Structural insights into the catalytic mechanism of sphingomyelinases D and evolutionary relationship to glycerophosphodiester phosphodiesterases

Spider venom sphingomyelinases D catalyze the hydrolysis of sphingomyelin via an Mg2+ ion-dependent acid-base catalytic mechanism which involves two histidines. In the crystal structure of the sulfate free enzyme determined at 1.85 angstrom resolution, the metal ion is tetrahedrally coordinated instead of the trigonal-bipyramidal coordination observed in the sulfate bound form. The observed hyperpolarized state of His47 requires a revision of the previously suggested catalytic mechanism. Molecular modeling indicates that the fundamental structural features important for catalysis are fully conserved in both classes of SMases D and that the Class II SMases D contain an additional intra-chain disulphide bridge (Cys53-Cys201). Structural analysis suggests that the highly homologous enzyme from Loxosceles bonetti is unable to hydrolyze sphingomyelin due to the 95G1y -> Asn and 134Pro -> Glu mutations that modify the local charge and hydrophobicity of the interfacial face. Structural and sequence comparisons confirm the evolutionary relationship between sphingomyelinases D and the glicerophosphodiester phosphoesterases which utilize a similar catalytic mechanism. (c) 2006 Elsevier B.V. All rights reserved.

On equivalence of Duffin-Kemmer-Petiau and Klein-Gordon equations

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

Pressão de preconsolidação como ferramenta de análise da sustentabilidade estrutural de classes de solos com diferentes usos

O principal problema ambiental causado pelo uso do solo em áreas de preservação permanente longitudinais aos rios é a supressão da mata ciliar. O tipo e a intensidade desse uso alteram a estrutura do solo e comprometem as funções físicas dessas áreas, principalmente próximo aos cursos d'água. O objetivo deste trabalho foi avaliar a sustentabilidade estrutural, a partir do ensaio de compressão uniaxial, de três classes de solo (Cambissolo Háplico, Argissolo Amarelo e Gleissolo Háplico) e o impacto de diferentes tipos de usos do solo - não permitido pela legislação ambiental - de áreas de preservação permanente na sub-bacia do rio Ribeira de Iguape, SP. Foram delimitadas na área experimental três classes de solo: Cambissolo, Argissolo e Gleissolo. Numa primeira etapa, compararam-se as três classes de solos sob mata nativa e sob pastagem. Na segunda, avaliou-se a influência de diferentes tipos de uso do solo - cultivo de banana, pastagem degradada, uso silvipastoril e mata nativa - sobre a estrutura de um Cambissolo. A pressão de preconsolidação mostrou-se ferramenta capaz de identificar a degradação nos solos. O uso do solo nas áreas de preservação permanente altera a pressão de preconsolidação do solo, causando sua degradação estrutural, colocando em risco a sustentabilidade das terras, e não deve ser permitido. O Gleissolo mostrou maiores valores de pressão de preconsolidação em função de teores crescentes de água e, portanto, maior capacidade de suporte de carga em relação ao Cambissolo e Argissolo. O cultivo de banana foi o tipo de uso que mais degradou os solos das áreas de preservação permanente.

