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At least 505 records · Page 28Linked to original sources

Approaches to the simulation of unconfined flow and perched groundwater flow in MODFLOW

Various approaches have been proposed to manage the nonlinearities associated with the unconfined flow equation and to simulate perched groundwater conditions using the MODFLOW family of codes. The approaches comprise a variety of numerical techniques to prevent dry cells from becoming inactive and to achieve a stable solution focused on formulations of the unconfined, partially-saturated, groundwater flow equation. Keeping dry cells active avoids a discontinuous head solution which in turn improves the effectiveness of parameter estimation software that relies on continuous derivatives. Most approaches implement an upstream weighting of intercell conductance and Newton-Raphson linearization to obtain robust convergence. In this study, several published approaches were implemented in a stepwise manner into MODFLOW for comparative analysis. First, a comparative analysis of the methods is presented using synthetic examples that create convergence issues or difficulty in handling perched conditions with the more common dry-cell simulation capabilities of MODFLOW. Next, a field-scale three-dimensional simulation is presented to examine the stability and performance of the discussed approaches in larger, practical, simulation settings.

Ground Water↗

Gene transcription in sea otters (Enhydra lutris); development of a diagnostic tool for sea otter and ecosystem health

Gene transcription analysis for diagnosing or monitoring wildlife health requires the ability to distinguish pathophysiological change from natural variation. Herein, we describe methodology for the development of quantitative real-time polymerase chain reaction (qPCR) assays to measure differential transcript levels of multiple immune function genes in the sea otter ( Enhydra lutris ); sea otter-specific qPCR primer sequences for the genes of interest are defined. We establish a ‘reference’ range of transcripts for each gene in a group of clinically healthy captive and free-ranging sea otters. The 10 genes of interest represent multiple physiological systems that play a role in immuno-modulation, inflammation, cell protection, tumour suppression, cellular stress response, xenobiotic metabolizing enzymes, antioxidant enzymes and cell–cell adhesion. The cycle threshold (C T ) measures for most genes were normally distributed; the complement cytolysis inhibitor was the exception. The relative enumeration of multiple gene transcripts in simple peripheral blood samples expands the diagnostic capability currently available to assess the health of sea otters in situ and provides a better understanding of the state of their environment.

Molecular Ecology Resources↗

Accuracy of histology, endoscopy, ultrasonography, and plasma sex steroids in describing the population reproductive structure of hatchery-origin and wild white sturgeon

Hatchery-origin white sturgeon Acipenser transmontanus in the lower Columbia River, Canada are approaching puberty, and describing the reproductive structure of the population is critical to determine if they are capable of contributing to spawning events in the wild, a key management uncertainty. Few studies have compared the accuracy of available tools (histology, ultrasound, endoscopy, and plasma sex steroids) used to assign sex and stage of maturity within the same population of prepubertal and post-pubertal sturgeon. Population reproductive structure was described using these tools in 332 hatchery-origin and 75 wild individuals over 2 years (2017 and 2018). True sex was determined using histological analysis of gonadal tissue, which is 100% accurate at assigning sex and stage of maturity in fish when germ cells are present in the biopsy. All hatchery-origin fish assessed had not reached puberty and were pre-meiotic males ( n = 158) or pre-vitellogenic females ( n = 174). Assignment of true sex using histology was 97% in hatchery-origin and 94% in wild fish as several biopsies did not contain germ cells. Fish with gonadal biopsies that did not contain germ cells and intersex fish ( n = 3) were not included in further analyses of other tools. Accuracy in assigning sex to both the hatchery-origin (98%) and wild (100%) fish was highest using endoscopy (an otoscope). The other tools evaluated were less accurate, with 69% accuracy in hatchery-origin and 74% accuracy in wild fish for plasma sex steroids and 57% accuracy in hatchery-origin and 70% accuracy in wild fish for ultrasonography. Based on these results, endoscopy was the most reliable tool for assigning sex in both prepubertal and post-pubertal fish and can be easily complimented with histology when determining stage of maturity or describing population reproductive structure.

