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San Francisco Bay/delta regional monitoring program plankton and water quality pilot study, 1993, in 1993 Annual Report, San Francisco Estuary Regional Monitoring Program for Trace Substances: San Francisco Estuary Institute

The pilot program described here is motivated by a fundamental principle of the Regional Monitoring Strategy, namely “...the development of data that will provide information on status and trends in the Estuary.” As pointed out in the Strategy, knowledge of status and trends serves two primary purposes: (1) to become aware of or anticipate deleterious conditions in the Estuary, and (2) to assess the effectiveness of management actions. This program addresses these two purposes by focusing on aquatic resources, one of the five key management issues identified by the Comprehensive Conservation and Management Plan and central to the Regional Monitoring Strategy. It also bears on at least two of the other management issues - pollutants and water use. A regional monitoring program must cover many types of resources, including pelagic and benthic channel habitat, shoal habitat, wetlands, river channels, sloughs, and small bays and harbors. This particular program centers on the pelagic channel habitat. However, because of the intimate connection between channel habitat and many or most of these other habitats, channel measurements reflect to some extent the status of and trends in other resource types as well. A primary aim of this program is to provide a high-resolution description of critical aspects of habitat quality, which can be used along with other information (1) to determine the suitability of habitat for aquatic resources; (2) to monitor responsiveness of the habitat to freshwater flow variability; and (3) to provide a context for understanding pollutant distributions. In a single transect, measurements are made throughout the water column at up to 37 stations to define physical (salinity, temperature, suspended particulate matter, and light penetration), chemical (dissolved oxygen) and biological (chlorophyll a ) characteristics that influence both chemical and biological reactions. A second aim of the program is to investigate planktonic indicators of ecosystem structure and function. Phytoplankton production is the major single source of energy for the San Francisco Bay food web. Our measurements of chlorophyll and light penetration can be used to provide an estimate of this production, and therefore the availability of food for organisms at higher trophic levels. Phytoplankton community composition at the species level, which can be a sensitive indicator of habitat change, is also a standard component of this program. Community composition data enable detection of species known to be responsible for harmful or nuisance algal blooms. In 1993, two other indicators were also evaluated, photosynthetic parameters and water column respiration . Photosynthetic parameters partially characterize the physiological state of the phytoplankton and may provide indirect evidence of nutrient deficiency or the effects of pollutants. Water column respiration serves as a simple integrated measure of organic matter metabolism by the plankton, including bacteria, phytoplankton, and microzooplankton. It therefore reflects the total supply of organic matter, whether from photosynthesis, tidal marsh efflux, point sources, or upstream in the Delta. These biological indicators therefore contain much information about the flow of energy into the food web.

California

Long-term spotlight surveys of American alligators in Mississippi, USA

Accurate population estimates and assessments of trajectory are an essential part of harvest management for game species and conservation action plans for protected species. Long-term monitoring can lead to ecological understanding by identifying biotic and abiotic drivers of population dynamics. Spotlight surveys are a widely used method to monitor abundance and size-class structure of crocodilian populations. The American Alligator (Alligator mississippiensis) has recovered from significant population reductions in the southeastern United States. The Mississippi Department of Wildlife, Fisheries, and Parks (MDWFP) has conducted alligator spotlight surveys since 1971 to monitor populations. We analyzed this long-term alligator survey dataset to assess possible trends in counts as a proxy for potential population changes. We tested for a positive trend in count data over 46 y and evaluated covariates that could influence counts to assist future survey protocols. Alligator counts during 1971– 2016 increased across survey routes in Mississippi. This observed positive response may represent an increase of the alligator population in Mississippi as a result of conservation benefits accrued from improved wetland conditions and species-specific management policies. Evaluation of survey covariates indicated recent rainfall and increasing wind velocity had negative effects on alligator counts while increasing water temperature had a positive effect. Implementing robust survey techniques will improve the reliability of alligator monitoring data and their application to the management of alligator populations. Further, these improved approaches may be useful to other conservation and management agencies as well as for other crocodilian species.

Mississippi

USGS science in Menlo Park -- a science strategy for the U.S. Geological Survey Menlo Park Science Center, 2005-2015

