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At least 1,207 records · Page 67Linked to original sources
USGS1982

Analytical electron microscopy in mineralogy; exsolved phases in pyroxenes

Analytical scanning transmission electron microscopy has been successfully used to characterize the structure and composition of lamellar exsolution products in pyroxenes. At operating voltages of 100 and 200 keV, microanalytical techniques of x-ray energy analysis, convergent-beam electron diffraction, and lattice imaging have been used to chemically and structurally characterize exsolution lamellae only a few unit cells wide. Quantitative X-ray energy analysis using ratios of peak intensities has been adopted for the U.S. Geological Survey AEM in order to study the compositions of exsolved phases and changes in compositional profiles as a function of time and temperature. The quantitative analysis procedure involves 1) removal of instrument-induced background, 2) reduction of contamination, and 3) measurement of correction factors obtained from a wide range of standard compositions. The peak-ratio technique requires that the specimen thickness at the point of analysis be thin enough to make absorption corrections unnecessary (i.e., to satisfy the “thin-foil criteria”). In pyroxenes, the calculated “maximum thicknesses” range from 130 to 1400 nm for the ratios Mg/Si, Fe/Si, and Ca/Si; these “maximum thicknesses” have been contoured in pyroxene composition space as a guide during analysis. Analytical spatial resolutions of 50–100 nm have been achieved in AEM at 200 keV from the composition-profile studies, and analytical reproducibility in AEM from homogeneous pyroxene standards is ± 1.5 mol% endmember.

Ultramicroscopy↗
USGS1989

Geochemical signatures of possible deep-seated ore deposits in Tertiary volcanic centers, Arizona and New Mexico, U.S.A.

A reconnaissance geochemical survey of stream drainages within 21,000 km 2 of southeastern Arizona and southwestern New Mexico shows broad zones of low-level to moderate contrast anomalies, many associated with mid-Tertiary eruptive centers and Tertiary fault zones. Of these eruptive centers, few are known to contain metallic deposits, and most of those known are minor. This, however, may be more a function of shallow erosion level than an indication of the absence of mineralization, since hydrothermal alteration and Fe-Mn-oxide staining are widespread, and geochemical anomalies are pervasive over a larger part of the region than outcrop observations would predict. Accordingly, interpretations of the geochemical data use considerations of relative erosion levels, and inferred element zonalities, to focus on possible undiscovered deposits in the subsurface of base-, precious-, and rare-metal deposits of plutonic-volcanic association. In order to enhance the identification of specific deep targets, we use the empirically determined ratio: Ag+Mn+Pb+Zn+Ba Au+Mo+Cu+Bi+W "> Ag+Mn+Pb+Zn+BaAu+Mo+Cu+Bi+W This ratio is based on reported metal contents of nonmagnetic heavy-mineral samples from the drainage sediment, determined by emission spectrographic analysis. Before the ratio was computed for each sample site, the data were normalized to a previously estimated regional threshold value. A regional isopleth map was then prepared, using a cell-averaging computer routine, with contours drawn at the 25th, 50th, 75th, 80th, 90th, 95th and 99th percentiles of the computed data.

Journal of Geochemical Exploration↗
USGS1992

Host defense mechanisms of Cephalopods

Humoral and cellular mechanisms of defense have been described for cephalopods, a relatively advanced group of mollusks. Typical of other mollusks, cephalopod agglutinins are the most documented component of humoral immunity. Lectins, which have agglutinating properties, have been described and characterized from octopuses. Agglutinins from cephalopod hemolymph have also been shown to agglutinate a variety of vertebrate red blood cells, as well as potential bacterial pathogens. Hemocytes are the primary component of cellular immunity. Although the hemocyte role in phagocytosis has been extensively studied in other mollusks, the mechanisms of phagocytosis have not been described extensively for cephalopods. Cephalopod hemocytes have phagocytic capabilities and may function in encapsulation and neutralization of foreign substances; however, the effects of environmental factors and the full extent of phagocytic capabilities of cephalopod hemocytes have not been reported. Hemocytes from cephalopods have a role in wound healing and inflammation which have been reported in detail by several investigators.