British Columbia, Washington↗

Fish viruses: Buffers and methods for plaquing eight agents under normal atmosphere

A universal procedure was sought for plaque assay of eight fish viruses (bluegill myxovirus, channel catfish virus, eel virus, Egtved virus, infectious hematopoietic necrosis virus, infectious pancreatic necrosis virus, lymphocystis virus, and the agent of spring viremia of carp ( Rhabdovirus carpio ), in dish cultures of various fish cells. Eagle minimal essential medium with sodium bicarbonate-CO 2 buffer (Earle’s salt solution) was compared with minimal essential medium buffered principally with tris (hydroxymethyl)aminomethane or N -2-hydroxyethylpiperazine-N′-2′-ethanesulfonic acid at a pH or in the range of 7.6 to 8.0 depending upon temperature. Five fish cell lines collectively capable of replicating all fish viruses thus far isolated were tested and quantitatively found to grow comparably well in the three media. Two-phase (gel-liquid) media incorporating the various buffer systems allowed plaquing at 15 to 33 C either in partial pressures of CO 2 or in normal atmosphere, but greater efficiency and sensitivity were obtained with the organic buffers, and, overall, the best results were obtained with tris(hydroxymethyl)aminomethane. Epizootiological data, specific fish cell line response, and plaque morphology permit presumptive identification of most of the agents. At proper pH, use of organic buffers obviates the need for CO 2 incubators.

Applied Microbiology↗

Detection and identification of aquatic birnaviruses by PCR assay

A reverse transcriptase polymerase chain reaction (RT-PCR) assay was developed for the detection and identification of aquatic birnaviruses. The four sets of primers (PrA, PrB, PrC, and PrD) that we used are specific for regions of cDNA coded by genome segment A of aquatic birnaviruses. PrA identifies a large fragment (1,180 bp) within the pVP2-coding region, and PrB identifies a 524-bp fragment within the sequence amplified by PrA. Primer set PrC frames a genome fragment (339 bp) within the NS-VP3-coding region, and PrD identifies a 174-bp sequence within the fragment identified by PrC. PrB and PrD amplified cDNAs from all nine recognized serotypes of aquatic birnavirus serogroup A as well as the N1 isolate that may represent a 10th serotype. These results indicate that these three primer sequences are highly conserved and can be used in PCR assays for group identification of these viruses. PrA routinely produced amplification products from eight serotypes but exhibited variable results with one serotype, and primer PrC identified 6 of the 11 virus isolates tested. The qualitative sensitivity of the RT-PCR assay was evaluated by comparison of the results with those of cell culture isolation assays. With the exception of one sample, the RT-PCR assay with primer PrD was as accurate as cell culture isolation for detecting virus in kidney and spleen tissues from naturally infected, asymptomatic carrier fish. These results indicate that the RT-PCR assay can be a rapid and reliable substitute for cell culture methods for the detection of aquatic birnaviruses.

Journal of Clinical Microbiology↗

Herpesvirus salmonis: Characterization of a new pathogen of rainbow trout

A new agent, provisionally designated Herpesvirus salmonis , was isolated from post-spawning rainbow trout ( Salmo gairdneri ) and studied primarily in the RTG-2 rainbow trout cell line. Infection of RTG-2 cells resulted in the formation of syncytia and Cowdry type A intranuclear inclusions. Replication occurred regularly at 5 and 10°C, but was inconsistent at 15°C, largely inhibited at 0°C, and completely inhibited at 20°C or higher. The virus was acid, heat, ether, and chloroform labile, but stable to freezing and thawing. It did not hemagglutinate. Viral DNA had a buoyant density of 1.709 g/cm 3 and a guanine-cytosine value of 50%. Hexagonal nucleocapsids had a diameter of 90 nm and were first seen in nuclei at 36 h. Enveloped forms measured about 150 nm and occurred both cytoplasmically and extracellularly. At 10°C, a one-step growth culture required about 96 h; cell-associated virus peaked at about 10 5 PFU/ml and exceeded released virus by a factor of about 10.