In the spring of 2004, the U.S. Geological Survey (USGS) Menlo Park Center Council commissioned an interdisciplinary working group to develop a forward-looking science strategy for the USGS Menlo Park Science Center in California (hereafter also referred to as "the Center"). The Center has been the flagship research center for the USGS in the western United States for more than 50 years, and the Council recognizes that science priorities must be the primary consideration guiding critical decisions made about the future evolution of the Center. In developing this strategy, the working group consulted widely within the USGS and with external clients and collaborators, so that most stakeholders had an opportunity to influence the science goals and operational objectives. The Science Goals are to: Natural Hazards: Conduct natural-hazard research and assessments critical to effective mitigation planning, short-term forecasting, and event response. Ecosystem Change: Develop a predictive understanding of ecosystem change that advances ecosystem restoration and adaptive management. Natural Resources: Advance the understanding of natural resources in a geologic, hydrologic, economic, environmental, and global context. Modeling Earth System Processes: Increase and improve capabilities for quantitative simulation, prediction, and assessment of Earth system processes. The strategy presents seven key Operational Objectives with specific actions to achieve the scientific goals. These Operational Objectives are to: Provide a hub for technology, laboratories, and library services to support science in the Western Region. Increase advanced computing capabilities and promote sharing of these resources. Enhance the intellectual diversity, vibrancy, and capacity of the work force through improved recruitment and retention. Strengthen client and collaborative relationships in the community at an institutional level. Expand monitoring capability by increasing density, sensitivity, and efficiency and reducing costs of instruments and networks. Encourage a breadth of scientific capabilities in Menlo Park to foster interdisciplinary science. Communicate USGS science to a diverse audience.

Circular

Enhancing marsh elevation using sediment augmentation: A case study from southern California, USA

Tidal marshes are an important component of estuaries that provide habitat for fish and wildlife, protection from flooding, recreation opportunities, and can improve water quality. Critical to maintaining these functions is vertical accretion, a key mechanism by which tidal marshes build elevation relative to local sea level. The beneficial use of dredged material to build marsh elevations in response to accelerating sea level rise has gained attention as a management action to prevent habitat loss over the coming decades. In January 2016, a sediment augmentation project using local dredged material was undertaken at Seal Beach National Wildlife Refuge in Anaheim Bay, California, USA, to benefit tidal marsh habitat and the listed species it supports. The application process added 12,900 cubic meters of sediment with an initial, average 22-cm gain in elevation over a 3.2-hectare site. Due to sediment characteristics and higher than anticipated elevations in some areas, vegetation colonization did not occur at the expected rate; therefore, adaptive management measures were undertaken to improve hydrology of the site and facilitate vegetation colonization. More case studies that test and monitor sea level adaptation actions are needed to assist in the planning and implementation of climate-resilient projects to prevent coastal habitat loss over the coming century.

California

Characterizing response of total suspended solids and total phosphorus loading to weather and watershed characteristics for rainfall and snowmelt events in agricultural watersheds

Understanding the response of total suspended solids (TSS) and total phosphorus (TP) to influential weather and watershed variables is critical in the development of sediment and nutrient reduction plans. In this study, rainfall and snowmelt event loadings of TSS and TP were analyzed for eight agricultural watersheds in Wisconsin, with areas ranging from 14 to 110 km2 and having four to twelve years of data available. The data showed that a small number of rainfall and snowmelt runoff events accounted for the majority of total event loading. The largest 10% of the loading events for each watershed accounted for 73–97% of the total TSS load and 64–88% of the total TP load. More than half of the total annual TSS load was transported during a single event for each watershed at least one of the monitored years. Rainfall and snowmelt events were both influential contributors of TSS and TP loading. TSS loading contributions were greater from rainfall events at five watersheds, from snowmelt events at two watersheds, and nearly equal at one watershed. The TP loading contributions were greater from rainfall events at three watersheds, from snowmelt events at two watersheds and nearly equal at three watersheds. Stepwise multivariate regression models for TSS and TP event loadings were developed separately for rainfall and snowmelt runoff events for each individual watershed and for all watersheds combined by using a suite of precipitation, melt, temperature, seasonality, and watershed characteristics as predictors. All individual models and the combined model for rainfall events resulted in two common predictors as most influential for TSS and TP. These included rainfall depth and the antecedent baseflow. Using these two predictors alone resulted in an R 2 greater than 0.7 in all but three individual models and 0.61 or greater for all individual models. The combined model yielded an R 2 of 0.66 for TSS and 0.59 for TP. Neither the individual nor the combined models were substantially improved by using additional predictors. Snowmelt event models were statistically significant for individual and combined watershed models, but the model fits were not all as good as those for rainfall events (R 2 between 0.19 and 0.87). Predictor selection varied from watershed to watershed, and the common variables that were selected were not always selected in the same order. Influential variables were commonly direct measures of moisture in the watershed such as snowmelt, rainfall + snowmelt, and antecedent baseflow, or measures of potential snowmelt volume in the watershed such as air temperature.

Wisconsin

Statistical considerations in monitoring birds over large areas

The proper design of a monitoring effort depends primarily on the objectives desired, constrained by the resources available to conduct the work. Typically, managers have numerous objectives, such as determining abundance of the species, detecting changes in population size, evaluating responses to management activities, and assessing habitat associations. A design that is optimal for one objective will likely not be optimal for others. Careful consideration of the importance of the competing objectives may lead to a design that adequately addresses the priority concerns, although it may not be optimal for any individual objective. Poor design or inadequate sample sizes may result in such weak conclusions that the effort is wasted. Statistical expertise can be used at several stages, such as estimating power of certain hypothesis tests, but is perhaps most useful in fundamental considerations of describing objectives and designing sampling plans.

