1
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Shi Q, Wu J, Chen H, Xu X, Yang YB, Ding M. Inertial migration of polymer micelles in a square microchannel. SOFT MATTER 2024; 20:1760-1766. [PMID: 38295375 DOI: 10.1039/d3sm01304a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/02/2024]
Abstract
Using a hybrid simulation approach that combines a lattice-Boltzmann method for fluid flow and a molecular dynamics model for polymers, we investigate the inertial migration of star-like and crew-cut polymer micelles in a square microchannel. It is found that they exhibit two types of equilibrium positions, which shift further away from the center of the microchannel when the Reynolds number (Re) increases, as can be observed for soft particles. What differs from the behaviors of soft particles is that here, the blockage ratio is no longer the decisive factor. When the sizes are the same, the star-like micelles are always relatively closer to the microchannel wall as they gradually transition from spherical to disc-like with the increase of Re. In comparison, the crew-cut micelles are only transformed into an ellipsoid. Conversely, when the hydrophobic core sizes are the same, the equilibrium position of the star-like micelles becomes closer to that of the crew-cut micelles. Our results demonstrate that for polymer micelles with a core-shell structure, the equilibrium position is no longer solely determined by their overall dimensions but depends on the core and shell's specific dimensions, especially the hydrophobic core size. This finding opens up a new approach for achieving the separation of micelles in inertial migration.
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Affiliation(s)
- Qingfeng Shi
- School of Chemical Engineering and Light Industry, Guangdong University of Technology, Guangzhou 510006, China.
| | - Jintang Wu
- School of Chemical Engineering and Light Industry, Guangdong University of Technology, Guangzhou 510006, China.
| | - Haisong Chen
- School of Chemical Engineering and Light Industry, Guangdong University of Technology, Guangzhou 510006, China.
| | - Xiaolong Xu
- School of Environmental and Chemical Engineering, Institute of Carbon Peaking and Carbon Neutralization, Wuyi University, Jiangmen 529020, China
| | - Yong-Biao Yang
- School of Chemistry and Chemical Engineering, Liaoning Normal University, Dalian 116029, China
| | - Mingming Ding
- School of Chemical Engineering and Light Industry, Guangdong University of Technology, Guangzhou 510006, China.
- Jieyang Branch of Chemistry and Chemical Engineering Guangdong Laboratory, Jieyang 515200, China
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2
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Wang Z, Ziolek RM, Tsige M. Constraints on Knot Insertion, Not Internal Jamming, Control Polycatenane Translocation Dynamics through Crystalline Pores. Macromolecules 2023; 56:3238-3245. [PMID: 37128623 PMCID: PMC10141125 DOI: 10.1021/acs.macromol.2c02565] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/22/2022] [Revised: 03/15/2023] [Indexed: 05/03/2023]
Abstract
The translocation of polymers through pores and channels is an archetypal process in biology and is widely studied and exploited for applications in bio- and nanotechnology. In recent times, the translocation of polymers of various different topologies has been studied both experimentally and by computer simulation. However, in some cases, a clear understanding of the precise mechanisms that drive their translocation dynamics can be challenging to derive. Experimental methods are able to provide statistical details of polymer translocation, but computer simulations are uniquely placed to uncover a finer level of mechanistic understanding. In this work, we use high-throughput molecular simulations to reveal the importance that knot insertion rates play in controlling translocation dynamics in the small pore limit, where unexpected nonpower law behavior emerges. This work both provides new predictive understanding of polycatenane translocation and shows the importance of carefully considering the role of the definition of translocation itself.
