3D Dune Skeleton Model as a Coupled Dynamical System of 2D Cross-Sections

To analyze theoretically the stability of the shape and the migration process of transverse dunes and barchans, we propose a {\it skeleton model} of 3D dunes described with coupled dynamics of 2D cross-sections. First, 2D cross-sections of a 3D dune parallel to the wind direction are extracted as elements of a skeleton of the 3D dune, hence, the dynamics of each and interaction between them is considered. This model simply describes the essential dynamics of 3D dunes as a system of coupled ordinary differential equations. Using the model we study the stability of the shape of 3D transversal dunes and their deformation to barchans depending on the amount of available sand in the dune field, sand flow in parallel and perpendicular to wind direction.Comment: 6 pages, 6 figures, lette

Genetic drift at expanding frontiers promotes gene segregation

Competition between random genetic drift and natural selection plays a central role in evolution: Whereas non-beneficial mutations often prevail in small populations by chance, mutations that sweep through large populations typically confer a selective advantage. Here, however, we observe chance effects during range expansions that dramatically alter the gene pool even in large microbial populations. Initially well-mixed populations of two fluorescently labeled strains of Escherichia coli develop well-defined, sector-like regions with fractal boundaries in expanding colonies. The formation of these regions is driven by random fluctuations that originate in a thin band of pioneers at the expanding frontier. A comparison of bacterial and yeast colonies (Saccharomyces cerevisiae) suggests that this large-scale genetic sectoring is a generic phenomenon that may provide a detectable footprint of past range expansions.Comment: Please visit http://www.pnas.org/content/104/50/19926.abstract for published articl

Linear stability analysis of transverse dunes

Sand-moving winds blowing from a constant direction in an area of high sand availability form transverse dunes, which have a fixed profile in the direction orthogonal to the wind. Here we show, by means of a linear stability analysis, that transverse dunes are intrinsically unstable. Any along-axis perturbation on a transverse dune amplify in the course of dune migration due to the combined effect of two main factors, namely: the lateral transport through avalanches along the dune's slip-face, and the scaling of dune migration velocity with the inverse of the dune height. Our calculations provide a quantitative explanation for recent observations from experiments and numerical simulations, which showed that transverse dunes moving on the bedrock cannot exist in a stable form and decay into a chain of crescent-shaped barchans.Comment: 8 pages, 4 figure

The song of the dunes as a self-synchronized instrument

Since Marco Polo (1) it has been known that some sand dunes have the peculiar ability of emitting a loud sound with a well defined frequency, sometimes for several minutes. The origin of this sustained sound has remained mysterious, partly because of its rarity in nature (2). It has been recognized that the sound is not due to the air flow around the dunes but to the motion of an avalanche (3), and not to an acoustic excitation of the grains but to their relative motion (4-7). By comparing several singing dunes and two controlled experiments, one in the laboratory and one in the field, we here demonstrate that the frequency of the sound is the frequency of the relative motion of the sand grains. The sound is produced because some moving grains synchronize their motions. The existence of a velocity threshold in both experiments further shows that this synchronization comes from an acoustic resonance within the flowing layer: if the layer is large enough it creates a resonance cavity in which grains self-synchronize.Comment: minor changes, essentially more references

Corridors of barchan dunes: stability and size selection

Barchans are crescentic dunes propagating on a solid ground. They form dune fields in the shape of elongated corridors in which the size and spacing between dunes are rather well selected. We show that even very realistic models for solitary dunes do not reproduce these corridors. Instead, two instabilities take place. First, barchans receive a sand flux at their back proportional to their width while the sand escapes only from their horns. Large dunes proportionally capture more than they loose sand, while the situation is reversed for small ones: therefore, solitary dunes cannot remain in a steady state. Second, the propagation speed of dunes decreases with the size of the dune: this leads -- through the collision process -- to a coarsening of barchan fields. We show that these phenomena are not specific to the model, but result from general and robust mechanisms. The length scales needed for these instabilities to develop are derived and discussed. They turn out to be much smaller than the dune field length. As a conclusion, there should exist further - yet unknown - mechanisms regulating and selecting the size of dunes.Comment: 13 pages, 13 figures. New version resubmitted to Phys. Rev. E. Pictures of better quality available on reques

Collision dynamics of two barchan dunes simulated by a simple model

The collision processes of two crescentic dunes called barchans are systematically studied using a simple computer simulation model. The simulated processes, coalescence, ejection and reorganization, qualitatively correspond to those observed in a water tank experiment. Moreover we found the realized types of collision depend both on the mass ratio and on the lateral distance between barchans under initial conditions. A simple set of differential equations to describe the collision of one-dimensional (1D) dunes is introduced.Comment: 4 pages, 5 figures : To be published in Journal of the Physical Society of Japa

