DNA extraction from formalin-fixed Franciscana tissues

The present paper reports the extraction of DNA from formalin-fixed Pontoporia blainvillei tissues. Following the Vachot and Monerot (1996) protocol, fragmented DNA (300-700bp) was extracted from more than 95% of liver and muscle samples. DNA yield in liver samples was significantly higher than in muscle samples (4.574 ± 1.169mg DNA/mg versus 0.808 ± 0.297mg DNA/mg). Similar results were obtained from nine other species of cetaceans and five species of pinnipeds. It is of special interest to have a method that allows the utilisation of museum specimens not originally preserved for genetic studies, which may include rarely available, declining or extinct species. SPANISH: El presente trabajo reporta la extracción de ADN a partir de tejidos formolizados de Pontoporia blainvillei. Siguiendo el protocolo de Vachot y Monerot (1996) se pudo extraer ADN degradado (300-700pb) en más del 95% de las muestras de hígado y músculo analizadas. El rendimiento en ADN fue significativamente mayor en muestras de hígado que en muestras de músculo (4.574 ± 1.169mg DNA/mg tejido húmedo versus 0.808 ± 0.297mg DNA/mg tejido húmedo). Resultados similares se obtuvieron en otras nueve especies de Cetáceos y cinco de Pinnípedos. Resulta de gran interés contar con un método que permita la utilización de especímenes depositados en museos y que no hayan sido originalmente colectados para estudios genéticos, incluyendo especies de difícil obtención, en franca declinación o extintas

Two phase transitions in the fully frustrated XYXY model

The fully frustrated $XY$ model on a square lattice is studied by means of Monte Carlo simulations. A Kosterlitz-Thouless transition is found at $T_{\rm KT} \approx 0.446$, followed by an ordinary Ising transition at a slightly higher temperature, $T_c \approx 0.452$. The non-Ising exponents reported by others, are explained as a failure of finite size scaling due to the screening length associated with the nearby Kosterlitz-Thouless transition.Comment: REVTEX file, 8 pages, 5 figures in uuencoded postscrip

New, efficient, and accurate high order derivative and dissipation operators satisfying summation by parts, and applications in three-dimensional multi-block evolutions

We construct new, efficient, and accurate high-order finite differencing operators which satisfy summation by parts. Since these operators are not uniquely defined, we consider several optimization criteria: minimizing the bandwidth, the truncation error on the boundary points, the spectral radius, or a combination of these. We examine in detail a set of operators that are up to tenth order accurate in the interior, and we surprisingly find that a combination of these optimizations can improve the operators' spectral radius and accuracy by orders of magnitude in certain cases. We also construct high-order dissipation operators that are compatible with these new finite difference operators and which are semi-definite with respect to the appropriate summation by parts scalar product. We test the stability and accuracy of these new difference and dissipation operators by evolving a three-dimensional scalar wave equation on a spherical domain consisting of seven blocks, each discretized with a structured grid, and connected through penalty boundary conditions.Comment: 16 pages, 9 figures. The files with the coefficients for the derivative and dissipation operators can be accessed by downloading the source code for the document. The files are located in the "coeffs" subdirector

Probing Vortex Unbinding via Dipole Fluctuations

We develop a numerical method for detecting a vortex unbinding transition in a two-dimensional system by measuring large scale fluctuations in the total vortex dipole moment ${\vec P}$ of the system. These are characterized by a quantity $\cal F$ which measures the number of configurations in a simulation for which the either $P_x$ or $P_y$ is half the system size. It is shown that $\cal F$ tends to a non-vanishing constant for large system sizes in the unbound phase, and vanishes in the bound phase. The method is applied to the XY model both in the absence and presence of a magnetic field. In the latter case, the system size dependence of $\cal F$ suggests that there exist three distinct phases, one unbound vortex phase, a logarithmically bound phase, and a linearly bound phase.Comment: 6 pages, 2 figure

