Dynamics of Arabidopsis thaliana soluble proteome in response to different nutrient culture conditions

In an effort to determine the best extraction procedure compatible with the high-reproducible 2-DE, different methods of soluble protein extraction from Arabidopsis cell culture suspensions grown in Gamborg B5 medium were tested. A reference 2-DE map was established for this soluble extract revealing 1184 spots. The most abundant protein spots were excised, trypsin-digested, and mass spectra obtained via MALDI-TOF and/or LC coupled to ESI-MS. Three hundred and thirty one proteins were identified and their functions were defined based on sequence comparisons and classified in different protein families. In order to analyze the impact of culture medium on the Arabidopsis proteome, we performed the 2-DE map from Arabidopsis cell suspensions cultured in another growth medium Murashige and Skoog (M-S) and 327 major spots were identified. Using PDQuest imaging analysis, significant increases in the amount of several housekeeping enzymes, stress/defense proteins, and heat shock proteins were found in M-S medium. Modified expression of certain proteins and detection of new isoforms involved in nitrate assimilation, nitrogen, and sulfur metabolism were also observed in the M-S medium. This study provides the first 2-DE maps of the soluble proteome of Arabidopsis cell suspensions. The comparative analysis of the Arabidopsis proteome in respect to different nutrient supplies shows that the culture medium may significantly influence the expression pattern of major soluble proteins in Arabidopsis cells. This work also constitutes an important step for further proteomic analysis concerning cell responses to abiotic or biotic stresses.     

The zeta potential of kaolin suspensions measured by electrophoresis and electroacoustics

The zeta potentials of kaolin dilute and concentrated suspensions were monitored using the techniques of electrophoresis and electroacoustics, respectively. The effect of addition of salt (KCl), a polymer material (Triton X-100), and an anionic surfactant (sodium dodecyl sulphate, SDS) on the suspension properties was investigated by electrophoresis. Electroacoustics was employed for the measurement of zeta potentials for the highest possible kaolin content in suspension and the effect of dilution. The effect of aging of a freshly prepared sample and kaolin isoelectric point was also studied. Using both techniques it was noted that there was no isoelectric point, just a maximum value in the magnitude of the kaolin suspension zeta potential. These maxima were observed also in the presence of Triton X-100 and SDS. An increase of the concentration of KCl and SDS in suspension shifted the maxima towards more acidic values, while in the presence of Triton X-100 the position of the zeta potential maxima remained constant. Electroacoustic techniques revealed that a freshly prepared concentrated suspension requires about six hours to equilibrate to achieve a steady zeta potential. Diluting the concentrated suspensions led to decrease of the zeta potential as ions bound to the surface desorbed and screened the surface charge. The zeta potential maxima remained unchanged even after heating the powder in an oven at 200°C (to remove any organic material) thereby suggesting that the most likely explanation for the maxima is isomorphic substitution.     

Lattice Boltzmann simulation of solid particles suspended in fluid

The lattice Boltzmann method, an alternative approach to solving a fluid flow system, is used to analyze the dynamics of particles suspended in fluid. The interaction rule between the fluid and the suspended particles is developed for real suspensions where the particle boundaries are treated as no-slip impermeable surfaces. This method correctly and accurately determines the dynamics of single particles and multi-particles suspended in the fluid. With this method, computational time scales linearly with the number of suspensions,N, a significant advantage over other computational techniques which solve the continuum mechanics equations, where the computational time scales asN ³. Also, this method solves the full momentum equations, including the inertia terms, and therefore is not limited to low particle Reynolds number.     

Lattice-Boltzmann Simulations of Particle-Fluid Suspensions

This paper reviews applications of the lattice-Boltzmann method to simulations of particle-fluid suspensions. We first summarize the available simulation methods for colloidal suspensions together with some of the important applications of these methods, and then describe results from lattice-gas and lattice-Boltzmann simulations in more detail. The remainder of the paper is an update of previously published work,^{(69, 70)} taking into account recent research by ourselves and other groups. We describe a lattice-Boltzmann model that can take proper account of density fluctuations in the fluid, which may be important in describing the short-time dynamics of colloidal particles. We then derive macro-dynamical equations for a collision operator with separate shear and bulk viscosities, via the usual multi-time-scale expansion. A careful examination of the second-order equations shows that inclusion of an external force, such as a pressure gradient, requires terms that depend on the eigenvalues of the collision operator. Alternatively, the momentum density must be redefined to include a contribution from the external force. Next, we summarize recent innovations and give a few numerical examples to illustrate critical issues. Finally, we derive the equations for a lattice-Boltzmann model that includes transverse and longitudinal fluctuations in momentum. The model leads to a discrete version of the Green–Kubo relations for the shear and bulk viscosity, which agree with the viscosities obtained from the macro-dynamical analysis. We believe that inclusion of longitudinal fluctuations will improve the equipartition of energy in lattice-Boltzmann simulations of colloidal suspensions.     