Journal of Virology↗

Modeling rainfall conditions for shallow landsliding in Seattle, Washington

We describe the results from an application of a distributed, transient infiltration–slope-stability model for an 18 km 2 area of southwestern Seattle, Washington, USA. The model (TRIGRS) combines an infinite slope-stability calculation and an analytic, one-dimensional solution for pore-pressure diffusion in a soil layer of finite depth in response to time-varying rainfall. The transient solution for pore-pressure response can be superposed on any steady-state groundwater-flow field that is consistent with model assumptions. Applied over digital topography, the model computes a factor of safety for each grid cell at any time during a rainstorm. Input variables may vary from cell to cell, and the rainfall rate can vary in both space and time. For Seattle, topographic slope derived from an airborne laser swath mapping (ALSM)–based 3 m digital elevation model (DEM), maps of soil and water-table depths derived from geotechnical borings, and hourly rainfall intensities were used as model inputs. Material strength and hydraulic properties used in the model were determined from field and laboratory measurements, and a tension-saturated initial condition was assumed. Results are given in terms of a destabilizing intensity and duration of rainfall, and they were evaluated by comparing the locations of 212 historical landslides with the area mapped as potentially unstable. Because the equations of groundwater flow are explicitly solved with respect to time, the results from TRIGRS simulations can be portrayed quantitatively to assess the potential landslide hazard based on rainfall conditions.

Washington↗

The offshore export of sand during exceptional discharge from California rivers

Littoral cells along active tectonic margins receive large inputs of sand and gravel from coastal watersheds and commonly lose this sediment to submarine canyons. One hypothesis is that the majority of coarse (sand and gravel) river sediment discharge will be emplaced within and immediately “resupply” local littoral cells. A competing hypothesis is that the infrequent, large floods that supply the majority of littoral sediment may discharge water-sediment mixtures within negatively buoyant hyperpycnal plumes that transport sediment offshore of the littoral cell. Here we summarize pre- and post-flood surveys of two wave-dominated California (United States) river deltas during record to near-record floods to help evaluate these hypotheses: the 1982–1983 delta at the San Lorenzo River mouth and the 2005 delta at the Santa Clara River mouth. Flood sedimentation at both deltas resulted in several meters of aggradation and hundreds of meters of offshore displacement of isobaths. One substantial difference between these deltas was the thick (>2 m) aggradation of sand on the inner shelf of the Santa Clara River delta that contained substantial amounts (∼50%) of littoral-grade sediment. Once deposited on the inner shelf, only a fraction (∼20%) of this river sand was observed to migrate toward the beach over the following 5 yr. Furthermore, simple hypopycnal plume behavior could not explain deposition of this sand on the inner shelf. Thus, during an exceptional flood a substantial amount of littoral-grade sand was exported offshore of the littoral system at the Santa Clara River mouth—likely from hyperpycnal plume processes—and was deposited on the inner shelf.

California↗

Pathophysiology of infectious hematopoietic necrosis virus disease in rainbow trout (Salmo gairdneri): early changes in blood and aspects of the immune Response after Injection of IHN Virus

Juvenile rainbow trout ( Salmo gairdneri ) were injected with infectious hematopoietic necrosis (IHN) virus and various hematological and blood chemical changes were monitored over 9 days. The packed cell volume, hemoglobin, red blood cell count, and plasma bicarbonate were significantly depressed by day 4. Plasma chloride, calcium, phosphorus, total protein, and blood cell types did not change during the 9 days. Furthermore, plasma LDH isozyme was significantly increased by the fourth day, and fish infected with infectious pancreatic necrosis virus, Vibrio anguillarum , Aeromonas salmonicida , and redmouth bacterium did not show specific LDH isozyme alterations. Acid-base alterations occurred at 10 C but not at 18 C. The acid-base imbalance and elevation of the LDH isozyme were consistently associated with the early development of the disease.The immune response after injection of IHN virus was determined and protection from disease was tested by passive immunization. Actively immunized fish developed IHN-neutralizing antibodies within 54 days after injection of virus, and the antibodies were protective when juvenile fish were passively immunized and experimentally challenged with IHN virus.

