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USGS2023

Assessing the value and usage of data management planning and data management plans within the U.S. Geological Survey

As of 2016, the U.S. Geological Survey (USGS) Fundamental Science Practices require data management plans (DMPs) for all USGS and USGS-funded research. The USGS Science Data Management Branch of the Science Analytics and Synthesis Program has been working to help the USGS (Bureau) meet this requirement. However, USGS researchers still encounter common data management-related challenges that may be reduced or eliminated by better planning. In 2021, USGS staff were given a series of surveys aimed to better understand current data management planning practices, perceptions, and needs. The survey results indicated that adoption and integration of data management planning and DMPs into USGS research project workflows are broad, if inconsistent, across USGS Science Centers and programs. The USGS Science Data Management Branch can help improve clarity and guidance on the purpose, intended audience, content, workflows, and evaluation processes for DMPs. It would also be beneficial to provide additional supporting cyberinfrastructure to support DMP activities. Survey responses indicated it would be beneficial for the Science Data Management Branch to develop a strategy, other than through DMPs, for teaching and encouraging good data management practices. Although these surveys were an opportunity for USGS staff to provide feedback on their experiences, the surveys may also have revealed the desire for more frequent evaluations, cross-disciplinary communication, and training on research data management and DMP development and integration, in the context of USGS policy, Fundamental Science Practices requirements, and overall Bureau expectations. Data management-related roles such as data manager or steward, information technologist, and repository manager may need to be formally recognized as skilled professional career positions within the Bureau. At a minimum, the best practice for USGS would be to create and maintain DMPs as living documents, integrated with existing systems that are broadly accessible to all stakeholders, and include quantitatively measurable benefits tied directly to a clearly defined purpose.

Open-File Report↗

USGS2012

USGS42 and USGS43: Human-hair stable hydrogen and oxygen isotopic reference materials and analytical methods for forensic science and implications for published measurement results

Because there are no internationally distributed stable hydrogen and oxygen isotopic reference materials of human hair, the U.S. Geological Survey (USGS) has prepared two such materials, USGS42 and USGS43. These reference materials span values commonly encountered in human hair stable isotope analysis and are isotopically homogeneous at sample sizes larger than 0.2 mg. USGS42 and USGS43 human-hair isotopic reference materials are intended for calibration of δ(2)H and δ(18)O measurements of unknown human hair by quantifying (1) drift with time, (2) mass-dependent isotopic fractionation, and (3) isotope-ratio-scale contraction. While they are intended for measurements of the stable isotopes of hydrogen and oxygen, they also are suitable for measurements of the stable isotopes of carbon, nitrogen, and sulfur in human and mammalian hair. Preliminary isotopic compositions of the non-exchangeable fractions of these materials are USGS42(Tibetan hair)δ(2)H(VSMOW-SLAP) = -78.5 ± 2.3‰ (n = 62) and δ(18)O(VSMOW-SLAP) = +8.56 ± 0.10‰ (n = 18) USGS42(Indian hair)δ(2)H(VSMOW-SLAP) = -50.3 ± 2.8‰ (n = 64) and δ(18)O(VSMOW-SLAP) = +14.11 ± 0.10‰ (n = 18). Using recommended analytical protocols presented herein for δ(2)H(VSMOW-SLAP) and δ(18)O(VSMOW-SLAP) measurements, the least squares fit regression of 11 human hair reference materials is δ(2)H(VSMOW-SLAP) = 6.085δ(2)O(VSMOW-SLAP) - 136.0‰ with an R-square value of 0.95. The δ(2)H difference between the calibrated results of human hair in this investigation and a commonly accepted human-hair relationship is a remarkable 34‰. It is critical that readers pay attention to the δ(2)H(VSMOW-SLAP) and δ(18)O(VSMOW-SLAP) of isotopic reference materials in publications, and they need to adjust the δ(2)H(VSMOW-SLAP) and δ(18)O(VSMOW-SLAP) measurement results of human hair in previous publications, as needed, to ensure all results on are on the same scales.

