Effects of spatial size, lattice doubling and source operator on the hadron spectrum with dynamical staggered quarks

We have extended our previous study of the lattice QCD spectrum with 2 flavors of staggered dynamical quarks at $6/g^2=5.6$ and $am_q=0.025$ and 0.01 to larger lattices, with better statistics and with additional sources for the propagators. The additional sources allowed us to estimate the $\Delta$ mass and to measure the masses of all mesons whose operators are local in time. These mesons show good evidence for flavor symmetry restoration, except for the masses of the Goldstone and non-Goldstone pions. PCAC is observed in that $m_\pi^2 \propto m_q$, and $f_\pi$ is estimated. Use of undoubled lattices removes problems with the pion propagator found in our earlier work. Previously we found a large change in the nucleon mass at a quark mass of $am_q=0.01$ when we increased the spatial size from 12 to 16. No such effect is observed at the larger quark mass, $am_q=0.025$. Two kinds of wall source were used, and we have found difficulties in getting consistent results for the nucleon mass between the two sources.Comment: 30 pages PostScript fil

Hadron Spectrum in QCD with Valence Wilson Fermions and Dynamical Staggered Fermions at $6/g^2=5.6

We present an analysis of hadronic spectroscopy for Wilson valence quarks with dynamical staggered fermions at lattice coupling $6/g^2 = \beta=5.6$ at sea quark mass $am_q=0.01$ and 0.025, and of Wilson valence quarks in quenched approximation at $\beta=5.85$ and 5.95, both on $16^3 \times 32$ lattices. We make comparisons with our previous results with dynamical staggered fermions at the same parameter values but on $16^4$ lattices doubled in the temporal direction.Comment: 32 page

QCD thermodynamics with two flavors of Wilson quarks at N_t=6

We report on a study of hadron thermodynamics with two flavors of Wilson quarks on 12^3x6 lattices. We have studied the crossover between the high and low temperature regimes for three values of the hopping parameter, kappa=0.16, 0.17, and 0.18. At each of these values of kappa we have carried out spectrum calculations on 12^3x24 lattices for two values of the gauge coupling in the vicinity of the crossover in order to set an energy scale for our thermodynamics calculations and to determine the critical value of the gauge coupling for which the pion and quark masses vanish. For kappa=0.17 and 0.18 we find coexistence between the high and low temperature regimes over 1,000 simulation time units indicating either that the equilibration time is extremely long or that there is a possibility of a first order phase transition. The pion mass is large at the crossover values of the gauge coupling, but the crossover curve has moved closer to the critical curve along which the pion and quark masses vanish, than it was on lattices with four time slices. In addition, values of the dimensionless quantity T_c/m_rho are in closer agreement with those for staggered quarks than was the case at N_t=4. (A POSTSCRIPT VERSION OF THIS PAPER IS AVAILABLE BY ANONYMOUS FTP FROM sarek.physics.ucsb.edu (128.111.8.250) IN THE FILE pub/wilson_thermo.ps)Comment: 24 page

Genome characterization and population genetic structure of the zoonotic pathogen, streptococcus canis

Background - Streptococcus canis is an important opportunistic pathogen of dogs and cats that can also infect a wide range of additional mammals including cows where it can cause mastitis. It is also an emerging human pathogen. Results - Here we provide characterization of the first genome sequence for this species, strain FSL S3-227 (milk isolate from a cow with an intra-mammary infection). A diverse array of putative virulence factors was encoded by the S. canis FSL S3-227 genome. Approximately 75% of these gene sequences were homologous to known Streptococcal virulence factors involved in invasion, evasion, and colonization. Present in the genome are multiple potentially mobile genetic elements (MGEs) [plasmid, phage, integrative conjugative element (ICE)] and comparison to other species provided convincing evidence for lateral gene transfer (LGT) between S. canis and two additional bovine mastitis causing pathogens (Streptococcus agalactiae, and Streptococcus dysgalactiae subsp. dysgalactiae), with this transfer possibly contributing to host adaptation. Population structure among isolates obtained from Europe and USA [bovine = 56, canine = 26, and feline = 1] was explored. Ribotyping of all isolates and multi locus sequence typing (MLST) of a subset of the isolates (n = 45) detected significant differentiation between bovine and canine isolates (Fisher exact test: P = 0.0000 [ribotypes], P = 0.0030 [sequence types]), suggesting possible host adaptation of some genotypes. Concurrently, the ancestral clonal complex (54% of isolates) occurred in many tissue types, all hosts, and all geographic locations suggesting the possibility of a wide and diverse niche. Conclusion - This study provides evidence highlighting the importance of LGT in the evolution of the bacteria S. canis, specifically, its possible role in host adaptation and acquisition of virulence factors. Furthermore, recent LGT detected between S. canis and human bacteria (Streptococcus urinalis) is cause for concern, as it highlights the possibility for continued acquisition of human virulence factors for this emerging zoonotic pathogen