Journal of the Fisheries Research Board of Canada↗

Vertical distribution of the chloromonad flagellate Heterosigma carterae in columns: Implications for bloom development

Blooms of the marine flagellate Heterosigma carterae have been associated with catastrophic fish kills at mariculture facilities around the world. The precise cause(s) of the sudden appearance and disappearance of Heterosigma surface blooms has not been completely described or understood. Environmental data from prior studies of blooms indicate the presence of vertical stratification of the water column that is often induced by freshwater runoff. We report the relatively rapid concentration of Heterosigma cells at the surface of tubes shortly after the addition of distilled water to the surface. This phenomenon of cell concentration in surface waters may partially explain the sudden appearance of Heterosigma cells near the surface and subsequent disappearance when vertical stratification is lost due to turbulence or mixing. The results may lead to bloom mitigation techniques for net pen aquaculture.

Canadian Journal of Fisheries and Aquatic Sciences↗

Accuracy of a pulse-coherent acoustic Doppler profiler in a wave-dominated flow

The accuracy of velocities measured by a pulse-coherent acoustic Doppler profiler (PCADP) in the bottom boundary layer of a wave-dominated inner-shelf environment is evaluated. The downward-looking PCADP measured velocities in eight 10-cm cells at 1 Hz. Velocities measured by the PCADP are compared to those measured by an acoustic Doppler velocimeter for wave orbital velocities up to 95 cm s-1 and currents up to 40 cm s-1. An algorithm for correcting ambiguity errors using the resolution velocities was developed. Instrument bias, measured as the average error in burst mean speed, is -0.4 cm s-1 (standard deviation = 0.8). The accuracy (root-mean-square error) of instantaneous velocities has a mean of 8.6 cm s-1 (standard deviation = 6.5) for eastward velocities (the predominant direction of waves), 6.5 cm s-1 (standard deviation = 4.4) for northward velocities, and 2.4 cm s-1 (standard deviation = 1.6) for vertical velocities. Both burst mean and root-mean-square errors are greater for bursts with ub ??? 50 cm s-1. Profiles of burst mean speeds from the bottom five cells were fit to logarithmic curves: 92% of bursts with mean speed ??? 5 cm s-1 have a correlation coefficient R2 > 0.96. In cells close to the transducer, instantaneous velocities are noisy, burst mean velocities are biased low, and bottom orbital velocities are biased high. With adequate blanking distances for both the profile and resolution velocities, the PCADP provides sufficient accuracy to measure velocities in the bottom boundary layer under moderately energetic inner-shelf conditions.

Journal of Atmospheric and Oceanic Technology↗

Meurigite, a new fibrous iron phosphate resembling kidwellite

Meurigite is a new hydrated potassium iron phosphate related to kidwellite and with structural similarities to other late-stage fibrous ferric phosphate species. It has been found at four localities so far — the Santa Rita mine, New Mexico, U.S.A.; the Hagendorf-Sud pegmatite in Bavaria, Germany; granite pegmatite veins at Wycheproof, Victoria, Australia; and at the Gold Quarry Mine, Nevada, U.S.A. The Santa Rita mine is the designated type locality. Meurigite occurs as tabular, elongated crystals forming spherical and hemispherical clusters and drusy coatings. The colour ranges from creamy white to pale yellow and yellowish brown. At the type locality, the hemispheres may reach 2 mm across, but the maximum diameter reached in the other occurrences is usually less than 0.5 mm. A wide variety of secondary phosphate minerals accompanies meurigite at each locality, with dufrenite, cyrilovite, beraunite, rockbridgeite and leucophosphite amongst the most common. Vanadates and uranates occur with meurigite at the Gold Quarry mine. Electron microprobe analysis and separate determination of H 2 O and CO 2 on meurigite from the type locality gave a composition for which several empirical formulae could be calculated. The preferred formula, obtained on the basis of 35 oxygen atoms, is which simplies Qualitative analyses only were obtained for meurigite from the other localities, due to the softness and openness of the aggregates. Because of the fibrous nature of meurigite, it was not possible to determine the crystal structure, hence the exact stoichiometry remains uncertain. The lustre of meurigite varies from vitreous to waxy for the Santa Rita mine mineral, to silky for the more open sprays and internal surfaces elsewhere. The streak is very pale yellow to cream and the estimated Mohs hardness is about 3. Cleavage is perfect on {001} and fragments from the type material have a mean specific gravity of 2.96. The strongest lines in the X-ray powder pattern for the type material are ( d obs , I obs , hkl ) 3.216(100)404; 4.84(90)111; 3.116(80)205; 4.32(70)112; 9.41(60)201; 3.470(60)800. The X-ray data were indexed on the basis of a monoclinic unit cell determined from electron diffraction patterns. The cell parameters, refined by least squares methods, are a = 29.52(4), b = 5.249(6), c = 18.26(1) Å, β = 109.27(7)°, V = 2672(3) Å 3 , and Z = 4. The calculated density is 2.89 gcm −3 . The space group is either C 2, Cm or C 2 / m . X-ray powder data for meurigite are closely similar to those for kidwellite and phosphofibrite, but meurigite appears to be characterised by a strong 14 Å reflection. The relationship between these three minerals remains uncertain in the absence of structural data. On the available evidence, meurigite and kidwellite are not the respective K and Na-endmembers of a solid solution series. The meurigite cell parameters suggest it belongs to a structural family of fibrous ferric phosphates, such as rockbridgeite, dufrenite and beraunite, which have a discrete 5 Å fibre axis. Meurigite occurs in widely varying environments, its formation probably favoured by late-stage solutions rich in K rather than Na.

