Applications of micromorphology to understanding activity areas and site formation processes in experimental hut floors

Experimental buildings at Butser Ancient Farm and St. Fagans (UK) and Lejre (Denmark) were sampled to investigate micromorphology of known activity areas, to contribute to our understanding of the internal use of space in excavated buildings and formation processes of house floor deposits. The experimental buildings provided important information relating to activity residues and sediments over the 16 years that the buildings were in use. Specifically, these results contribute to our understanding of the routes and cycles for transportation of materials in occupation contexts, which can be used to inform archaeological studies. It has been possible to identify internal ‘hot spots’ within the buildings for the deposition of activity residues and for the formation of specific deposit types. Analysis also highlighted postdepositional alterations occurring in internal occupation deposits, which has provided a means of identifying roofed and unroofed spaces in the archaeological record.

Operational active fire mapping and burnt area identification applicable to Mexican Nature Protection Areas using MODIS and NOAA-AVHRR direct readout data

Since 1999, the National Commission for the Knowledge and Use of the Biodiversity (CONABIO) in Mexico has been developing and managing the “Operational program for the detection of hot-spots using remote sensing techniques”. This program uses images from the MODerate resolution Imaging Spectroradiometer (MODIS) onboard the Terra and Aqua satellites and from the Advanced Very High Resolution Radiometer of the National Oceanic and Atmospheric Administration (NOAA-AVHRR), which are operationally received through the Direct Readout station (DR) at CONABIO. This allows the near-real time monitoring of fire events in Mexico and Central America. In addition to the detection of active fires, the location of hot spots are classified with respect to vegetation types, accessibility, and risk to Nature Protection Areas (NPA). Besides the fast detection of fires, further analysis is necessary due to the considerable effects of forest fires on biodiversity and human life. This fire impact assessment is crucial to support the needs of resource managers and policy makers for adequate fire recovery and restoration actions. CONABIO attempts to meet these requirements, providing post-fire assessment products as part of the management system in particular for satellite-based burnt area mapping. This paper provides an overview of the main components of the operational system and will present an outlook to future activities and system improvements, especially the development of a burnt area product. A special focus will also be placed on the fire occurrence within NPAs of Mexico

Fragmentation drives tropical forest fragments to early successional states: A modelling study for Brazilian Atlantic forests

Land use leads to massive habitat destruction and fragmentation in tropical forests. Despite its global dimensions the effects of fragmentation on ecosystem dynamics are not well understood due to the complexity of the problem. We present a simulation analysis performed by the individual-based model FORMIND. The model was applied to the Brazilian Atlantic Forest, one of the world`s biodiversity hot spots, at the Plateau of Sao Paulo. This study investigates the long-term effects of fragmentation processes on structure and dynamics of different sized remnant tropical forest fragments (1-100 ha) at community and plant functional type (PFT) level. We disentangle the interplay of single effects of different key fragmentation processes (edge mortality, increased mortality of large trees, local seed loss and external seed rain) using simulation experiments in a full factorial design. Our analysis reveals that particularly small forest fragments below 25 ha suffer substantial structural changes, biomass and biodiversity loss in the long term. At community level biomass is reduced up to 60%. Two thirds of the mid- and late-successional species groups, especially shade-tolerant (late successional climax) species groups are prone of extinction in small fragments. The shade-tolerant species groups were most strongly affected; its tree number was reduced more than 60% mainly by increased edge mortality. This process proved to be the most powerful of those investigated, explaining alone more than 80% of the changes observed for this group. External seed rain was able to compensate approximately 30% of the observed fragmentation effects for shade-tolerant species. Our results suggest that tropical forest fragments will suffer strong structural changes in the long term, leading to tree species impoverishment. They may reach a new equilibrium with a substantially reduced subset of the initial species pool, and are driven towards an earlier successional state. The natural regeneration potential of a landscape scattered with forest fragments appears to be limited, as external seed rain is not able to fully compensate for the observed fragmentation-induced changes. Our findings suggest basic recommendations for the management of fragmented tropical forest landscapes. (C) 2011 Elsevier B.V. All rights reserved.

