Img: The Integrated Microbial Genomes Database
And Comparative Analysis System,
2012
Lawrence Berkeley National Laboratory
Img: The Integrated Microbial Genomes Database And Comparative Analysis System, Victor M. Markowitz, I-Min A. Chen, Krishna Palaniappan, Ken Chu, Ernest Szeto, Yuri Grechkin, Anna Ratner, Biju Jacob, Jinghua Huang, Peter Williams, Marcel Huntemann, Iain Anderson, Konstantinos Mavromatis, Natalia N. Ivanova, Nikos C. Kyrpides
United States Department of Energy: Publications
The Integrated Microbial Genomes (IMG) system serves as a community resource for comparative analysis of publicly available genomes in a comprehensive integrated context. IMG integrates publicly available draft and complete genomes from all three domains of life with a large number of plasmids and viruses. IMG provides tools and viewers for analyzing and reviewing the annotations of genes and genomes in a comparative context. IMG’s data content and analytical capabilities have been continuously extended through regular updates since its first release in March 2005. IMG is available at http://img.jgi.doe.gov. Companion IMG systems provide support for expert review of genome annotations …
Complete Genome Sequence Of Thauera Aminoaromatica Strain Mz1t,
2012
The University of Tennessee
Complete Genome Sequence Of Thauera Aminoaromatica Strain Mz1t, Ke Jiang, John Sanseverino, Archana Chauhan, Susan Lucas, Alex Copeland, Alla Lapidus, Tijana Glavina Del Rio, Eileen Dalin, Hope Tice, David Bruce, Lynne Goodwin, Sam Pitluck, David Sims, Thomas Brettin, John C. Detter, Cliff Han, Y.J. Chang, Frank Larimer, Miriam Land, Loren Hauser, Nikos C. Kyrpides, Natalia Mikhailova, Scott Moser, Patricia Jegier, Dan Close, Jennifer M. Debruyn, Ying Wang, Alice C. Layton, Michael S. Allen, Gary S. Sayler
United States Department of Energy: Publications
Thauera aminoaromatica strain MZ1T, an isolate belonging to genus Thauera, of the family Rhodocyclaceae and the class the Betaproteobacteria, has been characterized for its ability to produce abundant exopolysaccharide and degrade various aromatic compounds with nitrate as an electron acceptor. These properties, if fully understood at the genome-sequence level, can aid in environmental processing of organic matter in anaerobic cycles by short-circuiting a central anaerobic metabolite, acetate, from microbiological conversion to methane, a critical greenhouse gas. Strain MZ1T is the first strain from the genus Thauera with a completely sequenced genome. The 4,496,212 bp chromosome and 78,374 bp plasmid …
The Crystal Structure Of The Extracellular 11-Heme
Cytochromeundareveals A Conserved 10-Heme Motif
And Defined Binding Site For Soluble Iron Chelates,
2012
University of East Anglia
The Crystal Structure Of The Extracellular 11-Heme Cytochromeundareveals A Conserved 10-Heme Motif And Defined Binding Site For Soluble Iron Chelates, Marcus J. Edwards, Andrea Hall, Liang Shi, James K. Fredrickson, John M. Zachara, Julea N. Butt, David J. Richardson, Thomas A. Clarke
United States Department of Energy: Publications
Members of the genus Shewanella translocate decaor undeca-heme cytochromes to the external cell surface thus enabling respiration using extracellular minerals and polynuclear Fe(III) chelates. The high resolution structure of the first undeca-heme outer membrane cytochrome, UndA, reveals a crossed heme chain with four potential electron ingress/ egress sites arranged within four domains. Sequence and structural alignment of UndA and the deca-heme MtrF reveals the extra heme of UndA is inserted between MtrF hemes 6 and 7. The remaining UndA hemes can be superposed over the heme chain of the decaheme MtrF, suggesting that a ten heme core is conserved between …
Three-Dimensional Bayesian Geostatistical Aquifer Characterization
At The Hanford 300 Area Using Tracer Test Data,
2012
Pacific Northwest National Laboratory
Three-Dimensional Bayesian Geostatistical Aquifer Characterization At The Hanford 300 Area Using Tracer Test Data, Xingyuan Chen, Haruko Murakami, Melanie S. Hahn, Glenn E. Hammond, Mark Rockhold, John M. Zachara, Yoram Rubin
United States Department of Energy: Publications