Mineralogical Magazine↗

Ionoregulatory changes during metamorphosis and salinity exposure of juvenile sea lamprey (Petromyzon marinus L.)

Ammocoetes of the anadromous sea lamprey Petromyzon marinus L. spend many years in freshwater before metamorphosing and migrating to sea. Metamorphosis involves the radical transformation from a substrate-dwelling, filter feeder into a free-swimming, parasitic feeder. In the present work we examined osmoregulatory differences between ammocoetes and transformers (metamorphic juveniles), and the effects of salinity acclimation. We measured the expression of key ion-transporting proteins [Na+/K+-ATPase, vacuolar (V)-type H+-ATPase and carbonic anhydrase (CA)] as well as a number of relevant blood parameters (hematocrit, [Na+] and [Cl -]). In addition, immunofluorescence microscopy was used to identify and characterize the distributions of Na+/K+-ATPase, V-type H+-ATPase and CA immunoreactive cells in the gill. Ammocoetes did not survive in the experiments with salinities greater than 10???, whereas survival in high salinity (???25-35???) increased with increased degree of metamorphosis in transformers. Plasma [Na+] and [Cl -] of ammocoetes in freshwater was lower than transformers and increased markedly at 10???. In transformers, plasma ions increased only at high salinity (>25???). Branchial Na+/K+-ATPase levels were ??? tenfold higher in transformers compared to ammocoetes and salinity did not affect expression in either group. However, branchial H +-ATPase expression showed a negative correlation with salinity in both groups. Na+/K+-ATPase immunoreactivity was strongest in transformers and associated with clusters of cells in the interlamellar spaces. H+-ATPase (B subunit) immunoreactivity was localized to epithelial cells not expressing high Na+/K+-ATPase immunoreactivity and having a similar tissue distribution as carbonic anhydrase. The results indicate that branchial Na+/K+-ATPase and salinity tolerance increase in metamorphosing lampreys, and that branchial H+-ATPase is downregulated by salinity.

Journal of Experimental Biology↗

Differential regulation of sodium-potassium pump isoforms during smolt development and seawater exposure of Atlantic salmon

