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Weighting observations in the context of calibrating ground-water models

This paper investigates four issues related to weighting observations in the context of ground-water models calibrated with nonlinear regression: (1) terminology, (2) determining values for the weighting, (3) measurement and model errors, and (4) the effect weighting can have on the accuracy of calibrated models and measures of uncertainty. It is shown that the confusing aspects of weighting can be managed, and are not a practical barrier to using regression methods.

Acta Universitatis Carolinae, Geologica

Planetary Aeolian landforms: An introduction to the Fifth Planetary Dunes Workshop Special Issue

Aeolian landforms are widespread in our solar system. Understanding the exact nature and processes of formation of these features are challenging tasks necessitating a strong collaboration between scientists with different skills and scientific backgrounds. This paper describes the special issue for the 5 th International Planetary Dunes Workshop, which includes 15 research papers and three commentaries. Among the 18 papers included in this collection, 16 cover Martian aeolian science and two Titan aeolian science. The papers presented focus on bedform morphology and dynamics via remote sensing data, modelling, analogues studies and laboratory experiments. Here we put the main results of the papers in their appropriate scientific context and discuss potential future lines of research.

JGR Planets

Theme section on “Mesophotic coral ecosystems: Characterization, ecology, and management”

Mesophotic coral ecosystems (MCEs) are characterized by the presence of light-dependent corals and associated communities that are typically found at depths ranging from 30 to 40 m and extending to over 150 m in tropical and subtropical regions. The dominant communities providing structural habitat in the mesophotic zone can be comprised of coral, sponge, and algal species. Because working in this depth range is constrained by traditional SCUBA limits, less is known about corals and associated organisms there compared to shallower coral communities. Following the first-ever gathering of international scientists to review and discuss existing knowledge of MCEs, this issue focuses on the ecological characterization, geomorphology, and concept of MCEs as refugia for shallow-water populations. The review and research papers comprising this special issue reflect the current scientific understanding of these ecosystems and the underlying mechanisms that regulate them, as well as potential resource management implications. It is important to understand the value and role of mesophotic coral ecosystems in tropical and subtropical regions as these areas face increasing environmental change and human impacts

Coral Reefs

Introduction to the Special Issue on remote sensing

In 1977, the first Special Issue on remote sensing published by Geophysics contained papers selected from two special sessions at the 45th Annual International SEG Meeting, October 12–16, 1975, in Denver, Colorado. That first Special Issue consisted of eight papers: four are primarily tutorial (image processing, spectral signatures in the visible and near infrared, microwave spectra of layered media, and factor analysis of gamma-ray spectrometry), two involve structural interpretations with implications for mineral exploration and seismicity, and two examine multispectral reflectance data for detecting hydrothermal alteration and for uranium exploration. Although these papers indicate the importance of physical properties and models in the interpretation of remote sensing data, the studies were constrained by the instruments that collected the data and by the availability of image-processing software. Circumstances have changed significantly in the intervening decade, as illustrated in recent review papers (Watson, 1985; Goetz et al., 1983) and demonstrated by the papers in this Special Issue.

Geophysics

A special issue on volcanic centers as targets for mineral exploration; preface

NEPTUNE or Pluto? Since the days of Hutton and Werner, every generation of economic geologists has addressed this question in a new light. Most papers in this special issue deal with the thin and leaky roof of Pluto's underworld. It allows hot emanations from Hades to leak out, only to be quenched and diluted by waters percolating down from Neptune's realm.

Economic Geology

From understanding to action: Integrating new and old methodologies to manage marine infectious disease