Tracer tests performed under natural or forced gradient flow conditions can provide useful information for characterizing subsurface properties, through monitoring, modeling, and interpretation of the tracer plume migration in an aquifer. Nonreactive tracer experiments were conducted at the Hanford 300 Area, along with constant-rate injection tests and electromagnetic borehole flow meter tests. A Bayesian data assimilation technique, the method of anchored distributions (MAD) (Rubin et al., 2010), was applied to assimilate the experimental tracer test data with the other types of data and to infer the three-dimensional heterogeneous structure of the hydraulic conductivity in the saturated zone of the Hanford …
Analysis Of Phase Separation In High Performance
Pbte–Pbs Thermoelectric Materials,
2012
Northwestern University
Analysis Of Phase Separation In High Performance Pbte–Pbs Thermoelectric Materials, Steven N. Girard, Klaus Schmidt-Rohr, Thomas C. Chasapis, Euripides Hatzikraniotis, B. Njegic, E. M. Levin, A. Rawal, Konstantinos M. Paraskevopoulos, Mercouri G. Kanatzidis
United States Department of Energy: Publications
Phase immiscibility in PbTe–based thermoelectric materials is an effective means of top-down synthesis of nanostructured composites exhibiting low lattice thermal conductivities. PbTe1− x Sx thermoelectric materials can be synthesized as metastable solid solution alloys through rapid quenching. Subsequent post-annealing induces phase separation at the nanometer scale, producing nanostructures that increase phonon scattering and reduce lattice thermal conductivity. However, there has yet to be any study investigating in detail the local chemical structure of both the solid solution and nanostructured variants of this material system. Herein, quenched and annealed (i.e., solid solution and phase-separated) samples of PbTe–PbS are analyzed …
Nanoscale Structure And Structural Relaxation In Zr50cu45al5 Bulk Metallic Glass,
2012
University of Wisconsin - Madison
Nanoscale Structure And Structural Relaxation In Zr50cu45al5 Bulk Metallic Glass, Jinwoo Hwang, Z. H. Melgarejo, Y. E. Kalay, I. Kalay, Matthew J. Kramer, D. S. Stone, P. M. Voyles
United States Department of Energy: Publications
Hybrid reverse Monte Carlo simulations of the structure of Zr50Cu45Al5 bulk metallic glass incorporating medium-range structure from fluctuation electron microscopy data and short-range structure from an embedded atom potential produce structures with significant fractions of icosahedral- and crystal-like atomic clusters. Similar clusters group together into nanometer-scale regions, and relaxation transforms crystal-like clusters into icosahedral clusters. A model refined against only the potential does not agree with the fluctuation microscopy data and contains few crystal-like clusters.
Enhancement Of Thermopower Of Tags-85
High-Performance Thermoelectric Material By Doping
With The Rare Earth Dy,
2012
Iowa State University
Enhancement Of Thermopower Of Tags-85 High-Performance Thermoelectric Material By Doping With The Rare Earth Dy, E. M. Levin, S. L. Bud’Ko, K. Schmidt-Rohr
United States Department of Energy: Publications
Enhancement of thermopower is achieved by doping the narrow-band semiconductor Ag6.52Sb6.52Ge36.96Te50 (acronym TAGS-85), one of the best p -type thermoelectric materials, with 1 or 2% of the rare earth dysprosium (Dy). Evidence for the incorporation of Dy into the lattice is provided by X-ray diffraction and increased orientation-dependent local fields detected by 125Te NMR spectroscopy. Since Dy has a stable electronic configuration, the enhancement cannot be attributed to 4f -electron states formed near the Fermi level. It is likely that the enhancement is due to a small reduction in the carrier …
Incorporating A Completely Renormalized Coupled Cluster Approach
Into A Composite Method For Thermodynamic Properties And Reaction Paths,
2012
Iowa State University
Incorporating A Completely Renormalized Coupled Cluster Approach Into A Composite Method For Thermodynamic Properties And Reaction Paths, Sean A. Nedd, Nathan J. Deyonker, Angela K. Wilson, Mark S. Gordon, Piotr Piecuch
United States Department of Energy: Publications
