Internal Stresses, Normal Modes, and Nonaffinity in Three-Dimensional Biopolymer Networks

We numerically investigate deformations and modes of networks of semiflexible biopolymers as a function of crosslink coordination number z and strength of bending and stretching energies. In equilibrium filaments are under internal stress, and the networks exhibit shear rigidity below the Maxwell isostatic point. In contrast to two-dimensional networks, ours exhibit nonaffine bending-dominated response in all rigid states, including those near the maximum of z = 4 when bending energies are less than stretching ones

Nonaffine Correlations in Random Elastic Media

Materials characterized by spatially homogeneous elastic moduli undergo affine distortions when subjected to external stress at their boundaries, i.e., their displacements \uv (\xv) from a uniform reference state grow linearly with position \xv, and their strains are spatially constant. Many materials, including all macroscopically isotropic amorphous ones, have elastic moduli that vary randomly with position, and they necessarily undergo nonaffine distortions in response to external stress. We study general aspects of nonaffine response and correlation using analytic calculations and numerical simulations. We define nonaffine displacements \uv' (\xv) as the difference between \uv (\xv) and affine displacements, and we investigate the nonaffinity correlation function $\mathcal{G} =$ and related functions. We introduce four model random systems with random elastic moduli induced by locally random spring constants, by random coordination number, by random stress, or by any combination of these. We show analytically and numerically that $\mathcal{G}$ scales as A |\xv|^{-(d-2)} where the amplitude $A$ is proportional to the variance of local elastic moduli regardless of the origin of their randomness. We show that the driving force for nonaffine displacements is a spatial derivative of the random elastic constant tensor times the constant affine strain. Random stress by itself does not drive nonaffine response, though the randomness in elastic moduli it may generate does. We study models with both short and long-range correlations in random elastic moduli.Comment: 22 Pages, 18 figures, RevTeX

On the relevance of percolation theory to the vulcanization transition

The relationship between vulcanization and percolation is explored from the perspective of renormalized local field theory. We show rigorously that the vulcanization and percolation correlation functions are governed by the same Gell--Mann-Low renormalization group equation. Hence, all scaling aspects of the vulcanization transition are reigned by the critical exponents of the percolation universality class.Comment: 9 pages, 2 figure

Unzipping Vortices in Type-II Superconductors

The unzipping of vortex lines using magnetic-force microscopy from extended defects is studied theoretically. We study both the unzipping isolated vortex from common defects, such as columnar pins and twin-planes, and the unzipping of a vortex from a plane in the presence of other vortices. We show, using analytic and numerical methods, that the universal properties of the unzipping transition of a single vortex depend only on the dimensionality of the defect in the presence and absence of disorder. For the unzipping of a vortex from a plane populated with many vortices is shown to be very sensitive to the properties of the vortices in the two-dimensional plane. In particular such unzipping experiments can be used to measure the ``Luttinger liquid parameter'' of the vortices in the plane. In addition we suggest a method for measuring the line tension of the vortex directly using the experiments.Comment: 19 pages 15 figure

Replica Symmetry Breaking and the Renormalization Group Theory of the Weakly Disordered Ferromagnet

We study the critical properties of the weakly disordered $p$-component ferromagnet in terms of the renormalization group (RG) theory generalized to take into account the replica symmetry breaking (RSB) effects coming from the multiple local minima solutions of the mean-field equations. It is shown that for $p < 4$ the traditional RG flows at dimensions $D=4-\epsilon$, which are usually considered as describing the disorder-induced universal critical behavior, are unstable with respect to the RSB potentials as found in spin glasses. It is demonstrated that for a general type of the Parisi RSB structures there exists no stable fixed points, and the RG flows lead to the {\it strong coupling regime} at the finite scale $R_{*} \sim \exp(1/u)$, where $u$ is the small parameter describing the disorder. The physical concequences of the obtained RG solutions are discussed. In particular, we argue, that discovered RSB strong coupling phenomena indicate on the onset of a new spin glass type critical behaviour in the temperature interval $\tau < \tau_{*} \sim \exp(-1/u)$ near $T_{c}$. Possible relevance of the considered RSB effects for the Griffith phase is also discussed.Comment: 32 pages, Late

Topological Defects on Fluctuating Surfaces: General Properties and the Kosterlitz-Thouless Transition

