Spatial fluctuations of a surviving particle in the trapping reaction

We consider the trapping reaction, $A+B\to B$, where $A$ and $B$ particles have a diffusive dynamics characterized by diffusion constants $D_A$ and $D_B$. The interaction with $B$ particles can be formally incorporated in an effective dynamics for one $A$ particle as was recently shown by Bray {\it et al}. [Phys. Rev. E {\bf 67}, 060102 (2003)]. We use this method to compute, in space dimension $d=1$, the asymptotic behaviour of the spatial fluctuation, $^{1/2}$, for a surviving $A$ particle in the perturbative regime, $D_A/D_B\ll 1$, for the case of an initially uniform distribution of $B$ particles. We show that, for $t\gg 1$, $^{1/2} \propto t^{\phi}$ with $\phi=1/4$. By contrast, the fluctuations of paths constrained to return to their starting point at time $t$ grow with the larger exponent 1/3. Numerical tests are consistent with these predictions.Comment: 10 pages, 5 figure

The scenario of two-dimensional instabilities of the cylinder wake under EHD forcing: A linear stability analysis

We propose to study the stability properties of an air flow wake forced by a dielectric barrier discharge (DBD) actuator, which is a type of electrohydrodynamic (EHD) actuator. These actuators add momentum to the flow around a cylinder in regions close to the wall and, in our case, are symmetrically disposed near the boundary layer separation point. Since the forcing frequencies, typical of DBD, are much higher than the natural shedding frequency of the flow, we will be considering the forcing actuation as stationary. In the first part, the flow around a circular cylinder modified by EHD actuators will be experimentally studied by means of particle image velocimetry (PIV). In the second part, the EHD actuators have been numerically implemented as a boundary condition on the cylinder surface. Using this boundary condition, the computationally obtained base flow is then compared with the experimental one in order to relate the control parameters from both methodologies. After validating the obtained agreement, we study the Hopf bifurcation that appears once the flow starts the vortex shedding through experimental and computational approaches. For the base flow derived from experimentally obtained snapshots, we monitor the evolution of the velocity amplitude oscillations. As to the computationally obtained base flow, its stability is analyzed by solving a global eigenvalue problem obtained from the linearized Navier–Stokes equations. Finally, the critical parameters obtained from both approaches are compared

Human-agent collectives

We live in a world where a host of computer systems, distributed throughout our physical and information environments, are increasingly implicated in our everyday actions. Computer technologies impact all aspects of our lives and our relationship with the digital has fundamentally altered as computers have moved out of the workplace and away from the desktop. Networked computers, tablets, phones and personal devices are now commonplace, as are an increasingly diverse set of digital devices built into the world around us. Data and information is generated at unprecedented speeds and volumes from an increasingly diverse range of sources. It is then combined in unforeseen ways, limited only by human imagination. People’s activities and collaborations are becoming ever more dependent upon and intertwined with this ubiquitous information substrate. As these trends continue apace, it is becoming apparent that many endeavours involve the symbiotic interleaving of humans and computers. Moreover, the emergence of these close-knit partnerships is inducing profound change. Rather than issuing instructions to passive machines that wait until they are asked before doing anything, we will work in tandem with highly inter-connected computational components that act autonomously and intelligently (aka agents). As a consequence, greater attention needs to be given to the balance of control between people and machines. In many situations, humans will be in charge and agents will predominantly act in a supporting role. In other cases, however, the agents will be in control and humans will play the supporting role. We term this emerging class of systems human-agent collectives (HACs) to reflect the close partnership and the flexible social interactions between the humans and the computers. As well as exhibiting increased autonomy, such systems will be inherently open and social. This means the participants will need to continually and flexibly establish and manage a range of social relationships. Thus, depending on the task at hand, different constellations of people, resources, and information will need to come together, operate in a coordinated fashion, and then disband. The openness and presence of many distinct stakeholders means participation will be motivated by a broad range of incentives rather than diktat. This article outlines the key research challenges involved in developing a comprehensive understanding of HACs. To illuminate this agenda, a nascent application in the domain of disaster response is presented