The correlation consistent composite approach (ccCA), using the S4 complete basis set two-point extrapolation scheme (ccCA-S4), has been modified to incorporate the left-eigenstate completely renormalized coupled cluster method, including singles, doubles, and non-iterative triples (CR-CC(2,3)) as the highest level component. The new ccCA-CC(2,3) method predicts thermodynamic properties with an accuracy that is similar to that of the original ccCA-S4 method. At the same time, the inclusion of the single-reference CR-CC(2,3) approach provides a ccCA scheme that can correctly treat reaction pathways that contain certain classes of multi-reference species such as diradicals, which would normally need to be treated by more …
Experimental And Theoretical Electronic Structure Of Eurh2as2,
2012
Iowa State University
Experimental And Theoretical Electronic Structure Of Eurh2as2, A. D. Palczewski, R. S. Dhaka, Y. Lee, Yogesh Singh, D. C. Johnston, B. N. Harmon, Adam Kaminski
United States Department of Energy: Publications
The Fermi surfaces (FS’s) and band dispersions of EuRh2As2 have been investigated using angle-resolved photoemission spectroscopy. The results in the high-temperature paramagnetic state are in good agreement with the full-potential linearized augmented-plane-wave calculations, especially in the context of the shape of the two-dimensional FS’s and band dispersion around the Γ (0,0) and X (π,π) points. Interesting changes in band folding are predicted by the theoretical calculations below the magnetic transition temperature TN ≈ 47 K. However, by comparing the FS’s measured at 60 and 40 K, we did not observe any signature of this transition at …
Magnetic And Structural Transitions In The Iron-Chalcogenide High-Tc
Superconductor: K0.8fe1.76se2.00,
2012
McGill University
Magnetic And Structural Transitions In The Iron-Chalcogenide High-Tc Superconductor: K0.8fe1.76se2.00, W. N. Rowan-Weetaluktuk, D. H. Ryan, J. M. Cadogan, R. Hu, S. L. Bud’Ko, Paul C. Canfield
United States Department of Energy: Publications
57Fe Mössbauer spectroscopy was used to study single-crystals of K0.8Fe1.76Se2.00 from 6K to 673 K. At 6 K, the hyperfine field (Bhf) is canted away from the c-axis by 18±3°. The temperature dependence of Bhf follows a spin wave model with a spin excitation gap of 9±1 meV. A sudden increase in the line width and a corresponding drop in (1/2)eQVzz at TN = 532 K are indications of strong coupling between the magnetic and structural transitions.
Evaluation Of Niobium As Candidate Electrode Material For Dc High Voltage Photoelectron Guns,
2012
Old Dominion University
Evaluation Of Niobium As Candidate Electrode Material For Dc High Voltage Photoelectron Guns, M. Bastaninejad, Md. Abdullah Mohamed, A. A. Elmustafa, P. Adderley, J. Clark, S. Covert, J. Hansknecht, C. Hernandez-Garcia, M. Poelker, R. Mammei, K. Surles-Law, P. Williams
United States Department of Energy: Publications
The field emission characteristics of niobium electrodes were compared to those of stainless steel electrodes using a DC high voltage field emission test apparatus. A total of eight electrodes were evaluated: two 304 stainless steel electrodes polished to mirror like finish with diamond grit and six niobium electrodes (two single-crystal, two large-grain, and two fine-grain) that were chemically polished using a buffered-chemical acid solution. Upon the first application of high voltage, the best large-grain and single-crystal niobium electrodes performed better than the best stainless steel electrodes, exhibiting less field emission at comparable voltage and field strength. In all cases, field …
Saturated–Unsaturated Flow In A Compressible Leaky-Unconfined Aquifer,
2012
Los Alamos National Laboratory, Los Alamos, NM
Saturated–Unsaturated Flow In A Compressible Leaky-Unconfined Aquifer, Phoolendra Mishra, Velimir Vesselinov, Kristopher Kuhlman
United States Department of Energy: Publications
An analytical solution is developed for three-dimensional flow towards a partially penetrating largediameter well in an unconfined aquifer bounded below by a leaky aquitard of finite or semi-infinite extent. The analytical solution is derived using Laplace and Hankel transforms, then inverted numerically. Existing solutions for flow in leaky unconfined aquifers neglect the unsaturated zone following an assumption of instantaneous drainage due to Neuman. We extend the theory of leakage in unconfined aquifers by (1) including water flow and storage in the unsaturated zone above the water table, and (2) allowing the finite-diameter pumping well to partially penetrate the aquifer. The …
