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At least 1,459 records · Page 81

Structural Properties of Ditechnetium Heptoxide, Tc{sub 2}O{sub 7}

Group 7 elements form unique binary oxides with the stoichiometry M{sub 2}O{sub 7}. The heptoxides of manganese and technetium crystallize as molecular solids while rhenium forms an extended solid with mixed valances, 4 and 6. Unlike manganese and rhenium heptoxides which are used in the chemical industry technetium heptoxide has found very few applications due to its radioactive nature; it has been primarily use as a chemical precursor. While both of the molecular solids, Mn{sub 2}O{sub 7}{sup 3} and Tc{sub 2}O{sub 7}{sup 4} can be described by two corner-sharing MO{sub 4} tetrahedron. The most distinctive difference is that the manganese's compound has a metal-oxygen-metal bond angle of 120.7 deg. while the technetium species is 180 deg.. Additionally, Tc{sub 2}O{sub 7} has the largest molar volume of the heptoxides which suggest that it will be more susceptible to external stimuli of pressure and temperature than the others heptoxides. A pressure induced twisting has been predicted by Fang et al. Anomalous behavior is seen in the c-axis where below 2 GPa the Van der Waals interactions between the Tc{sub 2}O{sub 7} molecules is over come and compression is observed but at higher pressures the twisted distortion forces the lattice to expand. The terminology diagonal-double tetrahedrons (DDTs) is introduced to discuss the molecules of Tc{sub 2}O{sub 7}. The rigid nature of the DDTs has been attributed to the cause of this twisted distortion mechanism. Recently, the solid state and gas phase behavior of technetium heptoxide was revisited by Childs et al. in light of {sup 99}Tc being an important dose contributor in the Hanford waste and vitrification being proposed for immobilization of nuclear waste. Technetium heptoxide is one of the proposed volatilized species of technetium found in the vitrification process. In this study the crystal structure of Tc{sub 2}O{sub 7} was reported at 100 K and compared to the structure first determined by Krebs at room temperature. Inspection of the metal-oxygen distances revealed the 100 K structure had longer bond lengths for the bridging oxygen than at high temperature. It is suggested that transverse thermal vibrational modes can be used to explain this negative thermal expansion behavior. This describes the average bond length of a central atom (i.e. the bridging oxygen atom) being measured as shorter at higher temperatures due to the larger thermal motion. Diffraction methods that measure the long range average structure are susceptible to observing this shorter average length as opposed to the true bond length, atom position at oscillation node that a method like Pair-Distribution Functional PDF Analysis would yield. In the case of Tc{sub 2}O{sub 7}, the magnitude of the transverse thermal vibrational mode is at the limit of being detectable by SCXRD and likely not observable by PDF analysis. Here we report the preliminary results of our study on the nature of the thermal expansion behavior of Tc{sub 2}O{sub 7}. The transverse thermal vibration mode compression mechanism is considered and compared to the pressure induced twisted distortion mechanism predicted at high pressure. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

Mapping regions of Epstein-Barr virus (EBV) glycoprotein B (gB) important for fusion function with gH/gL

Glycoproteins gB and gH/gL are required for entry of Epstein-Barr virus (EBV) into cells, but the role of each glycoprotein and how they function together to mediate fusion is unclear. Analysis of the functional homology of gB from the closely related primate gammaherpesvirus, rhesus lymphocryptovirus (Rh-LCV), showed that EBV gB could not complement Rh gB due to a species-specific dependence between gB and gL. To map domains of gB required for this interaction, we constructed a panel of EBV/Rh gB chimeric proteins. Analysis showed that insertion of Rh gB from residues 456 to 807 restored fusion function of EBV gB with Rh gH/gL, suggesting this region of gB is important for interaction with gH/gL. Split YFP bimolecular complementation (BiFC) provided evidence of an interaction between EBV gB and gH/gL. Together, our results suggest the importance of a gB-gH/gL interaction in EBV-mediated fusion with B cells requiring the region of EBV gB from 456 to 807.

