Microbial Field Pilot Study

This report covers progress made during the first year of the Microbial Field Pilot Study project. Information on reservoir ecology and characterization, facility and treatment design, core experiments, bacterial mobility, and mathematical modeling are addressed. To facilitate an understanding of the ecology of the target reservoir analyses of the fluids which support bacteriological growth and the microbiology of the reservoir were performed. A preliminary design of facilities for the operation of the field pilot test was prepared. In addition, procedures for facilities installation and for injection treatments are described. The Southeast Vassar Vertz Sand Unit (SEVVSU), the site of the proposed field pilot study, is described physically, historically, and geologically. The fields current status is presented and the ongoing reservoir simulation is discussed. Core flood experiments conducted during the last year were used to help define possible mechanisms involved in microbial enhanced oil recovery. Two possible mechanisms, relative permeability effects and changes in the capillary number, are discussed and related to four Berea core experiments' results. The experiments were conducted at reservoir temperature using SEVVSU oil, brine, and bacteria. The movement and activity of bacteria in porous media were investigated by monitoring the growth of bacteria in sandpack cores under no flow conditions. The rate of bacteria advancement through the cores was determined. A mathematical model of the MEOR process has been developed. The model is a three phase, seven species, one dimensional model. Finite difference methods are used for solution. Advection terms in balance equations are represented with a third- order upwind differencing scheme to reduce numerical dispersion and oscillations. The model is applied to a batch fermentation example. 52 refs., 26 figs., 21 tabs

Two different quasiparticle scattering rates in vortex line liquid phase of layered d-wave superconductors

We carry out a quantum mechanical analysis of the behavior of nodal quasiparticles in the vortex line liquid phase of planar d-wave superconductors. Applying a novel path integral technique we calculate a number of experimentally relevant observables and demonstrate that in the low-field regime the quasiparticle scattering rates deduced from photoemission and thermal transport data can be markedly different from that extracted from tunneling, specific heat, superfluid stiffness or spin-lattice relaxation time.Comment: Latex, 4 pages, no figure

Biomass increases go under cover : woody vegetation dynamics in South African rangelands

Woody biomass dynamics are an expression of ecosystem function, yet biomass estimates do not provide information on the spatial distribution of woody vegetation within the vertical vegetation subcanopy. We demonstrate the ability of airborne light detection and ranging (LiDAR) to measure aboveground biomass and subcanopy structure, as an explanatory tool to unravel vegetation dynamics in structurally heterogeneous landscapes. We sampled three communal rangelands in Bushbuckridge, South Africa, utilised by rural communities for fuelwood harvesting. Woody biomass estimates ranged between 9 Mg ha-1 on gabbro geology sites to 27 Mg ha-1 on granitic geology sites. Despite predictions of woodland depletion due to unsustainable fuelwood extraction in previous studies, biomass in all the communal rangelands increased between 2008 and 2012. Annual biomass productivity estimates (10–14% p.a.) were higher than previous estimates of 4% and likely a significant contributor to the previous underestimations of modelled biomass supply. We show that biomass increases are attributable to growth of vegetation <5 m in height, and that, in the high wood extraction rangeland, 79% of the changes in the vertical vegetation subcanopy are gains in the 1-3m height class. The higher the wood extraction pressure on the rangelands, the greater the biomass increases in the low height classes within the subcanopy, likely a strong resprouting response to intensive harvesting. Yet, fuelwood shortages are still occurring, as evidenced by the losses in the tall tree height class in the high extraction rangeland. Loss of large trees and gain in subcanopy shrubs could result in a structurally simple landscape with reduced functional capacity. This research demonstrates that intensive harvesting can, paradoxically, increase biomass and this has implications for the sustainability of ecosystem service provision. The structural implications of biomass increases in communal rangelands could be misinterpreted as woodland recovery in the absence of three-dimensional, subcanopy information.S1 Dataset. Biomass model data. Data include 2012 LiDAR-derived average height and canopy cover extraction metrics, as well as field-work based allometry. Each line item is per 25 m x 25 m grid cell. Metadata are included in the dataset.S2 Dataset. Biomass and subcanopy data. Data include 2008 and 2012 biomass estimates derived from biomass models as well as % subcanopy returns for voxel data for the height class categories: 1-3m, 3-5m, 5-10m and >10m. Each line item is per 25 m x 25 m grid cell. Data are organized per land extraction category into separate worksheets. Metadata are included in the dataset.S3 Dataset. Biomass changes (Mg ha-1) in relation to relative height and canopy cover change. Data include biomass change estimates (2008–2012), percentage height and canopy cover changes for each 25 m x 25 m grid cell. Each height class (relative to height in 2008) are shown on separate worksheets. Metadata are included in the dataset.S1 Fig. Site-specific biomass model residuals. The residual spread demonstrates heteroskedasticity with increasing biomass fitted values for rangelands with a) high, b) intermediate and c) low extraction pressure.S2 Fig. Biomass changes (%) relative to height-specific change in subcanopy returns (%). Height categories are: 1–3 m, 3–5 m, 5–10 m and >10 m.The Carnegie Airborne Observatory (CAO) is made possible by the Avatar Alliance Foundation, Margaret A. Cargill Foundation, John D. and Catherine T. MacArthur Foundation, Grantham Foundation for the Protection of the Environment, W. M. Keck Foundation, Gordon and Betty Moore Foundation, Mary Anne Nyburg Baker and G. Leonard Baker, Jr., and William R. Hearst III. Application of the CAO data in South Africa is made possible through the Andrew Mellon Foundation and the endowment of the Carnegie Institution for Science, the Council for Scientific and Industrial Research (CSIR), and the South African Department of Science and Technology (grant agreement DST/ CON 0119/2010, Earth Observation Application Development in Support of SAEOS). CSIR coauthors are supported by the European Union’s Seventh Framework Programme (FP7/2007-2013, grant agreement n°282621, AGRICAB). PJM acknowledges funding from the National Research Foundation (NRF: SFH1207203615). Additionally, PJM and ETFW acknowledge the DST-NRF Centre of Excellence in Tree Health Biotechnology (CTHB) and, PJM and BFNE, the Applied Centre for Climate and Earth Systems Science (ACCESS). BFNE acknowledges financial support from Exxaro.http://www.plosone.orgam201