Marine diseases can have far-reaching effects on population, community and ecosystem health; however, our ability to track, predict and manage these diseases has, historically, been poor. As a result, the fields of disease ecology and epidemiology have developed at a slower pace for marine than terrestrial systems [ 1 ]. New methodologies, including genomic tools for diagnostics [ 2 , 3 ], transcriptomic tools for measuring host and pathogen responses to infection (e.g. [ 4 , 5 ]), regional oceanic modelling systems that estimate environmental conditions influencing pathogen dispersal and disease progression [ 6 ], artificial intelligence methods for quantifying pathology from images (e.g. [ 7 ]) and advanced disease modelling techniques [ 8 , 9 ] are precipitating a rapid increase in our understanding of marine pathosystems. In 2016, these efforts led to the first special issue of Philosophical Transactions of the Royal Society B ( Marine diseases, volume 371, issue 1689) focused entirely on marine disease ecology and evolution, and in 2020, the first book, Marine disease ecology, was devoted to this topic [ 10 ]. This special issue, focused on marine disease management , is being published a decade after the first Philosophical Transactions special issue on marine diseases. The shift to a management focus reflects an urgent need for management strategies to address high-impact diseases and the rapid methodological advances that have resulted. The papers included in this issue demonstrate the value of combining classical approaches (e.g. routine disease surveillance, reductionistic pathogen challenge trials, rapid throughput diagnostics) with cutting-edge technologies (e.g. high-resolution oceanographic models, Bayesian models, replicated transcriptomic studies) to identify drivers of disease, quantify impacts and suggest management strategies.

Philosophical Transactions of the Royal Society, S

United States Geological Survey Annual Report, Fiscal Year 1975

The Survey resumes the practice of annually summarizing the progress it has made in identifying the Nation's land, water, energy, and mineral resources, classifying federally owned mineral lands and waterpower sites, and in supervising the exploration and development of energy and mineral resources on Federal and Indian lands. The Annual Report for 1975 consists of five parts: * The Year in Review - a review of the issues and events which affected Survey programs and highlights of program accomplishments. * Perspectives - several short papers which address major resource issues and summarize recent advances in the earth sciences. * A description of the Survey's budget, programs, and accomplishments. * A set of statistical tables and related information which documents program trends, workloads, and accomplishments. * A compendium of Survey publications and information services available to the public. One purpose of this report is to increase public awareness and understanding of the Geological Survey's programs and, more generally, of the role of earth sciences information in helping to resolve many of the natural resource conflicts that face our society now and in the years ahead. To be useful, however, information must be available and readily accessible to those responsible for natural resource policy at the time that the decisions are made. This report emphasizes the types of information products and services provided by the Survey and tells how to obtain additional information.

Annual Report

Applied Geochemistry Special Issue on Environmental geochemistry of modern mining

