantial mining are not reflected in the estimated streamflow.

Pennsylvania↗

USGS2015

Scientific information in support of water resource management of the Big River area, Rhode Island

The Rhode Island Water Resources Board (RIWRB) is concerned that the demand for water may exceed the available public water supply in central and southern Rhode Island. Although water is often assumed to be plentiful in Rhode Island because of abundant rainfall, an adequate supply of water is not always available everywhere in the state during dry periods. Concerns that water demand may exceed supply are greatest during the summer, when lower water levels and increased drought potential combine with seasonal increases in peak water demand (Rhode Island Water Resources Board, 2012). High summer water demands are due to increases in outdoor water use, such as lawn watering and agricultural irrigation, and to increased summer population in coastal areas. Water-supply concerns are particularly acute in central and southern Rhode Island, where groundwater is the primary source of drinking water. The Big River and Mishnock River Basins are subbasins of the South Branch of the Pawtuxet River Basin in central and southern Rhode Island. These basins—referred to together as “the Big River area” for the purposes of this report—are undeveloped relative to other nearby areas and provide a potential source of high-quality public drinking water for central and southern Rhode Island. After the severe drought of the 1960s, the State of Rhode Island acquired land in the Big River area with the intention of building a water-supply reservoir. The reservoir was not built because of concerns over potential environmental impacts and projected statewide water-supply needs (U.S. Environmental Protection Agency, 1989). The land acquired for the reservoir (13.4 mi 2 ), called the Big River Management Area (BRMA), is currently managed by the RIWRB as a future source for public water supply and as open space. In the 1980s, the RIWRB began to consider whether the BRMA could supply water from its aquifers (groundwater). Groundwater withdrawals for public or other water-supply needs can alter the hydrologic conditions and ecologic communities of surrounding rivers, lakes, and wetlands by removing water from these systems. Consequently, the RIWRB was interested in determining optimal amounts of groundwater that could be withdrawn from the BRMA for public supply while minimizing the effects on rivers, lakes, streams, and wetlands that also rely on this water. For nearly two decades, the RIWRB has conducted a series of cooperative studies with the U.S. Geological Survey (USGS). The goals of these studies have been to (1) evaluate and characterize the water resources of the BRMA and the greater Big River area, and (2) identify sustainable levels of groundwater use that would minimize effects on water resources. This fact sheet describes the major findings of those studies.

Rhode Island↗

USGS2007

Aquatic Communities and Selected Water Chemistry in St. Vrain Creek near the City of Longmont, Colorado, Wastewater-Treatment Plant, 2005 and 2006

In 2005, the U.S. Geological Survey and the City of Longmont, Colo., began a study to document chemical characteristics of St. Vrain Creek that had previously been unavailable either due to high cost of analysis or lack of analytical capability. Stream samples were collected at seven sites on St. Vrain Creek during the spring of 2005 and 2006 for analysis of wastewater compounds. A Lagrangian-sampling design was followed during each sampling event, and time-of-travel studies were conducted just prior to each sampling event to determine appropriate sampling times for the synoptic. In addition, semipermeable membrane devices, passive samplers that concentrate hydrophobic organic chemicals, were installed at six sites during the spring of 2005 and 2006 for approximately 4 weeks. After retrieval, contaminant residues concentrated in the semipermeable membrane devices were recovered and used in a toxicity assay that provided a screen for aryl hydrocarbon receptor type compounds, including polycyclic aromatic hydrocarbons, polychlorinated biphenyls, dioxins, and furans. In addition, the U.S. Geological Survey summarized information on macroinvertebrate and fish communities known from St. Vrain Creek dating back to the early 1900s in order to assess their utility in evaluating wastewater-treatment plant upgrades and habitat improvement projects. Unfortunately, because of inconsistencies in data collection these data cannot be used as intended; however, they are useful for understanding to some degree gross patterns in fish species distribution, but less so for macroinvertebrates.