Annual Review of Fish Diseases↗
USGS1977

Effects of external applications of fuel oil on hatchability of mallard eggs

An experiment was performed to determine the toxicity of oil to incubating eggs. Number 2 fuel oil, a mixture of 9 paraffin compounds, and propylene glycol were applied to the surface of artificially incubated mallard ( Anas platyrhynchos ) eggs. Seven groups of 50 eggs each were treated with 1, 5, 10, 20, and 50 μl of fuel oil, 50 μ1 of the paraffin mixture, and 50 μl of propylene glycol. Fifty untreated eggs served as a control. Microliter syringes were used to apply the liquid around the air cell end of the egg on the 8th day of incubation. Embryonic mortality was significantly greater (P ≤ 0.01) in all oil treated groups and the paraffin mixture group than in the control group. Most of the embryonic mortality for the oiled eggs occurred within 72 hours of treatment. Hatching and post-hatching (4 weeks) weights of the ducklings in all treatment groups were not significantly different (P > 0.01) from the control. Thus, the transfer of even small quantities of oil to the egg surface is sufficient to reduce hatchability.

Book chapter↗
USGS2011

The hormonal control of osmoregulation in teleost fish

Hormones are critical to the physiological alterations necessary for ion homeostasis when fish move between freshwater and seawater. Cortisol promotes seawater acclimation through differentiation of salt-secreting mitochondrion-rich cells and ion transport proteins in the gill. The growth hormone/insulin-like growth factor I axis is also important in seawater acclimation and acts in synergy with cortisol. Prolactin (PRL) is important in freshwater acclimation through regulation of ion and water permeability in the gill, gut, and kidney. Cortisol also promotes ion uptake and may interact with PRL during freshwater acclimation. For many species of fish, growth hormone promotes acclimation to seawater, PRL promotes acclimation to freshwater, and cortisol interacts with both hormones, thus having a dual osmoregulatory function.

Life Sciences↗
USGS2016

Paramyxoviruses of fish

The first fish paramyxovirus was isolated from normal adult Chinook salmon returning to a coastal hatchery in Oregon in the fall of 1982. Subsequently, the virus was isolated from other stocks of adult Chinook salmon and one stock of adult coho salmon in California, Oregon, Washington and Alaska, leading to its designation as the Pacific salmon paramyxovirus ( PSPV ). The slow-growing virus can be isolated from tissues and ovarian fluids of healthy adult fish returning to spawn and apparently causes no clinical signs of disease or mortality. In 1995, a different and widely disseminated paramyxovirus was isolated from farmed Atlantic salmon in Norway and was designated as Atlantic salmon paramyxovirus ( ASPV ). Although this virus caused no disease or mortality when injected into juvenile Atlantic salmon, ASPV has been associated with proliferative gill inflammation in sea-reared yearling fish; however, additional infectious agents may be involved in the etiology of the condition. Sequence analysis of PSPV and ASPV isolates using the polymerase gene established their placement in the family Paramyxoviridae and has shown the two viruses to be closely related but sufficiently different from each other and from other known paramyxoviruses to possibly represent new genera within the family. The viruses can be diagnosed by isolation in cell culture with final confirmation by molecular methods. Other paramyxovirus-like agents have been observed or isolated from rainbow trout in Germany, from seabream in Japan associated with epithelial necrosis, from turbot in Spain associated with erythrocytic inclusion bodies and buccal/opercular hemorrhaging and from koi and common carp associated with gill necrosis in the European Union.

Book chapter↗
USGS2016

Hepeviruses of fish

Originally reported from California, the cutthroat trout virus (CTV) has now been isolated from eight species of salmonids in North America. Early work focused on the replication and physical characteristics of the small, round virus, but not until 20 years later was it determined to be most closely related to viruses causing hepatitis E in humans or infecting avian and mammalian hosts. The genome of CTV consists of 7269 nucleotides of positive-sense, single-stranded RNA with a genome organization similar to other members of the family Hepeviridae , although the amino acid sequence identity appears low enough to support creation of a novel genus. While CTV has not been associated with acute disease in fish, the virus was able to form persistently infected cell cultures that may aid research in treatment of hepatitis E-like viruses affecting humans or other animals. Interestingly, trout exposed to CTV were protected for about a month against subsequent exposure to Infectious hematopoietic necrosis virus . Replicating agents suspected to be CTV can be confirmed by polymerase chain reaction (PCR) and sequencing.

