Emergence of coherent structures and large-scale flows in motile suspensions

Journal of the Royal Society Interface

Volumn 9, Issue 68, 2012, Pages 571-585

  Saintillan, David ^a   Shelley, Michael J ^b  

^a UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

^b NEW YORK UNIVERSITY   (United States)

Author keywords

Collective dynamics; Suspensions; Swimming micro organisms

Indexed keywords

DYNAMICS; LINEAR SYSTEMS; MICROORGANISMS; SUSPENSIONS (COMPONENTS); VOLUME FRACTION;

COHERENT STRUCTURE; COLLECTIVE DYNAMICS; CORRELATED DYNAMICS; CORRELATED MOTIONS; CRITICAL VOLUME; DETAILED MODELS; HYDRODYNAMIC INTERACTION; ISOTROPIC STATE; LARGE-SCALE DYNAMICS; LARGE-SCALE FLOWS; LOCAL ALIGNMENT; MEAN-FIELD KINETICS; MIXING FLOW; NUMBER FLUCTUATIONS; PARTICLE SIMULATIONS; PARTICLE VELOCITIES; PASSIVE TRACERS; PERIODIC BOUNDARY CONDITIONS; ROD-LIKE PARTICLES; SLENDER-BODY THEORY; SMOOTH PARTICLE-MESH EWALD ALGORITHMS; SWIMMING MICRO-ORGANISMS; SYSTEM SIZE; TANGENTIAL STRESS; VISCOUS FLUIDS;

SUSPENSIONS (FLUIDS);

ALGORITHM; ANIMAL EXPERIMENT; ARTICLE; CALCULATION; CONTROLLED STUDY; CRYSTAL STRUCTURE; DENSITY GRADIENT; EWALD ALGORITHM; FIELD EXPERIMENT; FLOW CYTOMETRY; HYDRODYNAMICS; KINETICS; LARGE SCALE PRODUCTION; LIQUID; MICROORGANISM; MOTION; NONHUMAN; PARTICLE SIZE; PHASE TRANSITION; PREDICTION; SHEAR STRESS; SIMULATION; SUSPENSION; SWIMMING; VELOCITY; VISCOSITY; VOLUMETRY;

EID: 84856900404     PISSN: 17425689     EISSN: 17425662     Source Type: Journal    
DOI: 10.1098/rsif.2011.0355     Document Type: Article

References (50)

