Friction mediated phase transition in confined active nematics

Using a minimal continuum model, we investigate the interplay between circular confinement and substrate friction in active nematics. Upon increasing the friction from low to high, we observe a dynamical phase transition from a circulating flow phase to an anisotropic flow phase in which the flow tends to align perpendicular to the nematic director at the boundary. We demonstrate that both the flow structure and dynamic correlations in the latter phase differ from those of an unconfined, active turbulent system and may be controlled by the prescribed nematic boundary conditions. Our results show that substrate friction and geometric confinement act as valuable control parameters in active nematics.Comment: 6+7 pages, 4+3 figure

Vortex Lattices in Active Nematics with Periodic Obstacle Arrays

We numerically model a two-dimensional active nematic confined by a periodic array of fixed obstacles. Even in the passive nematic, the appearance of topological defects is unavoidable due to planar anchoring by the obstacle surfaces. We show that a vortex lattice state emerges as activity is increased, and that this lattice may be tuned from ``ferromagnetic'' to ``antiferromagnetic'' by varying the gap size between obstacles. We map the rich variety of states exhibited by the system as a function of distance between obstacles and activity, including a pinned defect state, motile defects, the vortex lattice, and active turbulence. We demonstrate that the flows in the active turbulent phase can be tuned by the presence of obstacles, and explore the effects of a frustrated lattice geometry on the vortex lattice phase.Comment: 6 + 8 pages, 4 + 3 figure

Inflation and Transition to a Slowly Accelerating Phase from S.S.B. of Scale Invariance

We consider the effects of adding a scale invariant $R^{2}$ term to the action of the scale invariant model (SIM) studied previously by one of us (E.I.G., Mod. Phys. Lett. A14, 1043 (1999)). The SIM belongs to the general class of theories, where an integration measure independent of the metric is introduced. To implement scale invariance (S.I.), a dilaton field is introduced. The integration of the equations of motion associated with the new measure gives rise to the spontaneous symmetry breaking (S.S.B) of S.I.. After S.S.B. of S.I. in the model with the $R^{2}$ term, it is found that a non trivial potential for the dilaton is generated. This potential contains two flat regions: one associated with the Planck scale and with an inflationary phase, while the other flat region is associated to a very small vacuum energy (V.E.) and is associated to the present slowly accelerated phase of the universe (S.A.PH). The smallness of the V.E. in the S.A.PH. is understood through the see saw mechanism introduced in S.I.M.Comment: 22 pages, latex, three figures now in separate file

Yeast Homologous Recombination Cloning Leading to the Novel Peptides Ambactin and Xenolindicin

Heterologous production of GameXPeptide A (1), as well as of the novel peptide natural products ambactin (2) and xenolindicins A-C (3a-c), was achieved by using the "overlap extension PCR-yeast homologous recombination" (ExRec) method. ExRec cloning is based on the ability of yeast to assemble overlapping DNA fragments into functional plasmids. Here we used this technique to clone a total of 15 biosynthesis gene clusters from Photorhabdus and Xenorhabdus with sizes of up to 45 kb. The structures of the novel compounds 2 and 3a, which were produced in Escherichia coli, were elucidated by detailed MS and bioinformatics analysis, and additionally confirmed by their chemical synthesis

Structure, Biosynthesis, and Occurrence of Bacterial Pyrrolizidine Alkaloids

Pyrrolizidine alkaloids (PAs) are widespread plant natural products with potent toxicity and bioactivity. Herein, the identification of bacterial PAs from entomopathogenic bacteria using differential analysis by 2D NMR spectroscopy (DANS) and mass spectrometry is described. Their biosynthesis was elucidated to involve a non-ribosomal peptide synthetase. The occurrence of these biosynthesis gene clusters in Gram-negative and Gram-positive bacteria indicates an important biological function in bacteria