60 APPLIED LIFE SCIENCES↗

La[subscript 4]LiAuO[subscript 8] and La[subscript 2]BaPdO[subscript 5]: Comparing Two Highly Stable d[superscript 8] Square-Planar Oxides

La{sub 4}LiAuO{sub 8} and La{sub 2}BaPdO{sub 5}, two previously known oxides, are presented as model compounds for examining the role of isolated and immobilized Au{sup 3+} and Pd{sup 2+} ions in heterogeneous catalysis. Structural characterization, stability, surface composition, and electronic structure of these compounds are presented. These are examined in studies ranging from synchrotron X-ray scattering, including pair distribution function (PDF) and maximum entropy method (MEM) analysis, to density functional calculations of the electronic structures. The exceptional stability displayed by these compounds as verified by thermogravimetric analysis can be attributed to the presence of covalent Au-O and Pd-O interactions revealed in MEM studies, which suggests a criterion for stabilizing these highly oxophobic transition metals in oxide environments. Catalytic testing of the two compounds as heterogeneous catalysts in the oxidation of CO to CO{sub 2} are presented. La{sub 2}BaPdO{sub 5} appears to be an effective catalyst for CO oxidation, despite the low surface area of the oxide being used. This is the first time that a fully ordered (rather than doped) Pd{sup 2+} oxide had been used to catalyze CO oxidation. La{sub 4}LiAuO{sub 8} on the other hand, is much less effective at catalyzing CO oxidation. Differences in the reactivities of the two compounds are discussed with respect to differences in their density functional electronic structures.

43 PARTICLE ACCELERATORS↗

The problem of the universal density functional and the density matrix functional theory

The analysis in this paper shows that the Hohenberg-Kohn theorem is the constellation of two statements: (i) the mathematically rigorous Hohenberg-Kohn lemma, which demonstrates that the same ground-state density cannot correspond to two different potentials of an external field, and (ii) the hypothesis of the existence of the universal density functional. Based on the obtained explicit expression for the nonrel-ativistic particle energy in a local external field, we prove that the energy of the system of more than two non-interacting electrons cannot be a functional of the inhomogeneous density. This result is generalized to the system of interacting electrons. It means that the Hohenberg-Kohn lemma cannot provide justification of the universal density functional for fermions. At the same time, statements of the density functional theory remain valid when considering any number of noninteracting ground-state bosons due to the Bose condensation effect. In the framework of the density matrix functional theory, the hypothesis of the existence of the universal density matrix functional corresponds to the cases of noninteracting particles and to interaction in the Hartree-Fock approximation.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Fine-root functional trait responses to experimental warming: a global meta-analysis

Whether and how warming alters functional traits of absorptive plant roots remains to be answered across the globe. Tackling this question is crucial to better understanding terrestrial responses to climate change as fine-root traits drive many ecosystem processes. In this work, we carried out a detailed synthesis of fine-root trait responses to experimental warming by performing a meta-analysis of 964 paired observations from 177 publications. Warming increased fine-root biomass, production, respiration and nitrogen concentration as well as decreased root carbon : nitrogen ratio and nonstructural carbohydrates. Warming effects on fine-root biomass decreased with greater warming magnitude, especially in short-term experiments. Furthermore, the positive effect of warming on fine-root biomass was strongest in deeper soil horizons and in colder and drier regions. Total fine-root length, morphology, mortality, life span and turnover were unresponsive to warming. Our results highlight the significant changes in fine-root traits in response to warming as well as the importance of warming magnitude and duration in understanding fine-root responses. These changes have strong implications for global soil carbon stocks in a warmer world associated with increased root-derived carbon inputs into deeper soil horizons and increases in fine-root respiration.

59 BASIC BIOLOGICAL SCIENCES↗

On Some New Properties of Quaternion Functions

Quaternions discovered by W. R. Hamilton made a great contribution to the progress in noncommutative algebra and vector analysis. However, the analysis of quaternion functions has not been duly developed. The matter is that the notion of a derivative of quaternion functions of a quaternion variable has not been known until recently. The author has succeeded in improving the situation. The present work contains an account of the results obtained by him in this direction. The notion of an ℍ-derivative is introduced for quaternion functions of a quaternion variable. The existence of an ℍ-derivative of elementary functions is established retaining the well-known formulas for the corresponding functions from complex (real) analysis. The rules on the ℍ-differentiation of a sum, a product, and an inverse function are formulated and proved. Necessary and sufficient conditions for the existence of an ℍ-derivative are established. The notions of ℂ{sup 2}-differentiation and ℂ{sup 2}-holomorphy are introduced for quaternion functions of a quaternion variable. Three equivalent conditions are found, each of them being a necessary and sufficient one for ℂ{sup 2}-differentiation. Representations by an integral and a power series are given for ℂ{sup 2}-holomorphic functions. It is proved that the harmonicity of functions f(z), z · f(z), and f(z) · z is the necessary and sufficient condition for a function f to be Fueter-regular.

