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Data synthesis for environmental management: A case study of Chesapeake Bay

Synthesizing large, complex data sets to inform resource managers towards effective environmental stewardship is a universal challenge. In Chesapeake Bay, a well-studied and intensively monitored estuary in North America, the challenge of synthesizing data on water quality and land use as factors related to a key habitat, submerged aquatic vegetation, was tackled by a team of scientists and resource managers operating at multiple levels of governance (state, federal). The synthesis effort took place over a two-year period (2016–2018), and the results were communicated widely to a) scientists via peer review publications and conference presentations; b) resource managers via web materials and workshop presentations; and c) the public through newspaper articles, radio interviews, and podcasts. The synthesis effort was initiated by resource managers at the United States Environmental Protection Agencys’ Chesapeake Bay Program and 16 scientist participants were recruited from a diversity of organizations. Multiple short, immersive workshops were conducted regularly to conceptualize the problem, followed by data analysis and interpretation that supported the preparation of the synthetic products that were communicated widely. Reflections on the process indicate that there are a variety of structural and functional requirements, as well as enabling conditions, that need to be considered to achieve successful outcomes from synthesis efforts.

Chesapeake Bay

Research needs to better understand Lake Ontario ecosystem function: A workshop summary

Lake Ontario investigators discussed and interpreted published and unpublished information during two workshops to assess our current understanding of Lake Ontario ecosystem function and to identify research needs to guide future research and monitoring activities. The purpose of this commentary is to summarize key investigative themes and hypotheses that emerged from the workshops. The outcomes of the workshop discussions are organized under four themes: spatial linkages and interactions, drivers of primary production, trophic transfer, and human interactions.

Journal of Great Lakes Research

Mean squared error, deconstructed

As science becomes increasingly cross-disciplinary and scientific models become increasingly cross-coupled, standardized practices of model evaluation are more important than ever. For normally distributed data, mean squared error (MSE) is ideal as an objective measure of model performance, but it gives little insight into what aspects of model performance are “good” or “bad.” This apparent weakness has led to a myriad of specialized error metrics, which are sometimes aggregated to form a composite score. Such scores are inherently subjective, however, and while their components may be interpretable, the composite itself is not. We contend that, a better approach to model benchmarking and interpretation is to decompose MSE into interpretable components. To demonstrate the versatility of this approach, we outline some fundamental types of decomposition and apply them to predictions at 1,021 streamgages across the conterminous United States from three streamflow models. Through this demonstration, we hope to show that each component in a decomposition represents a distinct concept, like “season” or “variability,” and that simple decompositions can be combined to represent more complex concepts, like “seasonal variability,” creating an expressive language through which to interrogate models and data.

Journal of Advances in Earth Systems Modeling

Seismic reflection/refraction mapping of faulting and regional dips in the eastern Alaska Range

We present the results of a Trans‐Alaska Crustal Transect (TACT) investigation of the upper 2–5 km of the eastern Alaska Range in the vicinity of the Denali fault based on seismic reflection/refraction data, laboratory measurements of rock velocities, and structural mapping. The Denali fault is a major dextral slip structure mappable for more than 2000 km separating the Wrangellia and adjacent terranes to the south from the Yukon‐Tanana and adjacent terranes to the north. Geologic mapping suggests over 400 km of dextral slip has occurred on the fault, yet within the upper 1.5 km of the crust along the TACT corridor, basement rocks juxtaposed along the Denali fault reveal no significant seismic velocity differences, although the fault zone itself is associated with a minor lowering of velocity. The lack of seismic velocity contrast adjacent to the fault is in agreement with laboratory measurements of elastic wave velocities of samples from terranes bordering the fault. Laboratory measurements of elastic wave velocities of the metasedimentary mica‐quartz schists comprising the Yukon‐Tanana basement are highly anisotropic because of preferred orientation of mica and predict significant variations in velocity accompanying variations in foliation dip. Although other interpretations are possible, the northward shallowing of foliation dip of basement rocks in the Yukon‐Tanana terrane combined with the strong anisotropy associated with these highly foliated rocks can explain an observed northward increase in seismic velocity within this terrane. Seismic reflections from basement rocks within the Yukon‐Tanana terrane may originate from variations in anisotropy with depth and/or changes in composition reflecting different proportions of sandstone and shale in the protolith.

