We formulate a continuum approach to the equation of state (density dependence of osmotic pressure) of bulk DNA and encapsidated DNA, as well as review the phase diagram of DNA in the regime of densities relevant for DNA packing in bacteriophages. We derive the first integral of the equilibrium equations that connects the behavior of DNA in the bulk and in nanoscale enclosures, and we delineate the changes wrought upon the mesophase equilibria of encapsidated DNA. We show how multiphase equilibria and complicated spatial distribution of DNA density and orientation can emerge due to the curvature contribution to the DNA osmotic pressure within the capsid.
COBISS.SI-ID: 2951268
We derive the full set of macroscopic equations necessary to describe the dynamics of systems with active polar order in a viscoelastic or elastic background. The active polar order is manifested by a second velocity, whose non-zero modulus is the polar order parameter and whose direction is the polar preferred direction. Viscoelasticity is described by a relaxing strain field allowing for a straightforward change from transient to permanent elasticity. Relative rotations of the elastic structure with respect to the polar direction are taken into account. The intricate coupling between active polar order and (transient) elasticity leads to a combined relaxation of the polar order parameter and the strains. The rather involved sound spectrum contains a specific excitation due to a reversible coupling between elasticity and polar order. Effects of chirality are also considered.
COBISS.SI-ID: 17738585
We explore the implications of the conservation law(s) and the corresponding so-called continuity equation(s), resulting from the coupling between the positional and the orientational order in main-chain polymer nematics, by showing that the vectorial and tensorial forms of these equations are in general not equivalent and cannot be reduced to one another, but neither are they disjoint alternatives. We analyze the relation between them and elucidate the fundamental role that the chain backfolding plays in the determination of their relative strength and importance. Finally, we show that the correct penalty potential in the effective free energy, implementing these conservation laws, should actually connect both the tensorial and the vectorial constraints. We show that the consequences of the polymer chains’ connectivity for their consistent mesoscopic description are thus not only highly nontrivial but that its proper implementation is absolutely crucial for a consistent coarse-grained description of the main-chain polymer nematics.
COBISS.SI-ID: 2957412