抗原变异可使得多种致病微生物易于逃避宿主免疫应答。表达在感染红细胞表面的恶性疟原虫红细胞表面蛋白1（PfPMP1）与感染红细胞、内皮细胞、树突状细胞以及胎盘的单个或多个受体作用，在黏附及免疫逃避中起关键的作用。每个单倍体基因组var基因家族编码约60种成员，通过启动转录不同的var基因变异体为抗原变异提供了分子基础。

疟原虫var基因转换速率变化导致抗原变异[英]／Paul H, Robert P, Christodoulou Z, et al//Proc Natl Acad Sci U S A

A comprehensive review of spatiotemporal pattern formation in systems driven away from equilibrium is presented, with emphasis on comparisons between theory and quantitative experiments. Examples include patterns in hydrodynamic systems such as thermal convection in pure fluids and binary mixtures, Taylor-Couette flow, parametric-wave instabilities, as well as patterns in solidification fronts, nonlinear optics, oscillatory chemical reactions and excitable biological media. The theoretical starting point is usually a set of deterministic equations of motion, typically in the form of nonlinear partial differential equations. These are sometimes supplemented by stochastic terms representing thermal or instrumental noise, but for macroscopic systems and carefully designed experiments the stochastic forces are often negligible. An aim of theory is to describe solutions of the deterministic equations that are likely to be reached starting from typical initial conditions and to persist at long times. A unified description is developed, based on the linear instabilities of a homogeneous state, which leads naturally to a classification of patterns in terms of the characteristic wave vector q0 and frequency ω0 of the instability. Type Is systems (ω0=0, q0≠0) are stationary in time and periodic in space; type IIIo systems (ω0≠0, q0=0) are periodic in time and uniform in space; and type Io systems (ω0≠0, q0≠0) are periodic in both space and time. Near a continuous (or supercritical) instability, the dynamics may be accurately described via "amplitude equations," whose form is universal for each type of instability. The specifics of each system enter only through the nonuniversal coefficients. Far from the instability threshold a different universal description known as the "phase equation" may be derived, but it is restricted to slow distortions of an ideal pattern. For many systems appropriate starting equations are either not known or too complicated to analyze conveniently. It is thus useful to introduce phenomenological order-parameter models, which lead to the correct amplitude equations near threshold, and which may be solved analytically or numerically in the nonlinear regime away from the instability. The above theoretical methods are useful in analyzing "real pattern effects" such as the influence of external boundaries, or the formation and dynamics of defects in ideal structures. An important element in nonequilibrium systems is the appearance of deterministic chaos. A greal deal is known about systems with a small number of degrees of freedom displaying "temporal chaos," where the structure of the phase space can be analyzed in detail. For spatially extended systems with many degrees of freedom, on the other hand, one is dealing with spatiotemporal chaos and appropriate methods of analysis need to be developed. In addition to the general features of nonequilibrium pattern formation discussed above, detailed reviews of theoretical and experimental work on many specific systems are presented. These include Rayleigh-Benard convection in a pure fluid, convection in binary-fluid mixtures, electrohydrodynamic convection in nematic liquid crystals, Taylor-Couette flow between rotating cylinders, parametric surface waves, patterns in certain open flow systems, oscillatory chemical reactions, static and dynamic patterns in biological media, crystallization fronts, and patterns in nonlinear optics. A concluding section summarizes what has and has not been accomplished, and attempts to assess the prospects for the future.

/pdf/pattern-formation-outside-of-equilibrium-1601b9znum.pdf

Pattern formation outside of equilibrium

N G van Kampen 1981 Amsterdam: North-Holland xiv + 419 pp price Dfl 180 This is a book which, at a lower price, could be expected to become an essential part of the library of every physical scientist concerned with problems involving fluctuations and stochastic processes, as well as those who just enjoy a beautifully written book. It provides an extensive graduate-level introduction which is clear, cautious, interesting and readable.

https://iopscience.iop.org/article/10.1088/0031-9112/34/4/040/pdf

Stochastic Processes in Physics and Chemistry

Bose-Einstein condensation (BEC) has been observed in a dilute gas of sodium atoms. A Bose-Einstein condensate consists of a macroscopic population of the ground state of the system, and is a coherent state of matter. In an ideal gas, this phase transition is purely quantum-statistical. The study of BEC in weakly interacting systems which can be controlled and observed with precision holds the promise of revealing new macroscopic quantum phenomena that can be understood from first principles.

Bose-Einstein condensation in a gas of sodium atoms

Monthly Notices is one of the three largest general primary astronomical research publications. It is an international journal, published by the Royal Astronomical Society. This article 1 describes its publication policy and practice.