Forensic Science International↗

USGS1993

Optimization of an extraction procedure for the accurate determination of total tin in eighteen Geological Survey of Japan rock reference materials

A fusion-extraction procedure for the determination of total tin in rocks and sediments by graphite furnace atomic absorption spectrometry (GFAAS) was reexamined and modified to obtain the optimum accuracy and precision. Several variations based on increases in the sample weight or extraction ratio were compared based on the determination of tin in 18 Geological Survey of Japan (GSJ) reference materials. The most accurate and precise procedure was found to be an 8:1 extraction of a 0.5 g rock sample fused with lithium metaborate and dissolved in 7.5% hydrochloric acid, using a 4% solution of trioctylphosphine oxide in methyl isobutyl ketone (TOPO-MIBK). Rocks containing <I ug/g total tin require a 0.5 g sample size for the utmost accuracy. Utilizing these modifications, tin concentrations were found to be within 0.1 ug/g for all of the GSJ reference standards with the exception of the rhyolites. Values are reported for the total tin content of three new GSJ reference materials, namely, JLk-1, JLs-1, and JDo-1.

Analytical Sciences↗

USGS1997

U.S. Geological Survey Subsidence Interest Group Conference; proceedings of the Technical Meeting, Las Vegas, Nevada, February 14-16, 1995

Introduction to Papers: This report is a compilation of short papers that are based on oral presentations summarizing the results of recent research that were given at the third meeting of the Subsidence Interest Group held in Las Vegas, Nevada, February 14-16, 1995. The report includes case studies of land subsidence and aquifer-system deformation resulting from fluid withdrawal, geothermal development, and mine collapse. Methods for monitoring land subsidence using Global Positioning System technology for the rapid and accurate measurement of changes in land-surface altitude also are described. The current status of numerical simulation of land subsidence in the USGS is summarized, and several of the short papers deal with the development and application of new numerical techniques for simulation and quantification of aquifer system deformation. Not all oral presentations made at the meeting are documented in this report. Several of the presentations were of ongoing research and as such, the findings were provisional in nature and were offered at the meeting to stimulate scientific discussion and debate among colleagues. The information presented in this report, although only a subset of the proceedings of the meeting in Las Vegas, should help expand the scientific basis for management decisions to mitigate or control the effects of land subsidence. The short papers describing the results of these studies provide a cross section of ongoing research in aquifer mechanics and land subsidence and also form an assessment of the current technology and 'state of the science.' The analytical and interpretive methods described in this report will be useful to scientists involved in studies of ground-water hydraulics and aquifer-system deformation.

Open-File Report↗

USGS2026

Lessons learned from a hybrid approach to collecting user feedback on coastal science products

Science products play a critical role in assisting environmental decision-makers to manage coastal systems; yet there are challenges to developing products that align with needs of end-users. By combining aspects of usability testing and contextual inquiry methods, we describe a hybrid approach for collecting user feedback, especially applicable within the federal government context. This paper presents results of this hybrid testing approach on two of U.S. Geological Survey’s science products, the Coastal Change Likelihood (CCL) and Hazard Exposure Reporting and Analytics (HERA). Both science products synthesize coastal hazard exposure at different geographies and scales. By comparing two science products in different stages of development, we identify common usability issues across both products; the importance of defining a target audience; requested functionalities beyond the products’ scope; and the effect of previous stakeholder engagement on how testers describe technical issues and barriers. Results from user feedback contribute to understanding needs and barriers of coastal decision-makers for science product development. This paper broadens the understanding of environmental decision-makers in the science product development cycle, and how social dimensions can be integrated in project design through iteratively working with end-users and product developers. Further, we present general lessons in usability for development cycles and how these lessons can inform development of actionable science products in coastal management.

Environmental Management↗

USGS1993

Concentrations of tritium and strontium-90 in water from selected wells at the Idaho National Engineering Laboratory after purging one, two, and three borehole volumes

Water from 11 wells completed in the Snake River Plain aquifer at the Idaho National Engineering Laboratory was sampled as part of the U.S. Geological Survey's quality assurance program to determine the effect of purging different borehole volumes on tritium and strontium-90 concentrations. Wells were selected for sampling on the basis of the length of time it took to purge a borehole volume of water. Samples were collected after purging one, two, and three borehole volumes. The U.S. Department of Energy's Radiological and Environmental Sciences Laboratory provided analytical services. Statistics were used to determine the reproducibility of analytical results. The comparison between tritium and strontium-90 concentrations after purging one and three borehole volumes and two and three borehole volumes showed that all but two sample pairs with defined numbers were in statistical agreement. Results indicate that concentrations of tritium and strontium-90 are not affected measurably by the number of borehole volumes purged.

