

Goldstein Lab
Teaching
DAMTP Summer School on Fluid Dynamics of Sustainability and the Environment
Supplementary Reading (Biological Physics)
The following is a collection of primary references for the main topics of the Summer School lectures.
General reviews
 T.J. Pedley and J.O. Kessler, "Hydrodynamic Phenomena
in Suspensions of Swimming Microorganisms", Annu. Rev. Fluid Mech. 24, 313358 (1992).
 E. Lauga and T.R. Powers, "The Hydrodynamics
of Swimming Microorganisms", Rep. Prog. Phys. 72, 096601 (2009).
 S. Ramaswamy, "The Mechanics and Statistics
of Active Matter", Annu. Rev. Cond. Matt. Phys. 1, 323345 (2010).
 T.R. Powers, "Dynamics of Filaments and Membranes
in a Viscous Fluid", Rev. Mod. Phys. 82, 16071631 (2010).
 R. Golestanian, J.M. Yeomans, and N. Uchida,
"Hydrodynamic Synchronization at Low Reynolds Number," Soft Matter 7, 30743082 (2011).
 D.L. Koch and G. Subramanian, "Collective
Hydrodynamics of Swimming Microorganisms: Living Fluids," Annu. Rev. Fluid Mech. 43,
637659 (2011).
 E. Lauga and R.E. Goldstein, "Dance of the
Microswimmers", Physics Today 65, 3035 (2012).
Swimming of Individual Organisms
 G. Taylor, "Analysis of the Swimming of
Microscopic Organisms", Proc. R. Soc. Lond. A 209, 447461 (1951).
 M.J. Lighthill, "On the Squirming Motion of
Nearly Spherical Deformable Bodies through Liquids at Very Small Reynolds Numbers",
Comm. Pure Appl. Math. 5, 109118 (1951).
 K.E. Machin,
"Wave Propagation Along Flagella", J. Exp. Biol.
35, 796806 (1958).
 H.A. Stone and A.D.T. Samuel, "Propulsion of
Microorganisms by Surface Distortions", Phys. Rev. Lett. 77, 41024104 (1996).
 C.H. Wiggins and R.E. Goldstein,
"Flexive and Propulsive Dynamics of
Elastica at Low Reynolds Number", Phys. Rev. Lett. 80, 38793882 (1998).
 S. Camalet, F. Jülicher, and J. Prost,
"SelfOrganized Beating and Swimming of
Internally Driven Filaments", Phys. Rev. Lett. 82, 15901593 (1999).
 T.S. Yu, E. Lauga, and A.I. Hosoi,
"Experimental Investigations of Elastic Tail
Propulsion at low Reynolds Number", Phys. Fluids 18, 091701 (2006).
 K. Drescher, R.E. Goldstein, N. Michel, M. Polin,
and I. Tuval, "Direct Measurement of the Flow Field Around
Swimming Microorganisms", Phys. Rev. Lett. 105, 168101 (2010).
 J.S. Guasto, K.A. Johnson, and
J.P. Gollub, "Oscillatory Flow Induced by Microorganisms
Swimming in Two Dimensions", Phys. Rev. Lett. 105, 168102 (2010).
 K. Drescher, R.E. Goldstein, and I. Tuval,
"Fidelity of Adaptive Phototaxis", Proc. Natl. Acad. Sci. USA 107, 1117111176 (2010).
 K. Drescher, J. Dünkel, L.H. Cisneros, S. Ganguly,
and R.E. Goldstein, "Fluid Dynamics and Noise in Bacterial CellCell and CellSurface Scattering",
Proc. Natl. Acad. Sci. USA 108, 1094010945 (2011).
Flagellar Synchronization
 M. Kim, J.C. Bird, A.J. Van Parys, K.S. Breuer, and
T.R. Powers, "A Macroscopic Scale Model of Bacterial Flagellar Bundling",
Proc. Natl. Acad. Sci. USA 100, 1548115485 (2003).
 M. Kim and T.R. Powers, "Hydrodynamic Interactions
Between Rotating Helices," Phys. Rev. E 69, 061910 (2004).