Data Series↗

USGS1996

Geohydrology and potential for upward movement of saline water in the Cocoa well field, East Orange County, Florida

The Floridan aquifer system, an approximately 2,000-foot thick sequence of Eocene-age limestone and dolomite, is the main source of water supply in central Florida. Hydraulic conductivity is different in strata of different lithology and is the basis for separating the aquifer system into the Upper Floridan aquifer, a middle semi-confining unit, and the Lower Floridan aquifer. The coastal city of Cocoa withdraws about 26 million gallons of water per day from the Upper Floridan aquifer from a well field in east Orange County, about 25 miles inland. About 60 million gallons per day are withdrawn from the Upper Floridan aquifer and 56 million gallons per day from the Lower Floridan aquifer in the Orlando area, about 15 miles west of the Cocoa well field. Wells drilled in the Cocoa well field from 1955-61 yielded water with chloride concentrations ranging from 25-55 milligrams per liter. Soon after the wells were put in service, chloride concentrations increased; therefore, new wells were drilled further inland. Chloride concentrations in water from many of the new wells also have increased. Possible sources of saline water are lateral movement of relict seawater in the Upper Floridan aquifer from the east, regional upconing of saline water from the Lower Floridan aquifer or underlying older rocks, or localized upward movement of saline water through fractures. Several test wells were drilled to provide information about chloride concentration changes with depth and to monitor changes with time, including a multi-zone well drilled in 1965 (well C) and two wells drilled in the 1990's (wells R and S). Chloride concentrations have increased in the zone pumped by the supply wells (the upper 500 feet of the aquifer) and in the 1,351 to 1,357-foot deep zone of well C, but not in the two intervening zones. This indicates that the source of saline water is located laterally, rather than vertically, from the pumped zone in the area of well C. The potential for upward movement of saline water depends on the direction of the vertical hydraulic gradient and on the vertical hydraulic conductivity of the aquifer. A series of aquifer tests was run in 1993-94 and existing water-level and water-quality data were analyzed to evaluate the potential for upward movement of saline water in the well field. The transmissivity of the upper 500 feet of the aquifer is about 100,000 feet squared per day (the horizontal hydraulic conductivity is about 200 feet per day) and the storage coefficient is about 2x10-4. Horizontal hydraulic conductivities determined from slug tests of the three deepest zones of well C ranged from 20-50 feet per day. Vertical hydraulic conductivities probably do not exceed 0.05 feet per day. The vertical hydraulic gradient is determined by comparing water levels in the various zones, but because of density differences, unadjusted water levels in the deepest zone investigated cannot be directly compared to water levels in the overlying freshwater zones. The difference between environmental-water heads (adjusted for density differences) in the saline-water zone of well C and the overlying freshwater zone were calculated from measured water levels for the period 1966 to 1994. During most of this time period, the gradient was downward, indicating that saline water did not move upward. Upconing of saline water probably is not taking place in the center and western part of the well field, based on the low vertical hydraulic conductivity values estimated for the middle semi-confining unit, the generally downward vertical hydraulic gradient, and the constant chloride concentrations in the intermediate zones of well C. However, there is no information about the extent of the zone of low vertical hydraulic conductivity or about the direction of the vertical hydraulic gradient in the eastern part of the well field. Thus, increased chloride concentrations in supply wells in the eastern part of the well field could be caused either by lateral movement of saline water from the east, or by upward movement from the Lower Floridan aquifer if the low conductivity zone is thin or breached by fractures, or by a combination of both lateral and vertical movement.

Florida↗

USGS2016

Informing Lake Erie agriculture nutrient management via scenario evaluation

Harmful algal blooms (HABs) have been increasing in extent and intensity in the western basin of Lake Erie. The cyanobacteria Microcystis produces toxins that pose serious threats to animal and human health, resulting in beach closures and impaired water supplies, and have even forced a “do not drink” advisory for the City of Toledo water system for several days in the summer of 2014. The main driver of Lake Erie HABs is elevated phosphorus loading from watersheds draining to the western basin, particularly from the Maumee River watershed (Obenour et al. 2014). Through the 2012 Great Lakes Water Quality Agreement (GLWQA), the U.S. and Canadian governments agreed to revise Lake Erie phosphorus loading targets to decrease HAB severity below levels representing a hazard to ecosystem and human health. New targets limit March-July loadings from the Maumee River to 186 metric tonnes of dissolved reactive phosphorus (DRP) and 860 metric tonnes of total phosphorus (TP) – a 40% reduction from 2008 loads (GLWQA 2016). The Great Lakes region must now determine what policy options are most effective and feasible for meeting those targets. While all sources are important, our focus is on agriculture because it overwhelms other sources. In a conservative ballpark estimate we found that 85% of the Maumee River’s load to Lake Erie comes from farm fertilizers and manures, even though this is only 10% of farmland fertilizer applications (Figure 1). Load targets will not be met without reductions from agriculture. Therefore, the overall goal of this study was to identify potential options for agricultural management to reduce phosphorus loads and lessen future HABs in Lake Erie. We applied multiple watershed models to test the ability of a series of land management scenarios, developed in consultation with agricultural and environmental stakeholders, to reach the proposed targets.

