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Register a new userLength distribution of stiff, self-assembled polymers at thermal equilibrium
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Chiu Fan Lee
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We investigate the length distribution of self-assembled, long and stiff polymers at thermal equilibrium. Our analysis is based on calculating the partition functions of stiff polymers of variable lengths in the elastic regime. Our conclusion is that the length distribution of this self-assembled system follows closely the exponential distribution, except at the short length limit. We then discuss the implications of our results on the experimentally observed length distributions in amyloid fibrils.
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We consider the unwinding of two lattice polymer strands of length N that are initially wound around each other in a double-helical conformation and evolve through Rouse dynamics. The problem relates to quickly bringing a double-stranded polymer well above its melting temperature, i.e., the binding interactions between the strands are neglected, and the strands separate from each other as it is entropically favorable for them to do so. The strands unwind by rotating around each other until they separate. We find that the process proceeds from the ends inward; intermediate conformations can be characterized by a tightly wound inner part, from which loose strands are sticking out, with length l~t^0.39. The total time needed for the two strands to unwind scales as a power of N as tu~N^(2.57+-0.03). We present a theoretical argument, which suggests that during this unwinding process, these loose strands are far out of equilibrium.
Self-assembling, semi-flexible polymers are ubiquitous in biology and technology. However, there remain conflicting accounts of the equilibrium kinetics for such an important system. Here, by focusing on a dynamical description of a minimal model in an overdamped environment, I identify the correct kinetic scheme that describes the system at equilibrium in the limits of high bonding energy and dilute concentration.
We present a modelling framework, and basic model parameterization, for the study of DNA origami folding at the level of DNA domains. Our approach is explicitly kinetic and does not assume a specific folding pathway. The binding of each staple is associated with a free-energy change that depends on staple sequence, the possibility of coaxial stacking with neighbouring domains, and the entropic cost of constraining the scaffold by inserting staple crossovers. A rigorous thermodynamic model is difficult to implement as a result of the complex, multiply connected geometry of the scaffold: we present a solution to this problem for planar origami. Coaxial stacking and entropic terms, particularly when loop closure exponents are taken to be larger than those for ideal chains, introduce interactions between staples. These cooperative interactions lead to the prediction of sharp assembly transitions with notable hysteresis that are consistent with experimental observations. We show that the model reproduces the experimentally observed consequences of reducing staple concentration, accelerated cooling and absent staples. We also present a simpler methodology that gives consistent results and can be used to study a wider range of systems including non-planar origami.
Colloidal crystals exhibit structural color without any color pigment due to the crystals periodic nanostructure, which can interfere with visible light. This crystal structure is iridescent as the resulting color changes with the viewing or illumination angle, which limits its use for printing or displays. To eliminate the iridescent property, it is important to make the packing of the colloidal nanoparticles disordered. Here, we introduce a drop-casting method where a droplet of a water- ethanol mixture containing monodisperse polymer-coated silica nanoparticles creates a relatively uniform and non-iridescent deposit after the droplet evaporates completely on a heated substrate. The uniformity is caused by a thermal Marangoni flow and fast evaporation effects due to the heated substrate, whereas non-iridescence is the outcome of short-range-ordered packing of nanoparticles by depletion attraction and friction effects produced by polymer brushes. We show that the colors of the final deposits from individual droplets remain unchanged while the viewing angle is varied under ambient light. We expect that the coating method is compatible with ink-jet printing and the uniformly coated self-assembled non-iridescent nanostructures have potential for color displays using reflection mode and other optical devices.
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.
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