Monthly Notices of the Royal Astronomical Society

The dynamics of both the inviscid and viscous Taylor–Green (TG) three-dimensional vortex flows are investigated. This flow is perhaps the simplest system in which one can study the generation of small scales by three-dimensional vortex stretching and the resulting turbulence. The problem is studied by both direct spectral numerical solution of the Navier–Stokes equations (with up to 256 3 modes) and by power-series analysis in time. The inviscid dynamics are strongly influenced by symmetries which confine the flow to an impermeable box with stress-free boundaries. There is an early stage during which the flow is strongly anisotropic with well-organized (laminar) small-scale excitation in the form of vortex sheets located near the walls of this box. The flow is smooth but has complex-space singularities within a distance $\hat{\delta}(t)$ of real (physical) space which give rise to an exponential tail in the energy spectrum. It is found that $\hat{\delta}(t)$ decreases exponentially in time to the limit of our resolution. Indirect evidence is presented that more violent vortex stretching takes place at later times, possibly leading to a real singularity ( $\hat{\delta}(t) = 0$ ) at a finite time. These direct integration results are consistent with new temporal power-series results that extend the Morf, Orszag & Frisch (1980) analysis from order t 44 to order t 80 . Still, convincing evidence for or against the existence of a real singularity will require even more sophisticated analysis. The viscous dynamics (decay) have been studied for Reynolds numbers R (based on an integral scale) up to 3000 and beyond the time t max at which the maximum energy dissipation is achieved. Early-time, high- R dynamics are essentially inviscid and laminar. The inviscidly formed vortex sheets are observed to roll up and are then subject to instabilities accompanied by reconnection processes which make the flow increasingly chaotic (turbulent) with extended high-vorticity patches appearing away from the impermeable walls. Near t max the small scales of the flow are nearly isotropic provided that R [gsim ] 1000. Various features characteristic of fully developed turbulence are observed near t max when R = 3000 and R λ = 110:
 a k − n inertial range in the energy spectrum is obtained with n ≈ 1.6–2.2 (in contrast with a much steeper spectrum at earlier times); th energy dissipation has considerable spatial intermittency; its spectrum has a k −1+μ inertial range with the codimension μ ≈ 0.3−0.7. Skewness and flatness results are also presented.

Small-scale structure of the Taylor–Green vortex

A simple global characterization for normal forms of singular vector fields

Cavitation in a liquid seeded with bubbles is used as a new visualization technique to single out the regions of very low pressure of a fully developed turbulent flow. By this means, the sudden appearance of high vorticity filaments is observed. These structures are very thin and short lived and display a high degree of temporal as well as spatial intermittency. They contribute to the flow organization: In particular their disintegration corresponds to the formation of large eddies.

Direct observation of the intermittency of intense vorticity filaments in turbulence.

The three-dimensional stability of two-dimensional vortical states of planar mixing layers is studied by direct numerical integration of the Navier-Stokes equations. Small-scale instabilities are shown to exist for spanwise scales at which classical linear modes are stable. These modes grow on convective timescales, extract their energy from the mean flow and exist at moderately low Reynolds numbers. Their growth rates are comparable with the most rapidly growing inviscid instability and with the growth rates of two-dimensional subharmonic (pairing) modes. At high amplitudes, they can evolve into pairs of counter-rotating, streamwise vortices, connecting the primary spanwise vortices, which are very similar to the structures observed in laboratory experiments. The three-dimensional modes do not appear to saturate in quasi-steady states as do the purely two-dimensional fundamental and subharmonic modes in the absence of pairing. The subsequent evolution of the flow depends on the relative amplitudes of the pairing modes. Persistent pairings can inhibit threedimensional instability and, hence, keep the flow predominantly two-dimensional. Conversely, suppression of the pairing process can drive the three-dimensional modes to more chaotic, turbulent-like states. An analysis of high-resolution simulations of fully turbulent mixing layers confirms the existence of rib-like structures and that their coherence depends strongly on the presence of the two-dimensional pairing modes.

https://www.cambridge.org/core/services/aop-cambridge-core/content/view/S0022112087002866

Secondary instability of a temporally growing mixing layer

Low-temperature decaying superfluid turbulence is studied using the nonlinear Schr\"odinger equation in the geometry of the Taylor-Green (TG) vortex flow with resolutions up to ${512}^{3}$. The rate of (irreversible) kinetic energy transfer in the superfluid TG vortex is found to be comparable to that of the viscous TG vortex. At the moment of maximum dissipation, the energy spectrum of the superflow has an inertial range compatible with Kolmogorov's scaling. Physical-space visualizations show that the vorticity dynamics of the superflow is similar to that of the viscous flow, including vortex reconnection. The implications to experiments in low-temperature helium are discussed.

Marc Brachet

Papers

Small-scale structure of the Taylor–Green vortex

A simple global characterization for normal forms of singular vector fields

Direct observation of the intermittency of intense vorticity filaments in turbulence.

Secondary instability of a temporally growing mixing layer

Kolmogorov turbulence in low-temperature superflows