Formação de classes ordinais após a aprendizagem de seqüências independentes

A aquisição de relações ordinais entre estímulos arbitrários é uma importante habilidade comportamental, requisito para a aprendizagem de comportamentos acadêmicos, especialmente a alfabetização. O propósito deste estudo foi investigar o efeito do ensino de seqüências de dois termos com sobreposição na emergência de relações ordinais com mais de dois estímulos. A sobreposição ocorre quando o último estímulo em uma seqüência de dois estímulos é o primeiro de outra seqüência (e.g., S1 -> S2 e S2 ->S3, onde S2 é o estímulo sobreposto). Nas Etapas 1 e 2 de um experimento conduzido com cinco estudantes do ensino fundamental foram ensinadas seqüências de dois termos com os cinco estímulos de um conjunto A (A1 -> A2, A2 -> A3, A3 -> A4, A4 ->A5) e os cinco de um conjunto B (B1 -> B2, B2 ->B3, B3 -> B4, B4 -> B5). Estabelecida essa linha de base, foram conduzidos testes da emergência de relações ordinais com três, quatro e cinco termos dos conjuntos A e B, separadamente. A Etapa 3 avaliou se estímulos das seqüências ensinadas eram mutuamente substituíveis, com base na mesma função ordinal (primeiro, secundo, etc.). Os estudantes compuseram as relações ordinais ensinadas e apresentaram relações ordinais emergentes com estímulos dos conjuntos A e B, separadamente. Três estudantes também realizaram a substituição mútua entre estímulos dos conjuntos A e B na Etapa 3. Esses resultados sugerem a formação de cinco classes de estímulos (A1B1, A2B2, etc.), cada uma consistindo de estímulos que ocuparam a mesma função ordinal em diferentes seqüências. Os resultados têm implicações para a análise de comportamento simbólico complexo. Merecem consideração, também, aspectos metodológicos que favoreceram a aprendizagem relacional e a emergência de comportamento novo.

Classes of exact Klein-Gordon equations with spatially dependent masses: Regularizing the one-dimensional inversely linear potential

In this work we consider the effect of a spatially dependent mass over the solution of the Klein-Gordon equation in 1 + 1 dimensions, particularly the case of inversely linear scalar potential, which usually presents problems of divergence of the ground-state wave function at the origin, and possible nonexistence of the even-parity wave functions. Here we study this problem, showing that for a certain dependence of the mass with respect to the coordinate, this problem disappears. (c) 2006 Elsevier B.V. All rights reserved.

Feedforward neural networks based on PPS-wavelet activation functions

Function approximation is a very important task in environments where computation has to be based on extracting information from data samples in real world processes. Neural networks and wavenets have been recently seen as attractive tools for developing efficient solutions for many real world problems in function approximation. In this paper, it is shown how feedforward neural networks can be built using a different type of activation function referred to as the PPS-wavelet. An algorithm is presented to generate a family of PPS-wavelets that can be used to efficiently construct feedforward networks for function approximation.

On linear combinations of L-orthogonal polynomials associated with distributions belonging to symmetric classes

This paper deals with the classes S-3(omega, beta, b) of strong distribution functions defined on the interval [beta(2)/b, b], 0 < beta < b <= infinity, where 2 omega epsilon Z. The classification is such that the distribution function psi epsilon S-3(omega, beta, b) has a (reciprocal) symmetry, depending on omega, about the point beta. We consider properties of the L-orthogonal polynomials associated with psi epsilon S-3(omega, beta, b). Through linear combination of these polynomials we relate them to the L-orthogonal polynomials associated with some omega epsilon S-3(1/2, beta, b). (c) 2004 Elsevier B.V. All rights reserved.

Quantum equivalence between the self-dual and the Maxwell-Chern-Simons models nonlinearly coupled to U(1) scalar fields

The use of master actions to prove duality at quantum level becomes cumbersome if one of the dual fields interacts nonlinearly with other fields. This is the case of the theory considered here consisting of U(1) scalar fields coupled to a self-dual field through a linear and a quadratic term in the self-dual field. Integrating perturbatively over the scalar fields and deriving effective actions for the self-dual and the gauge field we are able to consistently neglect awkward extra terms generated via master action and establish quantum duality up to cubic terms in the coupling constant. The duality holds for the partition function and some correlation functions. The absence of ghosts imposes restrictions on the coupling with the scalar fields.

Integration of polyharmonic functions

The results in this paper are motivated by two analogies. First, m-harmonic functions in R(n) are extensions of the univariate algebraic polynomials of odd degree 2m-1. Second, Gauss' and Pizzetti's mean value formulae are natural multivariate analogues of the rectangular and Taylor's quadrature formulae, respectively. This point of view suggests that some theorems concerning quadrature rules could be generalized to results about integration of polyharmonic functions. This is done for the Tchakaloff-Obrechkoff quadrature formula and for the Gaussian quadrature with two nodes.

