Detecting Repetitions and Periodicities in Proteins by Tiling the Structural Space

The notion of energy landscapes provides conceptual tools for understanding the complexities of protein folding and function. Energy Landscape Theory indicates that it is much easier to find sequences that satisfy the "Principle of Minimal Frustration" when the folded structure is symmetric (Wolynes, P. G. Symmetry and the Energy Landscapes of Biomolecules. Proc. Natl. Acad. Sci. U.S.A. 1996, 93, 14249-14255). Similarly, repeats and structural mosaics may be fundamentally related to landscapes with multiple embedded funnels. Here we present analytical tools to detect and compare structural repetitions in protein molecules. By an exhaustive analysis of the distribution of structural repeats using a robust metric we define those portions of a protein molecule that best describe the overall structure as a tessellation of basic units. The patterns produced by such tessellations provide intuitive representations of the repeating regions and their association towards higher order arrangements. We find that some protein architectures can be described as nearly periodic, while in others clear separations between repetitions exist. Since the method is independent of amino acid sequence information we can identify structural units that can be encoded by a variety of distinct amino acid sequences

COLA. III. Radio Detection of Active Galactic Nucleus in Compact Moderate Luminosity Infrared Galaxies

We present results from 4.8 GHz Very Large Array (VLA) and global very long baseline interferometry (VLBI) observations of the northern half of the moderate FIR luminosity (median L_(IR) = 10^(11.01) L_☉) COLA sample of star-forming galaxies. VLBI sources are detected in a high fraction (20/90) of the galaxies observed. The radio luminosities of these cores (~10^(21) W Hz^(–1)) are too large to be explained by radio supernovae or supernova remnants and we argue that they are instead powered by active galactic nuclei (AGNs). These sub-parsec scale radio cores are preferentially detected toward galaxies whose VLA maps show bright 100-500 parsec scale nuclear radio components. Since these latter structures tightly follow the FIR to radio-continuum correlation for star formation, we conclude that the AGN-powered VLBI sources are associated with compact nuclear starburst environments. The implications for possible starburst-AGN connections are discussed. The detected VLBI sources have a relatively narrow range of radio luminosity consistent with models in which intense compact Eddington-limited starbursts regulate the gas supply onto a central supermassive black hole. The high incidence of AGN radio cores in compact starbursts suggests little or no delay between the starburst phase and the onset of AGN activity

Atividade diurna de adultos de Diabrótica speciosa na cultura do milho e de cerotoma arcuatus na cultura da soja.

Neste documento são apresentadas importantes informações sobre o ritmo de atividade diurna de adultos de D. speciosa, na cultura do milho, e de C. arcuatus na cultura da soja. Assim, as informações contidas neste trabalho são de grande valia, pois podem auxiliar na definição de táticas para o manejo dessas pragas.bitstream/item/38187/1/DOC200464.pd

Combined microbiological test to assess changes in an organic matrix used to avoid agricultural soil contamination, exposed to an insecticide

Combined microbiological test (Biolog Ecoplate, denaturing gradient gel electrophoresis (DGGE) and Real Time PCR (qPCR)) were developed to evaluate the impact of repeated diazinon (DZN) applications at high concentration (40 mg kg-1) on microbial communities in a microcosm simulating the organic matrix (straw (50%): peat (25%): soil (25%) vv-1) of an pesticide biopurification system (PBS). Moreover, pesticide dissipation was also evaluated. After three successive exposition of DZN, dissipation efficiency was high; achieved 87%, 93% and 96% after each application, respectively showing a clear accelerated dissipation of this pesticide in the organic matrix. The results obtained with Biolog Ecoplate showed that community level physiological profiles were no affected by the addition of DZN. On the other hand, molecular assays (DGGE and QPCR) demonstrated that the microbial structure (bacteria and fungi) remained relatively stable over time with high DZN doses compared to control. Therefore, the results of the present study, clearly, demonstrate the high dissipation capacity of this biomixture and highlight the microbiological robustness of this biological system.Fil: Tortella, G. R.. Universidad de la Frontera. Nucleo Cientifico y Tecnologico En Recursos Naturales (bioren-ufro). Departamento de Ciencias Quimicas y Recursos Naturales; ChileFil: Salgado, E.. Universidad de la Frontera. Nucleo Cientifico y Tecnológico En Recursos Naturales; ChileFil: Cuozzo, Sergio Antonio. Consejo Nacional de Investigaciones Científicas y Técnicas. Centro Científico Tecnológico Tucumán. Planta Piloto de Procesos Industriales Microbiológicos (i); ArgentinaFil: Mella Herrera, R. A.. Universidad de la Frontera. Nucleo Cientifico y Tecnológico En Recursos Naturales; ChileFil: Parra, L.. Universidad de la Frontera. Núcleo Científico y Tecnológico en Recursos Naturales; ChileFil: Diez, M. C.. Universidad de la Frontera. Nucleo Cientifico y Tecnológico En Recursos Naturales; ChileFil: Rubilar, O.. Universidad de la Frontera. Nucleo Cientifico y Tecnológico En Recursos Naturales; Chil

Life table analysis of Diaphorina citri (Hemiptera: Psyllidae) infesting sweet orange (Citrus sinensis) in São Paulo