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Affiliation(s)
- Zifeng Wang
- School
of Polymer Science and Polymer Engineering, The University of Akron, Akron, Ohio 44325-3909, United States
| | - Robert M. Ziolek
- Biological
Physics and Soft Matter Group, Department of Physics, King’s College London, London WC2R 2LS, United Kingdom
| | - Mesfin Tsige
- School
of Polymer Science and Polymer Engineering, The University of Akron, Akron, Ohio 44325-3909, United States
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3
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Lu LW, Wang ZH, Shi AC, Lu YY, An LJ. Polymer Translocation. CHINESE JOURNAL OF POLYMER SCIENCE 2023. [DOI: 10.1007/s10118-023-2975-6] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 03/29/2023]
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4
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Adherent Moving of Polymers in Spherical Confined Binary Semiflexible Ring Polymer Mixtures. BIOPHYSICA 2022. [DOI: 10.3390/biophysica2040044] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/25/2022]
Abstract
Based on the coarse-grained model, we used molecular dynamics methods to calculate and simulate a semiflexible long ring–semiflexible short ring blended polymer system confined in a hard sphere. We systematically studied the distribution and motion characteristics of the long ring chain. The results show that when the short ring is short enough (Lshort < 20), the long ring (Llong = 50) is separated from the blend system and then distributed against the inner wall. As the length of the short ring increases (Lshort ≥ 20), the long ring can no longer be separated from the blending system. Moreover, we found that the long ring demonstrates a random direction of adherent walking behavior on the inner surface of the hard sphere. The velocity of the long ring decreases with the increase in the short ring length Lshort. Specifically for Lshort ≥ 20, the system does not undergo phase separation and the speed of the long ring decreases sharply along with the long ring distributed inside the confined bulk. This is related to the inner wall layer moving faster than the inside bulk of the restricted system. Our simulation results can help us to understand the distribution of macromolecules in biological systems in confined systems, including the restricted chromosome partitioning distribution and packing structure of circular DNA molecules.
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5
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Tang Z, Pan X, Zhou H, Li L, Ding M. Conformation of a Comb-like Chain Free in Solution and Confined in a Nanochannel: From Linear to Bottlebrush Structure. Macromolecules 2022. [DOI: 10.1021/acs.macromol.2c00822] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Zengxian Tang
- Xinjiang Laboratory of Phase Transitions and Microstructures in Condensed Matter Physics, College of Physical Science and Technology, Yili Normal University, Yining 835000, P. R. China
| | - Xuejun Pan
- College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen 518060, P. R. China
- Department of Chemical Physics, University of Science and Technology of China, Hefei 230026, P. R. China
| | - Hengwei Zhou
- Xinjiang Laboratory of Phase Transitions and Microstructures in Condensed Matter Physics, College of Physical Science and Technology, Yili Normal University, Yining 835000, P. R. China
| | - Lianwei Li
- College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen 518060, P. R. China
| | - Mingming Ding
- Xinjiang Laboratory of Phase Transitions and Microstructures in Condensed Matter Physics, College of Physical Science and Technology, Yili Normal University, Yining 835000, P. R. China
- School of Chemical Engineering and Light Industry, Guangdong University of Technology, Guangzhou 510006, P. R. China
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6
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Ding M, Hou L, Duan X, Shi T, Li W, Shi AC. Translocation of Micelles through a Nanochannel. Macromolecules 2022. [DOI: 10.1021/acs.macromol.2c00447] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Mingming Ding
- School of Chemical Engineering and Light Industry, Guangdong University of Technology, Guangzhou 510006, P. R. China
| | - Lei Hou
- State Key Laboratory of Molecular Engineering of Polymers, Key Laboratory of Computational Physical Sciences, Department of Macromolecular Science, Fudan University, Shanghai 200433, P. R. China
| | - Xiaozheng Duan
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Tongfei Shi
- School of Chemical Engineering and Light Industry, Guangdong University of Technology, Guangzhou 510006, P. R. China
| | - Weihua Li