Comparison Of 2-Way Versus Metered 3-Way Boom
Shut-Off Valves For Automatic Section
Control On Agricultural Sprayers,
2012
Washington State University
Comparison Of 2-Way Versus Metered 3-Way Boom Shut-Off Valves For Automatic Section Control On Agricultural Sprayers, Ajay Sharda, Joe D. Luck, John P. Fulton, Timothy P. Mcdonald, Scott A. Shearer, Daniel K. Mullenix
Department of Agricultural and Biological Systems Engineering: Faculty Publications
Modern spray rate controllers along with technologies such as automatic section control (ASC) provide benefits such as overlap reduction on agricultural sprayers. However, product (liquid) dynamics within the boom plumbing affect off-rate errors and application uniformity during rate changes and ASC actuation. Therefore, this study was conducted to compare nozzle flow stability and uniformity across the boom when using two different boom shut-off valves (2-way and metered 3-way) on an 18.3-m sprayer boom. Pressure transducers were mounted at 1) the boom manifold, 2) randomly at 12 nozzle bodies across the spray boom, and 3) upstream and downstream of the flow …
Field Performance Evaluation Of A
Ventilation System: A Swine Case Study,
2012
Iowa State University
Field Performance Evaluation Of A Ventilation System: A Swine Case Study, Jay D. Harmon, Michael C. Brumm, Larry D. Jacobson, Stephen H. Pohl, David R. Stender, Richard R. Stowell
Department of Agricultural and Biological Systems Engineering: Faculty Publications
Swine finishing facility ventilation has become relatively complex and is often mismanaged as a system. One of the few ways to truly understand these systems is to spend time systematically going through the many components of the building and how they work as a system. To learn to help producers better, a team of university Extension specialists that included agricultural engineers and animal scientists spent an extended period carefully documenting conditions in a deep‐pit swine finishing building with two 1,000‐head rooms. Exhaust fans connected to the manure pit and wall fans were operated at various stages as a negative‐pressure ventilation …
Evaluation Of A Rhodamine-Wt Dye/Glycerin
Mixture As A Tracer For Testing Direct Injection
Systems For Agricultural Sprayers,
2012
University of Nebraska-Lincoln
Evaluation Of A Rhodamine-Wt Dye/Glycerin Mixture As A Tracer For Testing Direct Injection Systems For Agricultural Sprayers, Joe D. Luck, Scott A. Shearer, Brian D. Luck, Fred A. Payne
Department of Agricultural and Biological Systems Engineering: Faculty Publications
The purpose of this study was to provide valuable insight regarding the use of Rhodamine WT (red) dye as a tracer for evaluating injected concentrations. More specifically, the effects of mixing the dye with glycerin to simulate the viscosity of a pesticide (e.g., glyphosate) or injecting the dye/glycerin mixture into deionized (DI) versus tap water on developing appropriate calibration equations were evaluated. Test results indicated that mixing the dye in a solution of glycerin and DI water significantly affected absorbance measurements compared to the dye mixed solely in DI water. The error in estimating absorbance was 7.4% between the two …
Microstructural And Mineralogical Transformation Of Hydraulically Disposed Fly Ash—Implications To The Environment,
2012
University of Pretoria, Department of Civil Engineering, Pretoria, 0002, South Africa; Sasol Technology Pty (Ltd.), R&D, Environmental Sciences and Engineering, P/bag x1034, Secunda, 2302, South Africa
Microstructural And Mineralogical Transformation Of Hydraulically Disposed Fly Ash—Implications To The Environment, Jabulani S. Mahlaba, Elsabe P. Kearsley, Richard A. Kruger
Coal Combustion and Gasification Products Journal Archive
Increasing amounts of coal are combusted annually to meet the ever-increasing energy demands. The inevitable by-products include fly ash and saline effluents, which require acceptable disposal. The aim of this article is to compare the effect of hydraulic disposal with dry ash dumping. The results indicate that the former carries more environmental benefits based on the physical, chemical, and mineralogical aspects that were investigated.