An ecological life table for eggs and nymphs of Diaphorina citri Kuwayama (Hemiptera: Psyllidae) was constructed with data obtained from orange orchards (Citrus sinensis Osbeck) in 2 regions of the State of São Paulo, over 4 generations in the period from XI-2006 to V-2007, comprising spring, summer, and fall seasons. Young growing shoots with D. citri eggs present were identifed, and live individuals were counted until adult emergence. No predatory arthropods were observed in association with D. citri eggs and nymphs during the study. The mean parasitism of fourth- and ffth-instar nymphs by Tamarixia radiata Waterston (Hymenoptera: Eulophidae) was 2.3%. The durations of the egg–adult period were similar among the 4 generations, ranging from 18.0 to 24.7 d (at mean temperatures ranging from 21.6 to 26.0 °C) and followed the temperature requirement models obtained in the laboratory for D. citri. However, survival from the egg to the adult stage for the same period varied considerably from 1.7 to 21.4%; the highest mortalities were observed in the egg and small nymphal (frst- to thirdinstar) stages, which were considered to be key phases for population growth of the pest.Uma tabela de vida ecológica foi construída para ovos e ninfas de Diaphorina citri Kuwayama (Hemiptera: Psyllidae) com dados obtidos em pomares de laranja (Citrus sinensis Osbeck) em 2 regiões do estado de São Paulo, com 4 gerações, no período de novembro de 2006 a maio de 2007, compreendendo as estações de primavera, verão e outono. Ramos jovens em crescimento com a presença de ovos de D. citri foram identificados e os indivíduos vivos foram contados até a emergência dos adultos. Nenhum predador foi observado associado a ovos e ninfas de D. citri durante o estudo. A taxa média de parasitismo de ninfas de quarto e quinto ínstares por Tamarixia radiata Waterson (Hymenoptera: Eulophidae) foi de 2.3%. A duração do período de ovo a adulto foi semelhante entre as quatro gerações, variando de 18.0 a 24.7 dias (com temperaturas médias de 21.6 a 26.0 °C) e seguiram os modelos de exigencias térmicas obtidas em laboratório para D. citri. Todavia, a sobrevivencia de ovo até o estágio adulto variou consideravelmente para o mesmo período, de 1.7 a 21.4%, sendo que as maiores mortalidades foram observadas nos estágios de ovos e ninfas pequenas (de primeiro a terceiro ínstares), as quais foram consideradas fases chaves para o crescimento populacional desta praga.info:eu-repo/semantics/publishedVersio

Considering Fluctuation Energy as a Measure of Gyrokinetic Turbulence

In gyrokinetic theory there are two quadratic measures of fluctuation energy, left invariant under nonlinear interactions, that constrain the turbulence. The recent work of Plunk and Tatsuno [Phys. Rev. Lett. 106, 165003 (2011)] reported on the novel consequences that this constraint has on the direction and locality of spectral energy transfer. This paper builds on that work. We provide detailed analysis in support of the results of Plunk and Tatsuno but also significantly broaden the scope and use additional methods to address the problem of energy transfer. The perspective taken here is that the fluctuation energies are not merely formal invariants of an idealized model (two-dimensional gyrokinetics) but are general measures of gyrokinetic turbulence, i.e. quantities that can be used to predict the behavior of the turbulence. Though many open questions remain, this paper collects evidence in favor of this perspective by demonstrating in several contexts that constrained spectral energy transfer governs the dynamics.Comment: Final version as published. Some cosmetic changes and update of reference

Brillouin light scattering study of Co2_{2}Cr0.6_{0.6}Fe0.4_{0.4}Al and Co2_{2}FeAl Heusler compounds

The thermal magnonic spectra of Co$_{2}$Cr$_{0.6}$Fe$_{0.4}$Al (CCFA) and Co$_2$FeAl were investigated using Brillouin light scattering spectroscopy (BLS). For CCFA, the exchange constant A (exchange stiffness D) is found to be 0.48 $\mu$erg/cm (203 meV A$^2$), while for Co$_2$FeAl the corresponding values of 1.55 $\mu$erg/cm (370 meV A$^2$) were found. The observed asymmetry in the BLS spectra between the Stokes and anti-Stokes frequencies was assigned to an interplay between the asymmetrical profiles of hybridized Damon-Esbach and perpendicular standing spin-wave modes, combined with the optical sensitivity of the BLS signal to the upper side of the CCFA or Co$_2$FeAl film

Positivity and conservation of superenergy tensors

Two essential properties of energy-momentum tensors T_{\mu\nu} are their positivity and conservation. This is mathematically formalized by, respectively, an energy condition, as the dominant energy condition, and the vanishing of their divergence \nabla^\mu T_{\mu\nu}=0. The classical Bel and Bel-Robinson superenergy tensors, generated from the Riemann and Weyl tensors, respectively, are rank-4 tensors. But they share these two properties with energy momentum tensors: the Dominant Property (DP) and the divergence-free property in the absence of sources (vacuum). Senovilla defined a universal algebraic construction which generates a basic superenergy tensor T{A} from any arbitrary tensor A. In this construction the seed tensor A is structured as an r-fold multivector, which can always be done. The most important feature of the basic superenergy tensors is that they satisfy automatically the DP, independently of the generating tensor A. In a previous paper we presented a more compact definition of T{A} using the r-fold Clifford algebra. This form for the superenergy tensors allowed to obtain an easy proof of the DP valid for any dimension. In this paper we include this proof. We explain which new elements appear when we consider the tensor T{A} generated by a non-degree-defined r-fold multivector A and how orthogonal Lorentz transformations and bilinear observables of spinor fields are included as particular cases of superenergy tensors. We find some sufficient conditions for the seed tensor A, which guarantee that the generated tensor T{A} is divergence-free. These sufficient conditions are satisfied by some physical fields, which are presented as examples.Comment: 19 pages, no figures. Language and minor changes. Published versio