The crystal structure of superoxide dismutase from Plasmodium falciparum

Background: Superoxide dismutases (SODs) are important enzymes in defence against oxidative stress. In Plasmodium falciparum, they may be expected to have special significance since part of the parasite life cycle is spent in red blood cells where the formation of reactive oxygen species is likely to be promoted by the products of haemoglobin breakdown. Thus, inhibitors of P. falciparum SODs have potential as anti-malarial compounds. As a step towards their development we have determined the crystal structure of the parasite's cytosolic iron superoxide dismutase. Results: The cytosolic iron superoxide dismutase from P. falciparum (PfFeSOD) has been overexpressed in E. coli in a catalytically active form. Its crystal structure has been solved by molecular replacement and refined against data extending to 2.5 angstrom resolution. The structure reveals a two-domain organisation and an iron centre in which the metal is coordinated by three histidines, an aspartate and a solvent molecule. Consistent with ultracentrifugation analysis the enzyme is a dimer in which a hydrogen bonding lattice links the two active centres. Conclusion: The tertiary structure of PfFeSOD is very similar to those of a number of other iron-and manganese-dependent superoxide dismutases, moreover the active site residues are conserved suggesting a common mechanism of action. Comparison of the dimer interfaces of PfFeSOD with the human manganese-dependent superoxide dismutase reveals a number of differences, which may underpin the design of parasite-selective superoxide dismutase inhibitors

From Skew-Cyclic Codes to Asymmetric Quantum Codes

We introduce an additive but not $\mathbb{F}_4$-linear map $S$ from $\mathbb{F}_4^{n}$ to $\mathbb{F}_4^{2n}$ and exhibit some of its interesting structural properties. If $C$ is a linear $[n,k,d]_4$-code, then $S(C)$ is an additive $(2n,2^{2k},2d)_4$-code. If $C$ is an additive cyclic code then $S(C)$ is an additive quasi-cyclic code of index $2$. Moreover, if $C$ is a module $\theta$-cyclic code, a recently introduced type of code which will be explained below, then $S(C)$ is equivalent to an additive cyclic code if $n$ is odd and to an additive quasi-cyclic code of index $2$ if $n$ is even. Given any $(n,M,d)_4$-code $C$, the code $S(C)$ is self-orthogonal under the trace Hermitian inner product. Since the mapping $S$ preserves nestedness, it can be used as a tool in constructing additive asymmetric quantum codes.Comment: 16 pages, 3 tables, submitted to Advances in Mathematics of Communication

Amp\`ere-Class Pulsed Field Emission from Carbon-Nanotube Cathodes in a Radiofrequency Resonator

Pulsed field emission from cold carbon-nanotube cathodes placed in a radiofrequency resonant cavity was observed. The cathodes were located on the backplate of a conventional $1+\frac{1}{2}$-cell resonant cavity operating at 1.3-GHz and resulted in the production of bunch train with maximum average current close to 0.7 Amp\`ere. The measured Fowler-Nordheim characteristic, transverse emittance, and pulse duration are presented and, when possible, compared to numerical simulations. The implications of our results to high-average-current electron sources are briefly discussed.Comment: 5 pages, 6 figures; submitted to Applied Physics Letter

Quantum internal modes of solitons in 1d easy-plane antiferromagnet in strong magnetic field

In presence of a strong external magnetic field the dynamics of solitons in a one-dimensional easy-plane Heisenberg antiferromagnet exhibits a number of peculiarities. Dynamics of internal soliton degrees of freedom is essentially quantum, and they are strongly coupled to the "translational" mode of soliton movement. These peculiarities lead to considerable changes in the response functions of the system which can be detected experimentally.Comment: 8 pages, RevTeX, 6 figures, uses psfig.sty, submitted to PR

On the Asymptotic Stability of De-Sitter Spacetime: a non-linear perturbative approach

We derive evolution and constraint equations for second order perturbations of flat dust homogeneous and isotropic solutions to the Einstein field equations using all scalar, vector and tensor perturbation modes. We show that the perturbations decay asymptotically in time and that the solutions converge to the De-Sitter solution. By induction, this result is valid for perturbations of arbitrary order. This is in agreement with the cosmic no-hair conjecture of Gibbons and Hawking.Comment: 11 pages, 2 figure

Introducing the Dark Energy Universe Simulation Series (DEUSS)

In this "Invisible Universe" proceedings, we introduce the Dark Energy Universe Simulation Series (DEUSS) which aim at investigating the imprints of realistic dark energy models on cosmic structure formation. It represents the largest dynamical dark energy simulation suite to date in term of spatial dynamics. We first present the 3 realistic dark energy models (calibrated on latest SNIa and CMB data): LambdaCDM, quintessence with Ratra-Peebles potential, and quintessence with Sugra potential. We then isolate various contributions for non-linear matter power spectra from a series of pre-DEUSS high-resolution simulations (130 million particles). Finally, we introduce DEUSS which consist in 9 Grand Challenge runs with 1 billion particles each thus probing scales from 4 Gpc down to 3 kpc at z=0. Our goal is to make these simulations available to the community through the "Dark Energy Universe Virtual Observatory" (DEUVO), and the "Dark Energy Universe Simulations" (DEUS) consortium.Comment: 6 pages, 3 figures, to appear in the AIP proceedings of the 'Invisible Universe International Conference', UNESCO-Paris, June 29-July 3, 200

Polarized distribution of HCO3- transport in human normal and cystic fibrosis nasal epithelia

