Accurate structure factors from pseudopotential methods

Highly accurate experimental structure factors of silicon are available in the literature, and these provide the ideal test for any \emph{ab initio} method for the construction of the all-electron charge density. In a recent paper [J. R. Trail and D. M. Bird, Phys. Rev. B {\bf 60}, 7863 (1999)] a method has been developed for obtaining an accurate all-electron charge density from a first principles pseudopotential calculation by reconstructing the core region of an atom of choice. Here this method is applied to bulk silicon, and structure factors are derived and compared with experimental and Full-potential Linear Augmented Plane Wave results (FLAPW). We also compare with the result of assuming the core region is spherically symmetric, and with the result of constructing a charge density from the pseudo-valence density + frozen core electrons. Neither of these approximations provide accurate charge densities. The aspherical reconstruction is found to be as accurate as FLAPW results, and reproduces the residual error between the FLAPW and experimental results.Comment: 6 Pages, 3 figure

Meripilus giganteus ethanolic extract exhibits pro-apoptotic and anti-proliferative effects in leukemic cell lines.

Background: The interest towards botanicals and plant extracts has strongly risen due to their numerous biological effects and ability to counteract chronic diseases development. Among these effects, chemoprevention which represents the possibility to counteract the cancerogenetic process is one of the most studied. The extracts of mushroom Meripilus giganteus (MG) (Phylum of Basidiomycota) showed to exert antimicrobic, antioxidant and antiproliferative effects. Therefore, since its effect in leukemic cell lines has not been previously evaluated, we studied its potential chemopreventive effect in Jurkat and HL-60 cell lines. Methods: MG ethanolic extract was characterized for its antioxidant activity and scavenging effect against different radical species. Moreover, its phenolic profile was evaluated by HPLC-MS-MS analyses. Flow cytometry (FCM) analyses of Jurkat and HL-60 cells treated with MG extract (0\u2013750 \u3bcg/mL) for 24\u201372 h- allowed to evaluate its cytotoxicity, proapoptotic and anti-proliferative effect. To better characterize MG pro-apoptotic mechanism ROS intracellular level and the gene expression level of FAS, BAX and BCL2 were also evaluated. Moreover, to assess MG extract selectivity towards cancer cells, its cytotoxicity was also evaluated in human peripheral blood lymphocytes (PBL). Results: MG extract induced apoptosis in Jurkat and HL-60 cells in a dose- and time- dependent manner by increasing BAX/BCL2 ratio, reducing ROS intracellular level and inducing FAS gene expression level. In fact, reduced ROS level is known to be related to the activation of apoptosis in leukemic cells by the involvement of death receptors. MG extract also induced cell-cycle arrest in HL-60 cells. Moreover, IC50 at 24 h treatment resulted 2 times higher in PBL than in leukemic cell lines. Conclusions: Our data suggest that MG extract might be considered a promising and partially selective chemopreventive agent since it is able to modulate different mechanisms in transformed cells at concentrations lower than in non-transformed ones

Testing and Modeling Ethernet Switches and Networks for Use in ATLAS High-level Triggers

The ATLAS second level trigger will use a multi-layered LAN network to transfer 5 Gbyte/s detector data from ~1500 buffers to a few hundred processors. A model of the network has been constructed to evaluate its performance. A key component of the network model is a model of an individual switch, reproducing the behavior measured in real devices. A small number of measurable parameters are used to model a variety of commercial Ethernet switches. Using parameters measured on real devices, the impact on the overall network performance is modeled. In the Atlas context, both 100 Mbit and Gigabit Ethernet links are required. A system is described which is capable of characterizing the behavior of commercial switches with the required number of nodes under traffic conditions resembling those to be encountered in the Atlas experiment. Fast Ethernet traffic is provided by a high density, custom built tester based on FPGAs, programmed in Handel-C and VHDL, while the Gigabit Ethernet traffic is generated using Alteon NICs with custom firmware. The system is currently being deployed with 32 100Mbit ports and 16 Gigabit ports, and will be expanded to ~256 nodes of 100 Mbit and ~50 GBE nodes

N=1/2 Supersymmetric gauge theory in noncommutative space

A formulation of (non-anticommutative) N=1/2 supersymmetric U(N) gauge theory in noncommutative space is studied. We show that at one loop UV/IR mixing occurs. A generalization of Seiberg-Witten map to noncommutative and non-anticommutative superspace is employed to obtain an action in terms of commuting fields at first order in the noncommutativity parameter tetha. This leads to abelian and non-abelian gauge theories whose supersymmetry transformations are local and non-local, respectively.Comment: One reference added, published versio

N=2 Instanton Effective Action in Omega-background and D3/D(-1)-brane System in R-R Background

We study the relation between the ADHM construction of instantons in the Omega-background and the fractional D3/D(-1)-branes at the orbifold singularity of C \times C^2/Z_2 in Ramond-Ramond (R-R) 3-form field strength background. We calculate disk amplitudes of open strings connecting the D3/D(-1)-branes in certain R-R background to obtain the D(-1)-brane effective action deformed by the R-R background. We show that the deformed D(-1)-brane effective action agrees with the instanton effective action in the Omega-background.Comment: 35 pages, no figures, references adde