Synthesis of YAP phase by a polymeric method and phase progression mechanisms

The phase formation kinetics of YAP (YAlO(3)) synthesized through the polymeric precursor method was investigated by thermal analysis, X-ray diffraction and FT-IR spectroscopy. We demonstrated that the YAP synthesis is highly dependent on the heat and mass transport during all stages of the synthesis route. In the first stages, during the preparation of amorphous precursor, ""hot spots"" need to be suppressed to avoid the occurrence of chemical inhomogeneities. Very high heating rates combined with small amorphous particles are advantageous in the last stage during the formation of crystalline phase. We were able to synthesize nanosized particles of YAP single phase at temperatures around 1100 A degrees C for future preparation of phosphors or ceramics for optics.

New insights on surface-enhanced Raman scattering based on controlled aggregation and spectroscopic studies, DFT calculations and symmetry analysis for 3,6-bi-2-pyridyl-1,2,4,5-tetrazine adsorbed onto citrate-stabilized gold nanoparticles

Asystematic study on the surface-enhanced Raman scattering (SERS) for 3,6-bi-2-pyridyl-1,2,4,5-tetrazine (bptz) adsorbed onto citrate-modified gold nanoparticles (cit-AuNps) was carried out based on electronic and vibrational spectroscopy and density functional methods. The citrate/bptz exchange was carefully controlled by the stepwise addition of bptz to the cit-AuNps, inducing flocculation and leading to the rise of a characteristic plasmon coupling band in the visible region. Such stepwise procedure led to a uniform decrease of the citrate SERS signals and to the rise of characteristic peaks of bptz, consistent with surface binding via the N heterocyclic atoms. In contrast, single addition of a large amount of bptz promoted complete aggregation of the nanoparticles, leading to a strong enhancement of the SERS signals. In this case, from the distinct Raman profiles involved, the formation of a new SERS environment became apparent, conjugating the influence of the local hot spots and charge-transfer (CT) effects. The most strongly enhanced vibrations belong to a(1) and b(2) representations, and were interpreted in terms of the electromagnetic and the CT mechanisms: the latter involving significant contribution of vibronic coupling in the system. Copyright (C) 2010 John Wiley & Sons, Ltd.

Electrochemical Control of the Time-Dependent Intensity Fluctuations in Surface-Enhanced Raman Scattering (SERS)

Time-dependent fluctuations in surface-enhanced Raman scattering (SERS) intensities were recorded from a roughened silver electrode immersed in diluted solutions of rhodamine 6G (R6G) and congo red (CR). These fluctuations were attributed to a small number of SERS-active molecules probing regions of extremely high electromagnetic field (hot spots) at the nanostructured surface. The time-dependent distribution of SERS intensities followed a tailed statistics at certain applied potentials, which has been linked to single-molecule dynamics. The shape of the distribution was reversibly tuned by the applied voltage. Mixtures of both dyes, R6G and CR, at low concentrations were also investigated. Since R6G is a cationic dye and CR is an anionic dye, the statistics of the SERS intensity distribution of either dye in a mixture were independently controlled by adjusting the applied potential. The potential-controlled distribution of SERS intensities was interpreted by considering the modulation of the surface coverage of the adsorbed dye by the interfacial electric field. This interpretation was supported by a two-dimensional Monte Carlo simulation that took into account the time evolution of the surface configuration of the adsorbed species and their probability to populate a hypothetical hot spot. The potential-controlled SERS dynamics reported here is a first step toward the spectroelectrochemical investigation of redox processes at the single-molecule level by SERS.

Avaliação da contaminação de solos por hidrocarbonetos e metais pesados em diques de contenção

A meta dessa dissertação foi estudar a possibilidade de contaminação de um solo por hidrocarbonetos e metais pesados associados em zona industrial, estabelecendo uma metodologia de amostragem para avaliação de solos potencialmente contaminados. Para estudo de caso foi selecionada uma refinaria de petróleo localizada em território nacional. Conjuntamente com a metodologia de amostragem, foram estabelecidos como objetivos: a caracterização e avaliação do solo, a identificação dos possíveis “hot spot’s” para servir de subsídios para o monitoramento em investigações mais detalhadas do local e a avaliação da eficiência das barreiras argilosas que compõem os diques dos tanques. Foram investigados os solos que compõem os diques de contenção dos tanques armazenadores de petróleo. As diversas operações realizadas na área são fontes potencias de adição de contaminantes, que ocorrem, normalmente, em pequenas doses e de maneira contínua, pois a fonte nunca é estancada. Foram estabelecidas duas etapas de investigação: uma preliminar, que se consistiu em um levantamento do histórico da área, listando as evidências que pudessem indicar quais locais poderiam ser focos de contaminação A partir dos dados levantados na investigação preliminar foi feito o planejamento de uma campanha de amostragem para a coleta de amostras de solo. Além das análises usuais de caracterização, foram executadas análises de Hidrocarbonetos Totais de Petróleo (TPH Total Petroleum Hydrocarbon) e dos metais cádmio, chumbo, cromo, níquel e mercúrio. Para o enquadramento da área sob o ponto de vista de área contaminada foram utilizados como valores orientadores a “Nova Lista da Holanda” e os “Valores orientadores para solos e águas subterrâneas para o estado de São Paulo”. Dos quatro pontos amostrados, um foi classificado como um “hot spot”, atingindo valores que classificam a área como contaminada. Foi constatado que as barreiras argilosas que compõem os diques de contenção junto aos tanques de armazenamento são ineficientes, ou seja, os hidrocarbonetos estão percolando através dos diques de contenção.

