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At least 451 records · Page 25Linked to original sources

Biological and geochemical data of gravity cores from Mobile Bay, Alabama

A study was conducted to understand the marine-influenced environments of Mobile Bay, Alabama, by collecting a series of box cores and gravity cores. One gravity core in particular demonstrates a long reference for changing paleoenvironmental parameters in Mobile Bay. Due to lack of abundance of foraminifers and (or) lack of diversity, the benthic foraminiferal data for two of the three gravity cores are not included in the results. The benthic foraminiferal data collected and geochemical analyses in this study provide a baseline for recent changes in the bay.

Alabama

Habitat characteristics of adult frosted elfins (Callophrys irus) in sandplain communities of southeastern Massachusetts, USA

Changes to land use and disturbance frequency threaten disturbance-dependent Lepidoptera within sandplain habitats of the northeastern United States. The frosted elfin (Callophrys irus) is a rare and declining monophagous butterfly that is found in xeric open habitats maintained by disturbance. We surveyed potential habitat for adult frosted elfins at four sites containing frosted elfin populations in southeastern Massachusetts, United States. Based on the survey data, we used kernel density estimation to establish separate adult frosted elfin density classes, and then used regression tree analysis to describe the relationship between density and habitat features. Adult frosted elfin density was greatest when the host plant, wild indigo (Baptisia tinctoria), density was >2.6 plants/m2 and tree canopy cover was <29%. Frosted elfin density was inversely related to tree cover and declined when the density of wild indigo was <2.6 plants/m2 and shrub cover was ???16%. Even small quantities of non-native shrub cover negatively affected elfin densities. This effect was more pronounced when native herbaceous cover was <36%. Our results indicate that management for frosted elfins should aim to increase both wild indigo density and native herbaceous cover and limit native tree and shrub cover in open sandplain habitats. Elimination of non-native shrub cover is also recommended because of the negative effects of even low non-native shrub cover on frosted elfin densities. The maintenance of patches of early successional sandplain habitat with the combination of low tree and shrub cover, high host plant densities, and the absence of non-native shrubs appears essential for frosted elfin persistence, but may also be beneficial for a number of other rare sandplain insects and plant species. ?? 2006 Elsevier Ltd. All rights reserved.

Biological Conservation

A multi-metric assessment of environmental contaminant exposure and effects in an urbanized reach of the Charles River near Watertown, Massachusetts

The Charles River Project provided an opportunity to simultaneously deploy a combination of biomonitoring techniques routinely used by the U.S. Geological Survey National Water Quality Assessment Program, the Biomonitoring of Environmental Status and Trends Project, and the Contaminant Biology Program at an urban site suspected to be contaminated with polycyclic aromatic hydrocarbons. In addition to these standardized methods, additional techniques were used to further elucidate contaminant exposure and potential impacts of exposure on biota. The purpose of the study was to generate a comprehensive, multi-metric data set to support assessment of contaminant exposure and effects at the site. Furthermore, the data set could be assessed to determine the relative performance of the standardized method suites typically used by the National Water Quality Assessment Program and the Biomonitoring of Environmental Status and Trends Project, as well as the additional biomonitoring methods used in the study to demonstrate ecological effects of contaminant exposure. The Contaminant Effects Workgroup, an advisory committee of the U.S. Geological Survey/Contaminant Biology Program, identified polycyclic aromatic hydrocarbons as the contaminant class of greatest concern in urban streams of all sizes. The reach of the Charles River near Watertown, Massachusetts, was selected as the site for this study based on the suspected presence of polycyclic aromatic hydrocarbon contamination and the presence of common carp ( Cyprinus carpio ), largemouth bass ( Micropterus salmoides ), and white sucker ( Catostomus commersoni ). All of these fish have extensive contaminant-exposure profiles related to polycyclic aromatic hydrocarbons and other environmental contaminants. This project represented a collaboration of universities, Department of the Interior bureaus including multiple components of the USGS (Biological Resources Discipline and Water Resources Discipline Science Centers, the Contaminant Biology Program, and the Status and Trends of Biological Resources Program), and the U.S. Fish and Wildlife Service. Samples for analyzing water chemistry, sediment chemistry and toxicity, fish community structure, tissue chemistry, and fish (20 carp, 20 bass, and 40 white sucker) and invertebrate pathology were collected in late August, 2005. This report provides results from the analyses of fish pathology, biomarkers of exposure and effects (reproductive, carcinogenic, genotoxic, and immunologic), sediment chemistry, toxicity, and fish and invertebrate community structure.

