From fields to a super-cluster: the role of the environment at z=0.84 with HiZELS

At z=0, clusters are primarily populated by red, elliptical and massive galaxies, while blue, spiral and lower-mass galaxies are common in low-density environments. Understanding how and when these differences were established is of absolute importance for our understanding of galaxy formation and evolution, but results at high-z remain contradictory. By taking advantage of the widest and deepest H-alpha narrow-band survey at z=0.84 over the COSMOS and UKIDSS UDS fields, probing a wide range of densities (from poor fields to rich groups and clusters, including a confirmed super-cluster with a striking filamentary structure), we show that the fraction of star-forming galaxies falls continuously from ~40% in fields to approaching 0% in rich groups/clusters. We also find that the median SFR increases with environmental density, at least up to group densities - but only for low and medium mass galaxies, and thus such enhancement is mass-dependent at z~1. The environment also plays a role in setting the faint-end slope (alpha) of the H-alpha luminosity function. Our findings provide a sharper view on galaxy formation and evolution and reconcile previously contradictory results at z~1: stellar mass is the primary predictor of star formation activity, but the environment also plays a major role.Comment: 5 pages, 4 figures, to appear in the proceedings of JENAM 2010 S2: `Environment and the Formation of Galaxies: 30 years later', ASSP, Springe

Parallelizing superFine

The estimation of the Tree of Life, a rooted binary tree representing how all extant species evolved from a common ancestor, is one of the grand challenges of modern biology. Research groups around the world are attempting to estimate evolutionary trees on particular sets of species (typically clades, or rooted subtrees), in the hope that a final "supertree" can be produced from these smaller estimated trees through the addition of a "scaffold" tree of randomly sampled taxa from the tree of life. However, supertree estimation is itself a computationally challenging problem, because the most accurate trees are produced by running heuristics for NP-hard problems. In this paper we report on a study in which we parallelize SuperFine, the currently most accurate and efficient supertree estimation method. We explore performance of these parallel implementations on simulated data-sets with 1000 taxa and biological data-sets with up to 2,228 taxa. Our study reveals aspects of SuperFine that limit the speed-ups that are possible through the type of outer-loop parallelism we exploit.(undefined

Calibrating [O II] star formation rates at z < 1 from dual Hα-[O II] imaging from HiZELS

We investigate the relationship between Hα and [O II](λ3727) emission in faint star-forming galaxies at z = 1.47 with dust uncorrected star formation rates (SFRs) down to 1.4 M⊙ yr-1, using data in two narrow bands from wide-field camera/United Kingdom Infrared Telescope and Subaru prime focus camera/Subaru. A stacking analysis allows us to investigate Hα emission flux from bright [O II] emitters as well as faint ones for which Hα is not individually detected, and to compare them with a large sample of local galaxies. We find that there is a clear, positive correlation between the average Hα and [O II] luminosities for [O II] emitters at z = 1.47, with its slope being consistent with the local relation. [O II] emitters at z = 1.47 have lower mean observed ratios of Hα/[O II] suggesting a small but systematic offset (at 2.8σ significance) towards lower values of dust attenuation, AHα ˜ 0.35, than local galaxies. This confirms that [O II] selection tends to pick up galaxies which are significantly less dusty on average than Hα-selected ones, with the difference being higher at z = 1.47 than at z = 0. The discrepancy of the observed line ratios between [O II] emitters at z = 1.47 and the local galaxies may in part be due to the samples having different metallicities. However, we demonstrate that metallicity is unlikely to be the main cause. Therefore, it is important to take into account that the relations for the dust correction which are derived using Hα emitter samples, and frequently used in many studies of high-z galaxies, may overestimate the intrinsic SFRs of [O II]-selected galaxies, and that surveys of [O II] emission galaxies are likely to miss dusty populations

Transfering water among basins: an ecological assessment of Northeast Brazilian reservoirs

The national project of the São Francisco river integration on northeast basins, lead by the Brazilian Ministry of National Integration, aims to transfer water from this river to different councils of the northeast semiarid region with limited water resources. This study aims to characterize the current ecological status of three northeast reservoirs that will receive water from the São Francisco River. In this work we present results from three monitoring campaigns, in 2009 and 2010, concerning physical-chemical and biological parameters. In relation to physical-chemical and microbiological parameters, the results demonstrated that some of them were in discordance with the legislated standards (total phosphorus, chlorophyll,and some metals). The phytoplankton community was similar in all reservoirs. A high diversity was found in chlorophyceae group, which contrasts with cyanobacteria blooms dominated by Microcystis sp., Anabaena sp. and Cylindrospermopsis raciborskii. In general, the benthic macroinvertebrate community was represented by Mollusca as the predominant group. The Eichhornia crassipes and Eichhornia azurea were the most abundant macrophytes. A global analysis of results showed the existence of contamination problems in all reservoirs, probably due to effluents from domestic and agricultural activities that directly drain to their water bodies

The Landscape of Human Proteins Interacting with Viruses and Other Pathogens

Infectious diseases result in millions of deaths each year. Mechanisms of infection have been studied in detail for many pathogens. However, many questions are relatively unexplored. What are the properties of human proteins that interact with pathogens? Do pathogens interact with certain functional classes of human proteins? Which infection mechanisms and pathways are commonly triggered by multiple pathogens? In this paper, to our knowledge, we provide the first study of the landscape of human proteins interacting with pathogens. We integrate human–pathogen protein–protein interactions (PPIs) for 190 pathogen strains from seven public databases. Nearly all of the 10,477 human-pathogen PPIs are for viral systems (98.3%), with the majority belonging to the human–HIV system (77.9%). We find that both viral and bacterial pathogens tend to interact with hubs (proteins with many interacting partners) and bottlenecks (proteins that are central to many paths in the network) in the human PPI network. We construct separate sets of human proteins interacting with bacterial pathogens, viral pathogens, and those interacting with multiple bacteria and with multiple viruses. Gene Ontology functions enriched in these sets reveal a number of processes, such as cell cycle regulation, nuclear transport, and immune response that participate in interactions with different pathogens. Our results provide the first global view of strategies used by pathogens to subvert human cellular processes and infect human cells. Supplementary data accompanying this paper is available at http://staff.vbi.vt.edu/dyermd/publications/dyer2008a.html