The fidelity of dynamic signaling by noisy biomolecular networks

This is the final version of the article. Available from Public Library of Science via the DOI in this record.Cells live in changing, dynamic environments. To understand cellular decision-making, we must therefore understand how fluctuating inputs are processed by noisy biomolecular networks. Here we present a general methodology for analyzing the fidelity with which different statistics of a fluctuating input are represented, or encoded, in the output of a signaling system over time. We identify two orthogonal sources of error that corrupt perfect representation of the signal: dynamical error, which occurs when the network responds on average to other features of the input trajectory as well as to the signal of interest, and mechanistic error, which occurs because biochemical reactions comprising the signaling mechanism are stochastic. Trade-offs between these two errors can determine the system's fidelity. By developing mathematical approaches to derive dynamics conditional on input trajectories we can show, for example, that increased biochemical noise (mechanistic error) can improve fidelity and that both negative and positive feedback degrade fidelity, for standard models of genetic autoregulation. For a group of cells, the fidelity of the collective output exceeds that of an individual cell and negative feedback then typically becomes beneficial. We can also predict the dynamic signal for which a given system has highest fidelity and, conversely, how to modify the network design to maximize fidelity for a given dynamic signal. Our approach is general, has applications to both systems and synthetic biology, and will help underpin studies of cellular behavior in natural, dynamic environments.We acknowledge support from a Medical Research Council and Engineering and Physical Sciences Council funded Fellowship in Biomedical Informatics (CGB) and a Scottish Universities Life Sciences Alliance chair in Systems Biology (PSS). The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript

Formation of aeolian ripples and sand sorting

We present a continuous model capable of demonstrating some salient features of aeolian sand ripples: the realistic asymmetric ripple shape, coarsening of ripple field at the nonlinear stage of ripple growth, saturation of ripple growth for homogeneous sand, typical size segregation of sand and formation of armoring layers of coarse particles on ripple crests and windward slopes if sand is inhomogeneous.Comment: 37 pages, 10 figures, revised versio

Field evidence for the upwind velocity shift at the crest of low dunes

Wind topographically forced by hills and sand dunes accelerates on the upwind (stoss) slopes and reduces on the downwind (lee) slopes. This secondary wind regime, however, possesses a subtle effect, reported here for the first time from field measurements of near-surface wind velocity over a low dune: the wind velocity close to the surface reaches its maximum upwind of the crest. Our field-measured data show that this upwind phase shift of velocity with respect to topography is found to be in quantitative agreement with the prediction of hydrodynamical linear analysis for turbulent flows with first order closures. This effect, together with sand transport spatial relaxation, is at the origin of the mechanisms of dune initiation, instability and growth.Comment: 13 pages, 6 figures. Version accepted for publication in Boundary-Layer Meteorolog

Does publication bias inflate the apparent efficacy of psychological treatment for major depressive disorder? A systematic review and meta-analysis of US national institutes of health-funded trials

Background The efficacy of antidepressant medication has been shown empirically to be overestimated due to publication bias, but this has only been inferred statistically with regard to psychological treatment for depression. We assessed directly the extent of study publication bias in trials examining the efficacy of psychological treatment for depression. Methods and Findings We identified US National Institutes of Health grants awarded to fund randomized clinical trials comparing psychological treatment to control conditions or other treatments in patients diagnosed with major depressive disorder for the period 1972–2008, and we determined whether those grants led to publications. For studies that were not published, data were requested from investigators and included in the meta-analyses. Thirteen (23.6%) of the 55 funded grants that began trials did not result in publications, and two others never started. Among comparisons to control conditions, adding unpublished studies (Hedges’ g = 0.20; CI95% -0.11~0.51; k = 6) to published studies (g = 0.52; 0.37~0.68; k = 20) reduced the psychotherapy effect size point estimate (g = 0.39; 0.08~0.70) by 25%. Moreover, these findings may overestimate the "true" effect of psychological treatment for depression as outcome reporting bias could not be examined quantitatively. Conclusion The efficacy of psychological interventions for depression has been overestimated in the published literature, just as it has been for pharmacotherapy. Both are efficacious but not to the extent that the published literature would suggest. Funding agencies and journals should archive both original protocols and raw data from treatment trials to allow the detection and correction of outcome reporting bias. Clinicians, guidelines developers, and decision makers should be aware that the published literature overestimates the effects of the predominant treatments for depression