Symbiont Interactions in a Tripartite Mutualism: Exploring the Presence and Impact of Antagonism between Two Fungus-Growing Ant Mutualists

Mutualistic associations are shaped by the interplay of cooperation and conflict among the partners involved, and it is becoming increasingly clear that within many mutualisms multiple partners simultaneously engage in beneficial interactions. Consequently, a more complete understanding of the dynamics within multipartite mutualism communities is essential for understanding the origin, specificity, and stability of mutualisms. Fungus-growing ants cultivate fungi for food and maintain antibiotic-producing Pseudonocardia actinobacteria on their cuticle that help defend the cultivar fungus from specialized parasites. Within both ant-fungus and ant-bacterium mutualisms, mixing of genetically distinct strains can lead to antagonistic interactions (i.e., competitive conflict), which may prevent the ants from rearing multiple strains of either of the mutualistic symbionts within individual colonies. The success of different ant-cultivar-bacterium combinations could ultimately be governed by antagonistic interactions between the two mutualists, either as inhibition of the cultivar by Pseudonocardia or vice versa. Here we explore cultivar-Pseudonocardia antagonism by evaluating in vitro interactions between strains of the two mutualists, and find frequent antagonistic interactions both from cultivars towards Pseudonocardia and vice versa. To test whether such in vitro antagonistic interactions affect ant colonies in vivo, we performed sub-colony experiments using species of Acromyrmex leaf-cutting ants. We created novel ant-fungus-bacterium pairings in which there was antagonism from one, both, or neither of the ants' microbial mutualists, and evaluated the effect of directional antagonism on cultivar biomass and Pseudonocardia abundance on the cuticle of workers within sub-colonies. Despite the presence of frequent in vitro growth suppression between cultivars and Pseudonocardia, antagonism from Pseudonocardia towards the cultivar did not reduce sub-colony fungus garden biomass, nor did cultivar antagonism towards Pseudonocardia reduce bacteria abundance on the cuticle of sub-colony workers. Our findings suggest that inter-mutualist antagonism does not limit what combinations of cultivar and Pseudonocardia strains Acromyrmex fungus-growing ants can maintain within nests

Cascade time-scales for energy and helicity in homogeneous isotropic turbulence

We extend the Kolmogorov phenomenology for the scaling of energy spectra in high-Reynolds number turbulence, to explicitly include the effect of helicity. There exists a time-scale $\tau_H$ for helicity transfer in homogeneous, isotropic turbulence with helicity. We arrive at this timescale using the phenomenological arguments used by Kraichnan to derive the timescale $\tau_E$ for energy transfer (J. Fluid Mech. {\bf 47}, 525--535 (1971)). We show that in general $\tau_H$ may not be neglected compared to $\tau_E$, even for rather low relative helicity. We then deduce an inertial range joint cascade of energy and helicity in which the dynamics are dominated by $\tau_E$ in the low wavenumbers with both energy and helicity spectra scaling as $k^{-5/3}$; and by $\tau_H$ at larger wavenumbers with spectra scaling as $k^{-4/3}$. We demonstrate how, within this phenomenology, the commonly observed ``bottleneck'' in the energy spectrum might be explained. We derive a wavenumber $k_h$ which is less than the Kolmogorov dissipation wavenumber, at which both energy and helicity cascades terminate due to dissipation effects. Data from direct numerical simulations are used to check our predictions.Comment: 14 pages, 5 figures, accepted to Physical Review

Elasticity of smectic liquid crystals with focal conic domains

We study the elastic properties of thermotropic smectic liquid crystals with focal conic domains (FCDs). After the application of the controlled preshear at different temperatures, we independently measured the shear modulus G' and the FCD size L. We find out that these quantities are related by the scaling relation G' ~ \gamma_{eff}/L where \gamma_{eff} is the effective surface tension of the FCDs. The experimentally obtained value of \gamma_{\rm eff} shows the same scaling as the effective surface tension of the layered systems \sqrt{KB} where K and B are the bending modulus and the layer compression modulus, respectively. The similarity of this scaling relation to that of the surfactant onion phase suggests an universal rheological behavior of the layered systems with defects.Comment: 14 pages, 7 figures, accepted for publication in JPC