Water-Resources Investigations Report↗

USGS2021

Integrated tools for identifying optimal flow regimes and evaluating alternative minimum flows for recovering at-risk salmonids in a highly managed system

Water resource managers are faced with difficult decisions on how to satisfy human water needs while maintaining or restoring riverine ecosystems. Decision sciences have developed approaches and tools that can be used to break down difficult water management decisions into their component parts. An essential aspect of these approaches is the use of quantitative models to evaluate alternative management strategies. Here, we describe four integrated decision support models for evaluating the effect of flows on two life history stages of Chinook salmon ( Oncorhynchus tshawytscha ) and Steelhead ( O. mykiss ). We then use constrained nonlinear optimization to identify optimal flow regimes for the water year type with the least available water. These flow regimes were then used by managers to develop candidate minimum flow strategies that were evaluated using forward simulation and sensitivity analyses. We found that optimal flow regimes differed markedly from existing regulations and varied among species and life history stages. However, evaluation of tradeoffs among the four competing objectives indicated relatively minimal losses for most objectives when the optimal flows were based on equally weighting the objectives. Sensitivity analysis indicated that water temperature was the primary driver of estimated outcomes and suggested that managers consider alternative means of managing temperatures. Decision sciences have created multiple analytical tools and approaches that simplify complex problems, such as water resource management, and we believe that water resource management would benefit from their increased use.

Oregon↗

USGS2008

Long-term changes in the phosphorus loading to and trophic state of the Salton Sea, California

The Salton Sea (Sea) is a eutrophic to hypereutrophic lake characterized by high nutrient concentrations, low water clarity, and high biological productivity. Based on dissolved phosphorus (P) and nitrogen (N) concentrations and N:P ratios, P is typically the limiting nutrient in the Sea and, therefore, should be the primary nutrient of concern when considering management efforts. Flows in the major tributaries to the Sea have been measured since 1965, whereas total P (TP) concentrations were only measured intermittently by various agencies since 1968. These data were used to estimate annual P loading from 1965 to 2002. Annual loads have increased steadily from ???940,000 kg around 1968 to ???1,450,000 kg in 2002 (???55% increase), primarily a result of increased TP concentrations and loads in the New River. Although the eutrophic condition of the Salton Sea is of great concern, only limited nutrient data are available for the Sea. It is difficult to determine whether the eutrophic state of the Sea has degraded or possibly even improved slightly in response to the change in P loading because of variability in the data and changes in the sampling and analytical methodologies. ?? 2008 Springer Science+Business Media B.V.

Hydrobiologia↗

USGS2022

From data to interpretable models: Machine learning for soil moisture forecasting

Soil moisture is critical to agricultural business, ecosystem health, and certain hydrologically driven natural disasters. Monitoring data, though, is prone to instrumental noise, wide ranging extrema, and nonstationary response to rainfall where ground conditions change. Furthermore, existing soil moisture models generally forecast poorly for time periods greater than a few hours. To improve such forecasts, we introduce two data-driven models, the Naive Accumulative Representation (NAR) and the Additive Exponential Accumulative Representation (AEAR). Both of these models are rooted in deterministic, physically based hydrology, and we study their capabilities in forecasting soilmoisture over time periods longer than a fewhours. Learned model parameters represent the physically based unsaturated hydrological redistribution processes of gravity and suction. We validate our models using soil moisture and rainfall time series data collected from a steep gradient, post-wildfire site in southern California. Data analysis is complicated by rapid landscape change observed in steep, burned hillslopes in response to even small to moderate rain events. The proposed NAR and AEAR models are, in forecasting experiments, shown to be competitive with several established and state-of-the-art baselines. The AEAR model fits the data well for three distinct soil textures at variable depths below the ground surface (5, 15, and 30 cm). Similar robust results are demonstrated in controlled, laboratory-based experiments. Our AEAR model includes readily interpretable hydrologic parameters and provides more accurate forecasts than existing models for time horizons of 10–24 h. Such extended periods of warning for natural disasters, such as floods and landslides, provide actionable knowledge to reduce loss of life and property.

