Recombination Models

We review the current status of recombination and coalescence models that have been successfully applied to describe hadronization in heavy ion collisions at RHIC energies. Basic concepts as well as actual implementations of the idea are discussed. We try to evaluate where we stand in our understanding at the moment and what remains to be done in the future.Comment: Plenary Talk at Quark Matter 2004, submitted to J. Phys. G, 8 pages, 3 figure

Measurements of high pTp_{T} identified particles v2v_{2} and v4v_{4} in sNN=200\sqrt{s_{NN}} = 200 GeV Au+Au collisions by PHENIX

The $v_{2}$ and $v_{4}$ of pions, kaons and protons have been measured by PHENIX in 200 GeV Au+Au collisions up to $p_{T}$$\sim$6 GeV/c and 4 GeV/c, respectively. The $v_{4}$ of all these identified particles have been found to scale with the number of constituent quarks and all these particles have a similar $v_{4}$/$v_{2}^{2}$ ratio which is close to 0.9. The scaling behavior of $v_2$ is studied at high-$p_{T}$ and a deviations from the universal scaling is observed for transverse kinetic energy ($K_{ET}/nq$) higher than 1 GeV.Comment: 4 pages, 3 figures, proceedings of 20th International Conference on Ultra-Relativistic Nucleus-Nucleus Collisions: Quark Matter 2008 (QM2008), Jaipur, India, 04-10 Feb 200

Soft Electromagnetic Radiations from Relativistic Heavy Ion Collisions

The production of low mass dileptons and soft photons from thermalized Quark Gluon Plasma (QGP) and hadronic matter in relativistic heavy ion collisions is evaluated. A boost invariant longitudinal and cylindrically symmetric transverse expansion of the systems created in central collision of lead nuclei at CERN SPS, BNL RHIC, and CERN LHC, and undergoing a first order phase transition to hadronic matter is considered. A large production of low mass (M< 0.3 GeV) dileptons, and soft photons (p_T< 0.4 GeV) is seen to emanate from the bremsstrahlung of quarks and pions. We find an increase by a factor of 2--4 in the low mass dilepton and soft photon yield as we move from SPS to RHIC energies, and an increase by an order of magnitude as we move from SPS to LHC energies. Most of the soft radiations are found to originate from pion driven processes at SPS and RHIC energies, while at the LHC energies the quark and the pion driven processes contribute by a similar amount. The study of the transverse mass distribution is seen to provide interesting details of the evolution. We also find a unique universal behaviour for the ratio of M^2 weighted transverse mass distribution for M= 0.1 GeV to that for M= 0.2 and 0.3 GeV, as a function of M_T, for SPS, RHIC, and LHC energies, in the absence of transverse expansion of the system. A deviation from this universal behaviour is seen as a clear indication of the flow.Comment: Revtex fil

Anisotropic flow in Pb+Pb collisions at LHC from the quark gluon string model with parton rearrangement

We present predictions for the pseudorapidity dependence of the azimuthal anisotropy parameters v_1 and v_2 of baryons and inclusive charged hadrons in Pb+Pb collisions at a LHC energy of sqrt(s) = 5.5 TeV applying a microscopic transport model, namely the quark gluon string model (QGSM) which has been recently extended for parton rearrangement and fusion processes. Pb+Pb collisions with impact parameters b = 2.3 fm and b = 8 fm have been simulated in order to investigate additionally the difference between central and semiperipheral configurations. In contrast to v_1(eta) at RHIC, the directed flow of charged hadrons shows a small normal flow alignment. The elliptic flow v_2(eta) turns out to be rather similar in shape for RHIC and LHC conditions, the magnitude however increases about 10-20 % at the LHC, leading to the conclusion that the hydrodynamical limit will be reached.Comment: 6 pages, 4 figures, accepted for publication in Phys. Lett.

Stochastic Growth Equations and Reparametrization Invariance

It is shown that, by imposing reparametrization invariance, one may derive a variety of stochastic equations describing the dynamics of surface growth and identify the physical processes responsible for the various terms. This approach provides a particularly transparent way to obtain continuum growth equations for interfaces. It is straightforward to derive equations which describe the coarse grained evolution of discrete lattice models and analyze their small gradient expansion. In this way, the authors identify the basic mechanisms which lead to the most commonly used growth equations. The advantages of this formulation of growth processes is that it allows one to go beyond the frequently used no-overhang approximation. The reparametrization invariant form also displays explicitly the conservation laws for the specific process and all the symmetries with respect to space-time transformations which are usually lost in the small gradient expansion. Finally, it is observed, that the knowledge of the full equation of motion, beyond the lowest order gradient expansion, might be relevant in problems where the usual perturbative renormalization methods fail.Comment: 42 pages, Revtex, no figures. To appear in Rev. of Mod. Phy