Optimal estimation for Large-Eddy Simulation of turbulence and application to the analysis of subgrid models

The tools of optimal estimation are applied to the study of subgrid models for Large-Eddy Simulation of turbulence. The concept of optimal estimator is introduced and its properties are analyzed in the context of applications to a priori tests of subgrid models. Attention is focused on the Cook and Riley model in the case of a scalar field in isotropic turbulence. Using DNS data, the relevance of the beta assumption is estimated by computing (i) generalized optimal estimators and (ii) the error brought by this assumption alone. Optimal estimators are computed for the subgrid variance using various sets of variables and various techniques (histograms and neural networks). It is shown that optimal estimators allow a thorough exploration of models. Neural networks are proved to be relevant and very efficient in this framework, and further usages are suggested

Core of the Magnetic Obstacle

Rich recirculation patterns have been recently discovered in the electrically conducting flow subject to a local external magnetic termed "the magnetic obstacle" [Phys. Rev. Lett. 98 (2007), 144504]. This paper continues the study of magnetic obstacles and sheds new light on the core of the magnetic obstacle that develops between magnetic poles when the intensity of the external field is very large. A series of both 3D and 2D numerical simulations have been carried out, through which it is shown that the core of the magnetic obstacle is streamlined both by the upstream flow and by the induced cross stream electric currents, like a foreign insulated insertion placed inside the ordinary hydrodynamic flow. The closed streamlines of the mass flow resemble contour lines of electric potential, while closed streamlines of the electric current resemble contour lines of pressure. New recirculation patterns not reported before are found in the series of 2D simulations. These are composed of many (even number) vortices aligned along the spanwise line crossing the magnetic gap. The intensities of these vortices are shown to vanish toward to the center of the magnetic gap, confirming the general conclusion of 3D simulations that the core of the magnetic obstacle is frozen. The implications of these findings for the case of turbulent flow are discussed briefly.Comment: 14 pages, 9 figures, submitted to Journal of Turbulenc

Inferring Phylogenies from RAD Sequence Data

Reduced-representation genome sequencing represents a new source of data for systematics, and its potential utility in interspecific phylogeny reconstruction has not yet been explored. One approach that seems especially promising is the use of inexpensive short-read technologies (e.g., Illumina, SOLiD) to sequence restriction-site associated DNA (RAD) – the regions of the genome that flank the recognition sites of restriction enzymes. In this study, we simulated the collection of RAD sequences from sequenced genomes of different taxa (Drosophila, mammals, and yeasts) and developed a proof-of-concept workflow to test whether informative data could be extracted and used to accurately reconstruct “known” phylogenies of species within each group. The workflow consists of three basic steps: first, sequences are clustered by similarity to estimate orthology; second, clusters are filtered by taxonomic coverage; and third, they are aligned and concatenated for “total evidence” phylogenetic analysis. We evaluated the performance of clustering and filtering parameters by comparing the resulting topologies with well-supported reference trees and we were able to identify conditions under which the reference tree was inferred with high support. For Drosophila, whole genome alignments allowed us to directly evaluate which parameters most consistently recovered orthologous sequences. For the parameter ranges explored, we recovered the best results at the low ends of sequence similarity and taxonomic representation of loci; these generated the largest supermatrices with the highest proportion of missing data. Applications of the method to mammals and yeasts were less successful, which we suggest may be due partly to their much deeper evolutionary divergence times compared to Drosophila (crown ages of approximately 100 and 300 versus 60 Mya, respectively). RAD sequences thus appear to hold promise for reconstructing phylogenetic relationships in younger clades in which sufficient numbers of orthologous restriction sites are retained across species.</p