The polarized distribution of HCO3− transport was investigated in human nasal epithelial cells from normal and cystic fibrosis (CF) tissues. To test for HCO3− transport via conductive versus electroneutral Cl−/HCO3− exchange (anion exchange, AE) pathways, nasal cells were loaded with the pH probe 2′,7′-bis(carboxyethyl)-5(6)-carboxyfluorescein and mounted in a bilateral perfusion chamber. In normal, but not CF, epithelia, replacing mucosal Cl− with gluconate caused intracellular pH (pHi) to increase, and the initial rates (ΔpH min−1) of this increase were modestly augmented (∼26 %) when normal cells were pretreated with forskolin (10 μm). Recovery from this alkaline shift was dependent on mucosal Cl−, was insensitive to the AE inhibitor 4,4′-diisothiocyanatodihydrostilbene-2,2′-disulfonic acid (H2DIDS; 1.5 mm), but was sensitive to the cystic fibrosis transmembrane conductance regulator (CFTR) channel inhibitor diphenylamine-2-carboxylate (DPC; 100 μm). In contrast, removal of serosal Cl− caused pHi to alkalinize in both normal and CF epithelia. Recovery from this alkaline challenge was dependent on serosal Cl− and blocked by H2DIDS. Additional studies showed that serosally applied Ba2+ (5.0 mm) in normal, but not CF, cells induced influx of HCO3− across the apical membrane that was reversibly blocked by mucosal DPC. In a final series of studies, normal and CF cells acutely alkaline loaded by replacing bilateral Krebs bicarbonate Ringer (KBR) with Hepes-buffered Ringer solution exhibited basolateral, but not apical, recovery from an alkaline challenge that was dependent on Cl−, independent of Na+ and blocked by H2DIDS. We conclude that: (1) normal, but not CF, nasal epithelia have a constitutively active DPC-sensitive HCO3− influx/efflux pathway across the apical membrane of cells, consistent with the movement of HCO3− via CFTR; and (2) both normal and CF nasal epithelia have Na+-independent, H2DIDS-sensitive AE at their basolateral domain

The aerosol-climate model ECHAM5-HAM

The aerosol-climate modelling system ECHAM5-HAM is introduced. It is based on a flexible microphysical approach and, as the number of externally imposed parameters is minimised, allows the application in a wide range of climate regimes. ECHAM5-HAM predicts the evolution of an ensemble of microphysically interacting internally- and externally-mixed aerosol populations as well as their size-distribution and composition. The size-distribution is represented by a superposition of log-normal modes. In the current setup, the major global aerosol compounds sulfate (SU), black carbon (BC), particulate organic matter (POM), sea salt (SS), and mineral dust (DU) are included. The simulated global annual mean aerosol burdens (lifetimes) for the year 2000 are for SU: 0.80 Tg(S) (3.9 days), for BC: 0.11 Tg (5.4 days), for POM: 0.99 Tg (5.4 days), for SS: 10.5 Tg (0.8 days), and for DU: 8.28 Tg (4.6 days). An extensive evaluation with in-situ and remote sensing measurements underscores that the model results are generally in good agreement with observations of the global aerosol system. The simulated global annual mean aerosol optical depth (AOD) is with 0.14 in excellent agreement with an estimate derived from AERONET measurements (0.14) and a composite derived from MODIS-MISR satellite retrievals (0.16). Regionally, the deviations are not negligible. However, the main patterns of AOD attributable to anthropogenic activity are reproduced

On the String Consensus Problem and the Manhattan Sequence Consensus Problem

In the Manhattan Sequence Consensus problem (MSC problem) we are given $k$ integer sequences, each of length $l$, and we are to find an integer sequence $x$ of length $l$ (called a consensus sequence), such that the maximum Manhattan distance of $x$ from each of the input sequences is minimized. For binary sequences Manhattan distance coincides with Hamming distance, hence in this case the string consensus problem (also called string center problem or closest string problem) is a special case of MSC. Our main result is a practically efficient $O(l)$-time algorithm solving MSC for $k\le 5$ sequences. Practicality of our algorithms has been verified experimentally. It improves upon the quadratic algorithm by Amir et al.\ (SPIRE 2012) for string consensus problem for $k=5$ binary strings. Similarly as in Amir's algorithm we use a column-based framework. We replace the implied general integer linear programming by its easy special cases, due to combinatorial properties of the MSC for $k\le 5$. We also show that for a general parameter $k$ any instance can be reduced in linear time to a kernel of size $k!$, so the problem is fixed-parameter tractable. Nevertheless, for $k\ge 4$ this is still too large for any naive solution to be feasible in practice.Comment: accepted to SPIRE 201

Spin dynamics in copper metaborate CuB2O4CuB_2 O_4 studied by muon spin relaxation

Copper metaborate CuB$_2$O$_{4}$ was studied by muon spin relaxation measurements in order to clarify its static and dynamic magnetic properties. The time spectra of muon spin depolarization suggest that the local fields at the muon site contain both static and fluctuating components in all ordered phases down to 0.3 K. In the weak ferromagnetic phase (20 K~$>T>$~9.3 K), the static component is dominant. On the other hand, upon cooling the fluctuating component becomes dominant in the incommensurate helix phase (9.3K > T > 1.4K). The dynamical fluctuations of the local fields persist down to 0.3K, where a new incommensurate phase (T < 1.4K) is expected to appear. This result suggests that spins fluctuate even at T \to 0. We propose two possible origins of the remnant dynamical spin fluctuations: frustration of the exchange interactions and the dynamic behavior of the soliton lattice