Alaska

Inelastic models of lithospheric stress - II. Implications for outer-rise seismicity and dynamics

Outer-rise seismicity and dynamics are examined using inelastic models of lithospheric deformation, which allow a more realistic characterization of stress distributions and failure behaviour. We conclude that thrust- and normal-faulting outer-rise earthquakes represent substantially different states of stress within the oceanic lithosphere. Specifically, the normal-faulting events occur in response to downward plate bending, which establishes the ‘standard’, bending-dominated state of outer-rise stress, and the thrust-faulting events occur in response to an elevated level of in-plane compression, which develops only in response to exceptional circumstances. This interpretation accounts for the observation that normal-faulting outer-rise earthquakes occur more frequently and are more widely distributed than their thrust-faulting counterparts, an observation for which the simple bending model offers no explanation. In addition, attributing both thrust- and normal-faulting outer-rise earthquakes to plate bending implies that both classes of events should occur within relatively close lateral proximity to one another because both are allegedly a manifestation of the same bendingdominated stress distribution, whereas, in reality, this is not observed. We propose that the tendency for thrust-faulting outer-rise earthquakes to exhibit greater source depths than their normal-faulting counterparts (an observation that is frequently cited in support of the bending interpretation of the former) is merely a consequence of the fact that bending-induced tension is confined to the upper lithosphere. Our model predicts that outer-rise in-plane-force variations may promote thrust-faulting outerrise activity prior to an underthrusting interplate subduction earthquake and normalfaulting outer-rise activity following such an earthquake, but that both forms of outerrise activity are unlikely to be associated with the same subduction earthquake. A corollary implication of our model is t...

Geophysical Journal International

What you should know about land-cover data

Wildlife biologists are using land-characteristics data sets for a variety of applications. Many kinds of landscape variables have been characterized and the resultant data sets or maps are readily accessible. Often, too little consideration is given to the accuracy or traits of these data sets, most likely because biologists do not know how such data are compiled and rendered, or the potential pitfalls that can be encountered when applying these data. To increase understanding of the nature of land-characteristics data sets, I introduce aspects of source information and data-handling methodology that include the following: ambiguity of land characteristics; temporal considerations and the dynamic nature of the landscape; type of source data versus landscape features of interest; data resolution, scale, and geographic extent; data entry and positional problems; rare landscape features; and interpreter variation. I also include guidance for determining the quality of land-characteristics data sets through metadata or published documentation, visual clues, and independent information. The quality or suitability of the data sets for wildlife applications may be improved with thematic or spatial generalization, avoidance of transitional areas on maps, and merging of multiple data sources. Knowledge of the underlying challenges in compiling such data sets will help wildlife biologists to better assess the strengths and limitations and determine how best to use these data.

Journal of Wildlife Management

Evaluation of electrical and electromagnetic geophysical techniques to inspect earthen dam and levee structures in Arkansas

Within the state of Arkansas there is an increasing number of aging dams and levees that have little to no documentation concerning their construction or composition. Surface geophysical surveys offer a non-intrusive method for investigating these structures: To describe their lithologic makeup, to evaluate the materials that they were constructed upon, and to identify potential flow paths through them. Techniques such as electrical resistivity tomography, seismic refraction, and electromagnetic induction have all been used to image dams and levees and require additional information from geologic outcrops, geotechnical borings, or drill cores in order to make informed geologic interpretations of the geophysical models. These geologic models then allow the owners of these structures to make more informed decisions about their operation and maintenance. Between 2011 and 2018, the U.S. Geological Survey conducted geophysical and geotechnical investigations of three earthen structures within the state of Arkansas. Electrical and electromagnetic geophysical data were used to develop lithologic models of these structures and the underlying geology. Self-potential surveys were utilized to detect the movement of water through these structures indicating possible seepage pathways. Geotechnical methods such as electric and hydraulic direct-push well logs and cores acted as both a control on the geophysical interpretations and a confirmation of anomalies. This integrated approach detected the lack of an impermeable core within a levee, imaged a change in lithology of the bedrock forming the seal beneath a gravity dam, and identified a potential seepage feature within the core of an earthen dam. These results further support that this method of extending known lithologic features via surface and borehole geophysics is a useful approach for characterizing earthen water control structures.