Research Paper

Proposed attributes of national wildlife health programmes

Wildlife health is important for conservation, healthy ecosystems, sustainable development, and biosecurity. It presents unique challenges for national programme governance and delivery because wildlife health crosses not only jurisdictional responsibilities and authorities but also inherently spans multiple sectors of expertise. The World Organisation for Animal Health (OIE) encourages its Members to have wildlife disease monitoring and notification systems. Where national wildlife health surveillance programmes do exist, they vary in scope and size. Evidence-based guidance is lacking on the critical functions and roles needed to meet the OIE’s recommendations and other expectations of a national programme. A literature review and consultation with national wildlife health programme leaders identified five key attributes of national programmes including: (1) being knowledge and science based; (2) fostering cross-nation equivalence and harmonisation; (3) developing partnerships and national coordination; (4) providing leadership and administration of national efforts and (5) capacity development. Proposed core purposes include: (1) establishing and communication of the national wildlife health status; (2) leading national planning; (3) centralising information and expertise; (4) developing national networks leading to harmonisation and collaborations; (5) developing wildlife health workforces and (6) centralising administration and management of national programmes. A national wildlife health programme should aim to identify, effectively communicate, and manage the risk to or from a country’s wildlife populations. It should generate the appropriate knowledge required to improve the effectiveness of wildlife policies and systems, including identifyinhttp://www.oie.int/en/publications-and-documentation/scientific-and-technical-review-free-access/peer-reviewed-papers-for-the-plurithematic-review-2018/g and assessing emerging priorities, thus increasing warning for preparedness and preventive actions.

Scientific and Technical Review

Evaluation of restoration alternatives using water-budget tools for the Wapato Lake National Wildlife Refuge, northwestern Oregon

The lakebed in Wapato Lake National Wildlife Refuge (NWR) in northwestern Oregon was farmed for decades prior to the establishment of the refuge in 2013. Planning for restoration of these lands required extensive data collection and construction of a water budget and tools to design and evaluate potential restoration strategies. The U.S. Geological Survey (USGS) and U.S. Fish and Wildlife Service worked together to monitor streamflow and water levels in and around Wapato Lake NWR, apply the USGS Shoreline Management Tool (SMT), then construct and apply a water-budget-based Water Management Scenario Tool (WMST). The SMT was used to determine the spatial availability of different water depths (as potential habitat for different species) as a function of water level and other factors, based on topographic data. The WMST uses a water-budget approach to predict daily water levels, inflows, outflows, and areas of specific categories of water depth in the refuge over the course of a water year in response to a range of hydrologic and meteorological conditions and potential water-management strategies. In this study, two hypothetical water-management strategies were simulated to predict their effect on water levels and areas with specific water depths as an indicator of potential habitat. In the first scenario, several tributaries that had been diverted around the lakebed since the 1930s were reconnected to the lake, and an outflow weir was used to control lake level and to create a lake and seasonal wetlands of specific depths. In the second scenario, an outflow weir was combined with pumps to help meet target lake levels. Results showed that reconnecting the largest three tributaries to Wapato Lake would provide sufficient water to create a range of aquatic conditions in most years. For a median water year, rainfall and tributary flows in these scenarios provided 99 percent of total inputs to the lake, whereas pumping, weir outflows, and open-water evaporation accounted for 95–97 percent of losses. Management of lake levels could be accomplished with a variable-elevation outflow weir or a combination of a weir and pumps. The lake would take longer to fill to a higher seasonal target level during a dry year. Without an outflow weir or other means of allowing water to flow out of the lake, the largest of two existing pumps would need to be used during late spring or early summer to attain a lower seasonal target water level in summer. High-water conditions downstream of Wapato Lake may prevent the use of a simple outflow weir, as historical downstream water levels in winter and spring sometimes were higher than the target water levels used in these scenarios. Water-budget-based methods applied in this study have proven to be valuable for the design and evaluation of potential restoration strategies at Wapato Lake NWR.

Wapato Lake National Wildlife Refuge

Hydrologic metrics for status-and-trends monitoring in urban and urbanizing watersheds