Indiana, Michigan, Ohio↗

USGS2024

California State Waters Map Series—Benthic habitat characterization in the region offshore Humboldt Bay, California

Coastal and Marine Ecological Classification Standard (CMECS) geoform, substrate, and biotic component geographic information system (GIS) products were developed for the California State Waters of northern California in the region offshore of Humboldt Bay. The study was motivated by interest in development of offshore wind-energy capacity and infrastructure in Federal waters offshore. This project, carried out by the U.S. Geological Survey (USGS), resulted in four data releases for individual map blocks that are part of the “California State Waters Map Series”: (1) Offshore of Arcata, (2) Offshore of Eureka, (3) Offshore of the Eel River, and (4) Offshore of Cape Mendocino. The study area consists of 436 square kilometers of multibeam echo sounder (MBES) data acquired by Fugro Pelagos, Inc., in 2007. Towed camera-sled video was acquired in 2009 and 2010 to supervise the classification of the MBES data into habitats, and single channel sparker data were collected to calculate sediment thickness above the transgressive unconformity. Using video observations of habitat as ground truth, derivatives of the MBES data were classified into 3 seafloor character types (hard-rugose, hard-flat, and soft-flat), 26 induration-slope-depth groups, and 15 geoforms. The study area substrate is predominantly soft-flat sediment (mud and fine sand) covering 73.6 percent of the area. Hard-flat substrate areas, predominantly coarse sediment in scour depressions, cover 5.4 percent of the study area. The hard-rugose substrate areas are primarily outcrops of layered sedimentary bedrock and constitute 20.9 percent of the study area. Fifteen geoforms were identified in the analysis. The predominant geoforms mirror the seafloor character results, shelf geoforms, rock outcrop geoforms, and scour depression geoforms. Rock and scour areas are restricted to the southern portion of the study area off Cape Mendocino where uplift has exposed bedrock. On the flat shelf area post-transgressive sediment varies in thickness from 1.7 meters (m) nearshore to 28.1 m offshore.

California↗

USGS2009

Magnetotelluric and audiomagnetotelluric groundwater survey along the Humu'ula portion of Saddle Road near and around the Pohakuloa Training Area, Hawaii

The Pohakuloa Training Area (PTA), operated by the U.S. Army on the Big Island of Hawaii, is in need of a reliable potable water supply to sustain ongoing operations by staff and trainees. In an effort to acquire baseline hydrologic data with which to develop a plan for providing that water, a series of magnetotelluric (MT) geophysical surveys was performed that spanned the Mauna Loa/Mauna Kea Saddle region of Hawaii Island. These surveys provided electrical resistivity profiles and resistivity maps at several elevations along the axis of the field measurements that can be interpreted to yield information on the depth to the water table. In 2004 a preliminary sequence of 23 audiomagnetotelluric (AMT) soundings was collected along Saddle Road extending from the Waikii Ranch area, west of the PTA, to Department of Hawaiian Home Lands Humu'ula properties east of the Mauna Kea access road. The results of those soundings showed that highly resistive rocks, consistent with dry basalts, were present to depths of at least one kilometer, the maximum depth to which the AMT technique can reliably reach in Hawaii's rocks. A second survey was conducted in 2008 using MT instruments capable of recovering resistivity data to depths of several kilometers below sea level where saturated formations are known to exist. A total of 30 MT soundings was performed along a roughly east to west transect that extended from the (recently acquired) Keamuku PTA lands on the west to as far as the County of Hawaii's upper Kaumana water supply well to the east. Inversion and processing of the field data yielded an electrical cross-section following the Saddle that roughly parallels the geologic contact between the Mauna Kea and Mauna Loa lavas. Several additional electrical sections were constructed normal to the main transect to investigate the three-dimensional nature of the contact. These resistivity data and models suggest that the elevation of saturated rock in places are 400 to 600 meters above mean sea level beneath the surveyed region. Highest elevations for water-saturated zones based upon preferred electrical models are located between training area 3 and training area 6 southwest of training area 4.