Arkansas

Investigation of scale-dependent groundwater/surface-water exchange in rivers by gradient self-potential logging: Numerical modeling and field experiments

Exchanges of groundwater and surface-water are fundamental to a wide range of water-supply and water-quality management issues but challenging to map beyond the reach scale. Waterborne gradient self-potential (SP) measurements are directly sensitive to water flow through riverbed sediments and can be used to infer exchange locations, direction (gain versus loss), scale, and relative changes, but to date applications to river corridor hydrology are limited. Numerical modeling and field experiments were therefore performed herein, each emphasizing waterborne gradient SP logging for identifying and locating focused vertical groundwater discharge (surface-water gain) and recharge (surface-water loss) in a river. Two and three-dimensional numerical models were constructed to simulate the polarities, appearances, and peak amplitudes of streaming-potential and electric-field anomalies on a riverbed and in the surface-water that were attributable to steady-state vertical fluxes of groundwater through high-permeability conduits in the riverbed. Effects of varied hydraulic length-scale of exchange and surface-water depth were tested through numerical modeling. Modeling results aided in data acquisition and interpretation for three repeated field experiments performed along a 1.5–2.0 km reach of the Quashnet River in Cape Cod, Massachusetts, where focused, meter-scale groundwater discharges occur at discrete locations within otherwise ubiquitous and more diffuse groundwater upwelling conditions. Strong gradient SP anomalies were repeatedly measured in the Quashnet River at previously confirmed locations of focused groundwater discharge, showing the efficacy of waterborne gradient SP logging in identifying and characterizing groundwater/surface water exchange dynamics at multiple river network scales.

Massachusetts

Mineralogical basis for the interpretation of multi-element (ICP-AES), oxalic acid, and aqua regia partial digestions of stream sediments for reconnaissance exploration geochemistry

We have applied partial digestion procedures, primarily oxalic acid and aqua regia leaches, to several regional geochemical reconnaissance studies carried out using Inductively Coupled Plasma-Atomic Emission Spectroscopy (ICP-AES) analytical methods. We have chosen to use these two acids because the oxalic acid primarily attacks those compounds formed during secondary geochemical processes, whereas aqua regia will digest the primary sulfide phases as well as secondary phases. Application of the partial digestion technique has proven superior to total digestion because the concentration of metals in hydromorphic compounds and the sulfides is enhanced relative to the metals bound in the unattacked silicate phases. The aqua regia digestion attacks and leaches metals from the mafic chain silicates and the phyllosilicates (coordination number of VI or more), yielding a characteristic geochemical signature, but does not leach appreciable metal from many other silicates. In order to interpret the results from these leach studies, we have initiated an investigation of a large suite of hand-picked mineral separates. The study includes analyses of about two hundred minerals representing the common rock-forming minerals as well as end-member compositions of various silicates, oxides, sulfides, carbonates, sulfates, and some vanadates, molybdates, tungstates, and phosphates. The objective of this study is to evaluate the effect of leaching by acids of particular lattice sites in specific mineral structures.

Journal of Geochemical Exploration

Structure of the lower crust beneath the Carolina Trough, U.S. Atlantic continental margin

Data from three large-offset seismic profiles provide information on the crustal structure beneath the Carolina trough. The profiles, obtained by the U.S. Geological Survey, the Naval Oceanographic Research Development Agency, and the Scripps Institution of Oceanography in 1985, were oriented parallel to the trough and were located (1) seaward of the East Coast Magnetic Anomaly (ECMA), which is generally thought to represent the boundary between oceanic and continental crust; (2) along the axis of the trough between the ECMA and the hinge zone, which is thought to reflect the landward limit of highly stretched and altered transitional crust; and (3) along the Carolina platform landward of the basement hinge zone on crust thought to have been thinned only slightly during rifting. These data constrain the velocity structure of the lower crust and provide evidence for a thick lens of high-velocity (>7.1 km/s) lower crustal material that extends beneath the Carolina trough and the adjacent ocean basin. This lens reaches a maximum thickness of about 13 km beneath the deepest part of the trough, thins to about 5 km seaward of the ECMA, and is either very thin or absent landward of the hinge zone. It is interpreted to represent material that was underplated beneath and/or intruded into the crust during the late stage of continental rifting and that led to an anomalously thick plutonic layer during the early seafloor spreading phase. These data thus support the recent conclusions of White et al. (1987b) and Mutter et al. (1988) that the initiation of seafloor spreading is attended in many, if not most, cases by the generation of an anomalously large volume of melt.