Distinct patterns of ΔFosB induction in brain by drugs of abuse

The transcription factor ΔFosB accumulates and persists in brain in response to chronic stimulation. This accumulation after chronic exposure to drugs of abuse has been demonstrated previously by Western blot most dramatically in striatal regions, including dorsal striatum (caudate/putamen) and nucleus accumbens. In the present study, we used immunohistochemistry to define with greater anatomical precision the induction of ΔFosB throughout the rodent brain after chronic drug treatment. We also extended previous research involving cocaine, morphine, and nicotine to two additional drugs of abuse, ethanol and Δ9-tetrahydrocannabinol (Δ9-THC, the active ingredient in marijuana). We show here that chronic, but not acute, administration of each of four drugs of abuse, cocaine, morphine, ethanol, and Δ9-THC, robustly induces ΔFosB in nucleus accumbens, although different patterns in the core vs. shell subregions of this nucleus were apparent for the different drugs. The drugs also differed in their degree of ΔFosB induction in dorsal striatum. In addition, all four drugs induced ΔFosB in prefrontal cortex, with the greatest effects observed with cocaine and ethanol, and all of the drugs induced ΔFosB to a small extent in amygdala. Furthermore, all drugs induced ΔFosB in the hippocampus, and, with the exception of ethanol, most of this induction was seen in the dentate. Lower levels of ΔFosB induction were seen in other brain areas in response to a particular drug treatment. These findings provide further evidence that induction of ΔFosB in nucleus accumbens is a common action of virtually all drugs of abuse and that, beyond nucleus accumbens, each drug induces ΔFosB in a region-specific manner in brain

The Evolutionary and Phylogeographic History of Woolly Mammoths: A Comprehensive Mitogenomic Analysis

Near the end of the Pleistocene epoch, populations of the woolly mammoth (Mammuthus primigenius) were distributed across parts of three continents, from western Europe and northern Asia through Beringia to the Atlantic seaboard of North America. Nonetheless, questions about the connectivity and temporal continuity of mammoth populations and species remain unanswered. We use a combination of targeted enrichment and high-throughput sequencing to assemble and interpret a data set of 143 mammoth mitochondrial genomes, sampled from fossils recovered from across their Holarctic range. Our dataset includes 54 previously unpublished mitochondrial genomes and significantly increases the coverage of the Eurasian range of the species. The resulting global phylogeny confirms that the Late Pleistocene mammoth population comprised three distinct mitochondrial lineages that began to diverge ∼1.0-2.0 million years ago (Ma). We also find that mammoth mitochondrial lineages were strongly geographically partitioned throughout the Pleistocene. In combination, our genetic results and the pattern of morphological variation in time and space suggest that male-mediated gene flow, rather than large-scale dispersals, was important in the Pleistocene evolutionary history of mammoths

The PHENIX Experiment at RHIC

The physics emphases of the PHENIX collaboration and the design and current status of the PHENIX detector are discussed. The plan of the collaboration for making the most effective use of the available luminosity in the first years of RHIC operation is also presented.Comment: 5 pages, 1 figure. Further details of the PHENIX physics program available at http://www.rhic.bnl.gov/phenix

Spectroscopic target selection for the Sloan Digital Sky Survey: The luminous red galaxy sample

We describe the target selection and resulting properties of a spectroscopic sample of luminous red galaxies (LRGs) from the imaging data of the Sloan Digital Sky Survey (SDSS). These galaxies are selected on the basis of color and magnitude to yield a sample of luminous intrinsically red galaxies that extends fainter and farther than the main flux-limited portion of the SDSS galaxy spectroscopic sample. The sample is designed to impose a passively evolving luminosity and rest-frame color cut to a redshift of 0.38. Additional, yet more luminous red galaxies are included to a redshift of ∼0.5. Approximately 12 of these galaxies per square degree are targeted for spectroscopy, so the sample will number over 100,000 with the full survey. SDSS commissioning data indicate that the algorithm efficiently selects luminous (M*g ≈ - 21.4) red galaxies, that the spectroscopic success rate is very high, and that the resulting set of galaxies is approximately volume limited out to z = 0.38. When the SDSS is complete, the LRG spectroscopic sample will fill over 1 h-3 Gpc3 with an approximately homogeneous population of galaxies and will therefore be well suited to studies of large-scale structure and clusters out to z = 0.5