Modelos analíticos para rádio fontes extragalácticas

The great majority of analytical models for extragalactic radio sources suppose self-similarity and can be classified into three types: I, II and III. We have developed a model that represents a generalization of most models found in the literature and showed that these three types are particular cases. The model assumes that the area of the head of the jet varies with the jet size according to a power law and the jet luminosity is a function of time. As it is usually done, the basic hypothesis is that there is an equilibrium between the pressure exerted both by the head of the jet and the cocoon walls and the ram pressure of the ambient medium. The equilibrium equations and energy conservation equation allow us to express the size and width of the source and the pressure in the cocoon as a power law and find the respective exponents. All these assumptions can be used to calculate the evolution of the source size, width and radio luminosity. This can then be compared with the observed width-size relation for radio lobes and the power-size (P-D) diagram of both compact (GPS and CSS) and extended sources from the 3CR catalogue. In this work we introduce two important improvement as compared with a previous work: (1)We have put together a larger sample of both compact and extended radio sources

Evolução de Rádio Fontes Duplas Extragalácticas

Double radio sources have been studied since the discovery of extragalactic radio sources in the decade of 1930. Since then, several numerical studies and analytical models have been proposed seeking a better understanding of the physical phenomena that determines the origin and evolution of such objects. In this thesis, we intended to study the evolution problem of the double radio sources in two fronts: in the ¯rst we have developed an analytical self-similar model that represents a generalization of most models found in the literature and solve some existent problems related to the jet head evolution. We deal with this problem using samples of hot spot sizes to ¯nd a power law relation between the jet head dimension and the source length. Using our model, we were able to draw the evolution curves of the double sources in a PD diagram for both compact sources (GPS and CSS) and extended sources of the 3CR catalogue. We have alson developed a computation tool that allows us to generate synthetic radio maps of the double sources. The objective is to determine the principal physical parameters of those objects by comparing synthetic and observed radio maps. In the second front, we used numeric simulations to study the interaction of the extra- galactic jets with the environment. We simulated situations where the jet propagates in a medium with high density contrast gas clouds capable to block the jet forward motion, forming the distorted structures observed in the morphology of real sources. We have also analyzed the situation in which the jet changes its propagation direction due to a change of the source main axis, creating the X-shaped sources. The comparison between our simulations and the real double radio sources, enable us to determine the values of the main physical parameters responsible for the distortions observed in those objects

Transposable elements in Coffea (Gentianales : Rubiacea) transcripts and their role in the origin of protein diversity in flowering plants

Transposable elements are major components of plant genomes and they influence their evolution, acting as recombination hot spots, acquiring specific cell functions or becoming part of protein-coding regions. The latter is the subject of the present analysis. This study is a report on the annotation of transposable elements (TEs) in expressed sequences of Coffea arabica, Coffea canephora and Coffea racemosa, showing the occurrence of 383 ESTs and 142 unigenes with TE fragments in these three Coffea species. Based on selected unigenes, it was possible to suggest 26 putative proteins with TE-cassette insertions, demonstrating a likely contribution to protein variability. The genes for two of those proteins, the fertility restorer (FR) and the pyrophosphate-dependent phosphofructokinase (PPi-PFKs) genes, were selected for evaluating the impact of TE-cassettes on host gene evolution of other plant genomes (Arabidopsis thaliana, Oryza sativa and populus trichocarpa). This survey allowed identifying a FR gene in O. sativa harboring multiple insertions of LTR retrotransposons that originated new exons, which however does not necessarily mean a case of molecular domestication. A possible transduction event of a fragment of the PPi-PFK beta-subunit gene mediated by Helitron ATREPX1 in Arabidopsis thaliana was also highlighted.