Carolina Trough

Identifying buried segments of active faults in the northern Rio Grande Rift using aeromagnetic, LiDAR,and gravity data, south-central Colorado, USA

Combined interpretation of aeromagnetic and LiDAR data builds on the strength of the aeromagnetic method to locate normal faults with significant offset under cover and the strength of LiDAR interpretation to identify the age and sense of motion of faults. Each data set helps resolve ambiguities in interpreting the other. In addition, gravity data can be used to infer the sense of motion for totally buried faults inferred solely from aeromagnetic data. Combined interpretation to identify active faults at the northern end of the San Luis Basin of the northern Rio Grande rift has confirmed general aspects of previous geologic mapping but has also provided significant improvements. The interpretation revises and extends mapped fault traces, confirms tectonic versus fluvial origins of steep stream banks, and gains additional information on the nature of active and potentially active partially and totally buried faults. Detailed morphology of surfaces mapped from the LiDAR data helps constrain ages of the faults that displace the deposits. The aeromagnetic data provide additional information about their extents in between discontinuous scarps and suggest that several totally buried, potentially active faults are present on both sides of the valley.

Colorado

Evidence for Milankovitch periodicities in Cenomanian-Turonian lithologic and geochemical cycles, western interior U.S.A.

The limestone/marlstone bedding couplets of the Bridge Creek Limestone Member, Cenomanian-Turonian Greenhorn Formation, were analyzed by applying spectral techniques to high-resolution lithologic and geochemical data from a core. The results suggest that the Bridge Creek contains a complex record of orbital cyclicity. The dominant signal appears to be obliquity, but signals corresponding to precession and eccentricity were also observed. The development of the bedding couplets is interpreted to have resulted from a combination of factors, including insolation-controlled changes in higher-latitude precipitation leading to dilution/redox cycles, and in lower-latitude evaporation, leading to changes in surface water conditions and productivity cycles in the calcareous plankton. The data interpreted to reflect redox cycles appear to be more strongly influenced by obliquity, and show a weak precessional signal. In contrast, trends in the carbonate record show the opposite response. The complex bedding pattern observed in the Bridge Creek Limestone is interpreted to result from the competing influences of different orbital cycles expressed through different pathways of the depositional system, and was also affected by changes in sedimentation rates related to relative sea level fluctuations, aperiodic dilution by volcanic ash, and changes in organic-matter production and redox conditions related to a global "oceanic anoxic event". These factors complicate cycle analysis in the lower part of the member but leave a relatively undisturbed record in the upper Bridge Creek Limestone.

Journal of Sedimentary Research

Relationships among macerals, minerals, miospores and paleoecology in a column of Redstone coal (Upper Pennsylvanian) from north-central West Virginia (U.S.A.)