Analog Modeling of Human Cognitive Functions with Tripartite Synapses

Searching for an understanding of how the brain supports conscious processes, cognitive scientists have proposed two main classes of theory: Global Workspace and Information Integration theories. These theories seem to be complementary, but both still lack grounding in terms of brain mechanisms responsible for the production of coherent and unitary conscious states. Here we propose following James Robertson's "Astrocentric Hypothesis" - that conscious processing is based on analog computing in astrocytes. The "hardware" for these computations is calcium waves mediated by adenosine triphosphate signaling. Besides presenting our version of this hypothesis, we also review recent findings on astrocyte morphology that lend support to their functioning as Local Hubs (composed of protoplasmic astrocytes) that integrate synaptic activity, and as a Master Hub (composed, in the human brain, by a combination of interlaminar, fibrous, polarized and varicose projection astrocytes) that integrates whole-brain activity.

Documenting the advantages and limitations of different classes of molecular markers in a well-established phylogeographic context: lessons from the Iberian endemic Golden-striped salamander, Chioglossa lusitanica (Caudata: Salamandridae)

Previous analyses of mitochondrial (mt)DNA and allozymes covering the range of the Iberian endemic golden-striped salamander, Chioglossa lusitanica, suggested a Pleistocene split of the historical species distribution into two population units (north and south of the Mondego river), postglacial expansion into the northernmost extant range, and secondary contact with neutral diffusion of genes close to the Mondego river. We extended analysis of molecular variation over the species range using seven microsatellite loci and the nuclear P-fibrinogen intron 7 (beta-fibint7). Both microsatellites and beta-fibint7 showed moderate to high levels of population structure, concordant with patterns detected with mtDNA and allozymes; and a general pattern of isolation-by-distance, contrasting the marked differentiation of two population groups suggested by mtDNA and allozymes. Bayesian multilocus analyses showed contrasting results as populations north and south of the Douro river were clearly differentiated based on microsatellites, whereas allozymes revealed differentiation north and south of the Mondego river. Additionally, decreased microsatellite variability in the north supported the hypothesis of postglacial colonization of this region. The well-documented evolutionary history of C. lusitanica, provides an excellent framework within which the advantages and limitations of different classes of markers can be evaluated in defining patterns of population substructure and inferring evolutionary processes across distinct spatio-temporal scales. The present study serves as a cautionary note for investigations that rely on a single type of molecular marker, especially when the organism under study exhibits a widespread distribution and complex natural history. (C) 2008 The Linnean Society of London, Biological Journal of the Linnean Society, 2008, 95, 371-387.

Equivalence of the Duffin-Kemmer-Petiau and Klein-Gordon-Fock equations

A strict proof of the equivalence of the Duffin-Kemmer-Petiau and Klein-Gordon Fock theories is presented for physical S-matrix elements in the case of charged scalar particles minimally interacting with an external or quantized electromagnetic field. The Hamiltonian canonical approach to the Duffin - Kemmer Petiau theory is first developed in both the component and the matrix form. The theory is then quantized through the construction of the generating functional for the Green's functions, and the physical matrix elements of the S-matrix are proved to be relativistic invariants. The equivalence of the two theories is then proved for the matrix elements of the scattered scalar particles using the reduction formulas of Lehmann, Symanzik, and Zimmermann and for the many-photon Green's functions.

Gaussian extended cubature formulae for polyharmonic functions

The purpose of this paper is to show certain links between univariate interpolation by algebraic polynomials and the representation of polyharmonic functions. This allows us to construct cubature formulae for multivariate functions having highest order of precision with respect to the class of polyharmonic functions. We obtain a Gauss type cubature formula that uses ℳ values of linear functional (integrals over hyperspheres) and is exact for all 2ℳ-harmonic functions, and consequently, for all algebraic polynomials of n variables of degree 4ℳ - 1.