1. Wu, X.-L. & Libchaber, A. 2000 Particle diffusion in a quasi-two-dimensional bacterial bath. Phys. Rev. Lett. 84, 3017-3020. (doi:10.1103/PhysRevLett.84.3017)
2. Dombrowski, C., Cisneros, L., Chatkaew, S., Goldstein, R. E. & Kessler, J. O. 2004 Self-concentration and large-scale coherence in bacterial dynamics. Phys. Rev. Lett. 93, 098103. (doi:10.1103/PhysRevLett.93. 098103)
3. Tuval, I., Cisneros, L., Dombrowski, C., Wolgemuth, C. W., Kessler, J. O. & Goldstein, R. E. 2005 Bacterial swimming and oxygen transport near contact lines. Proc. Natl Acad. Sci. USA 102, 2277-2282. (doi:10.1073/pnas. 0406724102)
4. Cisneros, L. H., Cortez, R., Dombrowski, C., Goldstein, R. E. & Kessler, J. O. 2007 Fluid dynamics of self-propelled microorganisms, from individuals to concentrated populations. Exp. Fluids 43, 737-753. (doi:10.1007/s00348-007-0387-y)
5. Mendelson, N. H., Bourque, A., Wilkening, K., Anderson, K. R. & Watkins, J. C. 1999 Organized cell swimming motions in Bacillus subtilis colonies: patterns of short-lived whirls and jets. J. Bacteriol. 181, 600-609. (Pubitemid 29045153)
6. Sokolov, A., Aranson, I. S., Kessler, J. O. & Goldstein, R. E. 2007 Concentration dependence of the collective dynamics of swimming bacteria. Phys. Rev. Lett. 98, 158102. (doi:10.1103/PhysRevLett.98.158102)
7. Sokolov, A., Goldstein, R. E., Feldchtein, F. I. & Aranson, I. S. 2009 Enhanced mixing and spatial instability in concentrated bacterial suspensions. Phys. Rev. E 80, 031903. (doi:10.1103/PhysRevE.80.031903)
8. Cisneros, L. H., Kessler, J. O., Ganguly, S. & Goldstein, R. E. 2011 Dynamics of swimming bacteria: transition to directional order at high concentration. Phys. Rev. E 83, 061907. (doi:10.1103/PhysRevE.83.061907)
9. Soni, G. V., Jaffar Ali, B. M., Hatwalne, Y. & Shivashankar, G. V. 2003 Single particle tracking of correlated bacterial dynamics. Biophys. J. 84, 2634-2637. (doi:10.1016/S0006-3495(03)75068-1)
10. Liao, Q., Subramanian, G., DeLisa, M. P., Koch, D. L. & Wu, M. 2007 Pair velocity correlations among swimming, Escherichia coli bacteria are determined by force-quadrupole hydrodynamic interactions. Phys. Fluids 19, 061701. (doi:10.1063/1.2742423)
11. Kim, M. J. & Breuer, K. S. 2004 Enhanced diffusion due to motile bacteria. Phys. Fluids 16, 78-81. (doi:10.1063/1. 1787527)
12. Leptos, K. C., Guasto, J. S., Gollub, J. P., Pesci, A. I. & Goldstein, R. E. 2009 Dynamics of enhanced tracer diffusion in suspensions of swimming eukaryotic microorganisms. Phys. Rev. Lett. 103, 198103. (doi:10.1103/PhysRevLett. 103.198103)
13. Kurtuldu, H., Guasto, J. S., Johnson, K. A. & Gollub, J. P. 2011 Enhancement of biomixing by swimming algal cells in two-dimensional films. Proc. Natl Acad. Sci. USA (doi:10.1073/pnas.1107046108)
14. Ebbens, S. J. & Howse, J. R. 2010 In pursuit of propulsion at the nanoscale. Soft Matter 6, 726-738. (doi:10.1039/b918598d)
15. Paxton, W. F., Kistler, K. C., Olmeda, C. C., Sen, A., St. Angelo, S. K., Cao, Y., Mallouk, T. E., Lammert, P. E. & Crespi, V. H. 2004 Catalytic nanomotors: autonomous movement of striped nanorods. J. Am. Chem. Soc. 126, 13 424-13 431. (doi:10.1021/ja047697z)
16. Paxton, W. F., Sen, A. & Mallouk, T. E. 2005 Motility of catalytic nanoparticles through self-generated forces. Chem. Eur. J. 11, 6462-6470. (doi:10.1002/chem.200500167)
17. Howse, J. R., Jones, R. A. L., Ryan, A. J., Gough, T., Vafabakhsh, R. & Golestanian, R. 2007 Self-motile colloidal particles: from directed propulsion to random walk. Phys. Rev. Lett. 99, 048102. (doi:10.1103/ PhysRevLett. 99.048102)
18. Moran, J. L., Wheat, P. M. & Posner, J. D. 2010 Locomotion of electrocatalytic nanomotors due to reaction induced charge autoelectrophoresis. Phys. Rev. E 81, 065302. (doi:10.1103/PhysRevE.81.065302)
19. Gibbs, J. G., Kothari, S., Saintillan, D. & Zhao, Y.-P. 2011 Geometrically designing the kinematic behavior of catalytic nanomotors. Nano Lett. 11, 2543-2550. (doi:10.1021/nl201273n)
20. Dreyfus, R., Baudry, J., Roper, M. L., Stone, H. A., Fermigier, M. & Bibette, J. 2005 Microscopic artificial swimmers. Nature 437, 862-865. (doi:10.1038/nature04090)
21. Ghosh, A. & Fischer, P. 2009 Controlled propulsion of artificial magnetic nanostructured propellers. Nano Lett. 9, 2243-2245. (doi:10.1021/nl900186w)
22. Chaturvedi, N., Hong, Y., Sen, A. & Velegol, D. 2010 Magnetic enhancement of phototaxing catalytic motors. Langmuir 26, 6308-6313. (doi:10.1021/la904133a)
23. Hernández-Ortiz, J. P., Stoltz, C. G. & Graham, M. D. 2005 Transport and collective dynamics in suspensions of confined self-propelled particles. Phys. Rev. Lett. 95, 204501. (doi:10.1103/PhysRevLett.95.204501)