International Journal of Data Science and Analytic↗

USGS2025

Preparation and analysis methods for fish tissue collected from Lake Koocanusa, Montana

Lake Koocanusa, a reservoir, receives mine wastes from metallurgical coal mines in the Elk River Valley of British Columbia, Canada. Selenium and other elements discharged by the mines into the waters of the United States can pose unknown risks to aquatic life. The U.S. Geological Survey Wyoming-Montana Water Science Center can collaborate with Montana Fish, Wildlife and Parks and other State and Federal agencies to design studies and to collect fish tissues to help fill this knowledge gap. This report describes the processes, techniques, and methods used to collect and analyze fish tissue collected from Lake Koocanusa; and procedures used to review and manage data, including quality assurance and quality control procedures used by the U.S. Geological Survey Wyoming-Montana Water Science Center and supporting analytical laboratories. These fish tissue collections began in 2021.

Montana↗

USGS2021

Experimental evaluation of spatial capture–recapture study design

A principal challenge impeding strong inference in analyses of wild populations is the lack of robust and long-term data sets. Recent advancements in analytical tools used in wildlife science may increase our ability to integrate smaller data sets and enhance the statistical power of population estimates. One such advancement, the development of spatial capture–recapture (SCR) methods, explicitly accounts for differences in spatial study designs, making it possible to equate multiple study designs in one analysis. SCR has been shown to be robust to variation in design as long as minimal sampling guidance is adhered to. However, these expectations are based on simulation and have yet to be evaluated in wild populations. Here we conduct a rigorously designed field experiment by manipulating the arrangement of artificial cover objects (ACOs) used to collect data on red-backed salamanders ( Plethodon cinereus ) to empirically evaluate the effects of design configuration on inference made using SCR. Our results suggest that, using SCR, estimates of space use and detectability are sensitive to study design configuration, namely the spacing and extent of the array, and that caution is warranted when assigning biological interpretation to these parameters. However, estimates of population density remain robust to design except when the configuration of detectors grossly violates existing recommendations.

Massachusetts↗

USGS2022

Can machine learning accelerate process understanding and decision-relevant predictions of river water quality?

The global decline of water quality in rivers and streams has resulted in a pressing need to design new watershed management strategies. Water quality can be affected by multiple stressors including population growth, land use change, global warming, and extreme events, with repercussions on human and ecosystem health. A scientific understanding of factors affecting riverine water quality and predictions at local to regional scales, and at sub-daily to decadal timescales are needed for optimal management of watersheds and river basins. Here, we discuss how machine learning (ML) can enable development of more accurate, computationally tractable, and scalable models for analysis and predictions of river water quality. We review relevant state-of-the art applications of ML for water quality models and discuss opportunities to improve the use of ML for emerging computational and mathematical methods for model selection, hyperparameter optimization, incorporating process knowledge into ML models, improving explainablity, uncertainty quantification, and model-data integration. We then present considerations for using ML to address water quality problems given their scale and complexity, available data and computational resources, and stakeholder needs. When combined with decades of process understanding, interdisciplinary advances in knowledge-guided ML, information theory, data integration, and analytics can help address fundamental science questions and enable decision-relevant predictions of riverine water quality.

Hydrological Processes↗

USGS2010

Adherence to balance tolerance limits at the Upper Mississippi Science Center, La Crosse, Wisconsin

Verification of balance accuracy entails applying a series of standard masses to a balance prior to use and recording the measured values. The recorded values for each standard should have lower and upper weight limits or tolerances that are accepted as verification of balance accuracy under normal operating conditions. Balance logbooks for seven analytical balances at the Upper Mississippi Science Center were checked over a 3.5-year period to determine if the recorded weights were within the established tolerance limits. A total of 9435 measurements were checked. There were 14 instances in which the balance malfunctioned and operators recorded a rationale in the balance logbook. Sixty-three recording errors were found. Twenty-eight operators were responsible for two types of recording errors: Measurements of weights were recorded outside of the tolerance limit but not acknowledged as an error by the operator (n = 40); and measurements were recorded with the wrong number of decimal places (n = 23). The adherence rate for following tolerance limits was 99.3%. To ensure the continued adherence to tolerance limits, the quality-assurance unit revised standard operating procedures to require more frequent review of balance logbooks.

