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USGS2020

Determination of arsenic and selenium in whole fish by continuous-flow hydride generation atomic absorption spectrophotometry

A combined wet chemical and dry ash digestion and use of a continuous- flow hydride generator coupled with a flame-heated quartz cell enabled the simple, precise, and highly automated atomic absorption determination of arsenic and selenium in tissues of whole fish. Percent relative standard deviation averaged 4% for each element; method detection limits (μg/g dry wt) were about 0.06 for arsenic and 0.04 for selenium. Digestion of samples proceeded with little operator attention and without perchloric acid. Analysis for arsenic as As(V) simplified sample preparation but care had to be exercised to avoid interferences from high concentrations of selenium.

Journal of the Association of Official Analytical ↗

USGS1971

Visceral granuloma in brook trout (Salvelinus fontinalis)

Brook trout were fed a synthetic diet with suspect diet components added or a meat-meal diet with individual components removed to determine their effect on the incidence of visceral granuloma. Removal or addition of cottonseed meal had the greatest effect on incidence. Gossypol was not the causative agent. The disease is characterized, histologically, by the presence of Langhans-type giant cells and concretions like Schaumann bodies giving an apparent similarity to sarcoidosis in humans. Gross symptoms of the disease are papillary growths of connective tissue on the serosal surface of the stomach, and calcification of the posterior kidney. In severe cases, lesions may be present throughout the visceral mass. Visceral granuloma is similar to nephrocalcinosis in rainbow trout and may be the same disease modified by difference in species response.

Journal of Nutrition↗

USGS1969

Coexisting amphiboles from blueschist facies metamorphic rocks

Four pairs of associated calcic and sodic amphiboles from blueschist facies metamorphic rocks were analyzed with the electron microprobe and studied by single-crystal X-ray diffraction techniques. Except for ranges in the ratios Mg/(Mg+Fe) and Fe 3+ /(Fe 3+ +Al+Ti), the sodic amphiboles are similar in chemical composition. The amount of calcium in the M(4)-site ranges only from 0·18 to 0·21 ion per formula unit. The calcic amphiboles, in addition to a range in Mg/(Mg+Fe), vary in Na/(Na+Ca) ratio (0·29–0·48). Three of the calcic amphiboles contain less than 1·5 calcium ions per formula unit, indicating a significant solid solution of sodic amphibole components in the calcic amphibole phase. The a and b unit-cell parameters of the calcic amphiboles decrease with increased content of the sodic component.

Journal of Petrology↗

USGS1973

Phase relations of basalts in their melting range at PH2O = 5 kb as a function of oxygen fugacity: Part I. Mafic phases

The phase relations of three basalts, the Picture Gorge tholeiite, the 1921 Kilauea olivine tholeiite, and the 1801 Hualalai alkali basalt, were studied at 5 kb water pressure, 680–1000°C, at the oxygen fugacities of the quartz-fayalite-magnetite (QFM) and hematite-magnetite (HM) buffers. In the range 680–850 °C, the crystalline assemblage on the QFM buffer is dominantly hornblende+ plagioclase, ± ilmenite, magnetite, sphene, fayalitic olivine, and phlogopitic mica. From 875 to 1000 °C the crystalline assemblage is hornblende+ olivine± augite+ ilmenite± magnetite. A melt phase is present from 700 to 1000 °C; a vapor phase was present in all charges. The hornblendes formed on the QFM buffer range in composition from common green hornblendes at low temperatures to kaersutitic hornblendes at 1000 °C. A1(IV) and Ti increase temperature. AI(VI) passes through a maximum near 825 °C, decreasing both above and below this temperature. AI(IV) is proportional to the sum A1(VI)+2Ti. There is a positive linear correlation of approximately 3 : 1 between AI(IV) and the number of cations in the A-site. The most likely explanation for this correlation at present is that the substitution of AI(VI) or Ti +4 for a divalent cation creates local charge imbalances in the amphibole structure which can be compensated only by further A-site substitution. There also appears to be a correlation between the a-cell dimension of hornblende and the A-site occupancy. Above a thresh hold value of approxmately 0.5 cations in A, a increases as A-site occupancy increases. Phase relations on the hematite-magnetite buffer are considerably simpler. The hornblendes show relatively little change in composition as temperature increases, and in the tholelitic compositions break down at or below 970 °C 35–60 °C above the first appearance of augite±olivine. The melting of hornblende is incongruent in all cases. The Fe-Ti oxides are pseudo-brookite and titanohematite; at 1000 °C these oxides make up 10 per cent by weight of the assemblage and contain most of the Tio 2 and FeO in the charge. The patterns of hornblende variation observed in this study compare closely with those reported in a wide range of experimental and field data. The appearance of high-TiO 2 kaersutitic hornblendes in the tholeities at 1000° C, P H2O = 5 kb on the QFM buffer implies that the restricted occurence of kaersutite in nature (where it is associated only with mafic to intermediate alkalic rocks) is controlled by volatile content (H 2 O , F 2 )rather than by differences in condensed bulk composition.

