Thermodynamic properties and bulk viscosity near phase transition in the Z(2) and O(4) models

We investigate the thermodynamic properties including equation of state, the trace anomaly, the sound velocity and the specific heat, as well as transport properties like bulk viscosity in the Z(2) and O(4) models in the Hartree approximation of Cornwall-Jackiw-Tomboulis (CJT) formalism. We study these properties in different cases, e.g. first order phase transition, second order phase transition, crossover and the case without phase transition, and discuss the correlation between the bulk viscosity and the thermodynamic properties of the system. We find that the bulk viscosity over entropy density ratio exhibits an upward cusp at the second order phase transition, and a sharp peak at the 1st order phase transition. However, this peak becomes smooth or disappears in the case of crossover. This indicates that at RHIC, where there is no real phase transition and the system experiences a crossover, the bulk viscosity over entropy density might be small, and it will not affect too much on hadronization. We also suggest that the bulk viscosity over entropy density ratio is a better quantity than the shear viscosity over entropy density ratio to locate the critical endpoint.Comment: 19 pages, 30 figures, 1 tabl

Chiral selection and frequency response of spiral waves in reaction-diffusion systems under a chiral electric field

Chirality is one of the most fundamental properties of many physical, chemical and biological systems. However, the mechanisms underlying the onset and control of chiral symmetry are largely understudied. We investigate possibility of chirality control in a chemical excitable system (the BZ reaction) by application of a chiral (rotating) electric field using the Oregonator model. We find that unlike previous findings, we can achieve the chirality control not only in the field rotation direction, but also opposite to it, depending on the field rotation frequency. To unravel the mechanism, we further develop a comprehensive theory of frequency synchronization based on the response function approach. We find that this problem can be described by the Adler equation and show phase-locking phenomena, known as the Arnold tongue. Our theoretical predictions are in good quantitative agreement with the numerical simulations and provide a solid basis for chirality control in excitable media.Comment: 21 pages with 9 figures; update references; to appear in J. Chem. Phy

Aspect ratio dependence of heat transport by turbulent Rayleigh-B\'{e}nard convection in rectangular cells

We report high-precision measurements of the Nusselt number $Nu$ as a function of the Rayleigh number $Ra$ in water-filled rectangular Rayleigh-B\'{e}nard convection cells. The horizontal length $L$ and width $W$ of the cells are 50.0 cm and 15.0 cm, respectively, and the heights $H=49.9$, 25.0, 12.5, 6.9, 3.5, and 2.4 cm, corresponding to the aspect ratios $(\Gamma_x\equiv L/H,\Gamma_y\equiv W/H)=(1,0.3)$, $(2,0.6)$, $(4,1.2)$, $(7.3,2.2)$, $(14.3,4.3)$, and $(20.8,6.3)$. The measurements were carried out over the Rayleigh number range $6\times10^5\lesssim Ra\lesssim10^{11}$ and the Prandtl number range $5.2\lesssim Pr\lesssim7$. Our results show that for rectangular geometry turbulent heat transport is independent of the cells' aspect ratios and hence is insensitive to the nature and structures of the large-scale mean flows of the system. This is slightly different from the observations in cylindrical cells where $Nu$ is found to be in general a decreasing function of $\Gamma$, at least for $\Gamma=1$ and larger. Such a difference is probably a manifestation of the finite plate conductivity effect. Corrections for the influence of the finite conductivity of the top and bottom plates are made to obtain the estimates of $Nu_{\infty}$ for plates with perfect conductivity. The local scaling exponents $\beta_l$ of $Nu_{\infty}\sim Ra^{\beta_l}$ are calculated and found to increase from 0.243 at $Ra\simeq9\times10^5$ to 0.327 at $Ra\simeq4\times10^{10}$.Comment: 15 pages, 7 figures, Accepted by Journal of Fluid Mechanic

Type III Secretion System of Phytopathogenic Bacterium Pseudomonas syringae : From Gene to Function