Environmental geochemistry is an integral part of the mine-life cycle, particularly for modern mining. The critical importance of environmental geochemistry begins with pre-mining baseline characterization and the assessment of environmental risks related to mining, continues through active mining especially in water and waste management practices, and culminates in mine closure. The enhanced significance of environmental geochemistry to modern mining has arisen from an increased knowledge of the impacts that historical and active mining can have on the environment, and from new regulations meant to guard against these impacts. New regulations are commonly motivated by advances in the scientific understanding of the environmental impacts of past mining. The impacts can be physical, chemical, and biological in nature. The physical challenges typically fall within the purview of engineers, whereas the chemical and biological challenges typically require a multidisciplinary array of expertise including geologists, geochemists, hydrologists, microbiologists, and biologists. The modern mine-permitting process throughout most of the world now requires that potential risks be assessed prior to the start of mining. The strategies for this risk assessment include a thorough characterization of pre-mining baseline conditions and the identification of risks specifically related to the manner in which the ore will be mined and processed, how water and waste products will be managed, and what the final configuration of the post-mining landscape will be. In the Fall 2010, the Society of Economic Geologists held a short course in conjunction with the annual meeting of the Geological Society of America in Denver, Colorado (USA) to examine the environmental geochemistry of modern mining. The intent was to focus on issues that are pertinent to current and future mines, as opposed to abandoned mines, which have been the focus of numerous previous short courses. The geochemical challenges of current and future mines share similarities with abandoned mines, but differences also exist. Mining and ore processing techniques have changed; the environmental footprint of waste materials has changed; environmental protection has become a more integral part of the mine planning process; and most historical mining was done with limited regard for the environment. The 17 papers in this special issue evolved from the Society of Economic Geologists’ short course. The relevant geochemical processes encompass the source, transport, and fate of contaminants related to the life cycle of a mine. Contaminants include metals and other inorganic species derived from geologic sources such as ore and solid mine waste, and substances brought to the site for ore processing, such as cyanide to leach gold. Factors, such as mine-waste mineralogy, hydrologic setting, mine-drainage chemistry, and microbial activity, that affect the hydrochemical risks from mining are reviewed by Nordstrom et al. In another paper, Nordstrom discusses baseline characterization at mine sites in a regulatory framework, and emphasizes the influence of mineral deposits in producing naturally elevated concentrations of many trace elements in surface water and groundwater. Surface water quality in mineralized watersheds is influenced by a number of processes that act on daily (diel) cycles and can produce dramatic variations in trace element concentrations as described by Gammons et al. Pre-mining baseline characterization studies should strive to capture the magnitude of these diel variations. Desbarats et al., using a case study of mine drainage from a gold mine, illustrate how elements that commonly occur as negatively charged species (anions) in solution, such as arsenic as arsenate, behave in an opposite fashion than most metals, which occur as positively charged species (cations). Significant improvement in the understanding of factors that influence the toxicity of metals to aquatic organisms in surface water has highlighted the importance of aqueous chemistry, particularly dissolved organic carbon, as described by Smith et al. Stream sediment contamination is another important pathway for affecting aquatic organisms, as reviewed by Besser et al. Understanding and predicting environmental consequences from mining begins with knowing the mineralogy and mineral reactivity of the ore, the wastes, and of secondary minerals formed later. Jamieson et al. review the importance of mineralogical studies in mine planning and remediation. A number of types of site-specific studies are needed to identify environmental risks related to individual mines. Lapakko reviews the general framework of mine waste characterization studies that are integral to the mine planning process. Hageman et al. present a comparative study of several static tests commonly used to characterize mine waste. The mining and ore processing practices employed at a specific mine site will vary on the basis of the commodities being targeted, the geology of the deposit, the geometry of the deposit, and the mining and ore processing methods used. Thus, these factors, in addition to the waste management practices used, can result in a variety of end-member mine waste features, each of which has its own set of challenges. Open pit mines and underground mines require waste rock to be removed to access ore. Waste rock presents unique problems because the rock is commonly mineralized at sub-economic grades and has not been processed to remove potentially problematic minerals, such as pyrite. Amos et al. examine the salient aspects of the geochemistry of waste rock. Mill tailings – the waste material after ore minerals have been removed – are a volumetrically important solid waste at many mine sites. Their fine grain size and the options for their management make their behavior in the environment distinct from that of waste rock. Lindsay et al. describe some of these differences through three case-study examples. Subaqueous disposal of tailings is another option described by Moncur et al. Cyanide leaching for gold extraction is a common method throughout the world. Johnson describes environmental aspects of cyanidation. Uranium mining presents unique environmental challenges, particularly since in-situ recovery has seen widespread use. Campbell et al. review the environmental geochemistry of uranium mining and current research on bioremediation. Ore concentrates from many types of metal mining undergo a pyrometallurgical technique known as smelting to extract the metal. Slag is the result of smelting, and it may be an environmental liability or a valuable byproduct, as described by Piatak et al. Finally, the open pits that result from surface mining commonly reach below the water table. At the end of mining, these pits may fill to form lakes that become part of the legacy of the mine. Castendyk et al., in two papers, review theoretical aspects of the environmental limnology of pit lakes. They also describe approaches that have been used to model pit lake water balance, wall-rock contributions to pit lake chemistry, pit lake water quality, and limnological processes, such as vertical mixing, through the use of three case studies.

Applied Geochemistry

Proceedings of the symposium on restoration planning for the rivers of Mississippi River ecosystem

This volume presents over 25 papers containing the proceedings of a symposium held at the 122nd annual meeting of the American Fisheries Society in September 1992. The symposium was organised to review the status of fish and wildlife resources and restoration planning for the Mississippi river ecosystem. The objectives of the symposia were as follows: to present existing information of the biota and values associated with riverine resources throughout the basin; to identify existing or planned actions that might be useful for fisheries management in rivers within the basin and to identify minimal requirements for the restoration of important fish stocks, other aquatic resources and entire ecosystems. Papers included in this issue cover the following topics: thee impacts of altered hydrologic sediment and organic matter cycles; the availability of woody debris in the river cross-section, loss of floodplain and side-arm connection, and changing water quality.