Journal of Petrology↗

USGS1973

Oxidation during magmatic differentiation, Finnmarka Complex, Oslo area, Norway: Part 2, the mafic silicates

Electron-microprobe analyses are presented for pyroxene, amphibole, and biotite from monzonite, granodiorite, and granite at Finnmarka, Norway. Compositional trends measured in biotite, present in all three rock types, and in amphibole, present in the monzonite and granodiorite, are markedly atypical and are interpreted as reflecting crystallization under progressively more oxidizing conditions. The average Fe/Fe + Mg for biotites from successively more silicic rock types changes from 0.64 → 0.35 → 0.28, and for amphiboles changes from 0.58 in the monzonite to 0.29 in the granodiorite. Analyses of selected areas within amphibole grains in the granodiorite show marked chemical variations, although single-crystal X-ray photographs are sharp and do not reveal multiple phases. On the basis of 33 such analyses, four coupled substitutions are identified as operative; the most unusual finding is the relation of 1 Ti cation to 4 Al IV cations in the unit cell. Variations within individual amphibole grains of the granodiorite resemble changes noted in evolution of amphibole composition from monzonite to granodiorite and are interpreted as reflecting progressive oxidation. Consideration of these data for the mafic silicates, data for the opaque oxides, and the extensive formation of sphene in the granodiorite, has allowed development of schematic reactions and an overall picture of magmatic environment and evolution at Finnmarka. Crystallization apparently took place at PH 2 o of 1000 bars or less and a temperature of about 700 °C. The trend of oxidation during differentiation is more extreme than any heretofore reported. Amphiboles, as well as biotites, may participate in oxidation reactions and may reflect the oxidation-reduction processes that occurred during magmatic evolution.

Oslo↗

USGS1962

Stability relations of the ferruginous biotite, annite

Annite , KFe 3 AISi 3 O 10 (OH) 2 a member of the iron biotites and the ferrous analogue of phlogopite, has been synthesized and its phase relations have been determined as functions of temperature, fugacity of oxygen (fo 2 ), and total pressure (P total ≈PH 2 O+PH 2 ). A method for controlling fo 2 at high total pressures is described, and data for the 'oxygen buffers' used are given. Buffers range from quartz+iron+fayalite assemblages (low fo 2 ) to magnetite-hematite assemblages (high fo 2 ). Optical properties and unit-cell dimensions of synthetic annites depend on the conditions of synthesis.By recalculating published analyses of natural iron-rich biotites it can be shown that one cannot assume a constant hydrogen content for such biotites. Oxidation may have occurred by drying at 115°C. Octahedral occupancy therefore cannot be calculated from such data.Phase relations of annite are presented in 2,070 and 1,035 bar sections. Depending on fo 2 -T values annite was found to decompose to one of the following assemblages: hematite+ sanidine, magnetite+sanidine, fayalite+leucite+kalsilite, iron+sanidine. All decompositions are dehydration and redox reactions and are sensitive to changes in fH 2 0 and fo 2 (or fH 2 0 and fH 2 ). At 2, 070 bars total pressure annite +magnetite+sanidine can coexist between 425°C and 825° C, depending upon the magnitude of fo 2 .In the presence of quartz the stability field of annite is more restricted. Phase equilibria in the system KAlSiO 4 -SiO 2 -Fe-O 2 -H 2 have been summarized schematically.Wherever possible, thermodynamic extrapolations are made to test the internal consistency of the data. Enthalpies of formation are calculated for both annite and phlogopite. Ranges of fo 2 values in nature as well as mechanisms for changes in fo 2 are investigated. It is useful to distinguish between assemblages which are internally buffered with respect to fo 2 changes and those which are not buffered. The applications of individual reactions involving annite to specific geologic problems are discussed with respect to igneous, metamorphic, and sedimentary rocks.