The properties of the star-forming interstellar medium at z=0.84-2.23 from HiZELS: mapping the internal dynamics and metallicity gradients in high-redshift disc galaxies

We present adaptive optics assisted, spatially resolved spectroscopy of a sample of nine H�-selected galaxies at z =0.84–2.23 drawn from the HiZELS narrow-band survey. These galaxies have star-formation rates of 1–27M⊙ yr−1 and are therefore representative of the typical high-redshift star-forming population. Our �kpc-scale resolution observations show that approximately half of the sample have dynamics suggesting that the ionised gas is in large, rotating disks. We model their velocity fields to infer the inclination-corrected, asymptotic rotational velocities.We use the absolute B-band magnitudes and stellar masses to investigate the evolution of the B-band and stellar mass Tully-Fisher relationships. By combining our sample with a number of similar measurements from the literature, we show that, at fixed circular velocity, the stellar mass of star-forming galaxies has increased by a factor 2.5 between z =2 and z =0, whilst the rest-frame B-band luminosity has decreased by a factor �6 over the same period. Together, these demonstrate a change in mass-to-light ratio in the B-band of �(M/ LB) / (M/ LB)z=0 �3.5 between z =1.5 and z =0, with most of the evolution occuring below z =1. We also use the spatial variation of [Nii] /H� to show that the metallicity of the ionised gas in these galaxies declines monotonically with galactocentric radius, with an average �log(O/H) /�R=−0.027±0.005 dex kpc−1. This gradient is consistent with predictions for high-redshift disk galaxies from cosmologically based hydrodynamic simulations. Key words: galaxies: evolution – galaxies: formation – galaxies: high-redshif

The Human-Bacterial Pathogen Protein Interaction Networks of Bacillus anthracis, Francisella tularensis, and Yersinia pestis

Bacillus anthracis, Francisella tularensis, and Yersinia pestis are bacterial pathogens that can cause anthrax, lethal acute pneumonic disease, and bubonic plague, respectively, and are listed as NIAID Category A priority pathogens for possible use as biological weapons. However, the interactions between human proteins and proteins in these bacteria remain poorly characterized leading to an incomplete understanding of their pathogenesis and mechanisms of immune evasion.In this study, we used a high-throughput yeast two-hybrid assay to identify physical interactions between human proteins and proteins from each of these three pathogens. From more than 250,000 screens performed, we identified 3,073 human-B. anthracis, 1,383 human-F. tularensis, and 4,059 human-Y. pestis protein-protein interactions including interactions involving 304 B. anthracis, 52 F. tularensis, and 330 Y. pestis proteins that are uncharacterized. Computational analysis revealed that pathogen proteins preferentially interact with human proteins that are hubs and bottlenecks in the human PPI network. In addition, we computed modules of human-pathogen PPIs that are conserved amongst the three networks. Functionally, such conserved modules reveal commonalities between how the different pathogens interact with crucial host pathways involved in inflammation and immunity.These data constitute the first extensive protein interaction networks constructed for bacterial pathogens and their human hosts. This study provides novel insights into host-pathogen interactions

PIG—the pathogen interaction gateway

Protein–protein interactions (PPIs) play a vital role in initiating infection in a number of pathogens. Identifying which interactions allow a pathogen to infect its host can help us to understand methods of pathogenesis and provide potential targets for therapeutics. Public resources for studying host–pathogen systems, in particular PPIs, are scarce. To facilitate the study of host–pathogen PPIs, we have collected and integrated host–pathogen PPI (HP–PPI) data from a number of public resources to create the Pathogen Interaction Gateway (PIG). PIG provides a text based search and a BLAST interface for searching the HP–PPI data. Each entry in PIG includes information such as the functional annotations and the domains present in the interacting proteins. PIG provides links to external databases to allow for easy navigation among the various websites. Additionally, PIG includes a tool for visualizing a single HP–PPI network or two HP–PPI networks. PIG can be accessed at http://pig.vbi.vt.edu

Caracterização bromatológica de casca de mandioca e da manipueira para utilização na alimentação animal.

A alimentação animal na região Nordeste do Brasil é em geral um desafio devido a estação seca que em alguns anos pode ser bem acentuada. A utilização de resíduos da agricultura na alimentação animal pode ajudar a reduzir os custos de produção. A mandiocultura em Sergipe apresenta grande importância econômica, com muitas casas de farinha localizadas na região agreste. Estas casas geram resíduos que podem ser utilizados na alimentação animal e entre eles estão as cascas de mandioca e manipueira. Com o intuito de caracterizar estes dois resíduos para alimentação, foram coletadas amostras em oito momentos que foram analisadas bromatologicamente para se verificar viabilidade da utilização na alimentação animal. As análises foram realizadas na Embrapa Tabuleiros Costeiros e os dados obtidos foram avaliados estatisticamente quanto ao momento de coleta pela Análise de variância quando o modelo foi significativo foi aplicado teste de Duncan a 5% designificância. Os valores encontrados na casca não foram diferentes (P>0,05) para matéria e proteína bruta, mostrando entretanto diferença significativa (P<0,05) para cinzas, fibra em detergente neutro e fibra em detergente ácido. Em relação a manipueira, a matéria seca e proteína bruta não foram diferentes