The Development of a Universal In Silico Predictor of Protein-Protein Interactions

Protein-protein interactions (PPIs) are essential for understanding the function of biological systems and have been characterized using a vast array of experimental techniques. These techniques detect only a small proportion of all PPIs and are labor intensive and time consuming. Therefore, the development of computational methods capable of predicting PPIs accelerates the pace of discovery of new interactions. This paper reports a machine learning-based prediction model, the Universal In Silico Predictor of Protein-Protein Interactions (UNISPPI), which is a decision tree model that can reliably predict PPIs for all species (including proteins from parasite-host associations) using only 20 combinations of amino acids frequencies from interacting and non-interacting proteins as learning features. UNISPPI was able to correctly classify 79.4% and 72.6% of experimentally supported interactions and non-interacting protein pairs, respectively, from an independent test set. Moreover, UNISPPI suggests that the frequencies of the amino acids asparagine, cysteine and isoleucine are important features for distinguishing between interacting and non-interacting protein pairs. We envisage that UNISPPI can be a useful tool for prioritizing interactions for experimental validation. © 2013 Valente et al.

Ecological and evolutionary consequences of living in a defaunated world

Defaunation, the loss or population decline of medium and large native vertebrates represents a significant threat to the biodiversity of tropical ecosystems. Here we review the anthropogenic drivers of defaunation, provide a brief historical account of the development of this field, and analyze the types of biological consequences of this impact on the structure and functioning of tropical ecosystems. We identify how defaunation, operating at a variety of scales, from the plot to the global level, affects biological systems along a gradient of processes ranging from plant physiology (vegetative and reproductive performance) and animal behavior (movement, foraging and dietary patterns) in the immediate term; to plant population and community dynamics and structure leading to disruptions of ecosystem functioning (and thus degrading environmental services) in the short to medium term; to evolutionary changes (phenotypic changes and population genetic structure) in the long-term. We present such a synthesis as a preamble to a series of papers that provide a compilation of our current understanding of the impact and consequences of tropical defaunation. We close by identifying some of the most urgent needs and perspectives that warrant further study to improve our understanding of this field, as we confront the challenges of living in a defaunated world. © 2013 Elsevier Ltd.

Bifunctional silica nanoparticles for the exploration of biofilms of Pseudomonas aeruginosa

Luminescent silica nanoparticles are frequently employed for biotechnology applications mainly because of their easy functionalization, photo-stability, and biocompatibility. Bifunctional silica nanoparticles (BSNPs) are described here as new efficient tools for investigating complex biological systems such as biofilms. Photoluminescence is brought about by the incorporation of a silylated ruthenium(II) complex. The surface properties of the silica particles were designed by reaction with amino-organosilanes, quaternary ammonium-organosilanes, carboxylate-organosilanes and hexamethyldisilazane. BSNPs were characterized extensively by DRIFT, 13C and 29Si solid state NMR, XPS, and photoluminescence. Zeta potential and contact angle measurements exhibited various surface properties (hydrophilic/hydrophobic balance and electric charge) according to the functional groups. Confocal laser scanning microscopy (CLSM) measurements showed that the spatial distribution of these nanoparticles inside a biofilm of Pseudomonas aeruginosa PAO1 depends more on their hydrophilic/hydrophobic characteristics than on their size. CLSM observations using two nanosized particles (25 and 68 nm) suggest that narrow diffusion paths exist through the extracellular polymeric substances matrix. © 2013 Copyright Taylor and Francis Group, LLC.