Local governmental agencies are increasingly undertaking potentially costly “status-and-trends” monitoring to evaluate the effectiveness of stormwater control measures and land-use planning strategies, or to satisfy regulatory requirements. Little guidance is presently available for such efforts, and so we have explored the application, interpretation, and temporal limitations of well-established hydrologic metrics of runoff changes from urbanization, making use of an unusually long-duration, high-quality data set from the Pacific Northwest (USA) with direct applicability to urban and urbanizing watersheds. Three metrics previously identified for their utility in identifying hydrologic conditions with biological importance that respond to watershed urbanization—T Qmean (the fraction of time that flows exceed the mean annual discharge), the Richards-Baker Index (characterizing flashiness relative to the mean discharge), and the annual tally of wet-season day-to-day flow reversals (the total number of days that reverse the prior days’ increasing or decreasing trend)—are all successful in stratifying watersheds across a range of urbanization, as measured by total contributing area of urban development. All metrics respond with statistical significance to multi-decadal trends in urbanization, but none detect trends in watershed-scale urbanization over the course of a single decade. This suggests a minimum period over which dependable trends in hydrologic alteration (or improvement) can be detected with confidence. The metrics also prove less well suited to urbanizing watersheds in a semi-arid climate, with only flow reversals showing a response consistent with prior findings from more humid regions. We also explore the use of stage as a surrogate for discharge in calculating these metrics, recognizing potentially significant agency cost savings in data collection with minimal loss of information. This approach is feasible but cannot be implemented under current data-reporting practices, requiring measurement of water-depth values and preservation of the full precision of the original recorded data. With these caveats, however, hydrologic metrics based on stage should prove as or more useful, at least in the context of status-and-trends monitoring, as those based on subsequent calculations of discharge.

Hydrological Processes

Status and trends of selected resources in the Upper Mississippi River System

Like other large rivers, the Upper Mississippi River System (UMRS) serves a diversity of roles. The UMRS provides commercial and recreational fishing, floodplain agriculture, drinking water for many communities, an important bird migration pathway, a variety of recreational activities, and a navigation system that transports much of the country's agricultural exports. These multiple roles present significant management challenges. Regular assessment of the condition of the river is needed to improve management plans and evaluate their effectiveness. This report provides a summary of the recent status (mean and range of conditions) and trends (change in direction over time) for 24 indicators of the ecological condition of the Upper Mississippi and Illinois Rivers using data collected through the Long Term Resource Monitoring Program (LTRMP). The 24 indicators were grouped into seven categories: hydrology, sedimentation, water quality, land cover, aquatic vegetation, invertebrates, and fish. Most of the data used in the report were collected between about 1993 and 2004, although some older data were also used to compare to recent conditions.Historical observations and current LTRMP data clearly indicate that the UMRS has been changed by human activity in ways that have diminished the ecological health of the river. The data indicate that status and trends differ among regions, and we expect that regional responses to various ecological rehabilitation techniques will differ as well. The continuing role of the LTRMP will be to provide the data needed to assess changes in river conditions and to determine how those changes relate to management actions, natural variation, and the overall ecological integrity of the river system.

Long Term Resource Monitoring Program Technical Re

Development of a consortium for water security and safety: Planning for an early warning system

The events of September 11, 2001 have raised concerns over the safety and security of the Nation's critical infrastructure including water and waste water systems. In June 2002, the U.S. EPA's Region II Office (New York City), in response to concerns over water security, in collaboration with Rutgers University agreed to establish a Regional Drinking Water Security and Safety Consortium (RDWSSC). Members of the consortium include: Rutgers University's Center for Information Management, Integration and Connectivity (CIMIC), American Water (AW), the Passaic Valley Water Commission (PVWC), the North Jersey District Water Supply Commission (NJDWSC), the N.J. Department of Environmental Protection, the U.S. Geological Survey (USGS), and the U.S. Environmental Protection Agencies, Region II Office. In December of 2002 the consortium members signed a memorandum of understanding (MOU) to pursue activities to enhance regional water security. Development of an early warning system for source and distributed water was identified as being of primary importance by the consortium. In this context, an early warning system (EWS) is an integrated system of monitoring stations located at strategic points in a water utilities source waters or in its distribution system, designed to warn against contaminants that might threaten the health and welfare of drinking water consumers. This paper will discuss the consortium's progress in achieving these important objectives.

Conference Paper

A practical decision tool for marine bird mortality assessments

Given the rise in anthropogenic, environmental, and disease events contributing to marine bird mortality, there is a critical need to improve the rigor of mortality assessments. Deficits in data collection and mortality estimation can hinder a manager’s ability to document the scale of events and assess population level impacts. Therefore, to inform decisions required during activities, such as conservation status assessments or harvest management, organizations may choose to incorporate mortality assessments into response plans. Resources, capacity, and assets to assess mortality vary across jurisdictions (federal, state, Indigenous, local, etc.), and clear guidance to support mortality assessments is often unavailable or not clearly addressed. Here, we present a decision support tool to help managers identify and evaluate survey options to assess bird mortality in a diverse array of scenarios. The objective of the decision tool is to improve data collection and availability, which will increase the ability to estimate mortality robustly, given situation-specific attributes and constraints. This decision tool is designed to guide the response when a mortality event is initially encountered and offers suggestions for assessment and reporting procedures in the absence of other guidance or to complement existing protocols. The decision tool is also meant to inform decision making for response determination and resource allocation. The tool facilitates examination of options for further assessment and monitoring, which users determine by examining questions pertaining to species prioritization, determination of mortality minimum spatial extent, and the potential magnitude of impacts on affected species. Finally, identification of appropriate survey methods that address imperfect detection when a complete census is not possible are determined by exploring location, spatial and temporal extent, and the type of species affected. Ultimately, this decision tool aims to facilitate and improve the standardization of mortality assessments, equipping managers with a practical resource to navigate the decision-making process for marine bird mortality estimation.

Ornithological Applications

A practical decision tool for marine bird mortality assessments

Given the rise in anthropogenic, environmental, and disease events contributing to marine bird mortality, there is a critical need to improve the rigor of mortality assessments. Deficits in data collection and mortality estimation can hinder a manager’s ability to document event scales and inform population level impacts. Therefore, to inform decisions required during activities such as conservation status assessments or harvest management, organizations may choose to incorporate mortality assessments into response plans. Resources, capacity, and assets to assess mortality vary across jurisdictions (federal, state, Indigenous, local, etc.), and clear guidance to support mortality assessments is often unavailable or not clearly addressed. Here, we present a decision support tool to help managers identify and evaluate survey options to assess bird mortality in a diverse array of scenarios. The objective of the decision tool is to improve data collection and availability which will increase the ability to robustly estimate mortality, given situation-specific attributes and constraints. This decision tool is designed to guide the response when a mortality event is initially encountered and offers suggestions for assessment and reporting procedures in the absence of other guidance or to complement existing protocols. The decision tool is also meant to inform decision making for response determination and resource allocation. The tool facilitates examination of options for further assessment and monitoring which users determine by examining questions pertaining to species prioritization, mortality spatial extent, and the potential magnitude of impacts on affected species. Finally, identification of appropriate survey methods, that address imperfect detection when a complete census is not possible, are determined by exploring location, spatial and temporal extent, and the type of species affected. Ultimately, this tool aims to facilitate and improve the standardization of mortality assessments, equipping managers with a practical resource to navigate the decision-making process for marine bird mortality estimation.

EcoEvoRxiv

Quality-assurance plan for groundwater activities, U.S. Geological Survey, Washington Water Science Center

This report documents the standard procedures, policies, and field methods used by the U.S. Geological Survey’s (USGS) Washington Water Science Center staff for activities related to the collection, processing, analysis, storage, and publication of groundwater data. This groundwater quality-assurance plan changes through time to accommodate new methods and requirements developed by the Washington Water Science Center and the USGS Office of Groundwater. The plan is based largely on requirements and guidelines provided by the USGS Office of Groundwater, or the USGS Water Mission Area. Regular updates to this plan represent an integral part of the quality-assurance process. Because numerous policy memoranda have been issued by the Office of Groundwater since the previous groundwater quality assurance plan was written, this report is a substantial revision of the previous report, supplants it, and contains significant additional policies not covered in the previous report. This updated plan includes information related to the organization and responsibilities of USGS Washington Water Science Center staff, training, safety, project proposal development, project review procedures, data collection activities, data processing activities, report review procedures, and archiving of field data and interpretative information pertaining to groundwater flow models, borehole aquifer tests, and aquifer tests. Important updates from the previous groundwater quality assurance plan include: (1) procedures for documenting and archiving of groundwater flow models; (2) revisions to procedures and policies for the creation of sites in the Groundwater Site Inventory database; (3) adoption of new water-level forms to be used within the USGS Washington Water Science Center; (4) procedures for future creation of borehole geophysics, surface geophysics, and aquifer-test archives; and (5) use of the USGS Multi Optional Network Key Entry System software for entry of routine water-level data collected as part of long-term water-level monitoring networks.

Open-File Report

Santa Barbara and Foothill groundwater basins Geohydrology and optimal water resources management—Developed using density dependent solute transport and optimization models

