This review summarizes theoretical progress in the field of active matter, placing it in the context of recent experiments. This approach offers a unified framework for the mechanical and statistical properties of living matter: biofilaments and molecular motors in vitro or in vivo, collections of motile microorganisms, animal flocks, and chemical or mechanical imitations. A major goal of this review is to integrate several approaches proposed in the literature, from semimicroscopic to phenomenological. In particular, first considered are ``dry'' systems, defined as those where momentum is not conserved due to friction with a substrate or an embedding porous medium. The differences and similarities between two types of orientationally ordered states, the nematic and the polar, are clarified. Next, the active hydrodynamics of suspensions or ``wet'' systems is discussed and the relation with and difference from the dry case, as well as various large-scale instabilities of these nonequilibrium states of matter, are highlighted. Further highlighted are various large-scale instabilities of these nonequilibrium states of matter. Various semimicroscopic derivations of the continuum theory are discussed and connected, highlighting the unifying and generic nature of the continuum model. Throughout the review, the experimental relevance of these theories for describing bacterial swarms and suspensions, the cytoskeleton of living cells, and vibrated granular material is discussed. Promising extensions toward greater realism in specific contexts from cell biology to animal behavior are suggested, and remarks are given on some exotic active-matter analogs. Last, the outlook for a quantitative understanding of active matter, through the interplay of detailed theory with controlled experiments on simplified systems, with living or artificial constituents, is summarized.

Hydrodynamics of soft active matter

This book describes and explains the fundamental physical processes involved in bubble dynamics and the phenomenon of cavitation. It is intended as a combination of a reference book for those scientists and engineers who work with cavitation or bubble dynamics and as a monograph for advanced students interested in some of the basic problems associated with this category of multiphase flows. A basic knowledge of fluid flow and heat transfer is assumed but otherwise the analytical methods presented are developed from basic principles.

The book begins with a chapter on nucleation and describes both the theory and observations of nucleation in flowing and non-flowing systems. The following three chapters provide a systematic treatment of the dynamics of the growth, collapse or oscillation of individual bubbles in otherwise quiescent liquids. Chapter 4 summarizes the state of knowledge of the motion of bubbles in liquids. Chapter 5 describes some of the phenomena which occur in homogeneous bubbly flows with particular emphasis on cloud cavitation and this is followed by a chapter summarizing some of the experiemntal observations of cavitating flows. The last chapter provides a review of the free streamline methods used to treat separated cavity flows with large attached cavities.

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Cavitation and Bubble Dynamics

Cell motility in viscous fluids is ubiquitous and affects many biological processes, including reproduction, infection and the marine life ecosystem. Here we review the biophysical and mechanical principles of locomotion at the small scales relevant to cell swimming, tens of micrometers and below. At this scale, inertia is unimportant and the Reynolds number is small. Our emphasis is on the simple physical picture and fundamental flow physics phenomena in this regime. We first give a brief overview of the mechanisms for swimming motility, and of the basic properties of flows at low Reynolds number, paying special attention to aspects most relevant for swimming such as resistance matrices for solid bodies, flow singularities and kinematic requirements for net translation. Then we review classical theoretical work on cell motility, in particular early calculations of swimming kinematics with prescribed stroke and the application of resistive force theory and slender-body theory to flagellar locomotion. After examining the physical means by which flagella are actuated, we outline areas of active research, including hydrodynamic interactions, biological locomotion in complex fluids, the design of small-scale artificial swimmers and the optimization of locomotion strategies. (Some figures in this article are in colour only in the electronic version) This article was invited by Christoph Schmidt.

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The hydrodynamics of swimming microorganisms

Author(s): Vogel, Alfred; Venugopalan, Vasan | Abstract: The mechanisms of pulsed laser ablation of biological tissues were studied. The transiently empty space created between the fiber tip and the tissue surface improved the optical transmission to the target and thus increased the ablation efficiency. It was found that the structure and morphology also affect the energy transport among tissue constituents.

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Mechanisms of pulsed laser ablation of biological tissues.