Oxidative stress in sickle cell disease: An overview of erythrocyte redox metabolism and current antioxidant therapeutic strategies

Erythrocytes have an environment of continuous pro-oxidant generation due to the presence of hemoglobin (Hb), which represents an additional and quantitatively significant source of superoxide (O2 •-) generation in biological systems. To counteract oxidative stress, erythrocytes have a self-sustaining antioxidant defense system. Thus, red blood cells uniquely function to protect Hb via a selective barrier allowing gaseous and other ligand transport as well as providing antioxidant protection not only to themselves but also to other tissues and organs in the body. Sickle hemoglobin molecules suffer repeated polymerization/depolymerization generating greater amounts of reactive oxygen species, which can lead to a cyclic cascade characterized by blood cell adhesion, hemolysis, vaso-occlusion, and ischemia-reperfusion injury. In other words, sickle cell disease is intimately linked to a pathophysiologic condition of multiple sources of pro-oxidant processes with consequent chronic and systemic oxidative stress. For this reason, newer therapeutic agents that can target oxidative stress may constitute a valuable means for preventing or delaying the development of organ complications. © © 2013 Elsevier Inc. All rights reserved.

Poços quânticos e transferência de elétrons

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Contribuições da conectância de rede e complexidade da dinâmica do sistema de trocas gasosas para a estabilidade na utilização de luz por espécies florestais

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Análise metaloproteômica de cálcio, ferro e zinco em colostro, leite de transição e leite maduro humanos

Pós-graduação em Biologia Geral e Aplicada - IBB

Estudo da atividade antioxidante de frutas tropicais exóticas sobre espécies reativas de oxigênio de importância biológica em ensaios modelos

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Recobrimento de apatitas empregando-se o método biomimético: estudo da influência dos íons K+, Mg2+, SO42- e HCO3- na formação de hidroxiapatita

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Sistemas de liberação controlada de óxido nítrico baseados em ditiocarbamatos

Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP)

Síntese, caracterização e investigação das atividades biológicas de complexos de cobre(II) contendo moléculas bioativas e ligantes nitrogenados

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

Desenvolvimento de método analítico para estudo metabolômico de cana-de-açucar

Coordenação de Aperfeiçoamento de Pessoal de Nível Superior (CAPES)

An assessment of the economic and social impacts of climate change on the Coastal and Marine Sector in the Caribbean

Climate change poses special challenges for Caribbean decision makers related to the uncertainties inherent in future climate projections and the complex linkages between climate change, physical and biological systems, and socioeconomic sectors. At present, however, the Caribbean subregion lacks the adaptive capacity needed to address these challenges. The present report assesses the economic and social impacts of climate change on the coastal and marine sector in the Caribbean until 2050. It aims both to provide Caribbean decision makers with cutting edge information on the vulnerability to climate change of the subregion, and to facilitate the development of adaptation strategies informed by both local experience and expert knowledge.

Policy Brief: an assessment of the economic and social impacts of climate change on the coastal and marine sector in the Caribbean

Caribbean policymakers are faced with special challenges from climate change and these are related to the uncertainties inherent in future climate projections and the complex linkages among climate change, physical and biological systems and socioeconomic sectors. The impacts of climate change threaten development in the Caribbean and may well erode previous gains in development as evidenced by the increased incidence of climate migrants internationally. This brief which is based on a recent study conducted by the Economic Commission for Latin America and the Caribbean (LC/CAR/L.395)1 provides a synthesis of the assessment of the economic and social impacts of climate change on the coastal and marine sector in the Caribbean which were undertaken. It provides Caribbean policymakers with cutting-edge information on the region’s vulnerability and encourages the development of adaptation strategies informed by both local experience and expert knowledge. It proceeds from an acknowledgement that the unique combination of natural resources, ecosystems, economic activities, and human population settlements of the Caribbean will not be immune to the impacts of climate change, and local communities, countries and the subregion as a whole need to plan for, and adapt to, these effects. Climate and extreme weather hazards related to the coastal and marine sector encompass the distinct but related factors of sea level rise, increasing coastal water temperatures, tropical storms and hurricanes. Potential vulnerabilities for coastal zones include increased shoreline erosion leading to alteration of the coastline, loss of coastal wetlands, and changes in the abundance and diversity of fish and other marine populations. The study examines four key themes in the analysis: climate, vulnerability, economic and social costs associated with climate change impacts, and adaptive measures.

Modelo dinâmico e estatístico aplicado a transição de fase

Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq)