Twist-bend instability for toroidal DNA condensates

We propose that semiflexible polymers in poor solvent collapse in two stages. The first stage is the well known formation of a dense toroidal aggregate. However, if the solvent is sufficiently poor, the condensate will undergo a second structural transition to a twisted entangled state, in which individual filaments lower their bending energy by additionally orbiting around the mean path along which they wind. This ``topological ripening'' is consistent with known simulations and experimental results. It connects and rationalizes various experimental observations ranging from strong DNA entanglement in viral capsids to the unusually short pitch of the cholesteric phase of DNA in sperm-heads. We propose that topological ripening of DNA toroids could improve the efficiency and stability of gene delivery.Comment: 4 pages, 3 figures, RevTeX4 styl

Brownian dynamics of a microswimmer

We report on dynamic properties of a simple model microswimmer composed of three spheres and propelling itself in a viscous fluid by spinning motion of the spheres under zero net torque constraint. At a fixed temperature and increasing the spinning frequency, the swimmer demonstrates a transition from dissipation-dominated to a pumping-dominated motion regime characterized by negative effective friction coefficient. In the limit of high frequencies, the diffusion of the swimmer can be described by a model of an active particle with constant velocity.Comment: Submitte

Theory of Nucleosome Corkscrew Sliding in the Presence of Synthetic DNA Ligands

Histone octamers show a heat-induced mobility along DNA. Recent theoretical studies have established two mechanisms that are qualitatively and quantitatively compatible with in vitro experiments on nucleosome sliding: Octamer repositiong through one-basepair twist defects and through ten-basepair bulge defects. A recent experiment demonstrated that the repositioning is strongly suppressed in the presence of minor-groove binding DNA ligands. In the present study we give a quantitative theory for nucleosome repositioning in the presence of such ligands. We show that the experimentally observed octamer mobilities are consistent with the picture of bound ligands blocking the passage of twist defects through the nucleosome. This strongly supports the model of twist defects inducing a corkscrew motion of the nucleosome as the underlying mechanism of nucleosome sliding. We provide a theoretical estimate of the nucleosomal mobility without adjustable parameters, as a function of ligand concentration, binding affinity, binding site orientiation, temperature and DNA anisotropy. Having this mobility at hand we speculate about the interaction between a nucleosome and a transcribing RNA polymerase and suggest a novel mechanism that might account for polymerase induced nucleosome repositioning.Comment: 23 pages, 4 figures, submitted to J. Mol. Bio

Conventional Superconductivity in Fe-Based Pnictides: the Relevance of Intra-Band Electron-Boson Scattering

Various recent experimental data and especially the large Fe-isotope effect point against unconventional pairings, since the large intra-band impurity scattering is strongly pair-breaking for them. The strength of the inter-band impurity scattering in some single crystals may be strong and probably beyond the Born scattering limit. In that case the proposed s(+-) pairing (hole(h)- and electron(el)-gaps are of opposite signs) is suppressed but possibly not completely destroyed. The data imply that the intra-band pairing in the h- and in the el-band, which are inevitably due to some nonmagnetic el-boson interaction (EBI), must be taken into account. EBI is either due to phonons (EPI) or possibly due to excitons (EEI), or both are simultaneously operative. We discuss their interplay briefly. The large Fe-isotope effect favors the EPI and the s(+) pairing (the h- and el-gaps are in-phase).Comment: 7 pages, no figures, explanations and argumentations improved, references adde