D ESIGN CON SID ERATION S . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 253 Bll/ding a Trap . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 253 Beam Steering 254 Trapping Lasers . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 257 T RAPPIN G TH EORY . . . . . . . . . . . . . . . . . . . . . . . . . . .. . . . .. . . . . . . . . . . . ... . . . . 260 Ray-Optics Theory . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 262 Electromagnetic Theory . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 264 F ORCE M EASUREM EN T . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 267 Calibration . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 267 Measurement of Trap Stiffness . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 270 Physics of Trup Stiffness Measurements . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 271 B�ownia,! Motion During Force Measurements . . . . . . . . . . . . . . . . . . . . . . . . . . 272 PlcotenslOmeters 273 Other Applications of Picotensiometry .. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 276 Determinants of Trapping Forces . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 277

Biological applications of optical forces

The subject of multiphase flows encompasses a vast field, a host of different
technological contexts, a wide spectrum of different scales, a broad range of
engineering disciplines and a multitude of different analytical approaches.
Not surprisingly, the number of books dealing with the subject is voluminous.
For the student or researcher in the field of multiphase flow this broad
spectrum presents a problem for the experimental or analytical methodologies
that might be appropriate for his/her interests can be widely scattered
and difficult to find. The aim of the present text is to try to bring much
of this fundamental understanding together into one book and to present
a unifying approach to the fundamental ideas of multiphase flows. Consequently
the book summarizes those fundamental concepts with relevance to
a broad spectrum of multiphase flows. It does not pretend to present a comprehensive
review of the details of any one multiphase flow or technological
context though reference to books providing such reviews is included where
appropriate. This book is targeted at graduate students and researchers at
the cutting edge of investigations into the fundamental nature of multiphase
flows; it is intended as a reference book for the basic methods used in the
treatment of multiphase flows.

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Fundamentals of Multiphase Flow

Since the Annual Review of Fluid Mechanics first published a review on microorganism locomotion by Jahn & Votta (1972) considerable progress has been made in the understanding of both the biological and the fluid-mechanical processes involved not only in microorganism locomotion but also in other fluid systems utilizing cilia. Much of this knowledge and research, which has been built on the solid foundation of the pioneering work of Sir James Gray (1928, 1968) and Sir Geoffrey Taylor (1951, 1952a,b), has been reported extensively elsewhere, particularly by Gray (1928, 1968), Sleigh (1962), Lighthill (1975), and Wu, Brokaw & Brennen (1975). The subject is now sufficiently broad that it precludes any exhaustive treatment in these few pages. Rather, we restrict this review primarily to a summary of present understanding of the low-Reynolds-number flows associated with microorganism propulsion and the hydromechanics of ciliary systems. In this introductory section we wish to put such fluid-mechanical studies in biological perspective. Section 2 outlines the present status of low-Reynolds-number slender-body theory, and we discuss the application of this theory to biological systems in the final sections.

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Fluid Mechanics of Propulsion by Cilia and Flagella

The subject of this monograph is the fluid dynamics of liquid turbomachines, particularly pumps. Rather than attempt a general treatise on turbomachines, we shall focus attention on those special problems and design issues associated with the flow of liquid through a rotating machine. There are two characteristics of a liquid that lead to these special problems, and cause a significantly different set of concerns than would occur in, say, a gas turbine. These are the potential for cavitation and the high density of liquids that enhances the possibility of damaging unsteady flows and forces.

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Hydrodynamics of Pumps

Detailed understanding of flowing granular materials is severly hampered by the deficiencies of present experimental methods. To help increase the information base, a computer simulation has been developed to describe two-dimensional unidirectional flows of inelastic fully rough particles. This paper presents the results of a Couette shear-flow simulation. The results include distributions of velocity, density and granular temperature (a measure of the kinetic energy contained in the random particle motions). The effects of density and shear rate on the granular temperature are explored. Shear and normal forces on the solid walls are compared with experimental and theoretical results. The behaviour of the particles in the simulated flow is examined and assessments are made of the collision angle and velocity distributions. The development of a distinct, 'layered' microstructure is observed in high-density granular flows.

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Christopher E. Brennen

Papers

Cavitation and Bubble Dynamics

Fundamentals of Multiphase Flow

Fluid Mechanics of Propulsion by Cilia and Flagella

Hydrodynamics of Pumps

Computer simulation of granular shear flows