Massachusetts

Optimal swim speeds for traversing velocity barriers: An analysis of volitional high-speed swimming behavior of migratory fishes

Migrating fish traversing velocity barriers are often forced to swim at speeds greater than their maximum sustained speed (Ums). Failure to select an appropriate swim speed under these conditions can prevent fish from successfully negotiating otherwise passable barriers. I propose a new model of a distance-maximizing strategy for fishes traversing velocity barriers, derived from the relationships between swim speed and fatigue time in both prolonged and sprint modes. The model predicts that fish will maximize traversed distance by swimming at a constant groundspeed against a range of flow velocities, and this groundspeed is equal to the negative inverse of the slope of the swim speed-fatigue time relationship for each mode. At a predictable flow velocity, they should switch from the optimal groundspeed for prolonged mode to that for sprint mode. Data from six migratory fish species (anadromous clupeids: American shad Alosa sapidissima, alewife A. pseudoharengus and blueback herring A. aestivalis; amphidromous: striped bass Morone saxatilis; and potomodromous species: walleye (previously known as Stizostedion vitrium) and white sucker Catostomus commersonii) were used to explore the ability of fish to approximate the predicted distance-maximizing behaviors, as well as the consequences of deviating from the optima. Fish volitionally sprinted up an open-channel flume against fixed flow velocities of 1.5-4.5 m s-1, providing data on swim speeds and fatigue times, as well as their groundspeeds. Only anadromous clupeids selected the appropriate distance-maximizing groundspeed at both prolonged and sprint modes. The other three species maintained groundspeeds appropriate to the prolonged mode, even when they should have switched to the sprint optima. Because of this, these species failed to maximize distance of ascent. The observed behavioral variability has important implications both for distributional limits and fishway design.

Journal of Experimental Biology

Structural evolution of iron coordination in proteins across Earth’s oxygenation history

Protein metal-binding sites support essential biological functions shaped by protein fold, subunit interactions, and cofactor chemistry. Because these sites encode both biochemical function and environmental constraint, they offer a route to connect protein evolution with changes in Earth’s surface environment through time. Of particular interest is iron (Fe), the most widely used metal in biology and a cofactor central to both anaerobic and aerobic metabolism. Here, we systematically compare the immediate chemical environments of functionally essential Fe-binding sites in three-dimensional protein structures to test whether Fe coordination spheres differ across oxygen contexts. Using a curated dataset of experimentally determined structures, we identify a clear shift in the local chemistry of Fe-binding environments from anaerobic to aerobic proteins. Aerobic Fe sites are significantly more hydrophilic than anaerobic ones, and amino-acid composition analyses show reduced cysteine use in aerobic Fe-binding neighborhoods. These patterns suggest that as Earth’s surface environments became more oxygenated, proteins retained Fe as a core redox metal while reconfiguring local coordination chemistry in ways less vulnerable to oxidative damage. More broadly, this study introduces and applies the Coordination Sphere Analysis and Comparison (CSAC) workflow, an open and archived Python workflow for extracting local metal-binding environments from structure datasets, providing a framework for linking metalloprotein structure to evolutionary and geobiological transitions across Earth history.

Discover Life

Project overview: Chapter A in Factors affecting the reproduction, recruitment, habitat, and population dynamics of pallid sturgeon and shovelnose sturgeon in the Missouri River

For more than a hundred years, human activities have modified the natural forces that control the Missouri River and its native fish fauna. While the ecological effects of regulation and channel engineering are understood in general, the current understanding is not sufficient to guide river restoration and management. The U.S. Geological Survey (USGS) is in the third year of a multiagency research effort to determine the ecological requirements for reproduction and survival of the endangered pallid sturgeon ( Scaphirhynchus albus ) and shovelnose sturgeon ( Scaphirhynchus platorhynchus ) in the Missouri River. The multidisciplinary research strategy includes components of behavior, physiology, habitat use, habitat availability, and population modeling of all life stages. Shovelnose sturgeon are used to design the strategy because they are closely related to the pallid sturgeon and are often used as a surrogate species to develop new research tools or to examine the effects of management actions or environmental variables on sturgeon biology and habitat use. During fiscal years 2005 and 2006, the U.S. Army Corps of Engineers (USACE) provided funds to USGS for tasks associated with the Comprehensive Sturgeon Research Program (CSRP) and for tasks associated with evaluation of the Sturgeon Response to Flow Modifications (SRFM). Because work activities of CSRP and SRFM are so integrated, we are providing information on activities that have been consolidated at the task level. These task activities represent chapters in this report.