Groundwater has been a part of the city of Santa Barbara’s water-supply portfolio since the 1800s; however, since the 1960s, the majority of the city’s water has come from local surface water, and the remainder has come from groundwater, State Water Project, recycled water, increased water conservation, and as needed, seawater desalination. Although groundwater from the Santa Barbara and Foothill groundwater basins only accounts for a small percentage of the long-term supply, it is an important source of supplemental water during times of surface-water shortages. During the late 1980s and early 1990s, production wells extracted additional groundwater to compensate for drought related water-delivery shortfalls from other sources; in response, water levels declined substantially in the Santa Barbara and Foothill groundwater basins (below sea level in the Santa Barbara groundwater basin). In coastal basins that have groundwater extraction near shore, seawater intrusion is often a problem. Seawater intrusion in the Santa Barbara groundwater basin is thought to be more limited than in other coastal basins because of an offshore fault that acts as a partial barrier to groundwater flow. During the late 1980s and early 1990s, seawater intrusion was observed in the Santa Barbara groundwater basin, as indicated by increased chloride concentrations at several monitoring wells that ranged from 200 ft to 1,300 ft from the ocean and as close as 2,900 ft to the nearest pumping well. This demonstrated that seawater can intrude into the Santa Barbara groundwater basin when groundwater levels fall below sea level near the coast. The city of Santa Barbara is interested in developing a better understanding of the sustainability of its groundwater supplies. In 2014, California adopted historic legislation to manage its groundwater: the Sustainable Groundwater Management Act (SGMA). The SGMA requires the development and implementation of “Groundwater Sustainability Plans” in 127 priority groundwater basins; although Santa Barbara was not a designated priority basin, the city is taking steps to achieve sustainability. Sustainability was defined in the SGMA in terms of avoiding undesirable results: significant and unreasonable groundwater-level declines, reduction in groundwater storage, seawater intrusion, water-quality degradation, land subsidence, and surface-water depletion. In this project, a cooperative study between the U.S. Geological Survey (USGS) and the city of Santa Barbara, sustainable yield is defined as the volume of groundwater that can be pumped from storage without causing water-level drawdowns and the associated increases in seawater intrusion (as indicated by increases in measured chloride concentrations) at selected wells. In order to estimate the sustainability of Santa Barbara’s groundwater basins, a three-dimensional density-dependent groundwater-flow and solute-transport model (the Santa Barbara Flow and Transport Model, or SBFTM) was developed on the basis of an existing groundwater-flow model. To simulate seawater intrusion to the Santa Barbara Basin under various management strategies, the SBFTM uses the USGS code SEAWAT to simulate salinity transport and variable-density flow. The completed SBFTM was coupled with a management optimization tool, in this case a multi-objective evolutionary algorithm, to determine optimal pumping strategies that maximize the sustainable yield and at the same time satisfy user-defined drawdown and chloride-concentration constraints. As part of this study, a three-dimensional hydrogeologic framework model was developed to quantify the extent and hydrogeologic characteristics of the Santa Barbara and Foothill groundwater basins and to help define the discretization and hydraulic properties used in the SBFTM. The development of the hydrogeologic framework model required the collection and reconciliation of geologic and geophysical data from existing maps, reports, and databases, along with geologic and hydrologic data from recently drilled wells. These data were integrated into a three-dimensional hydrogeologic framework model that defines the stratigraphy and geometry of the aquifer zones and the major geologic structures in the basin. The hydrogeologic framework model also quantifies the variation in sediment grain size within each aquifer zone as the percentage of coarse-grained sediment. Previous studies indicated that there are two principal water-producing zones in the Santa Barbara groundwater basin, the upper and lower producing zones; an additional thin, productive zone was identified as part of this study. This “middle producing zone” is not as areally extensive as the upper and lower producing zones and only exists in the coastal part of Storage Unit I. These producing zones are bounded at depth by less productive shallow, middle, and deep zones. Two versions of the SBFTM were constructed: an initial-condition model and a modern transient model. The initial-condition model is a long-term transient model that simulates flow and solute-transport conditions during a period with limited anthropogenic influences preceeding the modern transient model. The simulation-transient model simulates flow and transport conditions from 1929 through 2013; however, because of data availability, the focus of the model calibration was 1972–2013. The SBFTM was calibrated to measured groundwater levels and drawdown, as well as measured chloride concentrations and change in concentrations, using a combination of automated and trial-and-error parameter-estimation techniques. A sensitivity analysis indicated that, in general, the SBFTM was most sensitive to recharge- and pumping-distribution parameters, specifically those controlling the amount of small-catchment recharge and the distribution of water extraction by hydrogeologic layer for production wells. The model was also sensitive to parameters controlling stream-recharge rates, horizontal and vertical hydraulic conductivity, and porosity. From 1929 to 1971, most of the water entering the area represented by the SBFTM was from creek and small-catchment recharge, and the majority of water leaving the SBFTM area was from pumping, discharge to creeks, and drains. In addition, about 37 percent of the total pumpage came from a net reduction in groundwater storage. From 1972 to 2013, the amount of water entering and leaving the SBFTM was fairly similar as that from 1929 to 1971, except the reduction in pumpage added about 17,000 acre-ft of water to storage. During this later period, there were also times of storage loss. For example, during July 1990, a month when approximately 705 acre-ft of groundwater was pumped in the study area, the pumpage was much greater than all sources of recharge combined, and about 382 acre-ft of water was removed from groundwater storage. Simulated hydraulic heads replicated the observed data to an acceptable matching of the measured water-level, flow direction, and vertical gradients. Simulated hydrographs for selected wells were in good agreement with the measured data, with an average residual of -2.7 ft and a standard deviation