97 MATHEMATICS AND COMPUTING↗

Theory and application of the vector pair correlation function for real-space crystallographic analysis of order/disorder correlations from STEM images

Deviations of local structure and chemistry from the average crystalline unit cell are increasingly recognized to have a significant influence on the properties of many technologically important materials. Here, we present the vector pair correlation function (vPCF) as a new real-space crystallographic analysis method, which can be applied to atomic-resolution scanning transmission electron microscopy (STEM) images to quantify and analyze structural order/disorder correlations. Our STEM-based vPCFs have several advantages over radial PCFs and/or 3D pair distribution functions from x-ray total scattering: vPCFs explicitly retain crystallographic orientation information, are spatially resolved, can be applied directly on a sublattice basis, and are suitable for any material that can be imaged with STEM. To show the utility of our approach, we measure partial vPCFs in Ba 5 SmSn 3 Nb 7 O 30 (BSSN), a tetragonal tungsten bronze (TTB) structured complex oxide. Many TTBs are known to be classical or relaxor ferroelectrics, and these properties have been correlated with the presence of superlattice ordering. BSSN, specifically, exhibits relaxor behavior and an incommensurate structural modulation. From the vPCF data, we observe that, of the cation sites, only the Ba (A2) sublattice is structurally modulated. We then infer the local modulation vector and reveal a marked anisotropy in its correlation length. Finally, short-range correlated polar displacements on the B2 cation sites are observed. This work introduces the vPCF as a powerful real-space crystallography technique, which enables direct, robust quantification of short-to-long range order on a sublattice-specific basis and is applicable to a wide range of complex material types.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Characterisation of intra- and inter-C-S-H gel pore water in white cement based on an analysis of NMR signal amplitudes as a function of water content

{sup 1}H nuclear magnetic resonance (NMR) relaxation analysis of water in progressively dried white cement paste is used to estimate the width and relative specific area of intra-C-S-H sheet pores and inter-C-S-H particle gel pores. The measurement is based on the ratio of solid echo to free induction decay signal amplitudes and the observation that as water is removed, so the surface fraction contributing to the solid echo increases. The intra- and inter-C-S-H pores are found to be 1.5 nm and 4.1 nm thick respectively. The total specific area and volume ratio is 2.4 and 0.88 respectively. The volume ratio of readily evaporable water within the pore types is 0.63. Hence, the sheet porosity is 47% of the total or 38% if based solely on evaporable water. The method is distinct from NMR analyses based on the relaxation time. There is good agreement between the measured widths by the two methods.

36 MATERIALS SCIENCE↗

High-Energy X-Ray Diffraction Analysis Tool

The functionality of heRXD includes the following: distance and angular calibration and viewing flat-panel detector images used for X-ray diffraction; image (polar) rebinning or "caking"; line position fitting in powder diffraction images; image segmentation or "blob finding"; crystal orentation indesing; and lattice vector refinement. These functionalities encompass a critical set analyzing teh data for high-energy diffraction measurements that are currently performed at synchrotron sources such as the Advanced Photon Source (APS). The software design modular and open source under LGPL. The intent is to provide a common framework and graphical user interface that has the ability to utillize internal as well as external subroutines to provide various optins for performing the fuctionalities listed above. The software will initially be deployed at several national user facilities--including APS, ALS, and CHESS--and then made available for download using a hosting service such as sourceforge.

Source record↗

High-Energy X-Ray Diffraction Analysis Tool

The functionality of heRXD includes the following: distance and angular calibration and viewing flat-panel detector images used for X-ray diffraction; image (polar) rebinning or "caking"; line position fitting in powder diffraction images; image segmentation or "blob finding"; crystal orentation indesing; and lattice vector refinement. These functionalities encompass a critical set analyzing teh data for high-energy diffraction measurements that are currently performed at synchrotron sources such as the Advanced Photon Source (APS). The software design modular and open source under LGPL. The intent is to provide a common framework and graphical user interface that has the ability to utillize internal as well as external subroutines to provide various optins for performing the fuctionalities listed above. The software will initially be deployed at several national user facilities--including APS, ALS, and CHESS--and then made available for download using a hosting service such as sourceforge.