Mississippi River Basin

Conservation, biodiversity and infectious disease: scientific evidence and policy implications

Habitat destruction and infectious disease are dual threats to nature and people. The potential to simultaneously advance conservation and human health has attracted considerable scientific and popular interest; in particular, many authors have justified conservation action by pointing out potential public health benefits . One major focus of this debate—that biodiversity conservation often decreases infectious disease transmission via the dilution effect—remains contentious. Studies that test for a dilution effect often find a negative association between a diversity metric and a disease risk metric, but how such associations should inform conservation policy remains unclear for several reasons. For one, diversity and infection risk have many definitions, making it possible to identify measures that conform to expectations. Furthermore, the premise that habitat destruction consistently reduces biodiversity is in question, and disturbance or conservation can affect disease in many ways other than through biodiversity change. To date, few studies have examined the broader set of mechanisms by which anthropogenic disturbance or conservation might increase or decrease infectious disease risk to human populations. Due to interconnections between biodiversity change, economics and human behaviour, moving from ecological theory to policy action requires understanding how social and economic factors affect conservation. This Theme Issue arose from a meeting aimed at synthesizing current theory and data on ‘biodiversity, conservation and infectious disease’ (4–6 May 2015). Ecologists, evolutionary biologists, economists, epidemiologists, veterinary scientists, public health professionals, and conservation biologists from around the world discussed the latest research on the ecological and socio-economic links between conservation, biodiversity and infectious disease, and the open questions and controversies in these areas. By combining ecological understanding with insights from the social and economic sciences, the papers in this Theme Issue address the complex relationships, patterns and ecological mechanisms that influence conservation, infectious disease, and the policy options available to protect nature and human health.

Philosophical Transactions of the Royal Society B:

Assessing contaminants of emerging concern in the Great Lakes Ecosystem: A decade of method development and practical application

Assessing the ecological risk of contaminants in the field typically involves consideration of a complex mixture of compounds which may or may not be detected via instrumental analyses. Further, there are insufficient data to predict the potential biological effects of many detected compounds, leading to their being characterized as contaminants of emerging concern (CECs). Over the past several years, advances in chemistry, toxicology, and bioinformatics have resulted in a variety of concepts and tools that can enhance the pragmatic assessment of the ecological risk of CECs. The present Focus article describes a 10+- year multiagency effort supported through the U.S. Great Lakes Restoration Initiative to assess the occurrence and implications of CECs in the North American Great Lakes. State-of-the-science methods and models were used to evaluate more than 700 sites in about approximately 200 tributaries across lakes Ontario, Erie, Huron, Michigan, and Superior, sometimes on multiple occasions. Studies featured measurement of up to 500 different target analytes in different environmental matrices, coupled with evaluation of biological effects in resident species, animals from in situ and laboratory exposures, and in vitro systems. Experimental taxa included birds, fish, and a variety of invertebrates, and measured endpoints ranged from molecular to apical responses. Data were integrated and evaluated using a diversity of curated knowledgebases and models with the goal of producing actionable insights for risk assessors and managers charged with evaluating and mitigating the effects of CECs in the Great Lakes. This overview is based on research and data captured in approximately about 90 peer-reviewed journal articles and reports, including approximately about 30 appearing in a virtual issue comprised of highlighted papers published in Environmental Toxicology and Chemistry or Integrated Environmental Assessment and Management . Environ Toxicol Chem 2023;42:2506–2518. © 2023 SETAC. This article has been contributed to by U.S. Government employees and their work is in the public domain in the USA.

Environmental Toxicology and Chemistry

The role of remote sensing observations and models in hydrology: The science of evapotranspiration

Over 15 years ago, Morton (1994) summarized the state of evapotranspiration (ET) research pessimistically: ‘There have been few significant advances in our knowledge of evaporation on an environmental scale over the past four decades, a state of affairs linked to the current sterility of hydrology and related environmental sciences. Furthermore, almost none of the advances have been used successfully in practice.’ He did not foresee the rapid progress in the ensuing years. These advances can be attributed largely to three convergent themes: 1) technical innovation; 2) synergy between disciplines; and 3) expressed need. The papers in this special issue address all of these three themes on remote sensing methods for ET estimation.