Strong selection against hybrids at a hybrid zone in the Ensatina ring species complex and its evolutionary implications

The analysis of interactions between lineages at varying levels of genetic divergence can provide insights into the process of speciation through the accumulation of incompatible mutations. Ring species, and especially the Ensatina eschscholtzii system exemplify this approach. The plethodontid salamanders E. eschscholtzii xanthoptica and E. eschscholtzii platensis hybridize in the central Sierran foothills of California. We compared the genetic structure across two transects (southern and northern Calaveras Co.), one of which was resampled over 20 years, and examined diagnostic molecular markers (eight allozyme loci and mitochondrial DNA) and a diagnostic quantitative trait (color pattern). Key results across all studies were: (1) cline centers for all markers were coincident and the zones were narrow, with width estimates of 730 m to 2000 m; (2) cline centers at the northern Calaveras transect were coincident between 1981 and 2001, demonstrating repeatability over five generations; (3) there were very few if any putative F1s, but a relatively high number of backcrossed individuals in the central portion of transects: and (4) we found substantial linkage disequilibrium in all three studies and strong heterozygote deficit both in northern Calaveras, in 2001, and southern Calaveras. Both linkage disequilibrium and heterozygote deficit showed maximum values near the center of the zones. Using estimates of cline width and dispersal, we infer strong selection against hybrids. This is sufficient to promote accumulation of differences at loci that are neutral or under divergent selection, but would still allow for introgression of adaptive alleles. The evidence for strong but incomplete isolation across this centrally located contact is consistent with theory suggesting a gradual increase in postzygotic incompatibility between allopatric populations subject to divergent selection and reinforces the value of Ensatina as a system for the study of divergence and speciation at multiple stages. © 2005 The Society for the Study of Evolution. All rights reserved.

Respiratory chemoreceptor function in vertebrates - Comparative and evolutionary aspects

The sensing of blood gas tensions and/or pH is an evolutionarily conserved, homeostatic mechanism, observable in almost all species studied from invertebrates to man. In vertebrates, a shift from the peripheral O2-oriented sensing in fish, to the central CO2/pH sensing in most tetrapods reflects the specific behavioral requirements of these two groups whereby, in teleost fish, a highly O2-oriented control of breathing matches the ever-changing and low oxygen levels in water, whilst the transition to air-breathing increased the importance of acid-base regulation and O2-related drive, although retained, became relatively less important. The South American lungfish and tetrapods are probably sister groups, a conclusion backed up by many similar features of respiratory control. For example, the relative roles of peripheral and central chemoreceptors are present both in the lungfish and in land vertebrates. In both groups, the central CO2/pH receptors dominate the ventilatory response to hypercarbia (60-80), while the peripheral CO2/pH receptors account for 20-30. Some basic components of respiratory control have changed little during evolution. This review presents studies that reflect the current trends in the field of chemoreceptor function, and several laboratories are involved. An exhaustive review on the previous literature, however, is beyond the intended scope of the article. Rather, we present examples of current trends in respiratory function in vertebrates, ranging from fish to humans, and focus on both O2 sensing and CO2 sensing. As well, we consider the impact of chronic levels of hypoxia - a physiological condition in fish and in land vertebrates resident at high elevations or suffering from one of the many cardiorespiratory disease states that predispose an animal to impaired ventilation or cardiac output. This provides a basis for a comparative physiology that is informative about the evolution of respiratory functions in vertebrates and about human disease. Currently, most detail is known for mammals, for which molecular biology and respiratory physiology have combined in the discovery of the mechanisms underlying the responses of respiratory chemoreceptors. Our review includes new data on nonmammalian vertebrates, which stresses that some chemoreceptor sites are of ancient origin.