arXiv subjects

Joachim Krug

Publications and source records attributed to Joachim Krug.

At least 91 records · Page 5Linked to original sources

arXiv2006

Dynamic phase transitions in electromigration-induced step bunching

Electromigration-induced step bunching in the presence of sublimation or deposition is studied theoretically in the attachment-limited regime. We predict a phase transition as a function of the relative strength of kinetic asymmetry and step drift. For weak asymmetry the number of steps between bunches grows logarithmically with bunch size, whereas for strong asymmetry at most a single step crosses between two bunches. In the latter phase the emission and absorption of steps is a collective process which sets in only above a critical bunch size and/or step interaction strength.

cond-mat.stat-mech↗

arXiv2005

Adaptation in simple and complex fitness landscapes

This is an introductory review of deterministic mutation-selection models for asexual populations (i.e., quasispecies theory) and related topics. First, the basic concepts of fitness, mutations, and sequence space are introduced. Different types of mutation-selection dynamics are defined and their relation to problems of statistical physics are outlined. Then the stationary population distribution in simple, single peak fitness landscapes is discussed at length, with particular emphasis on the error threshold phenomenon. Extensions of the theory covering e.g. epistatic interactions, diploid organisms, semiconservative replication and time-dependent fitness peaks are briefly described. A further section is devoted to randomly rugged fitness landscapes, which may display fitness correlations of various degree as well as extended neutral networks. The final two sections address evolutionary dynamics in both rugged and smooth fitness landscapes, and provide a brief overview of pertinent experiments.

q-bio.PE↗

arXiv2005

Evolutionary trajectories in rugged fitness landscapes

We consider the evolutionary trajectories traced out by an infinite population undergoing mutation-selection dynamics in static, uncorrelated random fitness landscapes. Starting from the population that consists of a single genotype, the most populated genotype \textit{jumps} from a local fitness maximum to another and eventually reaches the global maximum. We use a strong selection limit, which reduces the dynamics beyond the first time step to the competition between independent mutant subpopulations, to study the dynamics of this model and of a simpler one-dimensional model which ignores the geometry of the sequence space. We find that the fit genotypes that appear along a trajectory are a subset of suitably defined fitness \textit{records}, and exploit several results from the record theory for non-identically distributed random variables. The genotypes that contribute to the trajectory are those records that are not \textit{bypassed} by superior records arising further away from the initial population. Several conjectures concerning the statistics of bypassing are extracted from numerical simulations. In particular, for the one-dimensional model, we propose a simple relation between the bypassing probability and the dynamic exponent which describes the scaling of the typical evolution time with genome size. The latter can be determined exactly in terms of the extremal properties of the fitness distribution.

q-bio.PE↗

arXiv2005

Reaction Kinetics in a Tight Spot

The standard analysis of reaction networks based on deterministic rate equations fails in confined geometries, commonly encountered in fields such as astrochemistry, thin film growth and cell biology. In these systems the small reactant population implies anomalous behavior of reaction rates, which can be accounted for only by following the full distribution of reactant numbers.

cond-mat.other↗

arXiv2005

Complex shape evolution of electromigration-driven single-layer islands

The shape evolution of two-dimensional islands through periphery diffusion biased by an electromigration force is studied numerically using a continuum approach. We show that the introduction of crystal anisotropy in the mobility of edge atoms induces a rich variety of migration modes, which include oscillatory and irregular behavior. A phase diagram in the plane of anisotropy strength and island size is constructed. The oscillatory motion can be understood in terms of stable facets which develop on one side of the island and which the island then slides past. The facet orientations are determined analytically.

cond-mat.mtrl-sci↗

arXiv2004

Breaking records in the evolutionary race

We explore some aspects of the relationship between biological evolution processes and the mathematical theory of records. For Eigen's quasispecies model with an uncorrelated fitness landscape, we show that the evolutionary trajectories traced out by a population initially localized at a randomly chosen point in sequence space can be described in close analogy to record dynamics, with two complications. First, the increasing number of genotypes that become available with increasing distance from the starting point implies that fitness records are more frequent than for the standard case of independent, identically distributed random variables. Second, fitness records can be bypassed, which strongly reduces the number of genotypes that take part in an evolutionary trajectory. For exponential and Gaussian fitness distributions, this number scales with sequence length $N$ as $\sqrt{N}$, and it is of order unity for distributions with a power law tail. This is in strong contrast to the number of records, which is of order $N$ for any fitness distribution.