Investigation of the rheological properties of short glass fiber-filled polypropylene in extensional flow

The behavior of short glass fiber–polypropylene suspensions in extensional flow was investigated using three different commercial instruments: the SER wind-up drums geometry (Extensional Rheology System) with a strain-controlled rotational rheometer, a Meissner-type rheometer (RME), and the Rheotens. Results from uniaxial tensile testing have been compared with data previously obtained using a planar slit die with a hyperbolic entrance. The effect of three initial fiber orientations was investigated: planar random, fully aligned in the stretching flow direction and perpendicular to it. The elongational viscosity increased with fiber content and was larger for fibers initially oriented in the stretching direction. The behavior at low elongational rates showed differences among the various experimental setups, which are partly explained by preshearing history and nonhomogenous strain rates. However, at moderate and high rates, the results are comparable, and the behavior is strain thinning. Finally, a new constitutive equation for fibers suspended into a fluid obeying the Carreau model is used to predict the elongational viscosity, and the predictions are in good agreement with the experimental data.     

Microstructural transition in an ordered set of magnetic spheres immersed in a carrier liquid

This work explores the physics of an ordered set of interacting spheres immersed in a carrier liquid. We present numerical simulations that compute the translational and rotational motion of N interacting spheres based on classical principles of Stokesian dynamics. The spheres are assumed to be made of a magnetizable material, subjected to magnetic and hydrodynamic long range interactions. We explore structure transition using a Lagragian approach of a continuum volume of fluid containing micrometric magnetic particles. We present local maps of particle volume fraction within the calculation Lattice. In this condition, considering the presence and absence of an applied magnetic field, instantaneous snapshots of the local microstructure are taken. Thus, different possibilities of long range interactions are considered. We also complement these results with meaningful statistics of time series obtained through our simulations, such as the correlation time of velocity fluctuations and their self-correlation functions. The data analyzed in the present work sustain the fact that initially ordered neutrally buoyant suspensions have an anisotropic memory-like behavior in the direction of an applied field. It is also observed that particles tend to form small isotropic clusters in the absence of an external field. However, hydrodynamic interactions tend to disperse the particulate phase, avoiding the formation of clusters. This finding suggests that hydrodynamic interactions may play a relevant role on the magnetization dynamics of ferrofluids.     

Orientation distribution of fibers and rheological property in fiber suspensions flowing in a turbulent boundary layer

A model relating the translational and rotational transport of orientation distribution function （ODF） of fibers to the gradient of mean ODF and the dispersion coefficients is proposed to derive the mean equation for the ODE Then the ODF of fibers is predicted by numerically solving the mean equation for the ODF together with the equations of turbulent boundary layer flow. Finally the shear stress and first normal stress difference of fiber suspensions are obtained. The results, some of which agree with the available relevant experimental data, show that the most fibers tend to orient to the flow direction. The fiber aspect ratio and Reynolds number have significant and negligible effects on the orientation dis- tribution of fibers, respectively. The additional normal stress due to the presence of fibers is anisotropic. The shear stress of fiber suspension is larger than that of Newtonian solvent, and the first normal stress difference is much less than the shear stress. Both the additional shear stress and the first normal stress difference increase with increasing the fiber concentration and decreasing fiber aspect ratio.     

Head on collision of a planar shock wave with a dusty gas layer

The head-on collision of a planar shock wave with a dust-air suspension is studied numerically. In this study the suspension is placed inside a conduit adjacent to its rigid end-wall. It is shown that as a result of this collision two different types of transmitted shock waves are possible, depending on the strength of the incident shock wave and the dust loading ratio in the suspension. One possibility is a partially dispersed shock wave, the other is a compression wave. The flow fields resulting in these two options are investigated. It is shown that in both cases, at late times after the head-on reflection of the transmitted shock wave from the conduit end-wall a negative flow (away from the end-wall) is evident. The observed flow behavior may suggest a kind of dust particle lifting mechanism that could shed new light on the complex phenomenon of dust entrainment behind sliding shock waves.      

Simulations of thixotropic liquids

In thixotropic liquids the rheological properties depend on the liquid’s deformation history. Clay suspensions (as encountered in oil sands mining) are a prominent example. Activated clay particles form a network. As a consequence of (ionic) transport limitations, the network is not an instantaneous feature; it takes time to build up, and also to break down, the latter as a result of deformation in the liquid. In this paper a procedure for detailed simulations of flow of viscous thixotropic liquids is outlined. The local viscosity of the liquid relates to the level of integrity of the network. The time-dependence of the liquid’s rheology is due to the finite rate with which the network in the liquid builds up or breaks down. This concept has been incorporated in a lattice-Boltzmann discretization of the flow equations. With this methodology the way thixotropic liquids are mobilized in mixing tanks and the drag force experienced by dense assemblies of coarse particles (e.g. sand) in thixotropic liquids have been studied.     

电流变液体黏性变化趋势的试验研究

以微观试验和流变性能试验为手段,分别研究零电场下和在电场作用下的电流变液体黏性变化规律．研究结果表明：零电场下电流变液体的黏性与Krieger-Dougherty公式具有很好的拟合效果,其中逾渗临界值强依赖于悬浮液体中固体颗粒的性质并随工作温度变化．在电场作用下,电流变悬浮液体的黏度随剪切速率的变化规律分为3个阶段：即呈线性的启动段、非线性的幂定律模型流动段和宾汉模型流动段．研究结果为电流变效应工程应用提供依据．