Journal of Petrology↗

USGS1968

Alkali amphiboles from the blueschists of Cazadero, California

Alkali amphiboles from Type III and Type IV metamorphic zones in blueschist facies rocks of Cazadero, California, and from comparable New Caledonian rocks have been characterized by X-ray crystallographic, optical, and chemical methods. The composition of any particular alkali amphibole is strongly controlled by the bulk composition of the host rock. Within the blueschist facies, metamorphic zones are not characterized by changes in amphibole composition. All the alkali amphiboles studied herein belong to the C2/m space group and complete miscibility between glaucophane and riebeckite has been demonstrated for the conditions prevailing during metamorphism in the Cazadero and New Caledonian blueschists. Linear relationships are found between unit-cell dimensions and variations in composition between glaucophane and riebeckite. The alkali amphiboles of glaucophane compositions belong to the high pressure-low temperature series, glaucophane II-riebeckite. Limited miscibility of actinolite in glaucophane may be characteristic of blueschist facies metamorphism.

California↗

USGS1968

Article navigation zonal distribution of variations in structural state of alkali feldspar within the Rader Creek pluton, Boulder Batholith, Montana

The granodioritic Rader Creek pluton of the composite Boulder batholith contains microperthitic alkali feldspar of bulk composition Or 65 to Or 86 with a structurally variable potassic phase. Complete cell parameters, 2V measurements, and bulk composition are given for 11 feldspar samples. The 131 and 131 reflections for these and 58 additional samples show the following structural types in the potassic phase: orthoclase only; orthoclase with subordinate maximum or near-maximum microcline (obliquity = 0.75–1.00); orthoclase with subordinate intermediate microcline (obliquity = 0.64–0.71); and intermediate microcline (obliquity = 0.56–0.77) with subordinate orthoclase. Within the pluton different feldspar structural types occur in zones whose boundaries are approximately parallel to contacts with younger intrusive rocks cutting the Rader Creek pluton but are, in places, nearly perpendicular to zonation within the pluton defined by rock composition. In general, the orthoclase zone is closest to the contact with younger intrusives; the intermediate microcline zone is the most distant. Bulk compositions of alkali feldspar are more potassic in the orthoclase zone than elsewhere. The data suggest a complex history for the alkali feldspar, involving at least two stages: 1. Exsolution and partial inversion of orthoclase to intermediate microcline during cooling of the Rader Creek pluton; 2. Transformation of the intermediate-microcline assemblage to orthoclase during reheating of the pluton at the time of intrusion of younger plutons of the batholith. The transitional stage in this transformation is characterized by orthoclase co-existing with subordinate microcline, whose obliquity usually approaches that of maximum microcline.

Montana↗

USGS2003

A mechanism for offshore initiation of harmful algal blooms in the coastal Gulf of Maine

A combination of observations and model results suggest a mechanism by which coastal blooms of the toxic dinoflagellate Alexandrium fundyense can be initiated from dormant cysts located in offshore sediments. The mechanism arises from the joint effects of organism behavior and the wind-driven response of a surface-trapped plume of fresh water originating from riverine sources. During upwelling-favorable winds, the plume thins vertically and extends offshore; downwelling winds thicken the plume and confine it to the nearshore region. In the western Gulf of Maine, the offshore extent of the river plume during upwelling conditions is suffcient to entrain upward-swimming A. fundyense cells germinated from offshore cyst beds. Subsequent downwelling conditions then transport those populations towards the coast.

