Injection of a Self-propelled Polymer into a Small Circular Cavity

Chao Wang; Yan-Li Zhou; Xiao Yang; Fan Wu; Meng-Bo Luo

doi:10.1007/s10118-024-3103-y

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Injection of a Self-propelled Polymer into a Small Circular Cavity

RESEARCH ARTICLE | Updated：2024-05-11

- Injection of a Self-propelled Polymer into a Small Circular Cavity
- Chinese Journal of Polymer Science Vol. 42, Issue 6, Pages: 886-894(2024)
- Affiliations：
  
  a.Department of Physics, Taizhou University, Taizhou 318000, China
  b.Department of Physics, Zhejiang University, Hangzhou 310027, China
- Author bio：
  
  chaowang0606@126.com
- Funds：
- DOI：10.1007/s10118-024-3103-y
  CLC：
- Received：30 December 2023，
  
  Revised：2024-1-31，
  
  Accepted：10 February 2024，
  
  Online First：29 March 2024，
  
  Published：01 June 2024
- Accepted：
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Wang, C.; Zhou, Y. L.; Yang, X.; Wu, F.; Luo, M. B. Injection of a self-propelled polymer into a small circular cavity. Chinese J. Polym. Sci. 2024, 42, 886–894

Chao Wang, Yan-Li Zhou, Xiao Yang, et al. Injection of a Self-propelled Polymer into a Small Circular Cavity[J]. Chinese Journal of Polymer Science, 2024, 42(6): 886-894.
Wang, C.; Zhou, Y. L.; Yang, X.; Wu, F.; Luo, M. B. Injection of a self-propelled polymer into a small circular cavity. Chinese J. Polym. Sci. 2024, 42, 886–894 DOI： 10.1007/s10118-024-3103-y.

Chao Wang, Yan-Li Zhou, Xiao Yang, et al. Injection of a Self-propelled Polymer into a Small Circular Cavity[J]. Chinese Journal of Polymer Science, 2024, 42(6): 886-894. DOI： 10.1007/s10118-024-3103-y.

摘要

Under the driving of the tangential active force

the part of polymer inside the circular cavity adopts random coil configuration at small polymer rigidity and spiral configuration at moderate or large polymer rigidity

resulting that the injection time shows nonmonotonouse dependence on the polymer rigidity.

Abstract

The injection of a polymer chain into a small circular cavity under tangential self-propelled force is studied by using Langevin dynamics simulation. Results indicate that the injection dynamics of the active polymer shows strong correlation with the polymer conformation inside the cavity depending on the polymer rigidity (

). The injection time

varies nonmonotonously with increasing

and reaches its minimum at

. When

is small (

)

the polymer is nearly ran

dom coil in the cavity

and spends a long time at the final stage of the injection process due to the large repulsion between monomers inside the cavity. When

is moderate (

)

the part of polymer inside the cavity forms spiral configuration under the tangential active force

and the whole polymer moves synchronously with a constant velocity during the injection process

leading to a small injection time. When

is large (

)

the polymer is nearly straight at the initial stage of the injection process

and takes a long time to bend itself

leading to a large injection time.

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Keywords

references

Laemmli, U. K.; Favre, M. Maturation of the head of bacteriophage T4: I. DNA packaging events. J. Mol. Biol. 1973 , 80 , 575−599..

Simon, S. M.; Blobe, G. A protein-conducting channel in the endoplasmic reticulum. Cell 1991 , 65 , 371−380..

Gabashvili, I. S.; Gregory, S. T.; Valle, M.; Grassucci, R.; Worbs, M.; Wahl, M. C.; Dahlberg, A. E.; Frank, J. The polypeptide tunnel system in the ribosome and its gating in erythromycin resistance mutants of L4 and L22. Mol. Cell 2001 , 8 , 181−188..

Helenius, J.; Ng D. T. W.; Marolda, C. L.; Walter, P.; Valvano, M. A.; Aebi, M. Translocation of lipid-linked oligosaccharides across the ER membrane requires Rft1 protein. Nature 2002 , 415 , 447−450..

Smith, D. E.; Tans, S. J.; Smith, S. B.; Grimes, S.; Anderson, D. L.; Bustamante, C. The bacteriophage ϕ 29 portal motor can package DNA against a large internal force. Nature 2001 , 413 , 748..

Fuller, D. N.; Raymer, D. M.; Kottadiel, V. I.; Rao, V. B.; Smith, D. E. Single phage T4 DNA packaging motors exhibit large force generation, high velocity, and dynamic variability. Proc. Natl. Acad. Sci. U. S. A. 2007 , 104 , 16868−16873..

Fuller, D. N.; Raymer, D. M.; Rickgauer, J. P.; Robertson, R. M.; Catalano, C. E.; Anderson, D. L.; Grimes, S.; Smith, D. E. Measurements of single DNA molecule packaging dynamics in bacteriophage λ reveal high forces, high motor processivity, and capsid transformations. J. Mol. Biol. 2007 , 373 , 1113−1122..