24. Hernández-Ortiz, J. P., Underhill, P. T. & Graham, M. D. 2009 Dynamics of confined suspensions of swimming particles. J. Phys.: Condens. Matter 21, 204107. (doi:10. 1088/0953-8984/21/20/204107)
25. Ishikawa, T. & Pedley, T. J. 2007 Diffusion of swimming model micro-organisms in a semi-dilute suspension. J. Fluid Mech. 588, 437-462. (doi:10.1017/S0022112007007847)
26. Ishikawa, T., Locsei, J. T. & Pedley., T. J. 2010 Fluid particle diffusion in a semidilute suspension of model micro-organisms. Phys. Rev. E 82, 021408. (doi:10.1103/PhysRevE.82.021408)
27. Ishikawa, T. & Pedley, T. J. 2008 Coherent structures in monolayers of swimming particles. Phys. Rev. Lett. 100, 088103. (doi:10.1103/PhysRevLett. 100.088103)
28. Ishikawa, T., Locsei, J. T. & Pedley, T. J. 2008 Development of coherent structures in concentrated suspensions of swimming model micro-organisms. J. Fluid Mech. 615, 401-431. (doi:10.1017/S0022112008003807)
29. Saintillan, D. & Shelley, M. J. 2007 Orientational order and instabilities in suspensions of self-locomoting rods. Phys. Rev. Lett. 99, 058102. (doi:10.1103/PhysRevLett. 99.058102)
30. Simha, R. A. & Ramaswamy, S. 2002 Hydrodynamic fluctuations and instabilities in ordered suspensions of self-propelled particles. Phys. Rev. Lett. 89, 058101. (doi:10.1103/PhysRevLett.89.058101)
31. Aranson, I. S., Sokolov, A., Kessler, J. O. & Goldstein, R. E. 2007 Model for dynamical coherence in thin films of self-propelled microorganisms. Phys. Rev. E 75, 040901. (doi:10.1103/PhysRevE.75.040901)
32. Wolgemuth, C. W. 2008 Collective swimming and the dynamics of bacterial turbulence. Biophys. J. 95, 1564-1574. (doi:10.1529/biophysj.107.118257)
33. Baskaran, A. & Marchetti, M. C. 2008 Hydrodynamics of self-propelled hard rods. Phys. Rev. E 77, 011920. (doi:10. 1103/PhysRevE.77.011920)
34. Baskaran, A. & Marchetti, M. C. 2009 Statistical mechanics and hydrodynamics of bacterial suspensions. Proc. Natl Acad. Sci. USA 106, 15 567-15 572. (doi:10.1073/pnas.0906586106)
35. Mishra, S., Baskaran, A. & Marchetti, M. C. 2010 Fluctuations and pattern formation in self-propelled particles. Phys. Rev. E 81, 061916. (doi:10.1103/PhysRevE. 81.061916)
36. Saintillan, D. & Shelley, M. J. 2008 Instabilities and pattern formation in active particle suspensions: kinetic theory and continuum simulations. Phys. Rev. Lett. 100, 178103. (doi:10.1103/PhysRevLett.100.178103)
37. Saintillan, D. & Shelley, M. J. 2008 Instabilities, pattern formation, and mixing in active suspensions. Phys. Fluids 20, 123304. (doi:10.1063/1.3041776)
38. Subramanian, G. & Koch, D. L. 2009 Critical bacterial concentration for the onset of collective swimming. J. Fluid Mech. 632, 359-400. (doi:10.1017/S002211200900706X)
39. Hohenegger, C. & Shelley, M. J. 2010 Stability of active suspensions. Phys. Rev. E 81, 046311. (doi:10. 1103/PhysRevE.81.046311)
40. Doi, M. & Edwards, S. F. 1986 The theory of polymer dynamics. Oxford, UK: Oxford University Press.
41. Alizadeh Pahlavan, A. & Saintillan, D. 2011 Instability regimes in flowing suspensions of swimming micro-organisms. Phys. Fluids. 23, 011901. (doi:10.1063/1.3529411)
42. Batchelor, G. K. 1970 Slender-body theory for particles of arbitrary cross-section in Stokes flow. J. Fluid Mech. 44, 419-440. (doi:10.1017/ S002211207000191X)
43. Tornberg, A.-K. & Gustavsson, K. 2006 A numerical method for simulations of rigid fiber suspensions. J. Comp. Phys. 215, 172-196. (doi:10.1016/j.jcp.2005.10.028)
44. Saintillan, D., Darve, E. & Shaqfeh, E. S. G. 2005 A smooth particle-mesh Ewald algorithm for stokes suspension simulations: the sedimentation of fibers. Phys. Fluids 17, 033301. (doi:10.1063/1.1862262)
45. Rushkin, I., Kanstler, V. & Golstein, R. E. 2010 Fluid velocity fluctuations in a suspension of swimming protists. Phys. Rev. Lett. 105, 188101. (doi:10.1103/PhysRevLett. 105.188101)
46. Brenner, H. 1980 A general theory of Taylor dispersion phenomena. PCH PhysicoChem. Hydrodyn. 1, 91-123. (Pubitemid 11487292)
47. Mathew, G., Mezić, I. & Petzold, L. 2005 A multiscale measure for mixing. Physica D 211, 23-46. (doi:10. 1016/j.physd.2005.07.017)
48. Underhill, P. T., Hernandez-Ortiz, J. P. & Graham, M. D. 2008 Diffusion and spatial correlations in suspensions of swimming particles. Phys. Rev. Lett. 100, 248101. (doi:10.1103/PhysRevLett.100.248101)
49. Thiffeault, J.-L. & Childress, S. 2010 Stirring by swimming bodies. Phys. Lett. A 374, 3487-3490. (doi:10. 1016/j.physleta.2010.06.043)
50. Lin, Z., Thiffeault, J.-L. & Childress, S. 2010 Stirring by squirmers. J. Fluid Mech. 669, 167-177. (doi:10.1017/S002211201000563X)