Magnetic ground state of the Ising-like antiferromagnet DyScO3_3

We report the low temperature magnetic properties of the DyScO$_3$ perovskite, which were characterized by means of single crystal and powder neutron scattering, and by magnetization measurements. Below $T_{\mathrm{N}}=3.15$ K, Dy$^{3+}$ moments form an antiferromagnetic structure with an easy axis of magnetization lying in the $ab$-plane. The magnetic moments are inclined at an angle of $\sim\pm{28}^{\circ}$ to the $b$-axis. We show that the ground state Kramers doublet of Dy$^{3+}$ is made up of primarily $|\pm 15/2\rangle$ eigenvectors and well separated by crystal field from the first excited state at $E_1=24.9$ meV. This leads to an extreme Ising single-ion anisotropy, $M_{\perp}/M_{\|}\sim{0.05}$. The transverse magnetic fluctuations, which are proportional to $M^{2}_{\perp}/M^{2}_{\|}$, are suppressed and only moment fluctuations along the local Ising direction are allowed. We also found that the Dy-Dy dipolar interactions along the crystallographic $c$-axis are 2-4 times larger than in-plane interactions.Comment: 9 pages and 6 figures; to be published in Phys. Rev.

Pinning Enhancement by Heterovalent Substitution in Y1−x_{1-x}REx_{x}Ba2_{2}Cu3_{3}O7−δ_{7-\delta}

The intragrain pinning in high-$T_c$ superconductor compounds Y$_{1-x}$RE$_{x}$Ba$_{2}$Cu$_{3}$O$_{7-\delta}$ with low concentration of RE (La, Ce, Pr) was investigated. Magnetic and transport measurements reveal that the pinning is maximal for the concentration of heterovalent RE such that the average distance between the impurity ions in the plane of rare-earth elements close to the diameter of Abrikosov vortices in YBCO.Comment: 11 pages, 6 figures, will be published in SUS

HMDB: a knowledgebase for the human metabolome

The Human Metabolome Database (HMDB, http://www.hmdb.ca) is a richly annotated resource that is designed to address the broad needs of biochemists, clinical chemists, physicians, medical geneticists, nutritionists and members of the metabolomics community. Since its first release in 2007, the HMDB has been used to facilitate the research for nearly 100 published studies in metabolomics, clinical biochemistry and systems biology. The most recent release of HMDB (version 2.0) has been significantly expanded and enhanced over the previous release (version 1.0). In particular, the number of fully annotated metabolite entries has grown from 2180 to more than 6800 (a 300% increase), while the number of metabolites with biofluid or tissue concentration data has grown by a factor of five (from 883 to 4413). Similarly, the number of purified compounds with reference to NMR, LC-MS and GC-MS spectra has more than doubled (from 380 to more than 790 compounds). In addition to this significant expansion in database size, many new database searching tools and new data content has been added or enhanced. These include better algorithms for spectral searching and matching, more powerful chemical substructure searches, faster text searching software, as well as dedicated pathway searching tools and customized, clickable metabolic maps. Changes to the user-interface have also been implemented to accommodate future expansion and to make database navigation much easier. These improvements should make the HMDB much more useful to a much wider community of users

A Global Metabolic Shift Is Linked to Salmonella Multicellular Development

Bacteria can elaborate complex patterns of development that are dictated by temporally ordered patterns of gene expression, typically under the control of a master regulatory pathway. For some processes, such as biofilm development, regulators that initiate the process have been identified but subsequent phenotypic changes such as stress tolerance do not seem to be under the control of these same regulators. A hallmark feature of biofilms is growth within a self-produced extracellular matrix. In this study we used metabolomics to compare Salmonella cells in rdar colony biofilms to isogenic csgD deletion mutants that do not produce an extracellular matrix. The two populations show distinct metabolite profiles. Even though CsgD controls only extracellular matrix production, metabolite signatures associated with cellular adaptations associated with stress tolerances were present in the wild type but not the mutant cells. To further explore these differences we examine the temporal gene expression of genes implicated in biofilm development and stress adaptations. In wild type cells, genes involved in a metabolic shift to gluconeogenesis and various stress-resistance pathways exhibited an ordered expression profile timed with multicellular development even though they are not CsgD regulated. In csgD mutant cells, the ordered expression was lost. We conclude that the induction of these pathways results from production of, and growth within, a self produced matrix rather than elaboration of a defined genetic program. These results predict that common physiological properties of biofilms are induced independently of regulatory pathways that initiate biofilm formation

Comparative Genomic Analysis of Pathogenic and Probiotic Enterococcus faecalis Isolates, and Their Transcriptional Responses to Growth in Human Urine

Urinary tract infection (UTI) is the most common infection caused by enterococci, and Enterococcus faecalis accounts for the majority of enterococcal infections. Although a number of virulence related traits have been established, no comprehensive genomic or transcriptomic studies have been conducted to investigate how to distinguish pathogenic from non-pathogenic E. faecalis in their ability to cause UTI. In order to identify potential genetic traits or gene regulatory features that distinguish pathogenic from non-pathogenic E. faecalis with respect to UTI, we have performed comparative genomic analysis, and investigated growth capacity and transcriptome profiling in human urine in vitro. Six strains of different origins were cultivated and all grew readily in human urine. The three strains chosen for transcriptional analysis showed an overall similar response with respect to energy and nitrogen metabolism, stress mechanism, cell envelope modifications, and trace metal acquisition. Our results suggest that citrate and aspartate are significant for growth of E. faecalis in human urine, and manganese appear to be a limiting factor. The majority of virulence factors were either not differentially regulated or down-regulated. Notably, a significant up-regulation of genes involved in biofilm formation was observed. Strains from different origins have similar capacity to grow in human urine. The overall similar transcriptional responses between the two pathogenic and the probiotic strain suggest that the pathogenic potential of a certain E. faecalis strain may to a great extent be determined by presence of fitness and virulence factors, rather than the level of expression of such traits

Synthesis of the Orthorhombic Dy1-xHoxMnO3 Single Crystals and Study of Their Magnetic Properties

In this report we prepared for the first time the orthorhombic Dy1-xHoxMnO3 single crystals with x = 0, 0.1, 0.2, 0.3, and 0.4 using the flux technique. The post-growth processing and chemical and structural characterization of the synthesized samples were performed. Also we examined the samples obtained by their magnetic properties and the magnetic anisotropy in wide ranges of temperatures and magnetic fields