q-bio.PE↗

arXiv2004

Kinetics of step bunching during growth: A minimal model

We study a minimal stochastic model of step bunching during growth on a one-dimensional vicinal surface. The formation of bunches is controlled by the preferential attachment of atoms to descending steps (inverse Ehrlich-Schwoebel effect) and the ratio $d$ of the attachment rate to the terrace diffusion coefficient. For generic parameters ($d > 0$) the model exhibits a very slow crossover to a nontrivial asymptotic coarsening exponent $β\simeq 0.38$. In the limit of infinitely fast terrace diffusion ($d=0$) linear coarsening ($β$ = 1) is observed instead. The different coarsening behaviors are related to the fact that bunches attain a finite speed in the limit of large size when $d=0$, whereas the speed vanishes with increasing size when $d > 0$. For $d=0$ an analytic description of the speed and profile of stationary bunches is developed.

cond-mat.stat-mech↗

arXiv2004

Scaling properties of step bunches induced by sublimation and related mechanisms: A unified perspective

This work provides a ground for a quantitative interpretation of experiments on step bunching during sublimation of crystals with a pronounced Ehrlich-Schwoebel (ES) barrier in the regime of weak desorption. A strong step bunching instability takes place when the kinetic length is larger than the average distance between the steps on the vicinal surface. In the opposite limit the instability is weak and step bunching can occur only when the magnitude of step-step repulsion is small. The central result are power law relations of the between the width, the height, and the minimum interstep distance of a bunch. These relations are obtained from a continuum evolution equation for the surface profile, which is derived from the discrete step dynamical equations for. The analysis of the continuum equation reveals the existence of two types of stationary bunch profiles with different scaling properties. Through a mathematical equivalence on the level of the discrete step equations as well as on the continuum level, our results carry over to the problems of step bunching induced by growth with a strong inverse ES effect, and by electromigration in the attachment/detachment limited regime. Thus our work provides support for the existence of universality classes of step bunching instabilities [A. Pimpinelli et al., Phys. Rev. Lett. 88, 206103 (2002)], but some aspects of the universality scenario need to be revised.

cond-mat.mtrl-sci↗

arXiv2004

Introduction to Step Dynamics and Step Instabilities

This paper provides an elementary introduction to the basic concepts used in describing epitaxial crystal growth in terms of the thermodynamics and kinetics of atomic steps. Selected applications to morphological instabilities of stepped surfaces are reviewed, and some open problems are outlined.

cond-mat.mtrl-sci↗

arXiv2004

Islands in the Stream: Electromigration-Driven Shape Evolution with Crystal Anisotropy

We consider the shape evolution of two-dimensional islands on a crystal surface in the regime where mass transport is exclusively along the island edge. A directed mass current due to surface electromigration causes the island to migrate in the direction of the force. Stationary shapes in the presence of an anisotropic edge mobility can be computed analytically when the capillary effects of the line tension of the island edge are neglected, and conditions for the existence of non-singular stationary shapes can be formulated. In particular, we analyse the dependence of the direction of island migration on the relative orientation of the electric field to the crystal anisotropy, and we show that no stationary shapes exist when the number of symmetry axes is odd. The full problem including line tension is solved by time-dependent numerical integration of the sharp-interface model. In addition to stationary shapes and shape instability leading to island breakup, we also find a regime where the shape displays periodic oscillations.

cond-mat.mtrl-sci↗

arXiv2004

Power laws in surface physics: The deep, the shallow and the useful

The growth and dynamics of solid surfaces displays a multitude of power law relationships, which are often associated with geometric self-similarity. In many cases the mechanisms behind these power laws are comparatively trivial, and require little more than dimensional analysis for their derivation. The information of interest to surface physicists then resides in the prefactors. This point will be illustrated by recent experimental and theoretical work on the growth-induced roughening of thin films and step fluctuations on vicinal surfaces. The conventional distinction between trivial and nontrivial power laws will be critically examined in general, and specifically in the context of persistence of step fluctuations.

cond-mat.stat-mech↗

arXiv2003

Lonely adatoms in space

There is a close relation between the problems of second layer nucleation in epitaxial crystal growth and chemical surface reactions, such as hydrogen recombination, on interstellar dust grains. In both cases standard rate equation analysis has been found to fail because the process takes place in a confined geometry. Using scaling arguments developed in the context of second layer nucleation, I present a simple derivation of the hydrogen recombination rate for small and large grains. I clarify the reasons for the failure of rate equations for small grains, and point out a logarithmic correction to the reaction rate when the reaction is limited by the desorption of hydrogen atoms (the second order reaction regime).