Book chapter↗
USGS2024

Hepeviruses of aquatic organisms

Originally reported in California, the cutthroat trout virus (CTV) has now been isolated from nine species of salmonids in North America. Early work focused on the replication and physical characteristics of the virus, but 20 years later was determined to be most closely related to the hepatitis E virus. The small genome is positive-sense, single-stranded RNA similar to other members of the family Hepeviridae , which now contains its own genus Piscihepevirus with two distinct genotypes, CTV-1 and CTV-2. While CTV has not been associated with acute disease in fish, the virus could form persistently infected cell cultures that may aid research in treating hepatitis E-like viruses affecting humans or other animals. Interestingly, trout exposed to CTV were protected for about a month against subsequent exposure to the infectious hematopoietic necrosis virus. Replicating agents suspected to be CTV can be confirmed by polymerase chain reaction (PCR), quantitative PCR, and sequencing. Other unclassified hepeviruses detected in fish using viral metagenomics include Wenling fish hepevirus, Wenling moray eel hepevirus, Murray–Darling carp hepevirus, and eastern mosquitofish hepevirus. The family Hepeviridae has been placed in the order Hepevirales together with the family Matonaviridae (rubella virus), with member viruses having amino acid homology in the helicase and replicase regions of the nonstructural proteins. In addition, using next-generation sequencing, a hepe-like sequence was characterized in diseased giant freshwater prawn Macrobrachium rosenbergii and named Crustacea hepe-like virus 1. Thus the family Hepeviridae continues to expand among aquatic animal hosts.

Book chapter↗
USGS2024

Paramyxoviruses of fish

The first fish paramyxovirus was isolated from normal adult Chinook salmon returning to a coastal hatchery in Oregon in the fall of 1982. Subsequently, the virus was isolated from other stocks of adult Chinook salmon and one stock of adult coho salmon in California, Oregon, Washington, and Alaska, leading to its designation as the Pacific salmon paramyxovirus (PsaPV). The slow-growing virus can be isolated from tissues and ovarian fluids of healthy adult fish returning to spawn and apparently causes no clinical signs of disease or mortality. In 1995 a different and widely disseminated paramyxovirus was isolated from farmed Atlantic salmon in Norway and was designated as Atlantic salmon paramyxovirus (AsaPV). Although this virus caused no disease or mortality when injected into juvenile Atlantic salmon, AsaPV has been associated with proliferative gill inflammation in sea-reared yearling fish; however, additional infectious agents may be involved in the etiology of the condition. Sequence analysis of PsaPV and AsaPV isolates using the polymerase gene established their placement in the family Paramyxoviridae and has shown the two viruses to be closely related but sufficiently different from each other and from other known paramyxoviruses to represent a new genus within the family. The viruses can be diagnosed by isolation in cell culture with final confirmation by molecular methods. Other paramyxovirus-like agents have been observed or isolated from rainbow trout in Germany, from seabream in Japan associated with epithelial necrosis, from turbot in Spain associated with erythrocytic inclusion bodies and buccal/opercular hemorrhaging and from koi and common carp associated with gill necrosis in the European Union.

Book chapter↗
USGS2023

Planktic foraminifera

Planktic foraminifera are single-celled marine organisms that secrete calcium carbonate tests. They live in the ocean's photic zone, and when they die, their tests, each about the size of a grain of sand, collect on the ocean floor. The geographic distribution of planktic foraminifera is mostly governed by the temperature and salinity of the ocean surface, and species assemblages are generally arranged in latitudinal bands from polar to tropical, with more species occupying warmer waters. Their ubiquity in the world's oceans since the Cretaceous Period makes them ideal biostratigraphic markers, and their sensitivity to environmental changes makes them excellent proxies of past ecological, oceanographic and climatic history.