Rickgauer, J. P.; Fuller, D. N.; Grimes, S.; Jardine, P. J.; Anderson, D. L.; Smith, D. E. Portal motor velocity and internal force resisting viral DNA packaging in bacteriophage ϕ 29. Biophys. J. 2008 , 94 , 159−167..

Levy, S. L.; Craighead, H. G. DNA manipulation, sorting, and mapping in nanofluidic systems. Chem. Soc. Rev . 2010 , 39‏ , 1133-1152..

Lam, E. T.; Hastie, A.; Lin, C.; Ehrlich, D.; Das, S. K.; Austin, M. D.; Deshpande, P.; Cao, H.; Nagarajan, N.; Xiao, M.; Kwok, P. Y. Genome mapping on nanochannel arrays for structural variation analysis and sequence assembly. Nat. Biotechnol. 2012 , 30 , 771−776..

Sriram, K. K.; Yeh, J. W.; Lin, Y. L.; Chang, Y. R.; Chou, C. F. Direct optical mapping of transcription factor binding sites on field-stretched λ -DNA in nanofluidic devices. Nucleic Acids Res. 2014 , 42 , e85..

Lacroix, J.; Pélofy, S.; Blat ché, C.; Pillaire, M. J.; Huet, S.; Chapuis, C.; Hoffmann, J. S.; Bancaud, A. Analysis of DNA replication by optical mapping in nanochannels. Small 2016 , 12 ,‏ 5963-5970..

Yuan, Z. S.; Liu, Y. M.; Dai, M.; Yi, X.; Wang, C. Y. Controlling DNA translocation through solid-state nanopores. Nanoscale Res. Lett. 2020 , 15 , 80..

Wang, C.; Zhou, Y. L.; Sun, L. Z.; Chen, Y. C.; Luo, M. B. Simulation study on the migration of diblock copolymers in periodically patterned slits. J. Chem. Phys. 2019 , 150 , 164904..

Luo, K.; Ala-Nissila, T.; Ying, S.; Bhattacharya, A. Sequence dependence of DNA translocation through a nanopore. Phys. Rev. Lett. 2008 , 100 , 058101..

Wang, C.; Chen, Y. C.; Zhang, S.; Luo, M. B. Translocation of diblock copolymer through compound channels: a Monte Carlo simulation study. Macromolecules 2014 , 47 , 7215−7220..

Magill, M.; Falconer, C.; Waller, E.; de Haan, H. W. Translocation time through a nonopore with an internal cavity is minimal for polymers of interm ediate length. Phys. Rev. Lett. 2016 , 117 , 247802..

Han, J.; Craighead, H. G. Separation of long DNA molecules in a microfabricated entropic trap array. Science 2000 , 288 , 1026−1029..

Kasianowicz, J. J.; Brandin, E.; Branton, D.; Deamer, D. W. Characterization of individual polynucleotide molecules using a membrane channel. Proc. Natl. Acad. Sci. U. S. A. 1996 , 93 , 13770−13773..

Bhattacharya A, S. S. Tug of war in a double-nanopore system. Phys. Rev. E 2020 , 101 , 052407..

Ding, M.; Duan, X.; Lu, Y.; Shi, T. Flow-induced ring polymer translocation through nanopores. Macromolecules 2015 , 48 , 6002−6007..

Li, X.; Pivkin, I. V.; Liang, H. Hydrodynamic effects on flow-induced polymer translocation through a microfluidic channel. Polymer 2013 , 54 , 4309−4317..

Keyser, U. F.; Koeleman, B. N.; Dorp, S. V.; Krapf, D.; Smeets, R. M. M.; Lemay, S. G.; Dekker, N. H.; Dekker, C. Direct force measurements on DNA in a solid-state nanopore. Nat. Phys. 2006 , 2 , 473−477..

Peng, H. B.; Ling, X. S. Reverse DNA translocation through a solid-state nanopore by magnetic tweezers. Nanotechnology 2009 , 20 , 185101..

Nelson, E. M.; Li, H.; Timp, G. Direct, concurrent measurements of the forces and currents affecting DNA in a nanopore with comparable topography. ACS Nano 2014 , 8 , 5484−5493..

Sakaue, T. Nonequilibrium dynamics of polymer translocation and straightening. Phys. Rev. E 2007 , 76 , 021803..

Dubbeldam, J. L. A.; Rostiashvili, V. G.; Milchev, A.; Vilgis, T. A.Forced translocation of a polymer: dynamical scaling versus molecular dynamics simulation. Phys. Rev. E 2012 , 85 , 041801..

Luo, M. B.; Cao, W. P. Influence of polymer-pore interaction on the translocation of a polymer through a nanopore. Phys. Rev. E 2012 , 86 , 031914..

Zhang, K. H.; Luo, K. F. Dynamics of polymer translocation into a circular nanocontainer through a nanopore. J. Chem. Phys. 2012 , 136 , 185103..

Wang, C.; Wu, F.; Zhao, B.; Chen, Y. C.; Luo, M. B. Spontaneous injection of polymer into a spherical cavity from a narrow tube. Macromolecules 2020 , 53 , 1694−1700..

