Dynamics of unbinding of polymers in a random medium

We have studied the aging effect on the dynamics of unbinding of a double stranded directed polymer in a random medium. By using the Monte Carlo dynamics of a lattice model in two dimensions, for which disorder is known to be relevant, the unbinding dynamics is studied by allowing the bound polymer to relax in the random medium for a waiting time and then allowing the two strands to unbind. The subsequent dynamics is formulated in terms of the overlap of the two strands and also the overlap of each polymer with the configuration at the start of the unbinding process. The interrelations between the two and the nature of the dependence on the waiting time are studied.Comment: 7 pages, latex, 3 figures, To appear in J. Chem. Phy

Astral Microtubule Pivoting Promotes Their Search for Cortical Anchor Sites during Mitosis in Budding Yeast

Positioning of the mitotic spindle is crucial for proper cell division. In the budding yeast Saccharomyces cerevisiae, two mechanisms contribute to spindle positioning. In the Kar9 pathway, astral microtubules emanating from the daughter-bound spindle pole body interact via the linker protein Kar9 with the myosin Myo2, which moves the microtubule along the actin cables towards the neck. In the dynein pathway, astral microtubules off-load dynein onto the cortical anchor protein Num1, which is followed by dynein pulling on the spindle. Yet, the mechanism by which microtubules target cortical anchor sites is unknown. Here we quantify the pivoting motion of astral microtubules around the spindle pole bodies, which occurs during spindle translocation towards the neck and through the neck. We show that this pivoting is largely driven by the Kar9 pathway. The microtubules emanating from the daughter-bound spindle pole body pivot faster than those at the mother-bound spindle pole body. The Kar9 pathway reduces the time needed for an astral microtubule inside the daughter cell to start pulling on the spindle. Thus, we propose a new role for microtubule pivoting: By pivoting around the spindle pole body, microtubules explore the space laterally, which helps them search for cortical anchor sites in the context of spindle positioning in budding yeast

Assessment of key factors responsible for the pest status of the bean flower thrips Megalurothrips sjostedti (Thysanoptera: Thripidae) in West Africa

Megalurothrips sjostedti (Trybom) is an important pest of cowpea (Vigna unguiculata) in West Africa. Three key factors assumed to be responsible for its pest status are analysed, the survival on alternative host-plants during the dry season, the inefficient biotic mortality factors regulating population growth, and the effect of larval feeding on the development of cowpea flower buds. Extensive surveys indicate clearly that M. sjostedti survives the dry season on a wide range of alternative hosts all belonging to the Leguminosae, where it can feed and reproduce. Different antagonists were observed attacking eggs and larvae of M. sjostedti; their impact, however, is low and cannot prevent pest outbreaks. Two undescribed Megaphragma spp., and one Oligosita sp., all trichogrammatid egg parasitoids, were recorded for the first time. The anthocorid Orius sp. was the most important larval predator. No hymenopterous parasitoids could be reared from larvae collected on cowpea and three major alternative hosts, whereas a low percentage of the larvae collected from the flowers of Tephrosia candida, an exotic shrub native to India, were parasitized by the eulophid Ceranisus menes (Walker), also recorded for the first time in Africa. The feeding activity of six larvae of Megalurothrips sjostedti during five days induced the shedding of all flower buds of a cowpea inflorescence. The results of the analysis shed new light on the M. sjostedti pest problem, and the ways to solve it. The lack of efficient antagonists, particularly larval parasitoids known from closely related south-east Asian Megalurothrips spp., and the high damage threshold, indicate that M. sjostedti is a potential target for biological control. However, further studies are needed to investigate the migration of M. sjostedti adults to and from alternative host-plants, in order to reinforce the action of biocontrol with cultural pratice

Phase Transitions of Single Semi-stiff Polymer Chains

We study numerically a lattice model of semiflexible homopolymers with nearest neighbor attraction and energetic preference for straight joints between bonded monomers. For this we use a new algorithm, the "Pruned-Enriched Rosenbluth Method" (PERM). It is very efficient both for relatively open configurations at high temperatures and for compact and frozen-in low-T states. This allows us to study in detail the phase diagram as a function of nn-attraction epsilon and stiffness x. It shows a theta-collapse line with a transition from open coils to molten compact globules (large epsilon) and a freezing transition toward a state with orientational global order (large stiffness x). Qualitatively this is similar to a recently studied mean field theory (Doniach et al. (1996), J. Chem. Phys. 105, 1601), but there are important differences. In contrast to the mean field theory, the theta-temperature increases with stiffness x. The freezing temperature increases even faster, and reaches the theta-line at a finite value of x. For even stiffer chains, the freezing transition takes place directly without the formation of an intermediate globule state. Although being in contrast with mean filed theory, the latter has been conjectured already by Doniach et al. on the basis of low statistics Monte Carlo simulations. Finally, we discuss the relevance of the present model as a very crude model for protein folding.Comment: 11 pages, Latex, 8 figure

Short Time Behavior in De Gennes' Reptation Model

To establish a standard for the distinction of reptation from other modes of polymer diffusion, we analytically and numerically study the displacement of the central bead of a chain diffusing through an ordered obstacle array for times $t < O(N^2)$. Our theory and simulations agree quantitatively and show that the second moment approaches the $t^{1/4}$ often viewed as signature of reptation only after a very long transient and only for long chains (N > 100). Our analytically solvable model furthermore predicts a very short transient for the fourth moment. This is verified by computer experiment.Comment: 4 pages, revtex, 4 ps file

Two-State Migration of DNA in a structured Microchannel

DNA migration in topologically structured microchannels with periodic cavities is investigated experimentally and with Brownian dynamics simulations of a simple bead-spring model. The results are in very good agreement with one another. In particular, the experimentally observed migration order of Lambda- and T2-DNA molecules is reproduced by the simulations. The simulation data indicate that the mobility may depend on the chain length in a nonmonotonic way at high electric fields. This is found to be the signature of a nonequilibrium phase transition between two different migration states, a slow one and a fast one, which can also be observed experimentally under appropriate conditions.Comment: Revised edition corresponding to the comments by the referees, submitted to Physical Review