Book chapter↗
USGS2009

Aeromicrobiology/air quality

The most prevalent microorganisms, viruses, bacteria, and fungi, are introduced into the atmosphere from many anthropogenic sources such as agricultural, industrial and urban activities, termed microbial air pollution (MAP), and natural sources. These include soil, vegetation, and ocean surfaces that have been disturbed by atmospheric turbulence. The airborne concentrations range from nil to great numbers and change as functions of time of day, season, location, and upwind sources. While airborne, they may settle out immediately or be transported great distances. Further, most viable airborne cells can be rendered nonviable due to temperature effects, dehydration or rehydration, UV radiation, and/or air pollution effects. Mathematical microbial survival models that simulate these effects have been developed.

Book chapter↗
USGS2007

Crust and lithospheric structure – Global crustal structure

The Earth’s crust has played an important role in all aspects of this planet’s evolution. This chapter presents a review of our current understanding of the physical properties of the crust on a global basis. This understanding comes from extensive seismic measurements using many techniques, as well as nonseismic geophysics, including gravity, magnetic, geoelectric, and heat flow measurements. Seismic measurements include those that employ active (man-made) sources and those that use passive (naturally occurring) sources. Deep seismic reflection profiles provide a seismic image of the crust in twodimensions with a high (50–100m) resolution. Local earthquake tomography can provide three-dimensional (3-D) seismic images at moderate (500–1000m) resolution and higher, depending on the number and spacing of seismographs. Nonseismic methods provide estimates of crustal density, magnetic properties, conductivity and geotherms (temperature vs depth). The crust in deep ocean basins is 6–7km thick and has a relatively uniform seismic velocity structure, but there are numerous oceanic regions with anomalous crustal structure, including mid-ocean ridges, trenches, volcanic islands, and oceanic plateaux. Ocean–continent passive margins are also highly variable in structure, and may be classified as volcanic versus nonvolcanic margins. Continental crust ranges in thickness from 16 to 80km, and has a highly variable seismic velocity and density structure. The proportions of continental crust, by area, are 69% shield and platform (cratons), 15% old and young orogens, 9% extended (stretched) crust, 6 % magmatic arc, and 1% rifts. The weighted mean continental crustal thickness and average crustal velocity are 41km (SD 6.2km) and 6.45kms−1 (SD 0.21kms−1), respectively. A global geographic distribution of seismic data has made it possible to create global crustal models with cell sizes as small as 2°×2°. These models provide a complete description of seismic velocities and density within the crust and uppermost mantle, including, where present, ice, water, and sedimentary layers and the crystalline crust (parameterized in three layers, upper, middle and lower crust), and sub-Moho properties. The crust is the most intensely studied region of the Earth’s interior and consequently is the best understood in terms of its structure, composition, and evolution. © 2007 Elsevier B.V. All rights reserved.

Book chapter↗
USGS2004

Testing density-dependent groundwater models: Two-dimensional steady state unstable convection in infinite, finite and inclined porous layers

This study proposes the use of several problems of unstable steady state convection with variable fluid density in a porous layer of infinite horizontal extent as two-dimensional (2-D) test cases for density-dependent groundwater flow and solute transport simulators. Unlike existing density-dependent model benchmarks, these problems have well-defined stability criteria that are determined analytically. These analytical stability indicators can be compared with numerical model results to test the ability of a code to accurately simulate buoyancy driven flow and diffusion. The basic analytical solution is for a horizontally infinite fluid-filled porous layer in which fluid density decreases with depth. The proposed test problems include unstable convection in an infinite horizontal box, in a finite horizontal box, and in an infinite inclined box. A dimensionless Rayleigh number incorporating properties of the fluid and the porous media determines the stability of the layer in each case. Testing the ability of numerical codes to match both the critical Rayleigh number at which convection occurs and the wavelength of convection cells is an addition to the benchmark problems currently in use. The proposed test problems are modelled in 2-D using the SUTRA [SUTRA––A model for saturated–unsaturated variable-density ground-water flow with solute or energy transport. US Geological Survey Water-Resources Investigations Report, 02-4231, 2002. 250 p] density-dependent groundwater flow and solute transport code. For the case of an infinite horizontal box, SUTRA results show a distinct change from stable to unstable behaviour around the theoretical critical Rayleigh number of 4 π 2 and the simulated wavelength of unstable convection agrees with that predicted by the analytical solution. The effects of finite layer aspect ratio and inclination on stability indicators are also tested and numerical results are in excellent agreement with theoretical stability criteria and with numerical results previously reported in traditional fluid mechanics literature.