Missouri River

An annotated bibliography for lamprey habitat in the White Salmon River, Washington

The October 2011 decommissioning of Condit Dam on the White Salmon River at river kilometer (rkm) 5.3 removed a significant fish passage barrier from the White Salmon River basin for the first time in nearly a century. This affords an opportunity to regain a potentially important drainage basin for Pacific lamprey ( Entosphenus tridentatus ) production. In anticipation of Pacific lamprey recolonization or reintroduction, aquatic resource managers, such as the Yakama Nation (YN), are planning to perform surveys in the White Salmon River and its tributaries. The likely survey objectives will be to investigate the presence of lamprey, habitat conditions, and habitat availability. In preparation for this work, a compilation and review of the relevant aquatic habitat and biological information on the White Salmon River was conducted. References specific to the White Salmon River were collected and an annotated bibliography was produced including reports containing: &bull;Spatial information about where various habitat surveys or monitoring have occurred over the past 20 years; &bull;Database information relevant to habitat attributes (for example, pools, riffles, or glides); &bull;Riparian surveys along major tributary streams; &bull;Water temperature and sediment information; &bull;Lamprey surveys, observations, and collections; &bull;Spawning gravel surveys; and &bull;Surveys that inventory habitat degradation or other environmental factors that may limit potential future productivity of lamprey.

Washington

Activities of the United States Geological Survey in Pennsylvania

Since the late 1800's, when the U.S. Geological Survey first established a presence in Pennsylvania, the focus of our work has changed from general hydrologic and geologic appraisals to issue-oriented investigations; from predominantly data collection to a balanced program of data collection, interpretation, and research; and from traditional, hand-drawn mapping to digitally produced coverages with specialized themes. Yet our basic mission has not changed. It is as relevant to the resource issues of today as it was when our geologists first arrived in western Pennsylvania in 1884. Continuing in this proud heritage and tradition, the U.S. Geological Survey is moving confidently toward the next century, evolving organizationally and technologically to better meet the needs of our many constituencies. One major organizational change is the recent accession of employees from the former National Biological Service, who now form the Survey's fourth program division, the Biological Resources Division. These employees join forces with colleagues in our other three divisions: Water Resources, Geologic, and National Mapping. More than any other change in decades, the addition of this biological expertise creates new and exciting opportunities for scientific research and public service. This report provides an overview of recent activities in Pennsylvania conducted by the four program divisions and is intended to inform those interested in U.S. Geological Survey products and services. Additional information is available on our home page (at http://wwwpah2o.er.usgs.gov/). Together with numerous Federal, State, and local agencies and organizations who are our customers and partners, we at the U.S. Geological Survey look forward to providing continued scientific contributions and public service to Pennsylvania and the Nation.

Pennsylvania

Characterizing residence patterns of North Atlantic right whales in the southeastern U.S. with a multistate open robust design model

Effective conservation of endangered North Atlantic right whales (Eubalaena glacialis) requires information about their spatio-temporal distribution. Understanding temporal distribution is particularly important, because a portion of the population migrates between high latitude summer feeding grounds off the northeastern U.S. and Canadian Maritimes coasts and lower latitude calving and wintering grounds off the southeastern U.S. coast (SEUS). Here, we modeled SEUS residence patterns using photo-identification data from coastal South Carolina, Georgia, and Florida from seven winter seasons (2004/2005 – 2010/2011). We used multistate open robust design models to evaluate effects of reproductive status, demographic group, and environmental conditions on SEUS residence. Model estimates accounted for temporal variation and imperfect detection and provided probabilities of entering the SEUS, staying in the SEUS, and being sighted. We also derived estimates for residence time and seasonal abundance. We observed staggered arrival and departure patterns and demographic differences in residence patterns that are characteristic of a differential migration strategy. Calving females arrived earliest and, in most seasons, had mean residence periods more than twice as long as other demographic groups. Conversely, adult males arrived the latest, and had the shortest residence times. Within-season, biweekly detection was positively influenced by survey effort, and seasonal detection rate estimates ranged from 0.83 ± 0.08 for non-calving adult females to 0.98 ± 0.02 for calving females. Results provide insights into right whale behavior, biology, and temporal distribution in the SEUS and can be used to evaluate spatially- and temporally- dynamic management measures.