A Massive S-duality in 4 dimensions

We reduce the Type IIA supergravity theory with a generalized Scherk-Schwarz ansatz that exploits the scaling symmetry of the dilaton, the metric and the NS 2-form field. The resulting theory is a new massive, gauged supergravity theory in four dimensions with a massive 2-form field and a massive 1-form field. We show that this theory is S-dual to a theory with a massive vector field and a massive 2-form field, which are dual to the massive 2-form and 1-form fields in the original theory, respectively. The S-dual theory is shown to arise from a Scherk-Schwarz reduction of the heterotic theory. Hence we establish a massive, S-duality type relation between the IIA theory and the heterotic theory in four dimensions. We also show that the Lagrangian for the new four dimensional theory can be put in the most general form of a D=4, N=4 gauged Lagrangian found by Schon and Weidner, in which (part of) the SL(2) group has been gauged.Comment: 20 pages, references adde

Gateway vectors for efficient artificial gene assembly in vitro and expression in yeast Saccharomyces cerevisiae

Peer reviewedPublisher PD

IRG and GBP host resistance factors target aberrant, ‘‘Non-self’’ vacuoles characterized by the missing of ‘‘Self’’ IRGM proteins

Interferon-inducible GTPases of the Immunity Related GTPase (IRG) and Guanylate Binding Protein (GBP) families provide resistance to intracellular pathogenic microbes. IRGs and GBPs stably associate with pathogen-containing vacuoles (PVs) and elicit immune pathways directed at the targeted vacuoles. Targeting of Interferon-inducible GTPases to PVs requires the formation of higher-order protein oligomers, a process negatively regulated by a subclass of IRG proteins called IRGMs. We found that the paralogous IRGM proteins Irgm1 and Irgm3 fail to robustly associate with ‘‘non-self’’ PVs containing either the bacterial pathogen Chlamydia trachomatis or the protozoan pathogen Toxoplasma gondii. Instead, Irgm1 and Irgm3 reside on ‘‘self’’ organelles including lipid droplets (LDs). Whereas IRGM-positive LDs are guarded against the stable association with other IRGs and GBPs, we demonstrate that IRGM-stripped LDs become high affinity binding substrates for IRG and GBP proteins. These data reveal that intracellular immune recognition of organelle-like structures by IRG and GBP proteins is partly dictated by the missing of ‘‘self’’ IRGM proteins from these structures.Fil: Haldar, Arun K.. University Of Duke; Estados UnidosFil: Saka, Hector Alex. University Of Duke; Estados Unidos. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Córdoba. Centro de Investigaciones en Bioquímica Clínica e Inmunología; ArgentinaFil: Piro, Anthony S.. University Of Duke; Estados UnidosFil: Dunn, Joe Dan. University Of Duke; Estados UnidosFil: Henry, Stanley C.. University Of Duke; Estados Unidos. Veteran Affairs Medical Center; Estados UnidosFil: Taylor, Gregory A.. University Of Duke; Estados Unidos. Veteran Affairs Medical Center; Estados UnidosFil: Frickel, Eva M.. National Institute for Medical Research; Reino UnidoFil: Valdivia, Raphael H.. University Of Duke; Estados UnidosFil: Coers, Jörn. University Of Duke; Estados Unido

Protein interactions in Xenopus germ plasm RNP particles

Hermes is an RNA-binding protein that we have previously reported to be found in the ribonucleoprotein (RNP) particles of Xenopus germ plasm, where it is associated with various RNAs, including that encoding the germ line determinant Nanos1. To further define the composition of these RNPs, we performed a screen for Hermes-binding partners using the yeast two-hybrid system. We have identified and validated four proteins that interact with Hermes in germ plasm: two isoforms of Xvelo1 (a homologue of zebrafish Bucky ball) and Rbm24b and Rbm42b, both RNA-binding proteins containing the RRM motif. GFP-Xvelo fusion proteins and their endogenous counterparts, identified with antisera, were found to localize with Hermes in the germ plasm particles of large oocytes and eggs. Only the larger Xvelo isoform was naturally found in the Balbiani body of previtellogenic oocytes. Bimolecular fluorescence complementation (BiFC) experiments confirmed that Hermes and the Xvelo variants interact in germ plasm, as do Rbm24b and 42b. Depletion of the shorter Xvelo variant with antisense oligonucleotides caused a decrease in the size of germ plasm aggregates and loosening of associated mitochondria from these structures. This suggests that the short Xvelo variant, or less likely its RNA, has a role in organizing and maintaining the integrity of germ plasm in Xenopus oocytes. While GFP fusion proteins for Rbm24b and 42b did not localize into germ plasm as specifically as Hermes or Xvelo, BiFC analysis indicated that both interact with Hermes in germ plasm RNPs. They are very stable in the face of RNA depletion, but additive effects of combinations of antisense oligos suggest they may have a role in germ plasm structure and may influence the ability of Hermes protein to effectively enter RNP particles