Quality assurance (San Diego, Calif.)↗

USGS2024

Considerations and challenges in support of science and communication of fish consumption advisories for per- and polyfluoroalkyl substances

Federal, state, tribal, or local entities in the United States issue fish consumption advisories (FCAs) as guidance for safer consumption of locally caught fish containing contaminants. Fish consumption advisories have been developed for commonly detected compounds such as mercury and polychlorinated biphenyls. The existing national guidance does not specifically address the unique challenges associated with bioaccumulation and consumption risk related to per- and polyfluoroalkyl substances (PFAS). As a result, several states have derived their own PFAS-related consumption guidelines, many of which focus on one frequently detected PFAS, known as perfluorooctane sulfonic acid (PFOS). However, there can be significant variation between tissue concentrations or trigger concentrations (TCs) of PFOS that support the individual state-issued FCAs. This variation in TCs can create challenges for risk assessors and risk communicators in their efforts to protect public health. The objective of this article is to review existing challenges, knowledge gaps, and needs related to issuing PFAS-related FCAs and to provide key considerations for the development of protective fish consumption guidance. The current state of the science and variability in FCA derivation, considerations for sampling and analytical methodologies, risk management, risk communication, and policy challenges are discussed. How to best address PFAS mixtures in the development of FCAs, in risk assessment, and establishment of effect thresholds remains a major challenge, as well as a source of uncertainty and scrutiny. This includes developments better elucidating toxicity factors, exposures to PFAS mixtures, community fish consumption behaviors, and evolving technology and analytical instrumentation, methods, and the associated detection limits. Given the evolving science and public interests informing PFAS-related FCAs, continued review and revision of FCA approaches and best practices are vital. Nonetheless, consistent, widely applicable, PFAS-specific approaches informing methods, critical concentration thresholds, and priority compounds may assist practitioners in PFAS-related FCA development and possibly reduce variability between states and jurisdictions. Integr Environ Assess Manag 2024;00:1–20. © 2024 SETAC

Integrated Environmental Assessment and Management↗

USGS2021

Profiling lunar dust dissolution in aqueous environments: The design concept

Published studies and internal NASA reports indicate that when native lunar dust is suspended in an aqueous solution a variety of metal and other ions are released. This release has implications for future lunar missions, ranging from effects on mission hardware, effects on life support systems, possible direct effects on human health, and effects on research experiments such as plant growth experiments, space biology experiments and any activities that may involve the use of water sourced from the lunar poles. Furthermore, such contaminants could become concentrated or chemically altered to a more hazardous form during a variety of lunar mission activities, including everything from space suit cleaning to lunar industrial materials extraction. The exact profile of the release of ions from lunar dust and the nature of the partially dissolved particles has not been explored. Any model of this dissolution must be based on an understanding of the unique micromorphology of lunar dust, including its glassy nature, agglutinate features, high surface area and the presence of small deposits of elemental iron (nanophase iron) located near the surface of the grain particles. Dust has a very high surface area available for interaction with water. For this reason, on first exposure to water, an immediate pulsed release of ions could occur, with more prolonged release taking place over months or years. The few studies that have been conducted previously have been limited in both the time scales examined and in the selection of ions that were measured. The proposed investigation is a comprehensive materials science investigation, using the most modern analytical tools to catalogue all metals given off from lunar dust in various aqueous solutions and their time profiles of release from the very short term to the very long term. The product of the proposed study will be a comprehensive database determined from NASA curated samples collected from the Apollo landing sites that can be applied to research in both living systems and non-living systems on the moon. The methods developed in the proposed study will also establish standards for analysis of lunar dust samples returned from future manned missions (Artemis and others) and future robotic missions. The knowledge gained from this basic materials science investigation will have broad impact on the design of engineered human safety and health systems.

Acta Astronautica↗

USGS2017

Opinion: Why we need a centralized repository for isotopic data

Stable isotopes encode and integrate the origin of matter; thus, their analysis offers tremendous potential to address questions across diverse scientific disciplines ( 1 , 2 ). Indeed, the broad applicability of stable isotopes, coupled with advancements in high-throughput analysis, have created a scientific field that is growing exponentially, and generating data at a rate paralleling the explosive rise of DNA sequencing and genomics ( 3 ). Centralized data repositories, such as GenBank, have become increasingly important as a means for archiving information, and “Big Data” analytics of these resources are revolutionizing science and everyday life.