of 14.5 ft, indicating that the simulated heads, on average, underestimated the observed water levels. An examination of the model fit indicated that most of the discrepancies were lower simulated heads at wells proximal to production well sites. The simulated chloride concentrations reasonably matched the rising limbs of the measured breakthrough curves in terms of timing and magnitude; however, the simulation overestimated the chloride concentrations on the falling limbs. The overestimation of low chloride concentrations was attributed to the model overestimating the advance of the chloride front during periods of heavy pumping and underestimating the retreat of the chloride front during periods of low pumping. These simulation errors would result in a conservative response by local water managers to seawater intrusion. The SBFTM was used to develop a collection of predictive simulations optimized to produce pumping schedules that maximize yield, subject to a set of constraints and competing objectives. The simulations were grouped as scenarios that differed in their time horizon, initial conditions for groundwater levels and chloride concentrations, as well as precipitation, which was incorporated into the model through simulated recharge. Overall, five scenarios were developed in a multi-objective framework to obtain optimal pumping rates for all of the wells managed by the city, while minimizing excessive drawdown and seawater intrusion. For the current study, complexities in the simulation model and the optimization formulation required additional considerations. Incorporating the solute-transport equations to simulate chloride transport added a highly nonlinear process that is solved iteratively in each time step of the groundwater-flow model. These nonlinearities, coupled with the highly refined grid in the current model, creates challenges for many traditional optimization methods. Therefore, an optimization method was needed that could address nonlinear relationships as well as a very large problem size. Lastly, the optimization problem was reformulated to include multiple objectives without requiring convergence to a single solution. This approach, guided by the city’s objectives, allowed the maximum extraction of information from the complex simulation. Borg, a multi-objective evolutionary algorithm, was chosen as the optimization algorithm for this study for several reasons: (1) it is very computationally efficient; (2) it can run in parallel; (3) it requires little user input; and (4) it can solve for multiple competing objectives. The first three points allow the algorithm to proceed toward the optimal solutions at the fastest possible rate. The fourth point is advantageous for large, complex optimization problems because it is difficult to formulate the optimization problem in a way that produces only one optimal solution. The problem formulation consisted of four competing objectives and a constraint set in accordance with the main concerns of the city. The objectives were maximizing total pumpage, minimizing seawater intrusion, minimizing total drawdown in production wells, and minimizing the maximum drawdown. The constraints were pump capacity, meeting drinking-water standards for chloride, maintaining a specified minimum flowrate to a groundwater treatment plant, and maintaining minimum water levels in pumping wells. The decision variables either were quarterly pumpage by well or total pumpage by basin. Five optimization scenarios were developed that allow the decision makers to evaluate a range of optimal solutions for a variety of water levels and chloride concentrations as well as potential future climatic conditions. Three scenarios (1, 2, and 5) were multi-objective optimization formulations that allowed for variations in management preferences and climatic conditions. The other two scenarios (3 and 4) were designed to examine the optimization results to answer specific questions. Scenario 1 described the best-case sustainable yield assuming a “full” basin (that is, high initial water levels) and typical climate conditions for 10 years. Scenario 2 also started with a “full” basin; however, this was followed by a 10-year drought. Scenario 3 determined if an “empty” basin (that is, low initial water levels) would recover to full conditions (1998 conditions) given climate assumptions and optimal pumping schedules from scenarios 1 and 2. Scenario 4 was designed to produce decision rules that can be used by water managers to help choose an optimal pumping schedule based on measured water-level or chloride data. Scenario 5 identified future pumping schedules based on short-term climate variations during a 2-year management horizon. The results from scenarios 1 and 2 described the differences in maximum pumpage in the basin under typical and dry long-term climate projections, respectively. The scenario 1 results indicated the maximum 10-year pumpage of the basin was about 31,300 acre-ft under typical conditions and controlling simulated seawater intrusion and drawdowns. For scenario 2, less recharge over the 10-year dry climate produced a maximum pumpage estimate of 30,000 acre-ft to control seawater intrusion and drawdowns. The larger pumpage for scenario 1 resulted in more seawater intrusion, but less total drawdown, compared to that of scenario 2. Results for scenarios 3 and 4 showed the basin’s response to management actions combined with climate projections. Both scenarios used the optimal pumping schedules and the 10-year climates from scenarios 1 and 2. The scenario 3 results showed that under minimal pumping, the basin did not fully recover to 1998 water levels within 10 years under either climate scenario. The relatively larger recharge from the typical climate resulted in less drawdown at coastal monitoring wells after the 10-year recovery period than that from the dry climate. The location of the seawater intrusion front was not appreciably different between the scenarios, however. Scenario 4 used the optimal results from scenarios 1 and 2 to produce decision-rule curves that illustrated the pumpage for each basin, given measured levels of chloride concentration or drawdown. This allowed the use of additional measurements at monitoring wells to assess future management decisions on the basis of the sensitivity of observations of drawdown and seawater intrusion to various pumping rates. Scenario 5 allowed managers to investigate the effects of short-term climate variations on optimal pumping schedules. Three specific 2-year simulations were optimized: typical-to-dry (scenario 5A), dry-to-typical (scenario 5B), and dry-to-dry (scenario 5C). The most noteable result from scenario 5 was the overall reduction in optimal pumpage for most schedules in scenario 5C, when the climate is simulated as dry-to-dry. There are also many optimal pumping schedules that produced an overall increase in waterlevels over the two-year simulation period, regardless of climatic condition. Similar to scenario 2, the scenario 5C results represents conservative yield estimates under a minimal-precipitation climatic condition.