- State Key Laboratory of Molecular Engineering of Polymers, Key Laboratory of Computational Physical Sciences, Department of Macromolecular Science, Fudan University, Shanghai 200433, P. R. China
| | - An-Chang Shi
- Department of Physics and Astronomy, McMaster University, Hamilton, Ontario L8S 4M1, Canada
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7
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Wang Z, Wang R, Lu Y, An L, Shi AC, Wang ZG. Mechanisms of Flow-Induced Polymer Translocation. Macromolecules 2022. [DOI: 10.1021/acs.macromol.2c00288] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/27/2023]
Affiliation(s)
- Zhenhua Wang
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Ruishu Wang
- Department of Mathematics, Jilin University, Changchun 130012, P. R. China
| | - Yuyuan Lu
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Lijia An
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - An-Chang Shi
- Department of Physics and Astronomy, McMaster University, Hamilton, Ontario L8S 4M1, Canada
| | - Zhen-Gang Wang
- Division of Chemistry and Chemical Engineering, California Institute of Technology, Pasadena, California 91125, United States
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8
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Abstract
The force- and flow-induced translocation processes of linear and ring polymers are studied using a combination of multiparticle collision dynamics and molecular dynamics, focusing on the behavior of the polymer translocation time. We compare the force- and flow-induced translocations of linear and ring polymers. It is found that when the translocation time (τ*) is characterized by scaling exponents, δ, δ', and α, via the relations τ* ∼ fδNα and τ* ∼ Jδ'Nα, the scaling exponents are not constants. For long chains tested, α = 1.0 for both force- and flow-induced translocations. The difference between the force- and flow-induced translocations stems from different monomer crowding effects due to distinct flow patterns outside the channel. Furthermore, general relations for polymer translocation time are derived for these two translocation processes, which are in good agreement with the simulation results. Our results provide clear molecular pictures for the force- and flow-induced translocations, which shed light on the understanding of translocation dynamics and provide guidance for practical applications such as molecular sequencing and ultrafiltration.
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Affiliation(s)
- Yuyuan Lu
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P.R. China
- University of Chinese Academy of Sciences, Beijing 100049, P.R. China
| | - Zhenhua Wang
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P.R. China
| | - Lijia An
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P.R. China
- University of Chinese Academy of Sciences, Beijing 100049, P.R. China
| | - An-Chang Shi
- Department of Physics and Astronomy, McMaster University, Hamilton, Ontario L8S 4M1, Canada
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9
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Ding M, Li L. Flow-Induced Translocation and Conformational Transition of Polymer Chains through Nanochannels: Recent Advances and Future Perspectives. Macromolecules 2021. [DOI: 10.1021/acs.macromol.1c00909] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Mingming Ding
- School of Chemical Engineering and Light Industry, Guangdong University of Technology, Guangzhou 510006, China
| | - Lianwei Li
- Food Science and Processing Research Center, College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen 518060, China
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10
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Ding M, Chen Q, Duan X, Shi T. Flow-Driven Translocation of a Diblock Copolymer through a Nanopore. J Phys Chem B 2019; 123:8848-8852. [PMID: 31566376 DOI: 10.1021/acs.jpcb.9b07481] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
Using a hybrid molecular dynamic and lattice Boltzmann simulation method, we investigate the flow-driven translocation of a diblock copolymer which is composed of a hydrophilic block and a hydrophobic block through a nanopore. Our results illustrate the nontrivial translocation dynamics of diblock copolymers. We find that the increase in the number of hydrophobic segments requires a larger critical flow rate and a reduced translocation time, which implies that the separation of diblock copolymers with different fractions of hydrophobic segments can be achieved by adjusting the flow rate. Our work deepens the understanding of copolymer translocation through a nanopore and provides an insight into designing related microscaled separation devices.
