1,428 research outputs found
Non-local fluctuation correlations in active gels
Many active materials and biological systems are driven far from equilibrium
by embedded agents that spontaneously generate forces and distort the
surrounding material. Probing and characterizing these athermal fluctuations is
essential for understanding the properties and behaviors of such systems. Here
we present a mathematical procedure to estimate the local action of
force-generating agents from the observed fluctuating displacement fields. The
active agents are modeled as oriented force dipoles or isotropic compression
foci, and the matrix on which they act is assumed to be either a compressible
elastic continuum or a coupled network-solvent system. Correlations at a single
point and between points separated by an arbitrary distance are obtained,
giving a total of three independent fluctuation modes that can be tested with
microrheology experiments. Since oriented dipoles and isotropic compression
foci give different contributions to these fluctuation modes, ratiometric
analysis allows us characterize the force generators. We also predict and
experimentally find a high-frequency ballistic regime, arising from individual
force generating events in the form of the slow build-up of stress followed by
rapid but finite decay. Finally, we provide a quantitative statistical model to
estimate the mean filament tension from these athermal fluctuations, which
leads to stiffening of active networks.Comment: 12 pages, 7 figures; some clarifications and ammended figure
notation
How dsDNA breathing enhances its flexibility and instability on short length scales
We study the unexpected high flexibility of short dsDNA which recently has
been reported by a number of experiments. Via the Langevin dynamics simulation
of our Breathing DNA model, first we observe the formation of bubbles within
the duplex and also forks at the ends, with the size distributions independent
of the contour length. We find that these local denaturations at a
physiological temperature, despite their rare and transient presence, can lower
the persistence length drastically for a short DNA segment in agreement with
experiment
Path integrals for stiff polymers applied to membrane physics
Path integrals similar to those describing stiff polymers arise in the
Helfrich model for membranes. We show how these types of path integrals can be
evaluated and apply our results to study the thermodynamics of a minority
stripe phase in a bulk membrane. The fluctuation induced contribution to the
line tension between the stripe and the bulk phase is computed, as well as the
effective interaction between the two phases in the tensionless case where the
two phases have differing bending rigidities.Comment: 11 pages RevTex, 4 figure
Some observations on the renormalization of membrane rigidity by long-range interactions
We consider the renormalization of the bending and Gaussian rigidity of model
membranes induced by long-range interactions between the components making up
the membrane. In particular we analyze the effect of a finite membrane
thickness on the renormalization of the bending and Gaussian rigidity by
long-range interactions. Particular attention is paid to the case where the
interactions are of a van der Waals type.Comment: 11 pages RexTex, no figure
Soft swimming: Exploiting deformable interfaces for low-Reynolds number locomotion
Reciprocal movement cannot be used for locomotion at low-Reynolds number in
an infinite fluid or near a rigid surface. Here we show that this limitation is
relaxed for a body performing reciprocal motions near a deformable interface.
Using physical arguments and scaling relationships, we show that the
nonlinearities arising from reciprocal flow-induced interfacial deformation
rectify the periodic motion of the swimmer, leading to locomotion. Such a
strategy can be used to move toward, away from, and parallel to any deformable
interface as long as the length scales involved are smaller than intrinsic
scales, which we identify. A macro-scale experiment of flapping motion near a
free surface illustrates this new result
Surface Polymer Network Model and Effective Membrane Curvature Elasticity
A microscopic model of a surface polymer network - membrane system is
introduced, with contact polymer surface interactions that can be either
repulsive or attractive and sliplinks of functionality four randomly
distributed over the supporting membrane surface anchoring the polymers to it.
