A catalogue of velocities in the cluster of galaxies Abell 85

We present a catalogue of velocities for 551 galaxies (and give the coordinates of 39 stars misclassified as galaxies in our photometric plate catalogue) in a region covering about 100'$\times$100' (0.94$\times$0.94 Mpc for an average redshift of 0.0555, assuming H$_\circ$=50 km s$^{-1}$ Mpc$^{-1}$) in the direction of the rich cluster Abell 85. This catalogue includes previously published redshifts by Beers et al. (1991) and Malumuth et al. (1992), together with our 367 new measurements. A total of 305 galaxies have velocities in the interval 13350-20000 km s$^{-1}$, and will be considered as members of the cluster. Abell 85 therefore becomes one of the clusters with the highest number of measured redshifts; its optical properties are being investigated in a companion paper.Comment: Accepted for publication in A&AS, Table 4 available in electronic form onl

Use of an enrichment analysis strategy to detect potential new drug targets in fungal genomes.

Fungi are a major class of pathogens in several animal and plant species, having a great agricultural, veterinary and medical importance. The search for anti-fungal drugs is an especially hard task due to the relative phylogenetic relatedness of fungi to their animal and vegetal hosts when compared with other classes of parasites, such as bacteria. This phylogenetic relatedness causes most of the potential druggable genes in fungi to be essential for both fungal and host genomes. This class of essential genes would tend to be observed at high frequencies in both groups. Essential genes specific of fungal species, however, would tend to be significantly more present in fungal genomes when compared with the frequency of the same gene in host genomes. In this study we used a software previously developed by our group named KOMODO (Kegg Orthology enrichMent analysis ? Online DetectiOn) that detects significantly under- or over-represented groups of homologous genes (as defined by KO groups) in one taxon when compared with the other. We used KOMODO to compare the Fungi and Eukarya taxa and identify significantly overrepresented KO groups in fungal genomes when compared with the eukaryotic background distribution of KO groups. Since each analysis using KOMODO tests thousands of hypotheses (one statistical test for each KO group surveyed), False Discovery Ratio approaches are implemented to control Type I error ratios and generate corrected q-values. Our software also displays the groups of biased homologous genes hierarchically classified according to their statistical significance and displayed into their proper biochemical roles as defined by Kegg Pathways into a dynamically generated webpage. The visual observation of the differentially represented genes adds an important source of information to help the biological comprehension of the phenomena behind the biased distributions detected. From the set of 2611 shared KO groups between Fungi and Eukarya taxa we found 88 of them to be significantly overrepresented in fungal genomes (q-value cutoff of <= 10e-5). These genes were then manually surveyed in scientific literature to verify if any of them was previously studied as essential and/or as a potential anti-fungal target. We found that some of these KO groups were already successfully evaluated as essential genes for fungal pathogenesis and/or survival, highlighting the ability of KOMODO to detect interesting gene candidates. More interestingly was the finding that most of the genes detected were never surveyed for their potential role in fungal survival. Additionally, several of these genes belong to essential pathways (such as sugar, amino acid and nucleotide metabolism), and could be considered as potential candidates for future studies to detect new essential genes for fungal survival. This study of case demonstrated the utility of KOMODO to detect both known and potentially new druggable genes by looking for enriched genes in fungal genomes when compared with other eukaryotes. As the number of complete genomes increase, we believe that a similar strategy could be used to survey other classes of eukaryotic parasites (such as protozoa, helminths and arthropods) for potential gene targets as well, making KOMODO a valuable tool to detect (and, consequently, prioritize) new drug targets in the figure of parasite-specific essential genes.X-MEETING 2011

Desenvolvimento de software para a detecção de grupos de genes homólogos sob evidência de seleção positiva.

O presente trabalho descreve o desenvolvimento de um software para a busca por grupos de genes homólogos sob evidência de seleção positiva. Nesse trabalho, desenvolveu-se um software em perl para integrar diversos softwares de terceiros capazes de realizar as tarefas individuais para a detecção de genes sob evidência de seleção positiva, conforme resumido na Figura 1

POTION: um software paralelizado para a detecção de grupos de genes homólogos sob evidência de seleção positiva em escala genômica.

O presente trabalho descreve o desenvolvimento do software POTION (POsitive selecTION) para a busca por grupos de genes homólogos sob evidência de seleção positiva

On thin-shell wormholes evolving in flat FRW spacetimes

We analize the stability of a class of thin-shell wormholes with spherical symmetry evolving in flat FRW spacetimes. The wormholes considered here are supported at the throat by a perfect fluid with equation of state $\mathcal{P}=w\sigma$ and have a physical radius equal to $aR$, where $a$ is a time-dependent function describing the dynamics of the throat and $R$ is the background scale factor. The study of wormhole stability is done by means of the stability analysis of dynamic systems.Comment: 8 pages; to appear in MPL

Montagem do genoma de Spathaspora arborariae, uma levedura fermentadora de xilose, para a produção de biocombustíveis.

O presente trabalho visou montar o genoma de S. arborariae a partir de dados de sequenciamento genômico

Busca computacional por grupos de genes homólogos sob evidência de seleção positiva em Alphaherpesvirinae.

Este estudo detectou diversos genes virais sabidamente relacionados à modulação do sistema imune dos hospedeiros sob evidência de seleção positiva

An anti-Schwarzshild solution: wormholes and scalar-tensor solutions

We investigate a static solution with an hyperbolic nature, characterised by a pseudo-spherical foliation of space. This space-time metric can be perceived as an anti-Schwarzschild solution, and exhibits repulsive features. It belongs to the class of static vacuum solutions termed "a degenerate static solution of class A". In the present work we review its fundamental features, discuss the existence of generalised wormholes, and derive its extension to scalar-tensor gravity theories in general.Comment: 3 pages, contribution to the proceedings of the Spanish Relativity Meeting-ERE200

Counting RNAseq reads: which way is better?

In this work we show the variation of results we?ve found while working with ~1 billion Illumina reads from drought tolerant Sorghum bicolor genotype in the presence and absence of the stress and compared results found for key genes already characterized.Pôster N101