South Carolina, Georgia, Florida

Response of vegetation and breeding birds to the removal of cattle on the San Pedro River, Arizona (U.S.A.)

In late 1987 cattle were removed from the San Pedro Riparian National Conservation Area ( NCA ) in southeastern Arizona ( U.S.A. ). We monitored vegetation density and abundance of birds during the breeding season during 1986a??1990 in riparian, mesquite grassland, and Chihuahuan desert-scrub communities in the NCA. The density of herbaceous vegetation increased four- to six-fold in riparian and mesquite grassland communities. Little change occurred in herbaceous vegetation in desert scrub, or in the density of shrubs or trees in any of the communities. Of 61 bird species for which sufficient data were collected, mean detections per kilometer increased for 42 species, 26 significantly, and decreased for 19 species, 8 significantly. The number of individuals of all avian species detected on surveys increased each year from 103/kilometer in 1986 to 221/kilometer in 1991, an average annual increase of 23% ( p < 0.001 ). The largest increases occurred in riparian species, open-cup nesters, Neotropical migrants, and insectivores. Species of the Chihuahuan desert-scrub, in which vegetation changed the least, showed the smallest increases. Only a few of the species showed increasing regional trends for the same period, as demonstrated by the North American Breeding Bird Survey; thus, increases on the San Pedro Riparian NCA were likely caused by the change in local conditions, not by regional effects. Our results suggest that removing cattle from riparian areas in the southwestern United States can have profound benefits for breeding birds.

Conservation Biology

Distribution, habitat, size, and color pattern of Cnemidophorus lemniscatus (Sauria: Teiidae) on Cayo Cochino Pequeño, Honduras

Cayo Cochino Peque&ntilde;o is a 0.64-km 2 Caribbean island in the Cayos Cochinos archipelago, Department of Islas de la Bah&iacute;a, Honduras. One published report noted the presence of the rainbow whiptail ( Cnemidophorus lemniscatus ) on Cayo Cochino Peque&ntilde;o, but nothing is known about the biology of this insular population. During a part of the dry season in July and August 2004, we used drift fences, pitfall traps, and separate observational transects to elucidate the distribution and habitat use of C. lemniscatus on the island. The only population of this species was located in a narrow coastal zone (width to 60 m and length to 450 m) on the southern half of the eastern windward side of the island. We analyzed the percentage of the canopy cover and the percentage of 4 ground coverage types along 2 transects 200 m long in this area to understand the basis of the suitability of the habitat for C. lemniscatus . Descriptively, the area harboring this species on Cayo Cochino Peque&ntilde;o consisted of the remnants of a coconut palm grove with low-lying herbaceous vegetation and grasses, in which a mosaic of small, open areas of sandy soil and coral fragments, with or without accumulations of debris, were the foci of lizard activities. Also observed in this habitat were 2 individuals of the brown racer ( Dryadophis melanolomus ), an actively foraging snake and likely predator on C. lemniscatus . Data obtained on rainbow whiptails captured in pitfall traps and subsequently released were used to determine the size and color patterns of hatchlings and adult males and females.

Cayo Cochino Pequeno

Measurements of slope current and environmental geochemistry near the western boundary of the Gulf of the Farallones National Marine Sanctuary

For nearly a decade, dredged material from San Francisco Bay has been deposited at the U.S. Environmental Protection Agency (EPA) Region IX designated disposal site on the continental slope west of the Farallon Islands. Over the past several years, annual disposal volumes have ranged from 136,170 m3 (61 barge loads) to 2,407,600 m3 (1,173 barge loads) (Ota, personal communication, 2000). The EPA has conducted extensive studies to evaluate the fate and effects of the disposed material (Abdelrhman, 1992; Tetra-Tech, 1992; SAIC, 1992). The EPA has also maintained a long-term monitoring program to collect hydrodynamic, sedimentary, chemical, and biological data that are used to determine whether the dredged material adversely affects the ecology of adjacent water bodies and whether it moves from the disposal site, especially into the Gulf of the Farallones National Marine Sanctuary. As part of this monitoring program, the U.S. Geological Survey (USGS) Coastal and Marine Geology Program (CMGP) deployed arrays of instruments on three moorings near the EPA disposal site from November 1997 to November 1998. This report describes the results and findings of this field monitoring experiment.

