Transcriptome comparison of resistant and suscentible Hevea brasiliensis cultivars infected by Microcyclus ulei

- Background and Aims South American Leaf Blight (SALB) is caused by an ascomycota, Microcyclus ulei (P. Henn.) v. Arx., and is the most damaging disease in Latin America and the most important threat for rubber tree plantations in Asia and Africa which produce 95% of the world rubber with susceptible genotypes. Because few information are available to understand the biological process of the disease development, suppression subtractive hybridization (SSH) approach was developed in order to identify genes differentially expressed at different stages of the pathogenic interaction with Microcyclus ulei, with a particular interest for defence and stress-related genes. - Methods To identify candidate genes and gain better understanding of the hostpathogen interaction in the pathosystem Hevea brasiliensis - Microcyclus ulei, Suppression Subtractive Hybridization libraries were compared. Leaflets of the MDF 180 partially resistant cultivar and the PB314 susceptible cultivar were inoculated with M. ulei. Using 6 to 72 h.p.i, 4 to 28 d.p.i, and 34 to 58 d.p.i infected and healthy leaflets, five cDNA libraries, highly enriched for M. ulei - induced genes were prepared. - Key Results Within 8027 clones randomly picked and sequenced from the libraries, 1165 singlets and 458 contigs for a total of 1623 non-redundant sequences were obtained. The redundancy of each SSH libraries were variable, ranging from 87% in PB314 4-28 d.p.i libary to 23% in MDF180 4-28 d.p.i library. Sequence analysis allowed the assignment of a putative functional category for 38% of sequences, whereas 15% of sequences corresponded to unknown function and 47% did not show any significant similarity with other proteins present in the databank. Clustering of the whole sequence reveal a high degree of dissimilarity between the genes isolated in each library. Moreover, the obtained ESTs compared with the Hevea latex transcriptome, appear highly specific of the leaf tissue. The comparison of the five libraries displayed a drastic diminution of the number of over-expressed genes in PB314 genotype during the infection process, differently from MDF180 genotype for which the number of genes related to stress and defence display an increase of 56%. These preliminary results are put together with symptomatic and histological observations. (Résumé d'auteur

Field theoretic description of charge regulation interaction

In order to find the exact form of the electrostatic interaction between two proteins with dissociable charge groups in aqueous solution, we have studied a model system composed of two macroscopic surfaces with charge dissociation sites immersed in a counterion-only ionic solution. Field-theoretic representation of the grand canonical partition function is derived and evaluated within the mean-field approximation, giving the Poisson-Boltzmann theory with the Ninham-Parsegian boundary condition. Gaussian fluctuations around the mean-field are then analyzed in the lowest order correction that we calculate analytically and exactly, using the path integral representation for the partition function of a harmonic oscillator with time-dependent frequency. The first order (one loop) free energy correction gives the interaction free energy that reduces to the zero-frequency van der Waals form in the appropriate limit but in general gives rise to a mono-polar fluctuation term due to charge fluctuation at the dissociation sites. Our formulation opens up the possibility to investigate the Kirkwood-Shumaker interaction in more general contexts where their original derivation fails.Comment: 12 pages, 9 figures, submitted to EPJ

Estimation of kinetic parameters in a chromatographic separation model via Bayesian inference