Advances in Water Resources↗
USGS2007

Role of chemotaxis in the transport of bacteria through saturated porous media

Populations of chemotactic bacteria are able to sense and respond to chemical gradients in their surroundings and direct their migration toward increasing concentrations of chemicals that they perceive to be beneficial to their survival. It has been suggested that this phenomenon may facilitate bioremediation processes by bringing bacteria into closer proximity to the chemical contaminants that they degrade. To determine the significance of chemotaxis in these processes it is necessary to quantify the magnitude of the response and compare it to other groundwater processes that affect the fate and transport of bacteria. We present a systematic approach toward quantifying the chemotactic response of bacteria in laboratory scale experiments by starting with simple, well-defined systems and gradually increasing their complexity. Swimming properties of individual cells were assessed from trajectories recorded by a tracking microscope. These properties were used to calculate motility and chemotaxis coefficients of bacterial populations in bulk aqueous media which were compared to experimental results of diffusion studies. Then effective values of motility and chemotaxis coefficients in single pores, pore networks and packed columns were analyzed. These were used to estimate the magnitude of the chemotactic response in porous media and to compare with dispersion coefficients reported in the field. This represents a compilation of many studies over a number of years. While there are certainly limitations with this approach for ultimately quantifying motility and chemotaxis in granular aquifer media, it does provide insight into what order of magnitude responses are possible and which characteristics of the bacteria and media are expected to be important.

Advances in Water Resources↗
USGS2013

Cutthroat trout virus as a surrogate in vitro infection model for testing inhibitors of hepatitis E virus replication

Hepatitis E virus (HEV) is one of the most important causes of acute hepatitis worldwide. Although most infections are self-limiting, mortality is particularly high in pregnant women. Chronic infections can occur in transplant and other immune-compromised patients. Successful treatment of chronic hepatitis E has been reported with ribavirin and pegylated interferon-alpha, however severe side effects were observed. We employed the cutthroat trout virus (CTV), a non-pathogenic fish virus with remarkable similarities to HEV, as a potential surrogate for HEV and established an antiviral assay against this virus using the Chinook salmon embryo (CHSE-214) cell line. Ribavirin and the respective trout interferon were found to efficiently inhibit CTV replication. Other known broad-spectrum inhibitors of RNA virus replication such as the nucleoside analog 2′-C-methylcytidine resulted only in a moderate antiviral activity. In its natural fish host, CTV levels largely fluctuate during the reproductive cycle with the virus detected mainly during spawning. We wondered whether this aspect of CTV infection may serve as a surrogate model for the peculiar pathogenesis of HEV in pregnant women. To that end the effect of three sex steroids on in vitro CTV replication was evaluated. Whereas progesterone resulted in marked inhibition of virus replication, testosterone and 17β-estradiol stimulated viral growth. Our data thus indicate that CTV may serve as a surrogate model for HEV, both for antiviral experiments and studies on the replication biology of the Hepeviridae.

Antiviral Research↗
USGS2009

A survey of the occurrence of Bacillus anthracis in North American soils over two long-range transects and within post-Katrina New Orleans

Soil samples were collected along a north-south transect extending from Manitoba, Canada, to the US-Mexico border near El Paso, Texas in 2004 (104 samples), a group of sites within New Orleans, Louisiana following Hurricane Katrina in 2005 (19 samples), and a Gulf Coast transect extending from Sulphur, Louisiana, to DeFuniak Springs, Florida, in 2007 (38 samples). Samples were collected from the top 40 cm of soil and were screened for the presence of total Bacillus species and Bacillus anthracis (anthrax), specifically using multiplex-polymerase chain reaction (PCR). Using an assay with a sensitivity of ???170 equivalent colony-forming units (CFU) g -1 field moist soil, the prevalence rate of Bacillus sp./B. anthracis in the north-south transect and the 2005 New Orleans post-Katrina sample set were 20/5% and 26/26%, respectively. Prevalence in the 2007 Gulf Coast sample set using an assay with a sensitivity of ???4 CFU g -1 of soil was 63/0%. Individual transect-set data indicate a positive relation between occurrences of species and soil moisture or soil constituents (i.e., Zn and Cu content). The 2005 New Orleans post-Katrina data indicated that B. anthracis is readily detectable in Gulf Coast soils following flood events. The data also indicated that occurrence, as it relates to soil chemistry, may be confounded by flood-induced dissemination of germinated cells and the mixing of soil constituents for short temporal periods following an event.