California

Vibrio population dynamics in Mid-Atlantic surface waters during Saharan dust events

Vibrio is a cosmopolitan genus of marine bacteria, highly investigated in coastal and estuarine environments. Vibrio have also been isolated from pelagic waters, yet very little is known about the ecology of these oligotrophic species. In this study we examined the relative change in bacterial abundance and more specifically the dynamics of Vibrio in the tropical North Atlantic in response to the arrival of pulses of Saharan dust aerosols, a major source of biologically important nutrients for downwind marine surface waters. Aerosol and surface water samples were collected over 1 month coinciding with at least two distinct dust events. Total bacterial counts increased by 1.6-fold correlating with the arrival of Saharan dust ( r = 0.76; p = 0.001). Virus-like particles (VLP) also followed this trend and were correlated with bacterial counts ( r = 0.67; p = 0.01). Vibrio specific qPCR targeting the 16S rRNA gene ranged from below detection limits to a high of 9,145 gene copies ml −1 with the arrival of dust. This increase equated to 6.5 × 10 2 −1.5 × 10 3 individual genome equivalents ml −1 based on the known range of 16S rRNA copies among this genus. Vibrio exhibited bloom-bust cycles potentially attributed to selective viral lysis or bloom depletion of organic carbon. This work is one of the few studies to examine the open ocean ecology of Vibrio , a conditionally rare taxon, whose bloom-bust lifestyle likely is a contributing factor in the flow of nutrients and energy in pelagic ecosystems.

Frontiers in Marine Science

Integrated observations and informatics improve understanding of changing marine ecosystems

Marine ecosystems have numerous benefits for human societies around the world and many policy initiatives now seek to maintain the health of these ecosystems. To enable wise decisions, up to date and accurate information on marine species and the state of the environment they live in is required. Moreover, this information needs to be openly accessible to build indicators and conduct timely assessments that decision makers can use. The questions and problems being addressed demand global-scale investigations, transdisciplinary science, and mechanisms to integrate and distribute data that otherwise would appear to be disparate. Essential Ocean Variables (EOVs) and marine Essential Biodiversity Variables (EBVs), conceptualized by the Global Ocean Observing System (GOOS) and the Marine Biodiversity Observation Network (MBON), respectively, guide observation of the ocean. Additionally, significant progress has been made to coordinate efforts between existing programs, such as the GOOS, MBON, and Ocean Biogeographic Information System collaboration agreement. Globally and nationally relevant indicators and assessments require increased sharing of data and analytical methods, sustained long-term and large-scale observations, and resources to dedicated to these tasks. We propose a vision and key tenets as a guiding framework for building a global integrated system for understanding marine biological diversity and processes to address policy and resource management needs. This framework includes: using EOVs and EBVs and implementing the guiding principles of Findable, Accessible, Interoperable, Reusable (FAIR) data and action ecology. In doing so, we can encourage relevant, rapid, and integrative scientific advancement that can be implemented by decision makers to maintain marine ecosystem health.

Frontiers in Marine Science

Biotic, water-quality, and hydrologic metrics calculated for the analysis of temporal trends in National Water Quality Assessment Program Data in the Western United States

The U.S. Geological Survey's National Water-Quality Assessment (NAWQA) Program was established by Congress in 1991 to collect long-term, nationally consistent information on the quality of the Nation's streams and groundwater. The NAWQA Program utilizes interdisciplinary and dynamic studies that link the chemical and physical conditions of streams (such as flow and habitat) with ecosystem health and the biologic condition of algae, aquatic invertebrates, and fish communities. This report presents metrics derived from NAWQA data and the U.S. Geological Survey streamgaging network for sampling sites in the Western United States, as well as associated chemical, habitat, and streamflow properties. The metrics characterize the conditions of algae, aquatic invertebrates, and fish. In addition, we have compiled climate records and basin characteristics related to the NAWQA sampling sites. The calculated metrics and compiled data can be used to analyze ecohydrologic trends over time.