Two distinct paleoenvironments are represented in vertical succession in a column of Redstone coal in north-central West Virginia as indicated by a study of 37 consecutive 3-cm (0.1 ft) increments analyzed for ash yield, petrographic composition, low-temperature ash mineralogy and palynomorph abundances. Abundance profiles were constructed for ash, 12 petrographic components, 3 minerals and 5 miospore assemblages. The profiles and calculated correlation coefficients show close relationships between several constituents. Components that increased in abundance upward in the coal bed were a collinite type > 50 microns in thickness, cutinite, and miospores affiliated with calamites, herbaceous lycopods, cordaites and herbaceous ferns. Components that decreased in abundance upward were a collinite type < 50 microns in thickness, inertodetrinite, tree fern miospores, quartz, illite and ash yield. Components were correlated with ash yield to infer the swamp geochemical conditions that contributed to the low-ash (7%) upper one-third of the coal bed and the higher-ash (16%) lower two-thirds of the coal bed. Components that correlate positively with increased ash were the collinite type < 50 μ m thickness, inertodetrinite, tree fern miospores, illite and quartz. Components that correlate negatively with increased ash were the collinite type > 50 μ m in thickness, cutinite, calamite and cordaite miospores and kaolinite. Significant correlations occurred between ash yield and the collinite types > 50 and < 50 μ m in thickness but no significant correlation was found between ash yield and total vitrinite-group content. This is interpreted to show that division of vitrinite macerals by size is important in petrographic paleoenvironmental studies. Paleoecologic interpretations based upon these correlations suggest that two distinct, planar, probably topogenous paleoecologic environments are represented in this column of the Redstone coal. The lower two-thirds of the coal bed was interpreted to have accumulated in a planar swamp in which significant introduction of detrital or dissolved mineral matter, and significant anaerobic and moderate oxidative degradation of the peat occurred. The flora of this paleoenvironment was dominated by tree ferns. The paleoenvironment during accumulation of the upper one-third of the coal bed was also interpreted to have been a planar swamp, but one in which moderate to low introduction of detrital or dissolved mineral matter, and minor anaerobic and oxidative degradation of the peat occurred. The dominant flora of this paleoenvironment consisted mainly of calamites with fewer cordaites and herbaceous ferns. This study shows that valuable paleoecologic information may be obtained by sampling closely spaced vertical increments. No mixing of detrital sediments with the peat was observed in coal layers immediately adjacent to the parting or the overlying sandstone unit.

International Journal of Coal Geology

A double-observer method for reducing bias in faecal pellet surveys of forest ungulates

1. Faecal surveys are used widely to study variations in abundance and distribution of forest-dwelling mammals when direct enumeration is not feasible. The utility of faecal indices of abundance is limited, however, by observational bias and variation in faecal disappearance rates that obscure their relationship to population size. We developed methods to reduce variability in faecal surveys and improve reliability of faecal indices. 2. We used double-observer transect sampling to estimate observational bias of faecal surveys of Roosevelt elk Cervus elaphus roosevelti and Columbian black-tailed deer Odocoileus hemionus columbianus in Olympic National Park, Washington, USA. We also modelled differences in counts of faecal groups obtained from paired cleared and uncleared transect segments as a means to adjust standing crop faecal counts for a standard accumulation interval and to reduce bias resulting from variable decay rates. 3. Estimated detection probabilities of faecal groups ranged from < 0.2-1.0 depending upon the observer, whether the faecal group was from elk or deer, faecal group size, distance of the faecal group from the sampling transect, ground vegetation cover, and the interaction between faecal group size and distance from the transect. 4. Models of plot-clearing effects indicated that standing crop counts of deer faecal groups required 34% reduction on flat terrain and 53% reduction on sloping terrain to represent faeces accumulated over a standard 100-day interval, whereas counts of elk faecal groups required 0% and 46% reductions on flat and sloping terrain, respectively. 5. Synthesis and applications. Double-observer transect sampling provides a cost-effective means of reducing observational bias and variation in faecal decay rates that obscure the interpretation of faecal indices of large mammal abundance. Given the variation we observed in observational bias of faecal surveys and persistence of faeces, we emphasize the need for future researchers to account for these comparatively manageable sources of bias before comparing faecal indices spatially or temporally. Double-observer sampling methods are readily adaptable to study variations in faecal indices of large mammals at the scale of the large forest reserve, natural area, or other forested regions when direct estimation of populations is problematic. ?? 2008 The Authors.