We investigate the Kosterlitz-Thouless transition for hexatic order on a free fluctuating membrane and derive both a Coulomb gas and a sine-Gordon Hamiltonian to describe it. The Coulomb-gas Hamiltonian includes charge densities arising from disclinations and from Gaussian curvature. There is an interaction coupling the difference between these two densities, whose strength is determined by the hexatic rigidity, and an interaction coupling Gaussian curvature densities arising from the Liouville Hamiltonian resulting from the imposition of a covariant cutoff. In the sine-Gordon Hamiltonian, there is a linear coupling between a scalar field and the Gaussian curvature. We discuss gauge-invariant correlation function for hexatic order and the dielectric constant of the Coulomb gas. We also derive renormalization group recursion relations that predict a transition with decreasing bending rigidity $\kappa$.Comment: REVTEX, 45 pages with 11 postscript figures compressed using uufiles. Accepted for publication in Phys. Rev.

DNA uptake into nuclei: Numerical and analytical results

The dynamics of polymer translocation through a pore has been the subject of recent theoretical and experimental works. We have considered theoretical estimates and performed computer simulations to understand the mechanism of DNA uptake into the cell nucleus, a phenomenon experimentally investigated by attaching a small bead to the free end of the double helix and pulling this bead with the help of an optical trap. The experiments show that the uptake is monotonous and slows down when the remaining DNA segment becomes very short. Numerical and analytical studies of the entropic repulsion between the DNA filament and the membrane wall suggest a new interpretation of the experimental observations. Our results indicate that the repulsion monotonically decreases as the uptake progresses. Thus, the DNA is pulled in (i) either by a small force of unknown origin, and then the slowing down can be interpreted only statistically; (ii) or by a strong but slow ratchet mechanism, which would naturally explain the observed monotonicity, but then the slowing down requires additional explanations. Only further experiments can unambiguously distinguish between these two mechanisms.Comment: 12 pages, 6 figures, submitted to J. Phys. Cond. Ma

Crystalline Order on a Sphere and the Generalized Thomson Problem

We attack generalized Thomson problems with a continuum formalism which exploits a universal long range interaction between defects depending on the Young modulus of the underlying lattice. Our predictions for the ground state energy agree with simulations of long range power law interactions of the form 1/r^{gamma} (0 < gamma < 2) to four significant digits. The regime of grain boundaries is studied in the context of tilted crystalline order and the generality of our approach is illustrated with new results for square tilings on the sphere.Comment: 4 pages, 5 eps figures Fig. 2 revised, improved Fig. 3, reference typo fixe

Analysis of Nematic Liquid Crystals with Disclination Lines

We investigate the structure of nematic liquid crystal thin films described by the Landau--de Gennes tensor-valued order parameter with Dirichlet boundary conditions of nonzero degree. We prove that as the elasticity constant goes to zero a limiting uniaxial texture forms with disclination lines corresponding to a finite number of defects, all of degree 1/2 or all of degree -1/2. We also state a result on the limiting behavior of minimizers of the Chern-Simons-Higgs model without magnetic field that follows from a similar proof.Comment: 40 pages, 1 figur

Random solids and random solidification: What can be learned by exploring systems obeying permanent random constraints?

In many interesting physical settings, such as the vulcanization of rubber, the introduction of permanent random constraints between the constituents of a homogeneous fluid can cause a phase transition to a random solid state. In this random solid state, particles are permanently but randomly localized in space, and a rigidity to shear deformations emerges. Owing to the permanence of the random constraints, this phase transition is an equilibrium transition, which confers on it a simplicity (at least relative to the conventional glass transition) in the sense that it is amenable to established techniques of equilibrium statistical mechanics. In this Paper I shall review recent developments in the theory of random solidification for systems obeying permanent random constraints, with the aim of bringing to the fore the similarities and differences between such systems and those exhibiting the conventional glass transition. I shall also report new results, obtained in collaboration with Weiqun Peng, on equilibrium correlations and susceptibilities that signal the approach of the random solidification transition, discussing the physical interpretation and values of these quantities both at the Gaussian level of approximation and, via a renormalization-group approach, beyond.Comment: Paper presented at the "Unifying Concepts in Glass Physics" workshop, International Centre for Theoretical Physics, Trieste, Italy (September 15-18, 1999