The type III secretion system (T3SS) is an essential requirement for the virulence of many Gram-negative bacteria which infect plants, animals and men. Pathogens use the T3SS to deliver effector proteins from the bacterial cytoplasm to the eukaryotic host cells, where the effectors subvert host defenses. The best candidates for directing effector protein traffic are the bacterial type III-associated appendages, called needles or pili. In plant pathogenic bacteria, the best characterized example of a T3SS-associated appendage is the HrpA pilus of the plant pathogen Pseudomonas syringae pv. tomato DC3000. The components of the T3SS in plant pathogens are encoded by a cluster of hrp (hypersensitive reaction and pathogenicity) genes. Two major classes of T3SS-secreted proteins are: harpin proteins such as HrpZ which are exported into extracellular space, and avirulence (Avr) proteins such as AvrPto which are translocated directly to the plant cytoplasm. This study deals with the structural and functional characterization of the T3SS-associated HrpA pilus and the T3SS-secreted harpins. By insertional mutagenesis analysis of HrpA, we located the optimal epitope insertion site in the amino-terminus of HrpA, and revealed the potential application of the HrpA pilus as a carrier of antigenic determinants for vaccination. By pulse-expression of proteins combined with immuno-electron microscopy, we discovered the Hrp pilus assembly strategy as addition of HrpA subunits to the distal end of the growing pilus, and we showed for the first time that secretion of HrpZ occurs at the tip of the pilus. The pilus thus functions as a conduit delivering proteins to the extracellular milieu. By using phage-display and scanning-insertion mutagenesis methods we identified a conserved HrpZ-binding peptide and localized the peptide-binding site to the central domain of HrpZ. We also found that the HrpZ specifically interacts with a host bean protein. Taken together, the current results provide deeper insight into the molecular mechanism of T3SS-associated pilus assembly and effector protein translocation, which will be helpful for further studies on the pathogenic mechanisms of Gram-negative bacteria and for developing new strategies to prevent bacterial infection

Activation of extracellular signal-regulated protein kinase 5 is essential for cystitis- and nerve growth factor-induced calcitonin gene-related peptide expression in sensory neurons

Background Cystitis causes considerable neuronal plasticity in the primary afferent pathways. The molecular mechanism and signal transduction underlying cross talk between the inflamed urinary bladder and sensory sensitization has not been investigated. Results In a rat cystitis model induced by cyclophosphamide (CYP) for 48 h, the mRNA and protein levels of the excitatory neurotransmitter calcitonin gene-related peptide (CGRP) are increased in the L6 dorsal root ganglia (DRG) in response to bladder inflammation. Cystitis-induced CGRP expression in L6 DRG is triggered by endogenous nerve growth factor (NGF) because neutralization of NGF with a specific NGF antibody reverses CGRP up-regulation during cystitis. CGRP expression in the L6 DRG neurons is also enhanced by retrograde NGF signaling when NGF is applied to the nerve terminals of the ganglion-nerve two-compartmented preparation. Characterization of the signaling pathways in cystitis- or NGF-induced CGRP expression reveals that the activation (phosphorylation) of extracellular signal-regulated protein kinase (ERK)5 but not Akt is involved. In L6 DRG during cystitis, CGRP is co-localized with phospho-ERK5 but not phospho-Akt. NGF-evoked CGRP up-regulation is also blocked by inhibition of the MEK/ERK pathway with specific MEK inhibitors U0126 and PD98059, but not by inhibition of the PI3K/Akt pathway with inhibitor LY294002. Further examination shows that cystitis-induced cAMP-responsive element binding protein (CREB) activity is expressed in CGRP bladder afferent neurons and is co-localized with phospho-ERK5 but not phospho-Akt. Blockade of NGF action in vivo reduces the number of DRG neurons co-expressing CGRP and phospho-CREB, and reverses cystitis-induced increases in micturition frequency. Conclusions A specific pathway involving NGF-ERK5-CREB axis plays an essential role in cystitis-induced sensory activation

Experimental Investigation of Longitudinal Space-Time Correlations of the Velocity Field in Turbulent Rayleigh-B\'{e}nard Convection

We report an experimental investigation of the longitudinal space-time cross-correlation function of the velocity field, $C(r,\tau)$, in a cylindrical turbulent Rayleigh-B\'{e}nard convection cell using the particle image velocimetry (PIV) technique. We show that while the Taylor's frozen-flow hypothesis does not hold in turbulent thermal convection, the recent elliptic model advanced for turbulent shear flows [He & Zhang, \emph{Phys. Rev. E} \textbf{73}, 055303(R) (2006)] is valid for the present velocity field for all over the cell, i.e., the isocorrelation contours of the measured $C(r,\tau)$ have a shape of elliptical curves and hence $C(r,\tau)$ can be related to $C(r_E,0)$ via $r_E^2=(r-\beta\tau)^2+\gamma^2\tau^2$ with $\beta$ and $\gamma$ being two characteristic velocities. We further show that the fitted $\beta$ is proportional to the mean velocity of the flow, but the values of $\gamma$ are larger than the theoretical predictions. Specifically, we focus on two representative regions in the cell: the region near the cell sidewall and the cell's central region. It is found that $\beta$ and $\gamma$ are approximately the same near the sidewall, while $\beta\simeq0$ at cell center.Comment: 16 pages, 15 figures, submitted to J. Fluid Mec

Advances in research on personalized venous thromboembolism risk assessment tools

AbstractThis paper describes the definition of venous thromboembolism and introduces to personalized venous thromboembolism risk assessment tools overseas. Thoughts are given on the development, amendment, application and validation of these tools. The paper provides a reference for building personalized venous thromboembolism risk assessment tools in China