Journal of Applied Ecology

Characteristics of and corrections for core shortening in unconsolidated sediments

Thinning, bypassing, and compaction of shallow unconsolidated sediments during manual coring or vibracoring operations probably cause more sediment deformation and greater stratigraphic displacement than is commonly reported in the wetland literature. We measured core shortening in open-barrel cores from fluvial wetlands, lagoonal flats, and marshes to document the magnitude and characteristics of shortening where sediments may be stiff and require extra mechanical effort to recover a sufficient length of sample for analysis. Results of those measurements indicate that thinning or non- recovery of discrete sediment intervals can range from 0 to 67 percent and cumulative core shortening can be as much as 30 percent even for cores less than one meter long. Detailed open-barrel measurements also show that core shortening is not uniformly distributed throughout the depth of penetration as is often assumed. Analytical data derived from shortened cores can only be properly interpreted if patterns of shortening are established and incorporated into the analysis. Minor artificial displacement of sediment depths can alter plots of physico-chemical parameters and can significantly influence calculated rates of sedimentation and other depth-dependent statistical relationships. This study (1) demonstrates how plots of interval shortening and cumulative shortening can be used to characterize the distribution of shortening at depth and (2) presents a simple equation for stratigraphic restoration so that core observations and analyses are corrected to their original depths.

Journal of Coastal Research

Lithology-derived structure classification from the joint interpretation of magnetotelluric and seismic models

Magnetotelluric and seismic methods provide complementary information about the resistivity and velocity structure of the subsurface on similar scales and resolutions. No global relation, however, exists between these parameters, and correlations are often valid for only a limited target area. Independently derived inverse models from these methods can be combined using a classification approach to map geologic structure. The method employed is based solely on the statistical correlation of physical properties in a joint parameter space and is independent of theoretical or empirical relations linking electrical and seismic parameters. Regions of high correlation (classes) between resistivity and velocity can in turn be mapped back and re-examined in depth section. The spatial distribution of these classes, and the boundaries between them, provide structural information not evident in the individual models. This method is applied to a 10 km long profile crossing the Dead Sea Transform in Jordan. Several prominent classes are identified with specific lithologies in accordance with local geology. An abrupt change in lithology across the fault, together with vertical uplift of the basement suggest the fault is sub-vertical within the upper crust. ?? 2007 The Authors Journal compilation ?? 2007 RAS.

Geophysical Journal International

Relationships between water and gas chemistry in mature coalbed methane reservoirs of the Black Warrior Basin

Water and gas chemistry in coalbed methane reservoirs of the Black Warrior Basin reflects a complex interplay among burial processes, basin hydrodynamics, thermogenesis, and late-stage microbial methanogenesis. These factors are all important considerations for developing production and water management strategies. Produced water ranges from nearly potable sodium-bicarbonate water to hypersaline sodium-chloride brine. The hydrodynamic framework of the basin is dominated by structurally controlled fresh-water plumes that formed by meteoric recharge along the southeastern margin of the basin. The produced water contains significant quantities of hydrocarbons and nitrogen compounds, and the produced gas appears to be of mixed thermogenic-biogenic origin. Late-stage microbial methanogenesis began following unroofing of the basin, and stable isotopes in the produced gas and in mineral cements indicate that late-stage methanogenesis occurred along a CO 2 -reduction metabolic pathway. Hydrocarbons, as well as small amounts of nitrate in the formation water, probably helped nourish the microbial consortia, which were apparently active in fresh to hypersaline water. The produced water contains NH 4 + and NH 3 , which correlate strongly with brine concentration and are interpreted to be derived from silicate minerals. Denitrification reactions may have generated some N 2 , which is the only major impurity in the coalbed gas. Carbon dioxide is a minor component of the produced gas, but significant quantities are dissolved in the formation water. Degradation of organic compounds, augmented by deionization of NH 4 + , may have been the principal sources of hydrogen facilitating late-stage CO 2 reduction.

Alabama

The MTPy software package for magnetotelluric data analysis and visualisation

The magnetotelluric (MT) method is increasingly being applied to a wide variety of geoscience problems. However, the software available for MT data analysis and interpretation is still very limited in comparison to many of the more mature geophysical methods such as the gravity, magnetic or seismic reflection methods. MTPy is an open source Python package to assist with MT data processing, analysis, modelling, visualization and interpretation. It was initiated at the University of Adelaide in 2013 as a means to store and share Python code amongst the MT community (Krieger & Peacock, 2014). Here we provide an overview of the software and describe recent developments to MTPy. These include new functionality and a clean up and standardization of the source code, as well as the addition of an integrated testing suite, documentation, and examples in order to facilitate the use of MT in the wider geophysics community.

Journal of Open Source Software