Hydrological Processes

Amphibian conservation in the Anthropocene

Research is necessary to identify patterns in nature, to understand how a system functions, and to make predictions about the future state of an ecosystem. Applied research in conservation biology can identify effective strategies to maintain biodiversity, though many papers end with the conclusion that more research is needed. However, more research does not necessarily lead to solutions. We use the ongoing global decline of amphibians as a salient example to highlight limitations in current conservation research, and to focus on finding solutions which are directly relevant for conservation. While research has been conducted since declines were first detected in the 1990s, outside a few specific examples, little progress in conservation has been achieved. We suggest that the case of amphibian declines is relevant to conservation science in general, as the current paradigm for conservation is that management is planned after research is completed; research and management are not effectively (and not directly) connected. This disconnect illustrates the knowledge-action divide which has been identified as a serious deficiency in conservation. Accordingly, we use this introductory paper to the Special Issue (Amphibian conservation in the Anthropocene: Progress and challenges) to describe amphibians as a conservation dilemma, and to make the case for a different, more pragmatic, and more solutions-focused view of conservation research.

Kansas, Oklahoma

Overview of avian toxicity studies for the Deepwater Horizon Natural Resource Damage Assessment

The Oil Pollution Act of 1990 establishes liability for injuries to natural resources because of the release or threat of release of oil. Assessment of injury to natural resources resulting from an oil spill and development and implementation of a plan for the restoration, rehabilitation, replacement or acquisition of natural resources to compensate for those injuries is accomplished through the Natural Resource Damage Assessment (NRDA) process. The NRDA process began within a week of the Deepwater Horizon oil spill, which occurred on April 20, 2010. During the spill, more than 8500 dead and impaired birds representing at least 93 avian species were collected. In addition, there were more than 3500 birds observed to be visibly oiled. While information in the literature at the time helped to identify some of the effects of oil on birds, it was not sufficient to fully characterize the nature and extent of the injuries to the thousands of live oiled birds, or to quantify those injuries in terms of effects on bird viability. As a result, the US Fish and Wildlife Service proposed various assessment activities to inform NRDA injury determination and quantification analyses associated with the Deepwater Horizon oil spill, including avian toxicity studies. The goal of these studies was to evaluate the effects of oral exposure to 1–20 ml of artificially weathered Mississippi Canyon 252 oil kg bw -1 day -1 from one to 28 days or one to five applications of oil to 20% of the bird's surface area. It was thought that these exposure levels would not result in immediate or short-term mortality but might result in physiological effects that ultimately could affect avian survival, reproduction and health. These studies included oral dosing studies, an external dosing study, metabolic and flight performance studies and field-based flight studies. Results of these studies indicated changes in hematologic endpoints including formation of Heinz bodies and changes in cell counts. There were also effects on multiple organ systems, cardiac function and oxidative status. External oiling affected flight patterns and time spent during flight tasks indicating that migration may be affected by short-term repeated exposure to oil. Feather damage also resulted in increased heat loss and energetic demands. The papers in this special issue indicate that the combined effects of oil toxicity and feather effects in avian species, even in the case of relatively light oiling, can significantly affect the overall health of birds.

Ecotoxicology and Environmental Safety

Preface: The lunar reconnaissance orbiter

When the call for papers for a special issue of Icarus devoted to analysis of data from the Lunar Reconnaissance Orbiter mission was announced in March 2015 we envisioned a single issue with only a possibility of a second. We certainly were gratified by the response from within and outside the LRO instrument teams such that we were compelled to publish this the third and final volume. It is a testament to the Moon as object that enhances our understanding of the history of the Earth-Moon system, the Solar System as a whole, and geologic processes that take place on the Moon and other atmosphere-less bodies. Many of the publications included lead authors outside the LRO team of co-investigators, using data from multiple instruments from LRO and other recent missions.

