The effect of confinement on dynamics and rheology of dilute deoxyribose nucleic acid solutions. II. Effective rheology and single chain dynamics

Woo, Nathanael J.; Shaqfeh, Eric S. G.; Khomami, Bamin

doi:10.1122/1.1648643

Cited by 33 publications

(41 citation statements)

References 11 publications

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“…Theories have therefore been based on simplified systems rather than on polymer solutions. Previous theoretical and com-putational studies that focused on the density profiles of polymers in uniform shear flow (i.e., Couette flow) or pressure driven flow (i.e., Poiseuille flow) have been conflicting [9,10,12,13,14]. Previous Brownian dynamics simulations showed a migration of the polymer chains towards the wall [9,10].…”

Section: Introductionmentioning

confidence: 99%

“…For example, the understanding of the structure and dynamics of polymeric molecules in micro-channels is important to DNA sequencing in channels with widths ranging from 10 to 50µm [2], DNA delivery through micro-capillaries in gene therapy, and to lab-on-chip applications that involve polymers [3]. Issues of particular interest pertinent to polymer solutions in the presence of laminar flow is the mass distribution of polymers across the channel, the polymers conformational distribution, and the effect of the polymer chains on the profile of the solution velocity field [1,2,4,5,6,7,8,9,10,11,12,13,14,15].…”

Section: Introductionmentioning

confidence: 99%

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Pressure driven flow of polymer solutions in nanoscale slit pores

Millan

Jiang

Laradji

et al. 2007

The Journal of Chemical Physics

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Polymer solutions subject to pressure driven flow and in nanoscale slit pores are systematically investigated using the dissipative particle dynamics approach. We investigated the effect of molecular weight, polymer concentration and flow rate on the profiles across the channel of the fluid and polymer velocities, polymers density, and the three components of the polymers radius of gyration. We found that the mean streaming fluid velocity decreases as the polymer molecular weight or/and polymer concentration is increased, and that the deviation of the velocity profile from the parabolic profile is accentuated with increase in polymer molecular weight or concentration. We also found that the distribution of polymers conformation is highly anisotropic and non-uniform across the channel. The polymer density profile is also found to be non-uniform, exhibiting a local minimum in the center-plane followed by two symmetric peaks. We found a migration of the polymer chains either from or towards the walls. For relatively long chains, as compared to the thickness of the slit, a migration towards the walls is observed. However, for relatively short chains, a migration away from the walls is observed.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Pressure driven flow of polymer solutions in nanoscale slit pores

Millan

Jiang

Laradji

et al. 2007

The Journal of Chemical Physics

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“…Advances in simulation methods have permitted development of coarse-grained models that capture a wide variety of physical characteristics such as DNA diffusivity in bulk and in confinement [17][18][19][20][21][22][23][24][25]. Recent Brownian dynamics simulations have examined changes in DNA conformation in extensional flow as a function of the extensional shear rate [24].…”

Section: Introductionmentioning

confidence: 99%

DNA Molecules in Microfluidic Oscillatory Flow

Chen¹,

Graham²,

Pablo³

et al. 2005

Macromolecules

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The conformation and dynamics of a single DNA molecule undergoing oscillatory pressure-driven flow in microfluidic channels is studied using Brownian dynamics simulations, accounting for hydrodynamic interactions between segments in the bulk and between the chain and the walls. Oscillatory flow provides a scenario under which the polymers may remain in the channel for an indefinite amount of time as they are stretched and migrate away from the channel walls. We show that by controlling the chain length, flow rate and oscillatory flow frequency, we are able to manipulate the chain extension and the chain migration from the channel walls. The chain stretch and the chain depletion layer thickness near the wall are found to increase as the Weissenberg number increases and as the oscillatory frequency decreases.

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“…A typical method is treating the wall effect on the polymer molecules as a short-range purely repulsive potential. 39 A refined version of this wall exclusion effect is provided by Mavrantzas and Beris [40][41][42] and Woo, Shaqfeh, and Khomami 14,15 where the change of the polymer chain statistics due to the wall is explicitly considered. However, including this effect, the depletion layer thickness is still only on the order of the polymer molecule size, and would be insensitive to the flow strength, in contrast with the experimental observations.…”

Section: Introductionmentioning

confidence: 99%

“…1-7͒ have fueled substantial interest in the structure and dynamics of confined solutions of DNA. [8][9][10][11][12][13][14][15] Predictive methods capable of describing the conformation and motion of polymer chains in microfluidic geometries would be of considerable significance for the conception and design of such devices. Finally, new experimental tools such as the surface forces apparatus 16 allow investigation of confinement effects down into the nanoscale region, and refinements in fabrication technology allow construction of "nanofluidic" devices with dimensions in the sub-100-nm regime.…”

Section: Introductionmentioning

confidence: 99%

Theory of shear-induced migration in dilute polymer solutions near solid boundaries

2005

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In this work, a continuum theory is developed for the behavior of flowing dilute polymer solutions near solid surfaces, using a bead-spring dumbbell model of the dissolved polymer chains. Hydrodynamic interactions between the chains and the wall lead to migration away from the wall in shear flow. At steady state, this hydrodynamic effect is balanced by molecular diffusion; an analytical expression for the resulting concentration profile is derived. It is shown that the depletion layer thickness is determined by the normal stresses that develop in flow and can be much larger than the size of the polymer molecule. The transient development of this depletion layer is also studied, as well as the spatial development downstream from an entrance. Numerical and similarity solutions in these cases show that the developing concentration profile generally displays a maximum at an intermediate distance from the wall.

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The effect of confinement on dynamics and rheology of dilute deoxyribose nucleic acid solutions. II. Effective rheology and single chain dynamics

Cited by 33 publications

References 11 publications

Pressure driven flow of polymer solutions in nanoscale slit pores

Pressure driven flow of polymer solutions in nanoscale slit pores

DNA Molecules in Microfluidic Oscillatory Flow

Theory of shear-induced migration in dilute polymer solutions near solid boundaries

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