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Affiliation(s)
- Mingming Ding
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry , Chinese Academy of Sciences , Changchun 130022 , P. R. China
| | - Qiaoyue Chen
- Xinjiang Laboratory of Phase Transitions and Microstructures in Condensed Matter Physics, College of Physical Science and Technology , Yili Normal University , Yining 835000 , P. R. China
| | - Xiaozheng Duan
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry , Chinese Academy of Sciences , Changchun 130022 , P. R. China
| | - Tongfei Shi
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry , Chinese Academy of Sciences , Changchun 130022 , P. R. China.,School of Applied Chemistry and Engineering , University of Science and Technology of China , Hefei 230026 , P. R. China
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11
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He J, Zheng T, Li L. Study of Flow-Driven Translocation of Flexible Polymer Chains through Cylindrical Nanopores in Unentangled Semidilute Solutions. Macromolecules 2019. [DOI: 10.1021/acs.macromol.9b00289] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Jing He
- Food Science and Processing Research Center, College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen 518060, China
- Department of Chemical Physics, University of Science and Technology of China, Hefei 230026, China
| | - Tao Zheng
- Department of Chemical Physics, University of Science and Technology of China, Hefei 230026, China
| | - Lianwei Li
- Food Science and Processing Research Center, College of Chemistry and Environmental Engineering, Shenzhen University, Shenzhen 518060, China
- Department of Chemical Physics, University of Science and Technology of China, Hefei 230026, China
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12
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Han Y, Lin H, Ding M, Li R, Shi T. Flow-induced translocation of vesicles through a narrow pore. SOFT MATTER 2019; 15:3307-3314. [PMID: 30892355 DOI: 10.1039/c9sm00116f] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
We use finite element method to investigate the flow-induced translocation of vesicles through a narrow pore from a dynamic point of view. In order to complete the coupling between fluid flow and the vesicle membranes, we employ the fluid-structure interactions with the arbitrary Lagrangian-Eulerian method. Our results demonstrate that the vesicle shows similar shape change from bullet-like to dumbbell-like, dumbbell-like to bulb-like, and bulb-like to parachute-like if it is pushed by flow field to pass through a narrow pore smaller than its size. We further find that the strain energy exhibits a higher peak and a lower peak in the whole translocation process, where the higher peak corresponds to the dumbbell-like shape and the lower peak corresponds to the parachute-like shape due to more stretching of the membrane for the dumbbell-like shape than that of the parachute-like shape. The translocation time of the vesicle from one side to the other side of the narrow pore decreases with the increase of inlet velocity, but the strain energy exhibits an increase, which implies that the vesicle needs more time to complete the translocation with the lower inlet velocity, but the requirement for the mechanical properties of the membrane is lower. Our work answers the mapping between the positions of the vesicles and deformed states with the stress distribution and change of strain energy, which can provide helpful information on the utilization of vesicles in pharmaceutical, chemical, and physiological processes.
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Affiliation(s)
- Yunlong Han
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China.
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13
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Kwon S, Sung BJ. Effects of solvent quality and non-equilibrium conformations on polymer translocation. J Chem Phys 2018; 149:244907. [PMID: 30599703 DOI: 10.1063/1.5048059] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
The conformation and its relaxation of a single polymer depend on solvent quality in a polymer solution: a polymer collapses into a globule in a poor solvent, while the polymer swells in a good solvent. When one translocates a polymer through a narrow pore, a drastic conformational change occurs such that the kinetics of the translocation is expected to depend on the solvent quality. However, the effects of solvent quality on the translocation kinetics have been controversial. In this study, we employ a coarse-grained model for a polymer and perform Langevin dynamics simulations for the driven translocation of a polymer in various types of solvents. We estimate the free energy of polymer translocation using steered molecular dynamics simulations and Jarzynski's equality and find that the free energy barrier for the translocation increases as the solvent quality becomes poorer. The conformational entropy contributes most to the free energy barrier of the translocation in a good solvent, while a balance between entropy and energy matters in a poor solvent. Interestingly, contrary to what is expected from the free energy profile, the translocation kinetics is a non-monotonic function of the solvent quality. We find that for any type of solvent, the polymer conformation stays far away from the equilibrium conformation during translocation due to an external force and tension propagation. However, the degree of tension propagation differs depending on the solvent quality as well as the magnitude of the external force: the tension propagation is more significant in a good solvent than in a poor solvent. We illustrate that such differences in tension propagation and non-equilibrium conformations between good and poor solvents are responsible for the complicated non-monotonic effects of solvent quality on the translocation kinetics.