Journal of Plankton Research↗

USGS2026

ENSO and PDO drive shoreline position anomalies in the U.S. Pacific Northwest

Sandy beaches act as buffers against various coastal hazards but are vulnerable to episodic (seasonal) and chronic (interannual) erosion. Understanding the variation of shoreline position, a key metric in coastal morphology, over a spectrum of time scales is therefore crucial in assessing hazard vulnerability. Long-standing research has investigated the role of El Niño-Southern Oscillation (ENSO), the dominant mode of climate variability in the Pacific Basin, in seasonal shoreline variability. Yet, ENSO’s chronic influence—and that of another Pacific climate mode, the Pacific Decadal Oscillation (PDO)—on shoreline anomalies remains poorly understood. Here, we examine the variability of sandy beaches in the US Pacific Northwest, a ∼750 km long coastal region on the US West Coast. We leverage 40 years (1984–2024) of shoreline data from publicly available Earth-observing (Landsat) satellite imagery at a high spatial resolution (>10,000 shore-normal transects at 50-m alongshore spacing) and employ Convergent Cross Mapping (CCM), a methodology for inferring causality in dynamical systems. We discover that strong El Niño years are signified by erosion (75.1% of transects), and strong La Niña years exhibit accretional behavior (73.4% of transects). Furthermore, we establish, for the first time, that both ENSO and PDO exert a statistically significant control on interannual shoreline variability, particularly on the alongshore component (in 95 and 100% of littoral cells, respectively), with water level fluctuations playing a critical role. This effort advances our understanding of the seasonal-to-interannual interactions between Pacific Basin climate variability and the PNW’s coastal morphodynamics, with implications for sediment management and coastal adaptation.

California, Oregon, Washington↗

USGS1994

A toxic equivalency factor scale for polychlorinated dibenzofurans

The ethoxyresorufin O -deethylase (EROD) induction of 20 polychiorinated dibenzofurans (PCDFs) was examined in the H4IIE rat hepatoma cell bioassay. The selection of the compounds tested was based on a multivariate chemical characterization laying the groundwork for covering the whole chemical series of PCDFs. The EROD induction potency was found to vary in ED50 values from 25 to 100,000,000 pg/mg, i.e., nearly seven orders of magnitude. The response of the bioassay was calibrated against the 2,3,7,8-tetrachlorodibenzo- p -dioxin, enabling the corresponding toxic equivalency factors (TEFs) to be calculated. In order to establish a quantitative structure-activity relationship (QSAR) for the TEF values, 37 physicochemical descriptor variables were used to chemically characterize the 87 tetra- to octachlorinated PCDFs. Using partial least-squares modeling on a training set of 10 congeners, a QSAR model with sound predictive power was obtained. The QSAR model was validated with a validation set of additional 10 congeners. The predicted TEFs indicate that a large number of congeners are potent EROD inducers.

Toxicological Sciences↗

USGS2003

Fungal biology and agriculture: revisiting the field

Plant pathology has made significant progress over the years, a process that involved overcoming a variety of conceptual and technological hurdles. Descriptive mycology and the advent of chemical plant-disease management have been followed by biochemical and physiological studies of fungi and their hosts. The later establishment of biochemical genetics along with the introduction of DNA-mediated transformation have set the stage for dissection of gene function and advances in our understanding of fungal cell biology and plant-fungus interactions. Currently, with the advent of high-throughput technologies, we have the capacity to acquire vast data sets that have direct relevance to the numerous subdisciplines within fungal biology and pathology. These data provide unique opportunities for basic research and for engineering solutions to important agricultural problems. However, we also are faced with the challenge of data organization and mining to analyze the relationships between fungal and plant genomes and to elucidate the physiological function of pertinent DNA sequences. We present our perspective of fungal biology and agriculture, including administrative and political challenges to plant protection research.

