Pattern formation in crystal growth under parabolic shear flow

Morphological instability of the solid-liquid interface occuring in a crystal growing from an undercooled thin liquid being bounded on one side by a free surface and flowing down inclined plane is investigated by a linear stability analysis under shear flow. It is found that restoring forces due to gravity and surface tension is important factor for stabilization of the solid-liquid interface on long length scales. This is a new stabilizing effect different from the Gibbs-Thomson effect. A particular long wavelength mode of about 1 cm of wavy pattern observed on the surface of icicles covered with thin layer of flowing water is obtained from the dispersion relation including the effect of flow and restoring forces.Comment: 30 pages, 4 figure

Erosion patterns in a sediment layer

We report here on a laboratory-scale experiment which reproduces a rich variety of natural patterns with few control parameters. In particular, we focus on intriguing rhomboid structures often found on sandy shores and flats. We show that the standard views based on water surface waves come short to explain the phenomenon and we evidence a new mechanism based on a mud avalanche instability.Comment: 4 pages, 4 figures, to appear as Phys. Rev. E rapid com

Ripple and kink dynamics

We propose a relevant modification of the Nishimori-Ouchi model [{\em Phys. Rev. Lett.} {\bf 71}, 197 (1993)] for granular landscape erosion. We explicitly introduce a new parameter: the angle of repose $\theta_r$, and a new process: avalanches. We show that the $\theta_r$ parameter leads to an asymmetry of the ripples, as observed in natural patterns. The temporal evolution of the maximum ripple height $h_{max}$ is limited and not linear, according to recent observations. The ripple symmetry and the kink dynamics are studied and discussed.Comment: 7 pages, 10 figure, RevTe

Phases of granular segregation in a binary mixture

We present results from an extensive experimental investigation into granular segregation of a shallow binary mixture in which particles are driven by frictional interactions with the surface of a vibrating horizontal tray. Three distinct phases of the mixture are established viz; binary gas (unsegregated), segregation liquid and segregation crystal. Their ranges of existence are mapped out as a function of the system's primary control parameters using a number of measures based on Voronoi tessellation. We study the associated transitions and show that segregation can be suppressed is the total filling fraction of the granular layer, $C$, is decreased below a critical value, $C_{c}$, or if the dimensionless acceleration of the driving, $\gamma$, is increased above a value $\gamma_{c}$.Comment: 12 pages, 12 figures, submitted to Phys. Rev.

Surface Instability in Windblown Sand

We investigate the formation of ripples on the surface of windblown sand based on the one-dimensional model of Nishimori and Ouchi [Phys. Rev. Lett. 71, 197 (1993)], which contains the processes of saltation and grain relaxation. We carry out a nonlinear analysis to determine the propagation speed of the restabilized ripple patterns, and the amplitudes and phases of their first, second, and third harmonics. The agreement between the theory and our numerical simulations is excellent near the onset of instability. We also determine the Eckhaus boundary, outside which the steady ripple patterns are unstable.Comment: 23 pages, 8 figure

On the shape of barchan dunes

Barchans are crescent-shaped sand dunes forming in aride regions with unidirectional wind and limited sand supply. We report analytical and numerical results for dune shapes under different environmental conditions as obtained from the so-called `minimal model' of aeolian sand dunes. The profiles of longitudinal vertical slices (i.e. along the wind direction) are analyzed as a function of wind speed and sand supply. Shape transitions can be induced by changes of mass, wind speed and sand supply. Within a minimal extension of the model to the transverse direction the scale-invariant profile of transverse vertical cuts can be derived analytically.Comment: to appear in J. Phys.: Condens. Matter 17 (2005

Granular spirals on erodible sand bed submitted to a circular fluid motion

An experimental study of a granular surface submitted to a circular fluid motion is presented. The appearance of an instability along the sand-water interface is observed beyond a critical radius $r_c$. This creates ripples with a spiral shape on the granular surface. A phase diagram of such patterns is constructed and discussed as a function of the rotation speed $\omega$ of the flow and as a function of the height of water $h$ above the surface. The study of $r_c$ as a function of $h$, $\omega$ and $r$ parameters is reported. Thereafter, $r_c$ is shown to depend on the rotation speed according to a power law. The ripple wavelength is found to decrease when the rotation speed increases and is proportional to the radial distance $r$. The azimuthal angle \az of the spiral arms is studied. It is found that \az scales with $h\omega r$. This lead to the conclusion that \az depends on the fluid momentum. Comparison with experiments performed with fluids allows us to state that the spiral patterns are not the signature of an instability of the boundary layer.Comment: 7 pages, 10 figures, 1 table, using RevTeX4, submitted for publication (2002

Dynamical models for sand ripples beneath surface waves

We introduce order parameter models for describing the dynamics of sand ripple patterns under oscillatory flow. A crucial ingredient of these models is the mass transport between adjacent ripples, which we obtain from detailed numerical simulations for a range of ripple sizes. Using this mass transport function, our models predict the existence of a stable band of wavenumbers limited by secondary instabilities. Small ripples coarsen in our models and this process leads to a sharply selected final wavenumber, in agreement with experimental observations.Comment: 9 pages. Shortened version of previous submissio

A comparative analysis of two conserved motifs in bacterial poly(A) polymerase and CCA-adding enzyme

Showing a high sequence similarity, the evolutionary closely related bacterial poly(A) polymerases (PAP) and CCA-adding enzymes catalyze quite different reactions—PAP adds poly(A) tails to RNA 3′-ends, while CCA-adding enzymes synthesize the sequence CCA at the 3′-terminus of tRNAs. Here, two highly conserved structural elements of the corresponding Escherichia coli enzymes were characterized. The first element is a set of amino acids that was identified in CCA-adding enzymes as a template region determining the enzymes' specificity for CTP and ATP. The same element is also present in PAP, where it confers ATP specificity. The second investigated region corresponds to a flexible loop in CCA-adding enzymes and is involved in the incorporation of the terminal A-residue. Although, PAP seems to carry a similar flexible region, the functional relevance of this element in PAP is not known. The presented results show that the template region has an essential function in both enzymes, while the second element is surprisingly dispensable in PAP. The data support the idea that the bacterial PAP descends from CCA-adding enzymes and still carries some of the structural elements required for CCA-addition as an evolutionary relic and is now fixed in a conformation specific for A-addition