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Affiliation(s)
- Seulki Kwon
- Department of Chemistry, Sogang University, Seoul 04107, South Korea
| | - Bong June Sung
- Department of Chemistry, Sogang University, Seoul 04107, South Korea
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14
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Zheng T, Zhu M, Yang J, He J, Waqas M, Li L. Revisiting the Flow-Driven Translocation of Flexible Linear Chains through Cylindrical Nanopores: Is the Critical Flow Rate Really Independent of the Chain Length? Macromolecules 2018. [DOI: 10.1021/acs.macromol.8b02082] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Tao Zheng
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Mo Zhu
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Jinxian Yang
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Jing He
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Muhammad Waqas
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Lianwei Li
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
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15
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Zheng T, Yang J, He J, Li L. Origin of Inconsistency in Experimentally Observed Transition Widths and Critical Flow Rates in Ultrafiltration Studies of Flexible Linear Chains. Macromolecules 2018. [DOI: 10.1021/acs.macromol.8b01436] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Tao Zheng
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Jinxian Yang
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Jing He
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
| | - Lianwei Li
- Department of Chemical Physics, University of Science and Technology of China, Hefei, Anhui 230026, China
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16
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Ding M, Duan X, Shi T. Flow-induced polymer separation through a nanopore: effects of solvent quality. SOFT MATTER 2017; 13:7239-7243. [PMID: 28930354 DOI: 10.1039/c7sm00784a] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Using a hybrid simulation method that combines a lattice-Boltzmann approach for the flow and a molecular dynamics model for the polymer, we investigated the effect of solvent quality on the flow-induced polymer translocation through a nanopore. We demonstrate the nontrivial dependence of the translocation dynamics of polymers on the solvent quality, i.e., the enhancement in the polymer insolubility increases the critical velocity flux and shortens the translocation time. Accordingly, we propose a new strategy to separate polymers with different solubilities via their translocations in the nanopore by adjusting the velocity flux of the flow, which appears to be promising for the design of micro-scaled polymer separation devices.
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Affiliation(s)
- Mingming Ding
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China.
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17
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Affiliation(s)
- Mingming Ding
- State Key Laboratory of Polymer
Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Xiaozheng Duan
- State Key Laboratory of Polymer
Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
| | - Tongfei Shi
- State Key Laboratory of Polymer
Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China
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18
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Ding M, Chen Q, Duan X, Shi T. Flow-induced polymer translocation through a nanopore from a confining nanotube. J Chem Phys 2017; 144:174903. [PMID: 27155652 DOI: 10.1063/1.4948551] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022] Open
Abstract
We study the flow-induced polymer translocation through a nanopore from a confining nanotube, using a hybrid simulation method that couples point particles into a fluctuating lattice-Boltzmann fluid. Our simulation illustrates that the critical velocity flux of the polymer linearly decreases with the decrease in the size of the confining nanotube, which corresponds well with our theoretical analysis based on the blob model of the polymer translocation. Moreover, by decreasing the size of the confining nanotube, we find a significantly favorable capture of the polymer near its ends, as well as a longer translocation time. Our results provide the computational and theoretical support for the development of nanotechnologies based on the ultrafiltration and the single-molecule sequencing.