Genetic diversity in Colletotrichum gloeosporioides from Stylosanthes spp. at Centers of origin and utilization

Using molecular markers, this work compares the genetic diversity in Colletotrichum gloeosporioides infecting species of the tropical forage legume Stylosanthes at the center of origin in Brazil and Colombia with that of Australia, China, and India, where Srylosanthes spp. have been introduced for commercial use. There was extensive diversity in the pathogen population from Brazil, Colombia, China, and India. The Australian pathogen population was least diverse probably due to its geographical isolation and effective quarantine. The extensive diversity in China and India means that threats from exotic pathogen races to Stylosanthes pastures can potentially come from countries outside the South American center of origin. In Brazil and India, both with native Stylosanthes populations, a high level of genetic differentiation in the pathogen population was associated with sites where native or naturalized host population was widely distributed. There was limited genetic diversity at germplasm evaluation sites, with a large proportion of isolates having identical haplotypes. This contrasts recent pathogenicity results for 78 of the Brazilian isolates that show hot spots of complex races are more common around research stations where host germplasm are tested, but few are found at sites containing wild host populations. For a pathogen in which the same races arise convergently from different genetic backgrounds, this study highlights the importance of using both virulence and selectively neutral markers to understand pathogen population structure.

Routine libraries for pattern recognition in quasispecies.

The results obtained through biological research usually need to be analyzed using computational tools, since manual analysis becomes unfeasible due to the complexity and size of these results. For instance, the study of quasispecies frequently demands the analysis of several, very lengthy sequences of nucleotides and amino acids. Therefore, bioinformatics tools for the study of quasispecies are constantly being developed due to different problems found by biologists. In the present study, we address the development of a software tool for the evaluation of population diversity in quasispecies. Special attention is paid to the localization of genome regions prone to changes, as well as of possible hot spots.

Algoritmos de alinhamento múltiplo e técnicas de otimização para esses algoritmos utilizando Ant Colony

Pós-graduação em Ciência da Computação - IBILCE

Controle de vibração em reatores elétricos através de absorvedores dinâmicos viscoelásticos

Reatores elétricos utilizados em subestações de energia têm funções específicas na operacionalização e manutenção da funcionalidade destas instalações, sendo equipamentos aplicados ao controle de reativos, de correntes de curto circuito e surtos de manobra em sistemas de transmissão de energia elétrica. Detectou-se que alguns reatores em funcionamento apresentaram elevados níveis de vibração estrutural. Dois destes reatores operam na subestação da cidade de Rurópolis, situada a oeste do estado do Pará. Outro problema decorrente do elevado nível de vibração destas estruturas é a geração de pontos quentes no núcleo eletromagnético do reator, podendo gerar bolhas de gases altamente inflamáveis. A existência destes problemas operacionais pode ocasionar ao Sistema de Transmissão do Norte do Brasil interrupções na transmissão de energia elétrica. Isto geraria na região Norte e em outras interligadas (Nordeste, Sudeste e Centro-Oeste) elevados prejuízos sociais e financeiros. A aplicação de ferramentas para a minimização do problema vibro-acústico (redução dos níveis vibração e, por conseguinte, ruído) pode evitar danos estruturais e operacionais que resultem na sua indisponibilidade operativa reduzindo, conseqüentemente, perdas e a necessidade do desenvolvimento de equipamentos de custo elevado com baixos índices de vibração. No intuito de se reduzir tais níveis, propõe-se à aplicação de absorvedores dinâmicos na estrutura externa dos reatores. Uma vez dimensionados em quantidade, posição e parâmetros definidores (massa, rigidez e amortecimento) espera-se criar um sistema, que sintonizado com a freqüência da excitação de natureza eletromagnética, absorverá parte da energia vibratória do reator, minimizando-se, os elevados índices detectados e, por conseqüência, todos os problemas subseqüentes. São indicados compostos viscoelásticos nos absorvedores dinâmicos (com propriedades dinâmicas dependentes tanto da temperatura como da freqüência de trabalho), em virtude de estes materiais aumentarem o campo de ação dos absorvedores, adequando-se à elevada densidade modal verificada nas chaparias metálicas do reator.

Melatonin decreases breast cancer metastasis by modulating Rho-associated kinase protein-1 expression

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