Source record↗

Large‐scale insertional mutagenesis of Chlamydomonas supports phylogenomic functional prediction of photosynthetic genes and analysis of classical acetate‐requiring mutants

Summary Chlamydomonas reinhardtii is a unicellular green alga that is a key model organism in the study of photosynthesis and oxidative stress. Here we describe the large‐scale generation of a population of insertional mutants that have been screened for phenotypes related to photosynthesis and the isolation of 459 flanking sequence tags from 439 mutants. Recent phylogenomic analysis has identified a core set of genes, named GreenCut2, that are conserved in green algae and plants. Many of these genes are likely to be central to the process of photosynthesis, and they are over‐represented by sixfold among the screened insertional mutants, with insertion events isolated in or adjacent to 68 of 597 GreenCut2 genes. This enrichment thus provides experimental support for functional assignments based on previous bioinformatic analysis. To illustrate one of the uses of the population, a candidate gene approach based on genome position of the flanking sequence of the insertional mutant CAL 027_01_20 was used to identify the molecular basis of the classical C. reinhardtii mutation ac17 . These mutations were shown to affect the gene PDH 2 , which encodes a subunit of the plastid pyruvate dehydrogenase complex. The mutants and associated flanking sequence data described here are publicly available to the research community, and they represent one of the largest phenotyped collections of algal insertional mutants to date.

Dent, Rachel M.↗

Analysis of Anther Cell Differentiation

This grant supports research on genes that regulate Arabidopsis anther development. The proposed research largely concerns that functions of two key regulatory genes: SPL and DYT1, which encode two putative transcription factors, as well as genes that interact with these genes. Last year, we reported progress in preparation for ChIP analysis with SPL and DYT1, in dyt1 and ams microarray experiments and initial data analysis, in functional analysis of one of the DYT1 target gene, MYB35.

59 BASIC BIOLOGICAL SCIENCES↗

Statistical analysis of non-Maxwellian electron distribution functions measured with angularly resolved Thomson scattering

Angularly resolved Thomson scattering is a novel extension of Thomson scattering, enabling the measurement of the electron velocity distribution function over many orders of magnitude. Here, details of the theoretical basis of the technique and the instrument designed for this measurement are described. Angularly resolved Thomson-scattering data from several experiments are shown with descriptions of the corresponding distribution functions. A reduced model describing the distribution function is given and used to perform a Monte Carlo analysis of the uncertainty in the measurements. The electron density and temperature were determined to a precision of 12% and 21%, respectively, on average, while all other parameters defining the distribution function were generally determined to better than 20%. It was found that these uncertainties were primarily due to limited signal to noise and instrumental effects. Furthermore, measurements with this level of precision were sufficient to distinguish between Maxwellian and non-Maxwellian distribution functions.

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗

Development of Updated ABsorption SIMulation Software (ABSIM)

ABsorption SIMulation, ABSIM, was developed for the simulation of absorption systems by The Oak Ridge National Laboratory during 1980s and 1990s. ABSIM provides a platform for users to investigate various cycle configurations and working fluids, to calculate their operating parameters, to predict their performance, and to compare them with each other on a uniform basis. ABSIM is indeed a very useful and accurate tool for researchers to investigate various absorption systems. However, it has not been well maintained: it is incompatible with recent operating systems; the interface needs improved user-friendliness, and the system needs better parameter setting and debugging tools to help achieve convergence. Therefore, it is highly needed to update and improve ABSIM. The paper presents recent efforts to improve ABSIM s compatibility with current operating systems, user interface, and analysis capabilities. The paper details the features and functions of the newly updated ABSIM software. The new ABSIM still uses the previously validated calculation engine of the old ABSIM. The new graphic user interfaces (GUI) were developed in Qt, which is an open source license GUI software based on C++. XML was used as the database for data storage in the new ABSIM. The new ABSIM has been designed to be easily learned and used. It has enhanced editing and construction functions, plus enhanced analysis features including parametric tables, plotting, property plots, and master panels for debugging. A single effect water/LiBr absorption system is used as a case study in this paper to illustrate the features, capabilities, and functions of the new ABSIM. This case study was actually an example system available in the old ABSIM. The new version of ABSIM will be continuously developed to include additional subroutines for the components in liquid desiccant systems. The new ABSIM will be available to public for free. The ultimate goal of the new ABSIM is to allow it to become a simulation platform for both absorption heat pump and liquid desiccant systems.