The Physio-Chemical Properties for the Interior of Enceladus

We have reviewed the current physical and chemical conditions of the Enceladus sub-surface environment, including the composition, temperature, pH and pressure. Here we have defined some of these parameters and, through the aid of modelling, will define and refine the remaining parameters needed for our experimental work. Simulations of the chemical reactions occurring within Enceladus can then be carried out to advance our understanding of the internal environment of Enceladus and help evaluate its potential habitability. Once a better understanding of the chemical reactions occurring at the rock-water interface has been carried out, then potential analogues on Earth can be evaluated and known microbial life can be tested to see if it could survive the conditions of Enceladus

In Search of the Vortex Loop Blowout Transition for a type-II Superconductor in a Finite Magnetic Field

The 3D uniformly frustrated XY model is simulated to search for a predicted "vortex loop blowout" transition within the vortex line liquid phase of a strongly type-II superconductor in an applied magnetic field. Results are shown to strongly depend on the precise scheme used to trace out vortex line paths. While we find evidence for a transverse vortex path percolation transition, no signal of this transition is found in the specific heat.Comment: 11 pages, 17 figure

Identifying Agile Requirements Engineering Patterns in Industry

Agile Software Development (ASD) is gaining in popularity in today´s business world. Industry is adopting agile methodologies both to accelerate value delivery and to enhance the ability to deal with changing requirements. However, ASD has a great impact on how Requirements Engineering (RE) is carried out in agile environments. The integration of Human-Centered Design (HCD) plays an important role due to the focus on user and stakeholder involvement. To this end, we aim to introduce agile RE patterns as main objective of this paper. On the one hand, we will describe our pattern mining process based on empirical research in literature and industry. On the other hand, we will discuss our results and provide two examples of agile RE patterns. In sum, the pattern mining process identifies 41 agile RE patterns. The accumulated knowledge will be shared by means of a web application.Ministerio de Economía y Competitividad TIN2013-46928-C3-3-RMinisterio de Economía y Competitividad TIN2016-76956-C3-2-RMinisterio de Economía y Competitividad TIN2015-71938-RED

Dynamic Approach to the Fully Frustrated XY Model

Using Monte Carlo simulations, we systematically investigate the non-equilibrium dynamics of the chiral degree of freedom in the two-dimensional fully frustrated XY model. The critical initial increase of the staggered chiral magnetization is observed. By means of the short-time dynamics approach, we estimate the second order phase transition temperature $T_{c}$ and all the dynamic and static critical exponents $\theta$, z, $\beta$ and $\nu$.Comment: 5 pages with 6 figures include

The fully frustrated XY model with next nearest neighbor interaction

We introduce a fully frustrated XY model with nearest neighbor (nn) and next nearest neighbor (nnn) couplings which can be realized in Josephson junction arrays. We study the phase diagram for $0\leq x \leq 1$ ($x$ is the ratio between nnn and nn couplings). When $x < 1/\sqrt{2}$ an Ising and a Berezinskii-Kosterlitz-Thouless transitions are present. Both critical temperatures decrease with increasing $x$. For $x > 1/\sqrt{2}$ the array undergoes a sequence of two transitions. On raising the temperature first the two sublattices decouple from each other and then, at higher temperatures, each sublattice becomes disorderd.Comment: 11 pages, 5 figure

Polarization observables of the gamma d --> PiNN reaction in the Delta(1232)-resonance region

Polarization observables of the three charge states of the pion for the $\gamma d\to\pi NN$ reaction with polarized photon beam and/or oriented deuteron target are evaluated over the whole $\Delta$(1232)-resonance region adopting a nonrelativistic model based on time-ordered perturbation theory. Results for the $\pi$-meson spectra, linear photon asymmetry, vector and tensor target asymmetries are presented. Particular attention is given, for the first time, to double polarization asymmetries for which we present results for $T_{20}^{\ell}$ and $T_{2\pm 2}^{\ell}$. We found that all other double polarization asymmetries of photon and deuteron target are vanished.Comment: 17 Pages, 8 Figures, accepted for publication in Int. J. Mod. Phys.