Freshwater and seawater isoforms of the alpha subunit of Na + /K + -ATPase (NKA) have previously been identified in gill ionocytes of Atlantic salmon ( Salmo salar ). In the present study we examine the abundance and cellular localization of these isoforms during the parr–smolt transformation, a developmental process that is preparatory for seawater entry. The abundance of NKAα1a was lower in smolts than in parr, remained relatively constant during spring and decreased in summer. NKAα1b increased tenfold in smolts during spring, peaking in late April, coincident with downstream migration and increased salinity tolerance. NKAα1b increased a further twofold after seawater exposure of smolts, whereas NKAα1a decreased by 98%. The abundance of NKAα1b-positive, and NKAα1b and NKAα1a co-labeled ionocytes increased during smolt development, whereas the number of NKAα1a cells decreased. After seawater exposure of smolts, NKAα1b-positive ionocytes increased, NKAα1a-positive cells decreased, and co-labeled cells disappeared. Plasma growth hormone and cortisol increased during spring in smolts, but not in parr, peaking just prior to the highest levels of NKAα1b. The results indicate that the increase in the abundance of NKAα1b during smolt development is directly linked to the increase in salinity tolerance that occurs at this stage, but that significant changes also occur after seawater exposure. Spring increases in circulating levels of growth hormone and cortisol indicate that these hormones may be instrumental in upregulating NKAα1b during smolt development.

Journal of Experimental Biology↗

Time course of salinity adaptation a strongly euryhaline estuarine teleost, Fundulus Heteroclitus: A multivariable approach

Freshwater-adapted killifish ( Fundulus heteroclitus ) were transferred directly from soft fresh water to full-strength sea water for periods of 1 h, 3 h, 8 h and 1, 2, 7, 14 and 30 days. Controls were transferred to fresh water for 24 h. Measured variables included: blood [Na + ], osmolality, glucose and cortisol levels, basal and stimulated rates of ion transport and permeability of in vitro opercular epithelium, gill Na + /K + -ATPase and citrate synthase activity and chloride cell ultrastructure. These data were compared with previously published killifish cystic fibrosis transmembrane conductance regulator (kfCFTR) expression in the gills measured over a similar time course. Plasma cortisol levels peaked at 1 h, coincident with a rise in plasma [Na + ]. At 8 h after transfer to sea water, a time at which previous work has shown kfCFTR expression to be elevated, blood osmolality and [Na + ] were high, and cortisol levels and opercular membrane short-circuit current ( I sc ; a measure of Cl − secretion rate) were low. The 24 h group, which showed the highest level of kfCFTR expression, had the highest plasma [Na + ] and osmolality, elevated plasma cortisol levels, significantly lower opercular membrane resistance, an increased opercular membrane ion secretion rate and collapsed tubule inclusions in mitochondria-rich cells, but no change in gill Na + /K + -ATPase and citrate synthase activity or plasma glucose levels. Apparently, killifish have a rapid (<1 h) cortisol response to salinity coupled to subsequent (8–48 h) expression of kfCFTR anion channel proteins in existing mitochondria-rich cells that convert transport from ion uptake to ion secretion.

Journal of Experimental Biology↗

Geospatial scaling of runoff and erosion modeling in the Chihuahuan Desert

Large-scale assessments of rangeland runoff and erosion require methods to extend plot-scale parameterizations to large areas. In this study, Rangeland Hydrology and Erosion Model (RHEM) parameters were developed from plot-scale foliar and ground-cover transect data for an arid, grass-shrub rangeland in southern New Mexico, and a method was assessed to upscale transect-plot parameters to a large landscape. The transect-plot data compared favorably to corresponding cell data generated from publicly available geospatial data for total foliar cover but less favorably for litter cover and poorly for rock cover. The RHEM effective hydraulic conductivity (K e ) parameter was comparable between transect-plot and geospatial-cell methods, but the splash and sheet erosion factor (K ss ) had poor agreement between the two methods. Simulated runoff and erosion reflected differences in transect-plot and geospatial-cell-based RHEM parameterizations, with low error and very good agreement for runoff but high error and poor agreement for soil loss. These results demonstrate that K e parameters developed using geospatial data calibrated to plot data can be extrapolated to large spatial areas and provide reasonable simulation of runoff using RHEM. However, these same geospatial methods do not provide reasonable estimation of K ss or simulation of soil loss. Poor representation of litter and rock cover variables, which are highly spatially heterogeneous at the plot scale, was inadequate to accurately represent K ss or soil loss using RHEM. High resolution ground cover data, such as from unmanned aerial systems, may improve parameterization of K ss , and, ultimately, arid rangeland soil erosion simulation.