Cordyline Fruticosa Growth And Soil Microbial Quality With Topical Application Of Coal Combustion By-Products Aggregates,
2012
Department of Civil Engineering, University of Puerto Rico, Mayaguez, Puerto Rico 00681
Cordyline Fruticosa Growth And Soil Microbial Quality With Topical Application Of Coal Combustion By-Products Aggregates, Sangchul Hwang, Isomar Latorre, Eileen Irizarry
Coal Combustion and Gasification Products Journal Archive
Coal combustion by-products aggregates (CCAs) are a solidified composite of fly and bottom ashes (2:1, by wt). Here, we assessed the feasibility of beneficial use of CCAs as a soil amendment or conditioner by conducting an outdoor experiment with Cordyline fruticosa (lucky plant) to determine its growth and soil microbial quality under the influence of topical CCA application (95 tons ha21). Enhanced growth of C. fruticosa with CCA application was noted, with respect to plant height, growth rate, leaf size, and leaf chlorophyll intensity. Soil dehydrogenase activity and total heterotrophic bacteria count were greater with topical CCA application, especially in …
Influence Of Activator Solution Formulation On Fresh And Hardened Properties Of Low-Calcium Fly Ash Geopolymer Concrete,
2012
Post Doctoral Fellow, Alternative Binder Research Laboratory, Louisiana Tech University, Ruston, LA 71272, USA
Influence Of Activator Solution Formulation On Fresh And Hardened Properties Of Low-Calcium Fly Ash Geopolymer Concrete, Carlos Montes, Erez N. Allouche
Coal Combustion and Gasification Products Journal Archive
The effect of the composition of activator solutions on fresh and hardened properties of geopolymer concrete was investigated. Research variables included liquid sodium silicate product (DH, NH, and StarH), sodium hydroxide molar concentration (6, 10, and 14), and sodium silicate–to–sodium hydroxide ratio (1, 2, and 3). Response variables were compressive strength, corrosion resistance expressed as remaining compressive strength and mass loss, and flowability. Results were analyzed using Minitab statistical software. Findings suggest that activator solution formulation has a significant effect on the properties of the resulting geopolymer binder. The experimental design used was found effective in establishing the optimum activator …
Mineralogical Transformations In Coal Feedstocks During Carbon Conversion, Based On Packed-Bed Combustor Tests: Part 2. Behavior Of Individual Particles,
2012
Sasol Technology (Pty) Ltd., Post Office Box 1, Sasolburg, Free State 1947, South Africa
Mineralogical Transformations In Coal Feedstocks During Carbon Conversion, Based On Packed-Bed Combustor Tests: Part 2. Behavior Of Individual Particles, Ratale H. Matjie, Colin R. Ward, Zhongsheng Li
Coal Combustion and Gasification Products Journal Archive
Handpicked carbon-rich particles (coal or char), mineral-rich particles (heated stones), and bonded stone aggregates (clinkers) from the upper and lower parts of a pilot-scale packed-bed combustor bed, designed to simulate conversion or combustion processes, were subjected to mineralogical and inorganic geochemical studies, in order to evaluate the reactions that may occur during carbon conversion at a particle-by-particle scale. The mineral matter of the carbon-rich particles was found to have higher proportions of carbonate minerals and kaolinite than the mineral-rich (stone) particles in the coal feedstocks used in the study, and to form phases such as anorthite, gehlenite, pyrrhotite, troilite, and …
Mineralogical Transformations In Coal Feedstocks During Carbon Conversion, Based On Packed-Bed Combustor Tests: Part 1. Bulk Coal And Ash Studies,
2012
Sasol Technology (Pty) Ltd., Post Office Box 1, Sasolburg, Free State 1947, South Africa
Mineralogical Transformations In Coal Feedstocks During Carbon Conversion, Based On Packed-Bed Combustor Tests: Part 1. Bulk Coal And Ash Studies, Ratale H. Matjie, Colin R. Ward, Zhongsheng Li
Coal Combustion and Gasification Products Journal Archive
Mineralogical and inorganic geochemical studies have been carried out on composite samples of six different coarse-crushed (,120 mm) feed coals tested in a pilot-scale packed-bed combustor designed to simulate conversion and some fixed-bed combustion processes, and also on composite samples of the ashes produced. The mineral matter of the coals consisted mainly of quartz, kaolinite, and Ca-bearing carbonate minerals (calcite, dolomite, aragonite), with minor proportions of illite, pyrite, and several other phases, along with some Ca in an organically associated form. The base to acid ratio of the coal ashes ranged from 0.1 to 0.3, due mainly to variations in …