 M. Reichert and H. Stark, "Synchronization of
Rotating Helices by Hydrodynamic Interactions," Eur. Phys. J. 17, 493500 (2005).
 T. Niedermayer, B. Eckhardt, and P. Lenz,
"Synchronization, phase locking, and metachronal wave formation in ciliary chains," Chaos
18, 037128 (2008).
 B. Qian, H. Jiang, D.A. Gagnon, K.S. Breuer, and
T.R. Powers, "Minimal model for synchronization induced by hydrodynamic interactions,"
Phys. Rev. E 80, 061919 (2009).
 M. Polin, I. Tuval, K. Drescher, J.P. Gollub, and
R.E. Goldstein, "Chlamydomonas Swims with Two `Gears' in a Eukaryotic Version of
RunandTumble Locomotion", Science 325, 487490 (2009).
 R.E. Goldstein, I. Tuval, and M. Polin, "Noise
and Synchronization in Pairs of Beating Eukaryotic Flagella", Phys. Rev. Lett. 103,
168103 (2009).
 N. Uchida and R. Golestanian,
"Synchronization and Collective Dynamics in a Carpet of Microfluidic Rotors," Phys. Rev. Lett.
104, 178103 ().
 R.E. Goldstein, I. Tuval, and M. Polin,
"Emergence of Synchronized Beating During the Regrowth of Eukaryotic Flagella",
Phys. Rev. Lett. 107, 148103 (2011).
 N. Uchida and R. Golestanian, "Generic
Conditions for Hydrodynamic Synchronization," Phys. Rev. Lett. 106, 058104 (2011).
Swimmers and Transport
 A. Acrivos and T.D. Taylor, "Heat and Mass Transfer From
Single Spheres in Stokes Flow," Phys. Fluids 5, 387394 (1962).
 H.C. Berg and E.M. Purcell, "Physics of chemoreception,"
Biophys. J. 20, 193219 (1977).
 V. Magar, T. Goto, and T.J. Pedley, "Nutrient Uptake
by a SelfPropelled Steady Squirmer," Q. J. Mech. Appl. Math. 56, 6591 (2003).
 M.B. Short, C.A. Solari, S. Ganguly, T.R. Powers,
J.O. Kessler, and R.E. Goldstein, "Flows Driven by Flagella of Multicellular Organisms Enhance
LongRange Molecular Transport," Proc. Natl. Acad. Sci. USA 103, 83158319 (2006).
Collective Behaviour
 S. Childress, M. Levandowsky, and
E.A. Spiegel, "Pattern Formation in a Suspension of Swimming Microorganisms: Equations and
Stability Theory," J. Fluid Mech. 63, 591613 (1975).
 A.J. Hillesdon, T.J. Pedley, and
J.O. Kessler, "The Development of Concentration Gradients in a Suspension of Chemotactic Bacteria,"
Bull. Math. Bio. 57, 299344 (1995).
 X.L. Wu and A. Libchaber, "Particle Diffusion in a
QuasiTwoDimensional Bacterial Bath," Phys. Rev. Lett. 84, 30173020 (2000).
 R.A. Simha and S. Ramaswamy, "Hydrodynamic
Fluctuations and Instabilities in Ordered Suspensions," Phys. Rev. Lett. 89,
058101 (2002).
 Y. Hatwalne, S. Ramaswamy, M. Rao, and R.A. Simha,
"Rheology of ActiveParticle Suspensions," Phys. Rev. Lett. 92, 118101.
 C. Dombrowski, L. Cisneros, S. Chatkaew,
R.E. Goldstein, and J.O. Kessler, "SelfConcentration and LargeScale Coherence in Bacterial Dynamics,"
Phys. Rev. Lett. 93, 098103 (2004).
 J.P. HernandezOrtiz, C.G. Stoltz, and
M.D. Graham, "Transport and Collective Dynamics in Suspensions of Confined Swimming Particles ,"
Phys. Rev. Lett. 95, 204501 (2005).