New Mexico↗

Total petroleum system assessment of undiscovered resources in the giant Barnett Shale continuous (unconventional) gas accumulation, Fort Worth Basin, Texas

Undiscovered natural gas having potential for additions to reserves in the Mississippian Barnett Shale of the Fort Worth Basin, north-central Texas, was assessed using the total petroleum system assessment unit concept and a cell-based methodology for continuous-type (Unconventional) resources. The Barnett-Paleozoic total petroleum system is defined in the Bend arch-Fort Worth Basin as encompassing the area in which the organic-rich Barnett is the primary source rock for oil and gas produced from Paleozoic carbonate and clastic reservoirs. Exploration, technology, and drilling in the Barnett Shale play have rapidly evolved in recent years, with about 3500 vertical and 1000 horizontal wells completed in the Barnett through 2005 and more than 85% of the them completed since 1999. Using framework geology and historical production data, assessment of the Barnett Shale was performed by the U.S. Geological Survey using vertical wells at the peak of vertical well completions and before a transition to completions with horizontal wells. The assessment was performed after (1) mapping critical geological and geochemical parameters to define assessment unit areas with future potential, (2) defining distributions of drainage area (cell size) and estimating ultimate recovery per cell, and (3) estimating future success rates. Two assessment units are defined and assessed for the Barnett Shale continuous gas accumulation, resulting in a total mean undiscovered volume having potential for additions to reserves of 26.2 TCFG. The greater Newark East fracture-barrier continuous Barnett Shale gas assessment unit represents a core-producing area where thick, organic-rich, siliceous Barnett Shale is within the thermal window for gas generation (Ro ??? 1.1%) and is overlain and underlain by impermeable limestone barriers (Pennsylvanian Marble Falls Limestone and Ordovician Viola Limestone, respectively) that serve to confine induced fractures during well completion to maximize gas recovery. The extended continuous Barnett Shale gas assessment unit, which had been less explored, defines a geographic area where Barnett Shale is (1) within the thermal window for gas generation, (2) greater than 100 ft (30 m) thick, and (3) where at least one impermeable limestone barrier is absent. Mean undiscovered gas having potential for additions to reserves in the greater Newark East assessment unit is estimated at 14.6 tcf, and in the less tested extended assessment unit, a mean resource is estimated at 11.6 TCFG. A third hypothetical basin-arch Barnett Shale oil assessment unit was defined but not assessed because of a lack of production data. Copyright ?? 2007. The American Association of Petroleum Geologists. All rights reserved.

American Association of Petroleum Geologists Bulle↗

Investigating the gene expression profiles of rehabilitated Florida manatees (Trichechus manatus latirostris) following red tide exposure

To investigate a Florida manatee ( Trichechus manatus latirostris ) mortality event following a red tide bloom in Southwest Florida, an RNA sequencing experiment was conducted. Gene expression changes in white blood cells were assessed in manatees rescued from a red tide affected area (n = 4) and a control group (n = 7) using RNA sequencing. The genes with the largest fold changes were compared between the two groups to identify molecular pathways related to cellular and disease processes. In total, 591 genes (false discovery rate <0.05) were differentially expressed in the red tide group. Of these, 158 were upregulated and 433 were downregulated. This suggests major changes in white blood cell composition following an exposure to red tide. The most highly upregulated gene, Osteoclast associated 2C immunoglobulin-like receptor (OSCAR), was upregulated 12-fold. This gene is involved in initiating the immune response and maintaining a role in adaptive and innate immunity. The most highly downregulated gene, Piccolo presynaptic cytomatrix protein (PCLO), was downregulated by a factor of 977-fold. This gene is associated with cognitive functioning and neurotransmitter release. Downregulation of this gene in other studies was associated with neuronal loss and neuron synapse dysfunction. Among the cellular pathways that were most affected, immune response, including inflammation, wounds and injuries, cell proliferation, and apoptosis were the most predominant. The pathway with the most differentially expressed genes was the immune response pathway with 98 genes involved, many of them downregulated. Assessing the changes in gene expression associated with red tide exposure enhances our understanding of manatee immune response to the red tide toxins and will aid in the development of red tide biomarkers.

Florida↗