ABSIM↗

Machine learning analysis of RB-TnSeq fitness data predicts functional gene modules in Pseudomonas putida KT2440

ABSTRACT There is growing interest in engineering Pseudomonas putida KT2440 as a microbial chassis for the conversion of renewable and waste-based feedstocks, and metabolic engineering of P. putida relies on the understanding of the functional relationships between genes. In this work, independent component analysis (ICA) was applied to a compendium of existing fitness data from randomly barcoded transposon insertion sequencing (RB-TnSeq) of P. putida KT2440 grown in 179 unique experimental conditions. ICA identified 84 independent groups of genes, which we call fModules (“functional modules”), where gene members displayed shared functional influence in a specific cellular process. This machine learning-based approach both successfully recapitulated previously characterized functional relationships and established hitherto unknown associations between genes. Selected gene members from fModules for hydroxycinnamate metabolism and stress resistance, acetyl coenzyme A assimilation, and nitrogen metabolism were validated with engineered mutants of P. putida . Additionally, functional gene clusters from ICA of RB-TnSeq data sets were compared with regulatory gene clusters from prior ICA of RNAseq data sets to draw connections between gene regulation and function. Because ICA profiles the functional role of several distinct gene networks simultaneously, it can reduce the time required to annotate gene function relative to manual curation of RB-TnSeq data sets. IMPORTANCE This study demonstrates a rapid, automated approach for elucidating functional modules within complex genetic networks. While Pseudomonas putida randomly barcoded transposon insertion sequencing data were used as a proof of concept, this approach is applicable to any organism with existing functional genomics data sets and may serve as a useful tool for many valuable applications, such as guiding metabolic engineering efforts in other microbes or understanding functional relationships between virulence-associated genes in pathogenic microbes. Furthermore, this work demonstrates that comparison of data obtained from independent component analysis of transcriptomics and gene fitness datasets can elucidate regulatory-functional relationships between genes, which may have utility in a variety of applications, such as metabolic modeling, strain engineering, or identification of antimicrobial drug targets.

09 BIOMASS FUELS↗

Quality of Life Is Independently Associated With Neurocognitive Function in Patients With Brain Tumors: Analysis of a Prospective Clinical Trial

We conducted the first prospective longitudinal study examining the independent association between patient-reported health-related quality of life (hrQoL) (physical, social/family, emotional, functional, and brain cancer-specific) and neurocognitive function (NCF), while controlling for mood symptoms in patients with primary brain tumors.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

Understanding Dynamical Systems in High-Dimensional Parameter Spaces (Final Report)

In the last few decades, computational models, especially of the complex dynamical systems of greatest interest, i.e., climate, high energy density science, combustion, etc. have become increasingly accurate and sophisticated. Consequently, they are now routinely used to predict outcomes of experiments or to inform design decisions. However, many such simulations depend on a (large) number of parameters in order to, for example, approximate physical phenom whose exact solution is unknown or describe material properties in situations with little or no experimental data. Choosing these parameters and understanding how the outcomes of such a simulation changes with respect to the inputs are rapidly becoming some of the primary challenges in many application areas. Simulations have long been too complex for humans to fully comprehend and thus are often treated as black-box systems. The inputs to the systems are typically a collection of parameters with expert-selected ranges, and the outputs are various quantities of interest (QoIs) describing the performance of the system. Therefore, the fundamental challenge can be described as one of understanding a high-dimensional (many input parameters), multi-variate (many QoIs) function. Unfortunately, existing analysis tools are only of limited use for this task as most techniques can neither deal with many input dimensions nor offer opportunities to jointly study several QoIs. Furthermore, data analysis has long relied on an exploratory process in which scientist first visualize the available data, for example, using scatter plots or 3D renderings, form new hypotheses on some phenomena of interest, and subsequently test these hypotheses using dedicated analysis or statistics approaches. However, for high-dimensional functions this exploration is difficult if not impossible using existing tools as there are too many QoIs to simultaneously observe, and visualizations of high-dimensional spaces are abstract and difficult to understand if they exist at all. The goal of this project is to build new analysis techniques and tool that offer high level insights for exploring high-dimensional scientific data. And to extend existing approach beyond single scalar functions and instead consider multiple QoIs simultaneously.

97 MATHEMATICS AND COMPUTING↗