Hawai'i↗

USGS2004

Analysis of phosphorus trends and evaluation of sampling designs in the Quinebaug River Basin, Connecticut

A time-series analysis approach developed by the U.S. Geological Survey was used to analyze trends in total phosphorus and evaluate optimal sampling designs for future trend detection, using long-term data for two water-quality monitoring stations on the Quinebaug River in eastern Connecticut. Trend-analysis results for selected periods of record during 1971?2001 indicate that concentrations of total phosphorus in the Quinebaug River have varied over time, but have decreased significantly since the 1970s and 1980s. Total phosphorus concentrations at both stations increased in the late 1990s and early 2000s, but were still substantially lower than historical levels. Drainage areas for both stations are primarily forested, but water quality at both stations is affected by point discharges from municipal wastewater-treatment facilities. Various designs with sampling frequencies ranging from 4 to 11 samples per year were compared to the trend-detection power of the monthly (12-sample) design to determine the most efficient configuration of months to sample for a given annual sampling frequency. Results from this evaluation indicate that the current (2004) 8-sample schedule for the two Quinebaug stations, with monthly sampling from May to September and bimonthly sampling for the remainder of the year, is not the most efficient 8-sample design for future detection of trends in total phosphorus. Optimal sampling schedules for the two stations differ, but in both cases, trend-detection power generally is greater among 8-sample designs that include monthly sampling in fall and winter. Sampling designs with fewer than 8 samples per year generally provide a low level of probability for detection of trends in total phosphorus. Managers may determine an acceptable level of probability for trend detection within the context of the multiple objectives of the state?s water-quality management program and the scientific understanding of the watersheds in question. Managers may identify a threshold of probability for trend detection that is high enough to justify the agency?s investment in the water-quality sampling program. Results from an analysis of optimal sampling designs can provide an important component of information for the decision-making process in which sampling schedules are periodically reviewed and revised. Results from the study described in this report and previous studies indicate that optimal sampling schedules for trend detection may differ substantially for different stations and constituents. A more comprehensive statewide evaluation of sampling schedules for key stations and constituents could provide useful information for any redesign of the schedule for water-quality monitoring in the Quinebaug River Basin and elsewhere in the state.

Scientific Investigations Report↗

USGS2012

Geophysical investigation of sentinel lakes in Lake, Seminole, Orange, and Volusia Counties, Florida

This study was initiated in cooperation with the St. Johns River Water Management District (SJRWMD) to investigate groundwater and surface-water interaction in designated sentinel lakes in central Florida. Sentinel lakes are a SJRWMD established set of priority water bodies (lakes) for which minimum flows and levels (MFLs) are determined. Understanding both the structure and lithology beneath these lakes can ultimately lead to a better understanding of the MFLs and why water levels fluctuate in certain lakes more so than in other lakes. These sentinel lakes have become important water bodies to use as water-fluctuation indicators in the SJRWMD Minimum Flows and Levels program and will be used to define long-term hydrologic and ecologic performance measures. Geologic control on lake hydrology remains poorly understood in this study area. Therefore, the U.S. Geological Survey investigated 16 of the 21 water bodies on the SJRWMD priority list. Geologic information was obtained by the tandem use of high-resolution seismic profiling (HRSP) and direct-current (DC) resistivity profiling to isolate both the geologic framework (structure) and composition (lithology). Previous HRSP surveys from various lakes in the study area have been successful in identifying karst features, such as subsidence sinkholes. However, by using this method only, it is difficult to image highly irregular or chaotic surfaces, such as collapse sinkholes. Resistivity profiling was used to complement HRSP by detecting porosity change within fractured or collapsed structures and increase the ability to fully characterize the subsurface. Lake Saunders (Lake County) is an example of a lake composed of a series of north-south-trending sinkholes that have joined to form one lake body. HRSP shows surface depressions and deformation in the substrate. Resistivity data likewise show areas in the southern part of the lake where resistivity shifts abruptly from approximately 400 ohm meters (ohm-m) along the edges to approximately 12 ohm-m in the center. These well-defined areas may indicate a "ravel" zone of increased porosity or clay content. Within Lake Helen (Volusia County), a parallel set of seismic reflectors within a host of chaotic reflectors may represent fill within a large sinkhole. The feature extends to more than 50 meters (m) deep and contains very steep pinnacles within the center. Seismic data in Lake Helen are supported by high resistivity values from adjacent continuous resistivity profiles that show possible center collapse within the lake and infilling of sandy material. When used together, HRSP and DC resistivity techniques provide a composite image of structure and lithology to detect potential conduits for fluid flow.

Florida↗