Wang, C.; Wu, F.; Yang, X.; Chen, Y. C.; Luo, M. B. Driven injection of a polymer into a spherical cavity: a Langevin dynamics simulation study. Chin. Phys. B 2021 , 30 , 108202..

Ali, I.; Marenduzzo, D.; Yeomans, J. M. Dynamics of polymer packaging. J. Chem. Phys. 2004 , 121 , 8635−8641..

Zhang, K. H.; Luo, K. F. Polymer translocation into a confined space: influence of the chain stiffness and the shape of the confinement. J. Chem. Phys. 2014 , 140 , 094902..

Kron, S. J.; Spudich, J . A. Fluorescent actin filaments move on myosin fixed to a glass surface. Proc. Natl. Acad. Sci. U. S. A. 1986 , 83 , 6272−6276..

Liu, L.; Tüzel, E.; Ross, J. L. Loop formation of microtubules during gliding at high density. J. Phys.: Condens. Matter 2011 , 23 , 374104..

Bianco, V.; Locatelli, E.; Malgaretti, P. Globulelike conformation and enhanced diffusion of active polymers. Phys. Rev. Lett. 2018 , 121 , 217802..

Isele-Holder, R. E.; Elgeti, J.; Gompper, G. Self-propelled worm-like filaments: spontaneous spiral formation, structure, and dynamics. Soft Matter 2015 , 11 , 7181−7190..

Isele-Holder, R. E.; Jäger, J.; Saggiorato, G.; Elgeti, J.; Gompper, G. Dynamics of self-propelled filaments pushing aload. Soft Matter 2016 , 12 , 8495−8505..

Chelakkot, R.; Gopinath, A.; Mahadevan, L.; Hagan, M. F. Flagellar dynamics of a connected chain of active, polar, Brownian particles. J. R. Soc. Interface 2014 , 11 , 20130884..

Hu, H. X.; Shen, Y. F.; Wang, C.; Luo, M. B. Dynamics of a two-Dimensional active polymer chain with a rotation-restricted active head. Soft Matter 2022 , 18 , 8820−8829..

Fily, Y.; Subramanian, P.; Schneider, T. M.; Chelakkot, R.; Gopinath, A. Buckling instabilities and spatio-temporal dynamics of active elastic filaments. J. R. Soc. Interface 2020 , 17 , 20190794..

Sekimoto, K.; Mori, N.; Tawada, K.; Toyoshima, Y. Y. Symmetry breaking instabihties of an in vitro biological system. Phys. Rev. Lett. 1995 , 75 , 172−175..

Bourdieu, L.; Duke, T.; Elowitz, M. B.; Winkelmann, D. A.; Leibler, S.; Libchabe, A. Spiral defects in motility assays: a measure of motor protein force. Phys. Rev. Lett. 1995 , 75 , 176−179..

Laskar, A.; Singh, R.; Ghose, S.; Jayaraman, G.; Kumar, P. B. S.; Adhikari, R. Hydrodynamic instabilities provide a generic route tospontaneous biomimetic oscillations in hemomechanically active filaments. Sci. Rep. 2013 , 3 , 1964..

Wang, C.; Zhou, Y. L.; Yang, X.; Chen, Y. C.; Shen, Y. F.; Luo, M. B. Conformation and dynamics of a tethered active polymer chain. Phys. Rev. E 2022 , 106 , 054501..

Shen, C.; Qin, C. R.; Xu, T. L.; Chen, K.; Tian, W. D. Structure and dynamics of an active polymer adsorbed on the surface of a cylinder. Soft Matter 2022 , 18 , 1489−1497..

Xu, G. H.; Li, F. G.; Wu, J. C.; Ai, B. Q. Rectification of an active polymer chain with chirality in a transversal asymmetric channel. Physica A 2021 , 575 , 126051..

Yan, R.; Tan, F.; Wang, J. L.; Zhao, N. R. Conformation and dynamics of an active filament in crowded media. J. Chem. Phys. 2023 , 158 , 114905..

Wu, S.; Li, J. X.; Lei, Q. L. Facilitated dynamics of an active polymer in 2D crowded environments with obstacles. Soft Matter 2022 , 18 , 9263−9272..

Heeremans, T.; Deblais, A.; Bonn, D.; Woutersen, S. Chromato graphic separation of active polymer-like worm mixtures by contour length and activity. Sci. Adv. 2022 , 8 , eabj7918..

Wang, C.; Hu, H. X.; Zhou, Y. L.; Zhao, B.; Luo, M. B. Translocation of a self-propelled polymer through a narrow pore. Chinese J. Polym. Sci. 2022 , 40 , 1670−1678..

Tan, F.; Yan, R.; Zhao, C. N.; Zhao, N. R. Translocation dynamics of an active filament through a long-length scale channel. J. Phys. Chem. B 2023 , 127 , 8603−8615..

Rezaie-Dereshgi, A.; Khalilian, H.; Sarabadani, J. Translocation of an active polymer into a two dimensional circular nano-container. J. Phys.: Condens. Matter 2023 , 35 , 355101..

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