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Affiliation(s)
- Mingming Ding
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, People's Republic of China
| | - Qiaoyue Chen
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, People's Republic of China
| | - Xiaozheng Duan
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, People's Republic of China
| | - Tongfei Shi
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, People's Republic of China
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19
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Chen Q, Zhang L, Ding M, Duan X, Huang Y, Shi T. Effects of nanopore size on the flow-induced star polymer translocation. THE EUROPEAN PHYSICAL JOURNAL. E, SOFT MATTER 2016; 39:109. [PMID: 27853961 DOI: 10.1140/epje/i2016-16109-3] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/18/2016] [Accepted: 10/31/2016] [Indexed: 06/06/2023]
Abstract
We study the effects of the nanopore size on the flow-induced capture of the star polymer by a nanopore and the afterward translocation, using a hybrid simulation method that couples point particles into a fluctuating lattice-Boltzmann fluid. Our simulation demonstrates that the optimal forward arm number decreases slowly with the increase of the length of the nanopore. Compared to the minor effect of the length of the nanopore, the optimal forward arm number obviously increases with the increase of the width of the nanopore, which can clarify the current controversial issue for the optimal forward arm number between the theory and experiments. In addition, our results indicate that the critical velocity flux of the star polymer is independent of the nanopore size. Our work bridges the experimental results and the theoretical understanding, which can provide comprehensive insights for the characterization and the purification of the star polymers.
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Affiliation(s)
- Qiaoyue Chen
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, 130022, Changchun, China
- Xinjiang Laboratory of Phase Transitions and Microstructures in Condensed Matter Physics, College of Physical Science and Technology, Yili Normal University, 835000, Yining, China
| | - Lili Zhang
- Xinjiang Laboratory of Phase Transitions and Microstructures in Condensed Matter Physics, College of Physical Science and Technology, Yili Normal University, 835000, Yining, China
- National Lab of Solid State Microstructures, School of Physics, Nanjing University, 210093, Nanjing, China
| | - Mingming Ding
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, 130022, Changchun, China.
| | - Xiaozheng Duan
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, 130022, Changchun, China
| | - Yineng Huang
- Xinjiang Laboratory of Phase Transitions and Microstructures in Condensed Matter Physics, College of Physical Science and Technology, Yili Normal University, 835000, Yining, China
- National Lab of Solid State Microstructures, School of Physics, Nanjing University, 210093, Nanjing, China
| | - Tongfei Shi
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, 130022, Changchun, China
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20
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Vollmer SC, de Haan HW. Translocation is a nonequilibrium process at all stages: Simulating the capture and translocation of a polymer by a nanopore. J Chem Phys 2016; 145:154902. [DOI: 10.1063/1.4964630] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023] Open
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21
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Li Y, Butler N, Zydney AL. Size-based separation of supercoiled plasmid DNA using ultrafiltration. J Colloid Interface Sci 2016; 472:195-201. [DOI: 10.1016/j.jcis.2016.03.054] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2016] [Revised: 03/23/2016] [Accepted: 03/24/2016] [Indexed: 10/22/2022]
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22
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Ding M, Duan X, Shi T. Flow-induced translocation of star polymers through a nanopore. SOFT MATTER 2016; 12:2851-2857. [PMID: 26879130 DOI: 10.1039/c6sm00040a] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
We study the flow-induced translocation of the star polymers through a nanopore using a hybrid simulation method that incorporates a lattice-Boltzmann approach for the fluid into a molecular dynamics model for the polymer. Our simulation demonstrates the existence of an optimal forward arm number of the star polymers captured by the nanopore, and illustrates its significance in determining the critical velocity flux of the star polymer translocation through the nanopore. Importantly, we find that the critical velocity flux of the star polymers is independent of the arm polymerization degree, but exhibits a linear dependence on the arm number. Based on previous scaling arguments and our simulation results, we conclude a linear dependence of the critical velocity flux on the arm number of the star polymers, which can successfully describe the dynamics of the star polymer translocation. Our simulation results rationalize the experimental results for the dependence of the critical velocity flux on the arm polymerization degree and the arm number of the star polymers, which provide new insights for the characterization and the purification of the star polymers.
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Affiliation(s)
- Mingming Ding
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China.
| | - Xiaozheng Duan
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China.
| | - Tongfei Shi
- State Key Laboratory of Polymer Physics and Chemistry, Changchun Institute of Applied Chemistry, Chinese Academy of Sciences, Changchun 130022, P. R. China.
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