Applied Geochemistry↗
USGS2009

Size and elemental distributions of nano- to micro-particulates in the geochemically-stratified Great Salt Lake

The characterization of trace elements in terms of their apportionment among dissolved, macromolecular, nano- and micro-particulate phases in the water column of the Great Salt Lake carries implications for the potential entry of toxins into the food web of the lake. Samples from the anoxic deep and oxic shallow brine layers of the lake were fractionated using asymmetric flow field-flow fractionation (AF4). The associated trace elements were measured via online collision cell inductively-coupled plasma mass spectrometry (CC-ICP-MS). Results showed that of the total (dissolved + particulate) trace element mass, the percent associated with particulates varied from negligible (e.g. Sb), to greater than 50% (e.g. Al, Fe, Pb). Elements such as Cu, Zn, Mn, Co, Au, Hg, and U were associated with nanoparticles, as well as being present as dissolved species. Particulate-associated trace elements were predominantly associated with particulates larger than 450 nm in size. Among the smaller nanoparticulates (<450 nm), some trace elements (Ni, Zn, Au and Pb) showed higher percent mass (associated with nanoparticles) in the 0.9-7.5 nm size range relative to the 10-250 nm size range. The apparent nanoparticle size distributions were similar between the two brine layers; whereas, important differences in elemental associations to nanoparticles were discerned between the two layers. Elements such as Zn, Cu, Pb and Mo showed increasing signal intensities from oxic shallow to anoxic deep brine, suggesting the formation of sulfide nanoparticles, although this may also reflect association with dissolved organic matter. Aluminum and Fe showed greatly increased concentration with depth and equivalent size distributions that differed from those of Zn, Cu, Pb and Mo. Other elements (e.g. Mn, Ni, and Co) showed no significant change in signal intensity with depth. Arsenic was associated with <2 nm nanoparticles, and showed no increase in concentration with depth, possibly indicating dissolved arsenite. Mercury was associated with <2 nm nanoparticles, and showed greatly increased concentration with depth, possibly indicating association with dissolved organic matter. ?? 2009 Elsevier Ltd.

Applied Geochemistry↗
USGS2009

Aroclor 1248 exposure leads to immunomodulation, decreased disease resistance and endocrine disruption in the brown bullhead, Ameiurus nebulosus

The brown bullhead Ameiurus nebulosus is a species of the family Ictaluridae commonly used as a sentinel of environmental contamination. While these fish have been utilized for this purpose in areas contaminated with polychlorinated biphenyls (PCBs), few controlled, laboratory-based studies have been designed to document the effects of PCB mixtures in this species. Here, brown bullhead were exposed to the PCB mixture, Aroclor 1248, via intraperitoneal injection and the effects on immune function, plasma hormones and disease resistance were evaluated. Exposure to this mixture led to a decrease in bactericidal activity and circulating antibodies to Edwardsiella ictaluri present from a previous exposure to this pathogen. A subsequent E. ictaluri disease challenge led to significantly higher mortality in A1248 treated fish compared to vehicle-control fish. The mitogenic response to the T-cell mitogen, phytohemaglutinin-P, was increased compared to vehicle-control fish. The steroid hormone, cortisol, and the thyroid hormone, T3, were also significantly lower in A1248 exposed fish. In summary, we have validated a number of functional immune assays for application in brown bullhead immunotoxicity studies. Additionally, we have demonstrated that the PCB mixture (A1248) modulates both immune function and endocrine physiology in brown bullhead. Such data may compliment the interpretation of data yielded from applied field studies conducted in PCB contaminated aquatic ecosystems.

Aquatic Toxicology↗