Flavor Production in Pb(160AGeV) on Pb Collisions: Effect of Color Ropes and Hadronic Rescattering

Collective interactions in the preequilibrium quark matter and hadronic resonance gas stage of ultrarelativistic nucleus-nucleus collisions are studied in the framework of the the transport theoretical approach RQMD. The paper reviews string fusion into color ropes and hadronic rescattering which serve as models for these interactions. Hadron production in central Pb(160AGeV) on Pb collisions has been calculated. The changes of the final flavor composition are more pronounced than in previous RQMD studies of light ion induced reactions at 200AGeV. The ratio of created quark pairs $s\bar{s}$/($u\bar{u}$+$d\bar{d}$) is enhanced by a factor of 2.4 in comparison to $pp$ results. Color rope formation increases the initially produced antibaryons to 3 times the value in the `NN mode', but only one quarter of the produced antibaryons survives because of subsequent strong absorption. The differences in the final particle composition for Pb on Pb collisions compared to S induced reactions are attributed to the hadronic resonance gas stage which is baryon-richer and lasts longer.Comment: 60 pages + 11 postscript figures (uuencoded and included

Structural Comparison of Human Mammalian Ste20-Like Kinases

BACKGROUND: The serine/threonine mammalian Ste-20 like kinases (MSTs) are key regulators of apoptosis, cellular proliferation as well as polarization. Deregulation of MSTs has been associated with disease progression in prostate and colorectal cancer. The four human MSTs are regulated differently by C-terminal regions flanking the catalytic domains. PRINCIPAL FINDINGS: We have determined the crystal structure of kinase domain of MST4 in complex with an ATP-mimetic inhibitor. This is the first structure of an inactive conformation of a member of the MST kinase family. Comparison with active structures of MST3 and MST1 revealed a dimeric association of MST4 suggesting an activation loop exchanged mechanism of MST4 auto-activation. Together with a homology model of MST2 we provide a comparative analysis of the kinase domains for all four members of the human MST family. SIGNIFICANCE: The comparative analysis identified new structural features in the MST ATP binding pocket and has also defined the mechanism for autophosphorylation. Both structural features may be further explored for inhibitors design. ENHANCED VERSION: This article can also be viewed as an enhanced version in which the text of the article is integrated with interactive 3D representations and animated transitions. Please note that a web plugin is required to access this enhanced functionality. Instructions for the installation and use of the web plugin are available in Text S1

A Nuclear Localization of the Infectious Haematopoietic Necrosis Virus NV Protein Is Necessary for Optimal Viral Growth

The nonvirion (NV) protein of infectious hematopoietic necrosis virus (IHNV) has been previously reported to be essential for efficient growth and pathogenicity of IHNV. However, little is known about the mechanism by which the NV supports the viral growth. In this study, cellular localization of NV and its role in IHNV growth in host cells was investigated. Through transient transfection in RTG-2 cells of NV fused to green fluorescent protein (GFP), a nuclear localization of NV was demonstrated. Deletion analyses showed that the 32EGDL35 residues were essential for nuclear localization of NV protein, and fusion of these 4 amino acids to GFP directed its transport to the nucleus. We generated a recombinant IHNV, rIHNV-NV-ΔEGDL in which the 32EGDL35 was deleted from the NV. rIHNVs with wild-type NV (rIHNV-NV) or with the NV gene replaced with GFP (rIHNV-ΔNV-GFP) were used as controls. RTG-2 cells infected with rIHNV-ΔNV-GFP and rIHNV-NV-ΔEGDL yielded 12- and 5-fold less infectious virion, respectively, than wild type rIHNV-infected cells at 48 h post-infection (p.i.). While treatment with poly I∶C at 24 h p.i. did not inhibit replication of wild-type rIHNVs, replication rates of rIHNV-ΔNV-GFP and rIHNV-NV-ΔEGDL were inhibited by poly I∶C. In addition, both rIHNV-ΔNV and rIHNV-NV-ΔEGDL induced higher levels of expressions of both IFN1 and Mx1 than wild-type rIHNV. These data suggest that the IHNV NV may support the growth of IHNV through inhibition of the INF system and the amino acid residues of 32EGDL35 responsible for nuclear localization are important for the inhibitory activity of NV