Icarus

Large-scale coastal change in the Columbia River littoral cell: an overview

This overview introduces large-scale coastal change in the Columbia River littoral cell (CRLC). Covering 165 km of the southwest Washington and northwest Oregon coasts, the littoral cell is made up of wide low-sloping dissipative beaches, broad coastal dunes and barrier plains, three large estuaries, and is bounded by rocky headlands. The beaches and inner shelf are composed of fine-grained sand from the Columbia River and are exposed to a high-energy winter wave climate. Throughout the Holocene, the CRLC has undergone large fluctuations in shoreline change trends, responding to a variety of coastal change drivers, including changing rates of sea-level rise, infrequent, yet catastrophic, co-seismic subsidence events, a large regional sediment supply, inter-annual climatic fluctuations (El Niño cycles), seasonally varying wave climate, and numerous anthropogenic influences. Human influences on the CRLC include construction of over 200 dams in the Columbia River drainage basin, dredging of navigation channels removing sand to upland sites and offshore deep-water sites, and construction of large inlet jetties at the entrances to the Columbia River and Grays Harbor. The construction of these massive entrance jetties at the end of the 19th century has been the dominant driver of coastal change through most of the littoral cell over the last hundred years. Presently, some beaches in the littoral cell are eroding in response to nearshore sediment deficits resulting from a) ebb-jets of the confined entrances pushing the previously large, shallow ebb-tidal deltas offshore into deeper water, and b) waves dispersing the nearshore delta flanks initially onshore and then alongshore away from the jetties. This overview describes 1) the motivation for developing a system-wide understanding of sediment dynamics in the littoral cell at multiple time and space scales, 2) the formation and approach of the Southwest Washington Coastal Erosion Study, and 3) an introduction to the papers in this special issue.

Washington;Oregon

Sediment transport in the San Francisco Bay Coastal System: An overview

The papers in this special issue feature state-of-the-art approaches to understanding the physical processes related to sediment transport and geomorphology of complex coastal-estuarine systems. Here we focus on the San Francisco Bay Coastal System, extending from the lower San Joaquin-Sacramento Delta, through the Bay, and along the adjacent outer Pacific Coast. San Francisco Bay is an urbanized estuary that is impacted by numerous anthropogenic activities common to many large estuaries, including a mining legacy, channel dredging, aggregate mining, reservoirs, freshwater diversion, watershed modifications, urban run-off, ship traffic, exotic species introductions, land reclamation, and wetland restoration. The Golden Gate strait is the sole inlet connecting the Bay to the Pacific Ocean, and serves as the conduit for a tidal flow of ~ 8 x 109 m 3 /day, in addition to the transport of mud, sand, biogenic material, nutrients, and pollutants. Despite this physical, biological and chemical connection, resource management and prior research have often treated the Delta, Bay and adjacent ocean as separate entities, compartmentalized by artificial geographic or political boundaries. The body of work herein presents a comprehensive analysis of system-wide behavior, extending a rich heritage of sediment transport research that dates back to the groundbreaking hydraulic mining-impact research of G.K. Gilbert in the early 20th century.

California

Sub-tidal benthic habitats of central San Francisco Bay and offshore Golden Gate area: A review

Deep-water potential estuarine and marine benthic habitat types were defined from a variety of new and interpreted data sets in central San Francisco Bay and offshore Golden Gate area including multibeam echosounder (MBES), side-scan sonar and bottom grab samples. Potential estuarine benthic habitats identified for the first time range from hard bedrock outcrops on island and mainland flanks and some Bay floor regions, to soft, very dynamic bedforms consisting of sediment waves and ripples. Soft sediment ranges from mud and sand to bimodal (two or more grain sizes) sediment of gravel, pebbles, and cobbles. In addition, considerable anthropogenic features (i.e., pipelines, bridge abutments, dredged channels, dump sites) were distinguished. Of the 52 potential benthic habitat types mapped (compressed to 14 types for this paper), 24 were of un-consolidated sediment with five of these comprised of dynamic bedforms or sediment waves and dunes, five of mixed (soft over hard) substrate type, six of hard substrate or rock outcrop, 13 of anthropogenically disturbed areas and four hard anthropogenic features. Rock outcrops and rubble are considered the primary habitat type for rockfish ( Sebastes spp. ), lingcod ( Ophiodon elongatus ) and in shallow water for herring ( Clupea pallasii ) spawning. Dynamic bedforms such as sand waves are considered potential foraging habitat for juvenile lingcod, may be sub-tidal habitat for the Pacific sand lance ( Ammodytes hexapterus ) forage fish, and possibly resting habitat for migratory fishes such as sturgeon ( Acipenser medirostris ). The potential marine benthic habitats identified in San Francisco Bay are not unlike those found in other estuaries around the world and this study should contribute significant information that will be of interest to scientists, managers and fishers investigating and utilizing bay and estuarine resources. As described in the many papers of this special issue, the understanding of the interrelationship of geology and ecology is critical to the identification of essential habitats and the sustainability of a healthy ecosystem.

California