Molecular Plant-Microbe Interactions↗

USGS2011

Incidence of adult brain cancers is higher in countries where the protozoan parasite Toxoplasma gondii is common

We explored associations between the common protozoan parasite Toxoplasma gondii and brain cancers in human populations. We predicted that T. gondii could increase the risk of brain cancer because it is a long-lived parasite that encysts in the brain, where it provokes inflammation and inhibits apoptosis. We used a medical geography approach based on the national incidence of brain cancers and seroprevalence of T. gondii . We corrected reports of incidence for national gross domestic product because wealth probably increases the ability to detect cancer. We also included gender, cell phone use and latitude as variables in our initial models. Prevalence of T. gondii explained 19 per cent of the residual variance in brain cancer incidence after controlling for the positive effects of gross domestic product and latitude among nations. Infection with T. gondii was associated with a 1.8-fold increase in the risk of brain cancers across the range of T. gondii prevalence in our dataset (4–67%). These results, though correlational, suggest that T. gondii should be investigated further as a possible oncogenic pathogen of humans.

Biology Letters↗

USGS2012

Tissue loss (white syndrome) in the coral Montipora capitata is a dynamic disease with multiple host responses and potential causes

Tissue loss diseases or white syndromes (WS) are some of the most important coral diseases because they result in significant colony mortality and morbidity, threatening dominant Acroporidae in the Caribbean and Pacific. The causes of WS remain elusive in part because few have examined affected corals at the cellular level. We studied the cellular changes associated with WS over time in a dominant Hawaiian coral, Montipora capitata , and showed that: (i) WS has rapidly progressing (acute) phases mainly associated with ciliates or slowly progressing (chronic) phases mainly associated with helminths or chimeric parasites; (ii) these phases interchanged and waxed and waned; (iii) WS could be a systemic disease associated with chimeric parasitism or a localized disease associated with helminths or ciliates; (iv) corals responded to ciliates mainly with necrosis and to helminths or chimeric parasites with wound repair; (v) mixed infections were uncommon; and (vi) other than cyanobacteria, prokaryotes associated with cell death were not seen. Recognizing potential agents associated with disease at the cellular level and the host response to those agents offers a logical deductive rationale to further explore the role of such agents in the pathogenesis of WS in M. capitata and helps explain manifestation of gross lesions. This approach has broad applicability to the study of the pathogenesis of coral diseases in the field and under experimental settings.

Proceedings of the Royal Society B: Biological Sci↗

USGS2016

Multiple rod–cone and cone–rod photoreceptor transmutations in snakes: Evidence from visual opsin gene expression

In 1934, Gordon Walls forwarded his radical theory of retinal photoreceptor ‘transmutation’. This proposed that rods and cones used for scotopic and photopic vision, respectively, were not fixed but could evolve into each other via a series of morphologically distinguishable intermediates. Walls' prime evidence came from series of diurnal and nocturnal geckos and snakes that appeared to have pure-cone or pure-rod retinas (in forms that Walls believed evolved from ancestors with the reverse complement) or which possessed intermediate photoreceptor cells. Walls was limited in testing his theory because the precise identity of visual pigments present in photoreceptors was then unknown. Subsequent molecular research has hitherto neglected this topic but presents new opportunities. We identify three visual opsin genes, rh1 , sws1 and lws , in retinal mRNA of an ecologically and taxonomically diverse sample of snakes central to Walls' theory. We conclude that photoreceptors with superficially rod- or cone-like morphology are not limited to containing scotopic or photopic opsins, respectively. Walls' theory is essentially correct, and more research is needed to identify the patterns, processes and functional implications of transmutation. Future research will help to clarify the fundamental properties and physiology of photoreceptors adapted to function in different light levels.