Proceedings of the National Academy of Sciences of↗

USGS2015

Multiscale analysis of river networks using the R package linbin

Analytical tools are needed in riverine science and management to bridge the gap between GIS and statistical packages that were not designed for the directional and dendritic structure of streams. We introduce linbin, an R package developed for the analysis of riverscapes at multiple scales. With this software, riverine data on aquatic habitat and species distribution can be scaled and plotted automatically with respect to their position in the stream network or—in the case of temporal data—their position in time. The linbin package aggregates data into bins of different sizes as specified by the user. We provide case studies illustrating the use of the software for (1) exploring patterns at different scales by aggregating variables at a range of bin sizes, (2) comparing repeat observations by aggregating surveys into bins of common coverage, and (3) tailoring analysis to data with custom bin designs. Furthermore, we demonstrate the utility of linbin for summarizing patterns throughout an entire stream network, and we analyze the diel and seasonal movements of tagged fish past a stationary receiver to illustrate how linbin can be used with temporal data. In short, linbin enables more rapid analysis of complex data sets by fisheries managers and stream ecologists and can reveal underlying spatial and temporal patterns of fish distribution and habitat throughout a riverscape.

North American Journal of Fisheries Management↗

USGS2022

Human-cougar interactions: A literature review related to common management questions

Interactions between humans and cougars ( Puma concolor ) present unique challenges for wildlife managers; reducing occurrences that lead to conflict is a priority for state and provincial wildlife agencies throughout western North America, including Washington. With an increase in management emphasis of human-wildlife conflict resolution, a growing body of scientific literature related to cougar wildland-urban ecology and the factors that contribute to interactions between cougars and people has developed. Based on discussions with the Fish and Wildlife Commission, our 10-member Human-Cougar Interaction Science Review Team assessed both the analytical and ecological merits of current literature, focusing on data and methods, to summarize the current state of knowledge on human-cougar interactions and factors affecting these interactions. We did not use our review findings to provide management recommendations or evaluate/suggest policy alternatives, but we did highlight important information gaps, research needs, and proposed strategies for conducting scientific investigations to benefit managers and policy makers in the future. We used bibliographic lists, keyword searches in research databases, and new literature encountered as citations within papers we reviewed to identify 96 potential studies for review. We evaluated 41 studies that aligned with eight commonly asked questions regarding how various factors contribute to cougar proximity to, and interactions with people. Our review concluded that the roles of cougar removals (Question 1), cougar population size or trajectory (Question 2), the abundance or diversity of prey (Question 3), human population size, distribution, or recreation levels (Question 6), human attitudes (Question 7), and competition with other large carnivores (Question 8) in cougar interactions with people remain uncertain. We found the studies evaluating the efficacy of nonlethal deterrents (Question 4) provided some evidence that these methods reduce conflict, most notably that flashing lights can reduce interactions in specific situations. Our review of papers investigating the role of landscape characteristics (Question 5) revealed spatial ecology to be the most reliably studied and best understood facet of cougar wildland-urban ecology; study designs in these investigations were also the most rigorous. Most cougar use, and subsequent interactions with people, occur at the wildland-urban interface or in exurban and rural residential settings immediately adjacent because these habitats provide both abundant native prey (deer) and stalking cover, or they retain enough native landcover, connectivity, and prey to support cougar use, but with a human presence at a level that does not substantially deter cougars. We identified only a limited number of informative studies in our review, primarily because many studies did not collect data to specifically address relevant management questions after developing testable hypotheses. Much of the literature we reviewed was derived from ad hoc mining of pre-existing data that had been collected for other routine reasons, data were often not assessed for accuracy, and confounding factors were inadequately addressed. Consequently, many factors theorized to contribute to cougar interactions with people require more rigorous investigation. Because wildland-urban systems are complex, and interactions encompass both human and cougar behavior, we recommend the use of long-term studies that incorporate both ecological and anthropogenic factors within a control-treatment design with replicate study sites to address questions with direct management relevance.

Report↗