cond-mat.stat-mech↗

arXiv2002

Effect of kink-rounding barriers on step edge fluctuations

The effect that an additional energy barrier E_{kr} for step adatoms moving around kinks has on equilibrium step edge fluctuations is explored using scaling arguments and kinetic Monte Carlo simulations. When mass transport is through step edge diffusion, the time correlation function of the step fluctuations behaves as C(t) = A(T) t^{1/4}. At low temperatures the prefactor A(T) shows Arrhenius behavior with an activation energy (E_{det} + 3 epsilon)/4 if E_{kr} < epsilon and (E_{det} + E_{kr} + 2 epsilon)/4 if E_{kr} > epsilon, where epsilon is the kink energy and E_{det} is the barrier for detachment of a step adatom from a kink. We point out that the assumption of an Einstein relation for step edge diffusion has lead to an incorrect interpretation of step fluctuation experiments, and explain why such a relation does not hold. The theory is applied to experimental results on Pt(111) and Cu(100).

cond-mat.mtrl-sci↗

arXiv2002

New mechanism for impurity-induced step bunching

Codeposition of impurities during the growth of a vicinal surface leads to an impurity concentration gradient on the terraces, which induces corresponding gradients in the mobility and the chemical potential of the adatoms. Here it is shown that the two types of gradients have opposing effects on the stability of the surface: Step bunching can be caused by impurities which either lower the adatom mobility, or increase the adatom chemical potential. In particular, impurities acting as random barriers (without affecting the adatom binding) cause step bunching, while for impurities acting as random traps the combination of the two effects reduces to a modification of the attachment boundary conditions at the steps. In this case attachment to descending steps, and thus step bunching, is favored if the impurities bind adatoms more weakly than the substrate.

cond-mat.mtrl-sci↗

arXiv2002

Four Lectures on the Physics of Crystal Growth

Several aspects of the theory of epitaxial crystal growth from atomic or molecular beams are developed from the perspective of statistical physics. Lectures are devoted to the rate equation theory of two-dimensional nucleation and its limitations; the growth of multilayer wedding cakes in the presence of strong step edge barriers; the continuum theory of mound coarsening; and growth-induced step meandering on vicinal surfaces.

cond-mat.stat-mech↗

arXiv2002

Competing mechanisms for step meandering in unstable growth

The meander instability of a vicinal surface growing under step flow conditions is studied within a solid-on-solid model. In the absence of edge diffusion the selected meander wavelength agrees quantitatively with the continuum linear stability analysis of Bales and Zangwill [Phys. Rev. B {\bf 41}, 4400 (1990)]. In the presence of edge diffusion a local instability mechanism related to kink rounding barriers dominates, and the meander wavelength is set by one-dimensional nucleation. The long-time behavior of the meander amplitude differs in the two cases, and disagrees with the predictions of a nonlinear step evolution equation [O. Pierre-Louis et al., Phys. Rev. Lett. {\bf 80}, 4221 (1998)]. The variation of the meander wavelength with the deposition flux and with the activation barriers for step adatom detachment and step crossing (the Ehrlich-Schwoebel barrier) is studied in detail. The interpretation of recent experiments on surfaces vicinal to Cu(100) [T. Maroutian et al., Phys. Rev. B {\bf 64}, 165401 (2001)] in the light of our results yields an estimate for the kink barrier at the close packed steps.

cond-mat.stat-mech↗

arXiv2002

Punctuated evolution for the quasispecies model

Biological evolution in a sequence space with random fitnesses is studied within Eigen's quasispecies model. A strong selection limit is employed, in which the population resides at a single sequence at all times. Evolutionary trajectories start at a randomly chosen sequence and proceed to the global fitness maximum through a small number of intermittent jumps. The distribution of the total evolution time displays a universal power law tail with exponent -2. Simulations show that the evolutionary dynamics is very well represented by a simplified shell model, in which the sub-populations at local fitness maxima grow independently. The shell model allows for highly efficient simulations, and provides a simple geometric picture of the evolutionary trajectories.

cond-mat.stat-mech↗

arXiv2001

Effects of atomic interactions in two component submonolayer growth

We discuss effects of the different chemical bondings on the island morphology and on the island density scaling in two-component submonolayer growth. Different regimes depending on the strength of the mutual interactions and on the relative mobility of species are described and studied by kinetic Monte Carlo simulations using a two-component solid-on-solid growth model. Results for the temperature and flux dependence of the island density as well as examples of the surface morphologies are presented.

cond-mat.mtrl-sci↗