Open-File Report

Cranes in East Asia; Proceedings of the symposium held in Harbin, People's Republic of China, June 9-18, 1998

Introductory Remarks (R.C. Stendell): I appreciate the opportunity to be in Harbin and participate in the International Scientific Workshop on Cranes in East Asia. I would like to provide some background information on how this meeting came to be. Almost one year ago, in July 1997, Dr. Kun John of the Seoul National University contacted the U.S. Geological Survey&rsquo;s Midcontinent Ecological Science Center (MESC) requesting that we host a meeting of scientists from the Republic of Korea (ROK) and the Democratic People&rsquo;s Republic of Korea (DPRK) to discuss the biology and ecology of cranes on the Korean peninsula. Dr. John and his colleagues expressed concern about three species of cranes that migrate up and down the Korean peninsula and use the Demilitarized Zone. The species of interest are the Red-crowned Crane, White-naped Crane, and the Hooded Crane. The primary question was the conservation of these species in this part of the world. Another concern involved exploring potential economic values and opportunities associated with these species. Richard Johnson, an economist at MESC, assumed responsibility as the primary MESC contact to help bring about this meeting.

Open-File Report

Understanding the Avian-Impact Offset Method—A tutorial

Biodiversity offsetting, or compensatory mitigation, is increasingly being used in temperate grassland and wetland ecosystems to compensate for unavoidable environmental damage from anthropogenic disturbances such as energy development and road construction. Energy-extraction and -generation facilities continue to proliferate across the natural landscapes of the United States, yet mitigation tools to ameliorate the negative behavioral effects on wildlife from these types of facilities are rarely implemented. Scientists from the U.S. Geological Survey conducted a 10-year before-after-control-impact (commonly referred to as BACI) study that evaluated the displacement effects of wind facilities on breeding grassland birds. The study determined behavioral avoidance for 7 of 9 species. This research is notable because of its design, geographical scope, and duration, which allowed for the determination of immediate, short-term effects; delayed or sustained effects; and discrete distances at which effects occurred. In addition, the U.S. Fish and Wildlife Service and Ducks Unlimited conducted a 3-year concurrent-year paired-reference study to determine behavioral avoidance for five species of dabbling ducks. By quantifying displacement rate from these two studies, U.S. Geological Survey and U.S. Fish and Wildlife Service scientists developed the Avian-Impact Offset Method (AIOM) to quantify and compensate for loss in value of breeding habitat. The AIOM converts the biological value (that is, number of bird pairs) lost by way of avoidance and estimates the site-specific number of hectares of grasslands and number of wetlands needed to compensate for displaced pairs of grassland birds and waterfowl. By converting biological value to traditional units of measure in which land is described and purchased or sold, the AIOM lends itself readily to the delivery of offsetting measures such as easement protections and restoration projects. The AIOM tool is applicable to wind, solar, oil, gas, and transportation infrastructure. This tutorial was designed to increase awareness of the AIOM and to promote its proper application. The tutorial is divided into four sections, each of which explains a discrete topic concerning aspects of behavioral displacement. The first section provides geographical and biological context, and the second section describes the field and statistical methods and results. The third section provides step-by-step instructions for applying the AIOM to several scenarios involving grassland birds or waterfowl at wind or oil facilities. The fourth section describes decision-support tools created to implement the AIOM. The appendices provide the actual field protocols constituting the methods for the research, provide detailed results by species and wind facility for that research, and provide detailed instructions for downloading and applying the decision-support tools.

Open-File Report

Using analytical services at the National Water Quality Laboratory

The National Water Quality Laboratory (NWQL) offers a variety of analytical services for the determination of constituents in samples of water, sediment, and biological material. As technology has advanced, many new methods have been introduced but not always incorporated into plans and schedules developed in the districts. The strengths and weaknesses of many different techniques are discussed and evaluated to promote a broad understanding of the services available at the NWQL. Method detection limits, precision, and costs are discussed, as well as possible applications for the methods. To aid in project planning, several tables have been developed that list the approved method for certain determination, particularly those being requested to satisfy cooperator or U.S. Environ- mental Protection Agency regulatory requirements.

Open-File Report