A modelagem de processos de adsorção tem sido empregada com frequência nas indústrias químicas, petroquímicas e refinarias, por exemplo para separação e purificação de misturas em unidade de Leito Móvel Simulado (LMS). Na representação matemática do modelo, a determinação de parâmetros é um passo importante para o projeto de condições cromatográficas para a separação contínua, em processos do tipo LMS. Este trabalho tem por objetivo a análise de estimativa de parâmetros em processos de adsorção, usando um sistema cromatográfico com uma coluna, para a separação das substâncias Glicose e Frutose. Investiga-se o uso da abordagem Bayesiana, através de métodos de Monte Carlo via Cadeias de Markov (MCMC), assim como o uso da abordagem da máxima verossimilhança, utilizando duas técnicas estocásticas diferentes, o Algoritmo de Colisão de Partículas (PCA - Particle Collision Algorithm), e o Algoritmo de Otimização por Enxame de Partículas (PSO - Particle Swarm Optimization) para executar a tarefa de minimização da função objetivo. Diferentes casos são apresentados com o objetivo de analisar a significância estatística das estimativas obtidas para os parâmetros, fazendo-se uma comparação crítica entre a solução via inferência Bayesiana e via minimização da função objetivo com métodos estocásticos. Os resultados obtidos demonstram que o uso da abordagem Bayesiana fornece uma proposta vantajosa para a estimativa de parâmetros em transferência de massa, oferecendo resultados com maior riqueza de informação estatística.The modeling of adsorption processes appears quite frequently in the chemical industry, petrochemical plants and refineries, for example for separation and purification of mixtures in Simulated Moving Bed (SMB) units. In the mathematical formulation, the accurate determination of the model parameters is an important step for the design of chromatographic conditions for continuous separation in SMB processes. This work is aimed at the estimation of the model parameters in adsorption processes, using a chromatographic column for the separation of glucose and fructose. The Bayesian framework for inverse problems is investigated through the implementation of Markov Chain Monte Carlo methods (MCMC) and a critical comparison against the classical Maximum Likelihood approach, with the minimization of the objective function via two different stochastic techniques, namely the Particle Collision Algorithm (PCA), and the Particle Swarm Optimization (PSO) is performed. Different cases are presented in order to investigate the statistical significance of the estimates obtained, and perform comparisons between the solution via Bayesian inference and via the minimization of the objective function with the stochastic methods. The results demonstrate that the Bayesian approach employs less computational effort to achieve estimates with comparable statistical information.Peer Reviewe

ISML: an interface specification meta-language

In this paper we present an abstract metaphor model situated within a model-based user interface framework. The inclusion of metaphors in graphical user interfaces is a well established, but mostly craft-based strategy to design. A substantial body of notations and tools can be found within the model-based user interface design literature, however an explicit treatment of metaphor and its mappings to other design views has yet to be addressed. We introduce the Interface Specification Meta-Language (ISML) framework and demonstrate its use in comparing the semantic and syntactic features of an interactive system. Challenges facing this research are outlined and further work proposed

Giant gravitons in AdS/CFT (I): matrix model and back reaction

In this article we study giant gravitons in the framework of AdS/CFT correspondence. First, we show how to describe these configurations in the CFT side using a matrix model. In this picture, giant gravitons are realized as single excitations high above a Fermi sea, or as deep holes into it. Then, we give a prescription to define quasi-classical states and we recover the known classical solution associated to the CFT dual of a giant graviton that grows in AdS. Second, we use the AdS/CFT dictionary to obtain the supergravity boundary stress tensor of a general state and to holographically reconstruct the bulk metric, obtaining the back reaction of space-time. We find that the space-time response to all the supersymmetric giant graviton states is of the same form, producing the singular BPS limit of the three charge Reissner-Nordstr\"om-AdS black holes. While computing the boundary stress tensor, we comment on the finite counterterm recently introduced by Liu and Sabra, and connect it to a scheme-dependent conformal anomaly.Comment: 28 pages, JHEP3 class. v2: typos corrected and references adde

Radiation-induced oscillatory magnetoresistance as a sensitive probe of the zero-field spin splitting in high mobility GaAs/AlGaAs devices

We suggest an approach for characterizing the zero-field spin splitting of high mobility two-dimensional electron systems, when beats are not readily observable in the Shubnikov-de Haas effect. The zero-field spin splitting and the effective magnetic field seen in the reference frame of the electron is evaluated from a quantitative study of beats observed in radiation-induced magnetoresistance oscillations.Comment: 4 pages, 4 color figure

BB flavour tagging using charm decays at the LHCb experiment

An algorithm is described for tagging the flavour content at production of neutral $B$ mesons in the LHCb experiment. The algorithm exploits the correlation of the flavour of a $B$ meson with the charge of a reconstructed secondary charm hadron from the decay of the other $b$ hadron produced in the proton-proton collision. Charm hadron candidates are identified in a number of fully or partially reconstructed Cabibbo-favoured decay modes. The algorithm is calibrated on the self-tagged decay modes $B^+ \to J/\psi \, K^+$ and $B^0 \to J/\psi \, K^{*0}$ using $3.0\mathrm{\,fb}^{-1}$ of data collected by the LHCb experiment at $pp$ centre-of-mass energies of $7\mathrm{\,TeV}$ and $8\mathrm{\,TeV}$. Its tagging power on these samples of $B \to J/\psi \, X$ decays is $(0.30 \pm 0.01 \pm 0.01) \%$.Comment: All figures and tables, along with any supplementary material and additional information, are available at http://lhcbproject.web.cern.ch/lhcbproject/Publications/LHCbProjectPublic/LHCb-PAPER-2015-027.htm