For the supporting surface perturbed from a planar configuration and a small
relative number of surface sliplinks, we investigate an expansion of the free
energy in terms of the local curvatures of the surface and the surface density
of sliplinks, obtained through the application of the Balian - Bloch -
Duplantier multiple surface scattering method. As a result, the dependence of
the curvature elastic modulus, the Gaussian modulus as well as of the
spontaneous curvature of the "dressed" membrane, ~{\sl i.e.} polymer network
plus membrane matrix, is obtained on the mean polymer bulk end to end
separation and the surface density of sliplinks.Comment: 15 pages with one included compressed uuencoded figure
Force generation in small ensembles of Brownian motors
The motility of certain gram-negative bacteria is mediated by retraction of
type IV pili surface filaments, which are essential for infectivity. The
retraction is powered by a strong molecular motor protein, PilT, producing very
high forces that can exceed 150 pN. The molecular details of the motor
mechanism are still largely unknown, while other features have been identified,
such as the ring-shaped protein structure of the PilT motor. The surprisingly
high forces generated by the PilT system motivate a model investigation of the
generation of large forces in molecular motors. We propose a simple model,
involving a small ensemble of motor subunits interacting through the
deformations on a circular backbone with finite stiffness. The model describes
the motor subunits in terms of diffusing particles in an asymmetric,
time-dependent binding potential (flashing ratchet potential), roughly
corresponding to the ATP hydrolysis cycle. We compute force-velocity relations
in a subset of the parameter space and explore how the maximum force (stall
force) is determined by stiffness, binding strength, ensemble size, and degree
of asymmetry. We identify two qualitatively different regimes of operation
depending on the relation between ensemble size and asymmetry. In the
transition between these two regimes, the stall force depends nonlinearly on
the number of motor subunits. Compared to its constituents without
interactions, we find higher efficiency and qualitatively different
force-velocity relations. The model captures several of the qualitative
features obtained in experiments on pilus retraction forces, such as roughly
constant velocity at low applied forces and insensitivity in the stall force to
changes in the ATP concentration.Comment: RevTex 9 pages, 4 figures. Revised version, new subsections in Sec.
III, removed typo
The thermal Casimir effect in lipid bilayer tubules
We calculate the thermal Casimir effect for a dielectric tube of radius
and thickness delta formed from a membrane in water. The method uses a
field-theoretic approach in the grand canonical ensemble. The leading
contribution to the Casimir free energy behaves as -k_BTL kappa_C/R giving rise
to an attractive force which tends to contract the tube. We find that kappa_C ~
0.3 for the case of typical lipid membrane t-tubules. We conclude that except
in the case of a very soft membrane this force is insufficient to stabilize
such tubes against the bending stress which tends to increase the radius.Comment: 4 pages no figures RevTe
Minimal Bending Energies of Bilayer Polyhedra
Motivated by recent experiments on bilayer polyhedra composed of amphiphilic
molecules, we study the elastic bending energies of bilayer vesicles forming
polyhedral shapes. Allowing for segregation of excess amphiphiles along the
ridges of polyhedra, we find that bilayer polyhedra can indeed have lower
bending energies than spherical bilayer vesicles. However, our analysis also
implies that, contrary to what has been suggested on the basis of experiments,
the snub dodecahedron, rather than the icosahedron, generally represents the
energetically favorable shape of bilayer polyhedra
Spicules and the effect of rigid rods on enclosing membrane tubes
Membrane tubes (spicules) arise in cells, or artificial membranes, in the
nonlinear deformation regime due to, e.g. the growth of microtubules, actin
filaments or sickle hemoglobin fibers towards a membrane. We calculate the
axial force exerted by the cylindrical membrane tube, and its average radius,
by taking into account steric interactions between the fluctuating membrane and
the enclosed rod. The force required to confine a fluctuating membrane near the
surface of the enclosed rod diverges as the separation approaches zero. This
results in a smooth crossover of the axial force between a square root and a
linear dependence on the membrane tension as the tension increases and the tube
radius shrinks. This crossover can occur at the most physiologically relevant
membrane tensions. Our work may be important in (i) interpreting experiments in
which axial force is related to the tube radius or membrane tension (ii)
dynamical theories for biopolymer growth in narrow tubes where these
fluctuation effects control the tube radius.Comment: 10 pages, 1 figur
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