California

Science supporting Gulf of Mexico oil-spill response, mitigation, and restoration activities-Assessment, monitoring, mapping, and coordination

The St. Petersburg Coastal and Marine Science Center of the U.S. Geological Survey (USGS) investigates physical processes related to coastal and marine environments and societal implications related to natural hazards, resource sustainability, and environmental change. Immediately after the Deepwater Horizon event, the USGS began responding to data requests, directing response personnel, and providing coastal and shelf geophysical data to coastal-resource managers. The USGS provided oil-spill responders with up-to-date coastal bathymetry, geologic data, and maps characterizing vulnerability and levels of risk from potential spill impacts in Louisiana, Mississippi, and Alabama. Baseline conditions prior to any spill impacts were documented through programs that included shoreline sampling and sediment coring from east Texas to the east coast of Florida and aerial photography of many environmentally sensitive Gulf coastal areas. The USGS responded to numerous verbal and written data requests from Federal, State, and local partners and academic institutions with USGS scientific staff participating in the Coast Guard Unified Commands (UC) and Operational Science Advisory Teams (OSAT). The USGS conducted technical review of reports and plans for many response activities. Oil-spill responders, managers, and personnel on the ground, including partners such as the National Park Service, Gulf Islands National Seashore, Chandeleur Islands Refuge, and State agencies, continue to rely on USGS products.

General Information Product

White-nose syndrome surveillance and bat monitoring activities in North Coast and Cascades Network parks 2016–2024

Pseudogymnoascus destructans (Pd), the causative agent of white-nose syndrome (WNS) in bats, has caused serious declines in bat populations across North America. We conducted WNS surveillance in five different park units in the North Coast and Cascades Network (NCCN) from 2016 to 2024, following the initial detection of Pd and WNS in Washington State in 2016. We captured and swabbed bats, swabbed roost materials, and collected guano and tested these samples for Pd DNA using qPCR. We confirmed WNS through histopathology of tissue samples and carcasses. We detected Pd at five locations in Mount Rainier National Park, starting in 2017. We confirmed WNS at four of these locations, with the first clinical signs detected in 2022. We detected Pd for the first time in Olympic and North Cascades National Parks in 2024. From these efforts, we generated information that can be compared to other datasets, helping us advance our knowledge of WNS/Pd epidemiology. We also conducted three field and laboratory-based experiments to inform early detection/rapid response (EDRR) planning. The first was a field experiment using non-infective Pd DNA to evaluate the rate of DNA degradation and the probability of detecting Pd DNA in the field. Experimental degradation rates for Pd DNA ranged from 1.6% to 8.2% and were lower in protected sites. The second was a laboratory-based experiment to understand Pd growth on four different substrates. We detected increasing levels of Pd in autoclaved guano and in plywood, suggesting these substrates may be environmental reservoirs. Pd remained stable in fresh guano but in soil it decreased, suggesting microbial interactions that may influence Pd growth in these substrates. We also collected wood shavings from a Pd positive bat box in June and August to evaluate viable Pd persistence in wood in a summer roost. Despite the characterization that Pd required cold conditions to persist, viable Pd was present in wood shavings collected during the summer season. Finally, we evaluated the National White-Nose Syndrome Decontamination Protocol through experiments. We found that ethanol was not effective as a sporicidal agent in any of the concentrations we tested and that a 1:10 dilution of bleach did not kill Pd spores, though higher concentrations did. These findings resulted in changes to the national protocol.

Oregon, Washington

Submergence Vulnerability Index development and application to Coastwide Reference Monitoring System Sites and Coastal Wetlands Planning, Protection and Restoration Act projects

Since its implementation in 2003, the Coastwide Reference Monitoring System (CRMS) in Louisiana has facilitated the creation of a comprehensive dataset that includes, but is not limited to, vegetation, hydrologic, and soil metrics on a coastwide scale. The primary impetus for this data collection is to assess land management activities, including restoration efforts, across the coast. The aim of the CRMS analytical team is to provide a method to synthesize this data to enable multiscaled evaluations of activities in Louisiana’s coastal wetlands. Several indices have been developed to facilitate data synthesis and interpretation, including a Floristic Quality Index, a Hydrologic Index, and a Landscape Index. This document details the development of the Submergence Vulnerability Index, which incorporates sediment-elevation data as well as hydrologic data to determine the vulnerability of a wetland based on its ability to keep pace with sea-level rise. The objective of this document is to provide Federal and State sponsors, project managers, planners, landowners, data users, and the rest of the coastal restoration community with the following: (1) data collection and model development methods for the sediment-elevation response variables, and (2) a description of how these response variables will be used to evaluate CWPPRA project and program effectiveness.

Louisiana