Evidence for the strangeness-changing weak decay Ξb−→Λb0π−\Xi_b^-\to\Lambda_b^0\pi^-

Using a $pp$ collision data sample corresponding to an integrated luminosity of 3.0~fb$^{-1}$, collected by the LHCb detector, we present the first search for the strangeness-changing weak decay $\Xi_b^-\to\Lambda_b^0\pi^-$. No $b$ hadron decay of this type has been seen before. A signal for this decay, corresponding to a significance of 3.2 standard deviations, is reported. The relative rate is measured to be ${{f_{\Xi_b^-}}\over{f_{\Lambda_b^0}}}{\cal{B}}(\Xi_b^-\to\Lambda_b^0\pi^-) = (5.7\pm1.8^{+0.8}_{-0.9})\times10^{-4}$, where $f_{\Xi_b^-}$ and $f_{\Lambda_b^0}$ are the $b\to\Xi_b^-$ and $b\to\Lambda_b^0$ fragmentation fractions, and ${\cal{B}}(\Xi_b^-\to\Lambda_b^0\pi^-)$ is the branching fraction. Assuming $f_{\Xi_b^-}/f_{\Lambda_b^0}$ is bounded between 0.1 and 0.3, the branching fraction ${\cal{B}}(\Xi_b^-\to\Lambda_b^0\pi^-)$ would lie in the range from $(0.57\pm0.21)\%$ to $(0.19\pm0.07)\%$.Comment: 7 pages, 2 figures, All figures and tables, along with any supplementary material and additional information, are available at https://lhcbproject.web.cern.ch/lhcbproject/Publications/LHCbProjectPublic/LHCb-PAPER-2015-047.htm

Measurement of the ttbar Production Cross Section in ppbar Collisions at sqrt(s)=1.96 TeV using Lepton + Jets Events with Lifetime b-tagging

We present a measurement of the top quark pair ($t\bar{t}$) production cross section ($\sigma_{t\bar{t}}$) in $p\bar{p}$ collisions at $\sqrt{s}=1.96$ TeV using 230 pb$^{-1}$ of data collected by the D0 experiment at the Fermilab Tevatron Collider. We select events with one charged lepton (electron or muon), missing transverse energy, and jets in the final state. We employ lifetime-based b-jet identification techniques to further enhance the $t\bar{t}$ purity of the selected sample. For a top quark mass of 175 GeV, we measure $\sigma_{t\bar{t}}=8.6^{+1.6}_{-1.5}(stat.+syst.)\pm 0.6(lumi.)$ pb, in agreement with the standard model expectation.Comment: 7 pages, 2 figures, 3 tables Submitted to Phys.Rev.Let

The role of antimicrobial stewardship programmes in children: a systematic review.

The United Nations and the World Health Organization have designated antimicrobial resistance (AMR) as a major health priority and developed action plans to reduce AMR in all healthcare settings. Establishment of institutional antimicrobial stewardship programmes (ASPs) is advocated as a key intervention to reduce antibiotic consumption in hospitals and address high rates of multi-drug resistant (MDR) bacteria. We searched PUBMED and the Cochrane database of systematic reviews (1/2007-3/2017) to identify studies reporting about the effectiveness of ASPs in general paediatric wards and paediatric intensive care units (PICU), on reducing antibiotic consumption, on using broad spectrum/restricted antibiotics, and on antibiotic resistance and healthcare-associated infections (HAIs). Neonatal units and antifungal agents were excluded. Of 2509 titles and abstracts, nine articles were eligible to be included in the final analysis. All studies reported on the reduction of broad spectrum/restricted antibiotics or antibiotic consumption. One study reported on the reduction of HAI in a PICU, and another evaluated bacterial resistance, showing no effect following ASP implementation. Prospective audit on antibiotic use was the most common ASP core component (eight of nine studies). Antibiotic pre-authorisation was described in two articles. Other described interventions were providing guidelines or written information (five of nine articles), and training of healthcare professionals (one article). There is limited evidence about reducing antibiotic consumption and broad-spectrum/restricted agents following ASP implementation, specifically in PICU. Data evaluating the impact of ASPs on HAI and AMR in PICU is lacking. In addition, there is limited information on effective components of a successful ASPs in PICUs