Proceedings of the Royal Society B↗

USGS1981

Tonalites in crustal evolution

Tonalites, including trondhjemite as a variety, played three roles through geological time in the generation of Earth’s crust. Before about 2.9 Ga ago they were produced largely by simple partial melting of metabasalt to give the dominant part of Archaean grey gneiss terranes. These terranes are notably bimodal; andesitic rocks are rare. Tonalites played a crucial role in the generation of this protocontinental and oldest crust 3.7- 2.9 Ga ago in that they were the only low-density, high-SiO 2 rocks produced directly from basaltic crust. In the enormous event giving the greenstone-granite terranes, mostly 2.8-2.6 Ga ago, tonalites formed in lesser but still important proportions by partial melting of metabasalt in the lower regions of down-buckled greenstone belts and by remobilization of older grey gneisses. Tectonism in the Archaean (3.9- 2.5 Ga ago) perhaps was controlled by small-cell convection (McKenzie & Weiss 1975). Little or no ophiolite or eclogite formed, and only minor andesite. Plate tectonics of modern type (involving large, rigid plates) commenced in the early Proterozoic. Uniformitarianism thus goes back one-half of the age of the earth. Tonalites compose about 5-10 % of crust generated in Proterozoic and Phanerozoic time at convergent oceanic-continental margins. They occur here as minor to prominent members of the compositionally continuous continental-margin batholiths. A simple model of generation of these batholiths is offered: mantle-derived mafic magma pools in the lower crust above a subduction zone reacts with and incorporates wall-rock components (Bowen 1922), and breaches its roof rocks as an initial diapir. This mantle magma also develops a gradient of partial melting in its wall rocks. This wall-rock melt accretes in the collapsed chamber and moves up the conduit broached by the initial diapir, the higher, less siliceous fractions of melting first, the lower, more siliceous (and further removed) fractions of melting last. The process gives in the optimum case a mafic-to-siliceous sequence of diorite or quartz diorite through tonalite or quartz monzodiorite to granodiorite and granite. The model implies that great masses of cumulate phases and refractory wall rock form the roots of continentalmargin batholiths, and that migmatites overlie that residuum and underlie the batholiths.

Philosophical Transactions of the Royal Society A:↗

USGS2013

The PRISM (Pliocene Palaeoclimate) reconstruction: Time for a paradigm shift

Global palaeoclimate reconstructions have been invaluable to our understanding of the causes and effects of climate change, but single-temperature representations of the oceanic mixed layer for data–model comparisons are outdated, and the time for a paradigm shift in marine palaeoclimate reconstruction is overdue. The new paradigm in marine palaeoclimate reconstruction stems the loss of valuable climate information and instead presents a holistic and nuanced interpretation of multi-dimensional oceanographic processes and responses. A wealth of environmental information is hidden within the US Geological Survey's P liocene R esearch, I nterpretation and S ynoptic M apping (PRISM) marine palaeoclimate reconstruction, and we introduce here a plan to incorporate all valuable climate data into the next generation of PRISM products. Beyond the global approach and focus, we plan to incorporate regional climate dynamics with emphasis on processes, integrating multiple environmental proxies wherever available in order to better characterize the mixed layer, and developing a finer time slice within the Mid-Piacenzian Age of the Pliocene, complemented by underused proxies that offer snapshots into environmental conditions. The result will be a proxy-rich, temporally nested, process-oriented approach in a digital format - a relational database with geographic information system capabilities comprising a three-dimensional grid representing the surface layer, with a plethora of data in each cell.

Philosophical Transactions of the Royal Society A:↗

USGS1997

Desulfuromonas thiophila sp. nov., a new obligately sulfur-reducing bacterium from anoxic freshwater sediment

A mesophilic, acetate-oxidizing, sulfur-reducing bacterium, strain NZ27(T), was isolated from anoxic mud from a freshwater sulfur spring. The cells were ovoid, motile, and gram negative. In addition to acetate, the strain oxidized pyruvate, succinate, and fumarate. Sulfur flower could be replaced by polysulfide as an electron acceptor. Ferric nitrilotriacetic acid was reduced in the presence of pyruvate; however, this reduction did not sustain growth. These phenotypic characteristics suggested that strain NZ27(T) is affiliated with the genus Desulfuromonas. A phylogenetic analysis based on the results of comparative 16S ribosomal DNA sequencing confirmed that strain NZ27(T) belongs to the Desulfuromonas cluster in the recently proposed family 'Geobacteraceae' in the delta subgroup of the Proteobacteria. In addition, the results of DNA-DNA hybridization studies confirmed that strain NZ27(T) represents a novel species. Desulfuromonas thiophila, a name tentatively used in previous publications, is the name proposed for strain NZ27(T) in this paper.

International Journal of Systematic Bacteriology↗