 I. Tuval, L. Cisneros, C. Dombrowski, C.W. Wolgemuth,
J.O. Kessler, and R.E. Goldstein, "Bacterial Swimming and Oxygen Transport Near Contact Lines,"
Proc. Natl. Acad. Sci. USA 102, 22722282 (2005).
 D. Saintillan and M.J. Shelley,
"Orientational Orer and Instabilities in Suspensions of SelfLocomoting Rods,"
Phys. Rev. Lett. 99, 058102 (2007).
 D. Saintillan and M.J. Shelley,
"Instabilities and Pattern Formation in Active Particle Suspensions: Kinetic Theory and
Continuum Simulations",
Phys. Rev. Lett. 100, 178103 (2008).
 K.C. Leptos, J.S. Guasto, J.P. Gollub, A.I. Pesci,
and R.E. Goldstein, "Dynamics of Enhanced Tracer Diffusion in Suspensions of Swimming
Eukaryotic Microorganisms", Phys. Rev. Lett. 103, 198103 (2009).
 I. Rushkin, V. Kantsler, and Raymond E.
Goldstein, "Fluid Velocity Fluctuations in a Suspension of Swimming Protists",
Phys. Rev. Lett. 105, 188101 (2010).
 H. Kurtuldu, J.S. Guasto, K.A. Johnson,
and J.P. Gollub, "Enhancement of Biomixing by Swimming Algal Cells in TwoDimensional Films",
Proc. Natl. Acad. Sci. USA 108 1039110395 (2011).
Cytoplasmic Streaming and Related Phenomena
 T. Shimmen, "The Sliding Theory of Cytoplasmic
Streaming: Fifty Years of Progress", J. Plant Res. 120, 3143 (2007).
 E.A. Nothnagel and W.W. WEbb,
"Hydrodynamic Models of Viscous Coupling Between Motile Myosin and Endoplasm in
Characean Algae", J. Cell Biol. 94, 444454 (1982).
 P.W. Hochachka, "The metabolic implications of
intracellular circulation", Proc. Natl. Acad. Sci. USA 96, 1223312239 (1999).
 W.F. Pickard, "The Role of Cytoplasmic Streaming
in Symplastic Transport", Plant Cell Env. 26, 115 (2003).
 W.F. Pickard, "Absorption by a Moving Spherical
Organelle in a Heterogeneous Cytoplasm: Implications for the Role of Trafficking in a
Symplast", J. Theor. Biol. 240, 288301 (2006).
 R.E. Goldstein, I. Tuval, and
J.W. van de Meent, "Microfluidics of Cytoplasmic Streaming and its Implications for
Intracellular Transport", Proc. Natl. Acad. Sci. USA 105, 36633667 (2008).
 J.W. van de Meent, I. Tuval,
and R.E. Goldstein, "Nature's Microfluidic Transporter: Rotational Cytoplasmic Streaming at
High Péclet Numbers", Phys. Rev. Lett. 101, 178102 (2008).
 J.W. van de Meent, A.J. Sederman, L.F. Gladden,
and R.E. Goldstein, "Measurement of Cytoplasmic Streaming in Single Plant Cells by
Magnetic Resonance Velocimetry", J. Fluid Mech. 642, 514 (2010).
 Y.N. Young and M.J. Shelley,
"StretchCoil Transition and Transport of Fibers in Cellular Flows",
Phys. Rev. Lett. 99, 058303 (2007).
 V. Kantsler and R.E. Goldstein,
"Fluctuations, Dynamics, and the StretchCoil Transition of Single Actin Filaments in
Extensional Flows", Phys. Rev. Lett. 108, 038103 (2012).
 C. Vèzy, G. Massiera, and A. Viallat,
"Adhesion Induced NonPlanar and Asynchronous Flow of a Giant Vesicle Membrane in an External Shear Flow",
Soft Matter 3, 844851 (2007).
 F.G. Woodhouse and R.E. Goldstein,
"ShearDriven Circulation Patterns in Lipid Membrane Vesicles", J. Fluid Mech. 705, 165175 (2012).