Critical Dynamics of the Hybrid Monte Carlo Algorithm

We investigate the critical dynamics of the Hybrid Monte Carlo algorithm approaching the chiral limit of standard Wilson fermions. Our observations are based on time series of lengths O(5000) for a variety of observables. The lattice sizes are 16^3 x 32 and 24^3 x 40. We work at beta=5.6, and kappa=0.156, 0.157, 0.1575, 0.158, with 0.83 > m_pi/m_rho > 0.55. We find surprisingly small integrated autocorrelation times for local and extended observables. The dynamical critical exponent $z$ of the exponential autocorrelation time is compatible with 2. We estimate the total computational effort to scale between V^2 and V^2.25 towards the chiral limit.Comment: 3 pages, Latex with espcrc2.sty and postscript figures, Talk given at Lattice 9

Light Quark Masses from Lattice QCD

We present estimates of the masses of light quarks using lattice data. Our main results are based on a global analysis of all the published data for Wilson, Sheikholeslami-Wohlert (clover), and staggered fermions, both in the quenched approximation and with $n_f=2$ dynamical flavors. We find that the values of masses with the various formulations agree after extrapolation to the continuum limit for the $n_f=0$ theory. Our best estimates, in the MSbar scheme at $\mu=2 GeV$, are \mbar=3.4 +- 0.4 +- 0.3 MeV and $m_s = 100 +- 21 +- 10 MeV$ in the quenched approximation. The $n_f=2$ results, \mbar = 2.7 +- 0.3 +- 0.3 MeV and $m_s = 68 +- 12 +- 7 MeV$, are preliminary. (A linear extrapolation in $n_f$ would further reduce these estimates for the physical case of three dynamical flavors.) These estimates are smaller than phenomenological estimates based on sum rules, but maintain the ratios predicted by chiral perturbation theory. The new results have a significant impact on the extraction of $\epsilon'/\epsilon$ from the Standard Model. Using the same lattice data we estimate the quark condensate using the Gell-Mann-Oakes-Renner relation. Again the three formulations give consistent results after extrapolation to $a=0$, and the value turns out to be correspondingly larger, roughly preserving m_s \vev{\bar \psi \psi}.Comment: 32 pages. Package submitted in uufiles format: unpack and tex paper.tex. Modified "axis" source for figures also included. Latex2e document. Uncomment hyperref if available. This is the final published versio

Properties of the a1 Meson from Lattice QCD

We determine the mass and decay constant of the $a_1$ meson using Monte Carlo simulation of lattice QCD. We find $M_{a_1} = 1250 \pm 80$ MeV and $f_{a_1} = 0.30 \pm 0.03 ~({\rm GeV})^2$, in good agreement with experiment.Comment: 9 page uu-encoded compressed postscript file. version appearing in Phys. Rev. Lett. 74 (1995) 459

Les grilles de calcul au service de la physique médicale

présenté par C.O. Thiam, proceedings sous forme de CDLes Simulations Monte Carlo GATE en radiothérapie nécessitent plusieurs heures de calculs. En effet, un résultat précis ne peut être obtenu qu'en générant beaucoup d'événements. Nous étudions donc les capacités des grilles de calcul notamment en terme de réduction des temps de calculs, et les services qu'elles offrent pour une utilisation future en milieu médical. Cette infrastructure, s'inscrit dans le cadre du projet européen EGEE. Ce projet consiste à mutualiser des ressources réparties sur différentes sites afin de pouvoir accéder à de la puissance de calcul, à des données partagées et de bénéficier d'une continuité de service

Organic vs. organic - soil arthropods as bioindicators of ecological sustainability in greenhouse system experiment under Mediterranean conditions

Organic greenhouse (OGH) production is characterized by different systems and agricultural practices with diverse environmental impact. Soil arthropods are widely used as bioindicators of ecological sustainability in open field studies, while there is a lack of research on organic production for protected systems. This study assessed the soil arthropod abundance and diversity over a 2-year crop rotation in three systems of OGH production in the Mediterranean. The systems under assessment differed in soil fertility management: SUBST - a simplified system of organic production, based on an input substitution approach (use of guano and organic liquid fertilizers), AGROCOM - soil fertility mainly based on compost application and agroecological services crops (ASC) cultivation (tailored use of cover crops) as part of crop rotation, and AGROMAN - animal manure and ASC cultivation as part of crop rotation. Monitoring of soil fauna was performed by using pitfall traps and seven taxa were considered: Carabidae, Staphylinidae, Araneae, Opiliones, Isopoda, Myriapoda, and Collembola. Results demonstrated high potential of ASC cultivation as a technique for beneficial soil arthropod conservation in OGH conditions. SUBST system was dominated by Collembola in all crops, while AGROMAN and AGROCOM had more balanced relative abundance of Isopoda, Staphylinidae, and Aranea. Opiliones and Myriapoda were more affected by season, while Carabidae were poorly represented in the whole monitoring period. Despite the fact that all three production systems are in accordance with the European Union regulation on organic farming, findings of this study displayed significant differences among them and confirmed the suitability of soil arthropods as bioindicators in protected systems of organic farming