Conservation Laws in Smooth Particle Hydrodynamics: the DEVA Code

We describe DEVA, a multistep AP3M-like-SPH code particularly designed to study galaxy formation and evolution in connection with the global cosmological model. This code uses a formulation of SPH equations which ensures both energy and entropy conservation by including the so-called \bn h terms. Particular attention has also been paid to angular momentum conservation and to the accuracy of our code. We find that, in order to avoid unphysical solutions, our code requires that cooling processes must be implemented in a non-multistep way. We detail various cosmological simulations which have been performed to test our code and also to study the influence of the \bn h terms. Our results indicate that such correction terms have a non-negligible effect on some cosmological simulations, especially on high density regions associated either to shock fronts or central cores of collapsed objects. Moreover, they suggest that codes paying a particular attention to the implementation of conservation laws of physics at the scales of interest, can attain good accuracy levels in conservation laws with limited computational resources.Comment: 36 pages, 10 figures. Accepted for publication in The Astrophysical Journa

Microhardness of starch based biomaterials in simulated physiological conditions

In this work the variation of the surface mechanical properties of starch-based biomaterials with immersion time was followed using microhardness measurements. Two blends with very distinct water uptake capabilities, starch/cellulose acetate (SCA) and starch/poly- (e-caprolactone) (SPCL), were immersed in a phosphate buffer solution (PBS) at 37.5 C for various times. The microhardness of the blends decreased significantly ( 50% for SPCL and 94% for SCA), within a time period of 30 days of immersion, reflecting the different hydrophilic character of the synthetic components of the blends. The dependence of microhardness on the applied loading time and load was also analysed and showed a power law dependency for SCA. Water uptake and weight loss measurements were performed for the same immersion times used in the microhardness experiments. The different swelling/degradation behaviour presented by the blends was related to the respective variation in microhardness. Moreover, complementary characterization of the mechanical properties of SCA and SPCL was accomplished by dynamic mechanical analysis (DMA) and creep measurements. Microhardness measurements proved to be a useful technique for characterizing the mechanical behaviour near the surface of polymeric biomaterials, including in simulated physiological conditions

Unifying thermodynamic and kinetic descriptions of single-molecule processes: RNA unfolding under tension

We use mesoscopic non-equilibrium thermodynamics theory to describe RNA unfolding under tension. The theory introduces reaction coordinates, characterizing a continuum of states for each bond in the molecule. The unfolding considered is so slow that one can assume local equilibrium in the space of the reaction coordinates. In the quasi-stationary limit of high sequential barriers, our theory yields the master equation of a recently proposed sequential-step model. Non-linear switching kinetics is found between open and closed states. Our theory unifies the thermodynamic and kinetic descriptions and offers a systematic procedure to characterize the dynamics of the unfolding processComment: 13 pages, 3 figure

Caracterización mecánica de pistas deportivas fabricadas con materiales procedentes de neumáticos fuera de uso (NFU)

Congreso celebrado en la Escuela de Arquitectura de la Universidad de Sevilla desde el 24 hasta el 26 de junio de 2015.The European Framework Directive 2008/98/EC on waste established as priority reuse and recycling before other recovery alternatives. In this normative reference, one the main waste flows identified are the end-of-life tyres, as a material whose mechanical properties could provide advantage in the construction of new structures. This paper presents the mechanical characterization of a layer made with shredded tires out of use, inside a section of a sportive track which included a sand layer. The use of the shredded tires out of use provides special features related with elasticity and damping to the sportive surface. In order to do that, a new test based on UNE-14809 was designed. A number of tests were performed using different configuration of sand and shredded tires. From the results obtained, a numerical model was implemented in FEA software

Multilevel Deconstruction of the In Vivo Behavior of Looped DNA-Protein Complexes

Protein-DNA complexes with loops play a fundamental role in a wide variety of cellular processes, ranging from the regulation of DNA transcription to telomere maintenance. As ubiquitous as they are, their precise in vivo properties and their integration into the cellular function still remain largely unexplored. Here, we present a multilevel approach that efficiently connects in both directions molecular properties with cell physiology and use it to characterize the molecular properties of the looped DNA-lac repressor complex while functioning in vivo. The properties we uncover include the presence of two representative conformations of the complex, the stabilization of one conformation by DNA architectural proteins, and precise values of the underlying twisting elastic constants and bending free energies. Incorporation of all this molecular information into gene-regulation models reveals an unprecedented versatility of looped DNA-protein complexes at shaping the properties of gene expression.Comment: Open Access article available at http://www.plosone.org/article/fetchArticle.action?articleURI=info%3Adoi%2F10.1371%2Fjournal.pone.000035