Talking to the Semantic Web – Query Interfaces to Ontologies for the Casual User

The Semantic Web presents the vision of a dynamically growing knowledge base that should allow users to draw on and combine distributed information sources specified in languages based on formal logic. Common users, however, were shown to have problems even with the simplest Boolean expressions [4]; the use of th

Analytical approach to viscous fingering in a cylindrical Hele-Shaw cell

We report analytical results for the development of the viscous fingering instability in a cylindrical Hele-Shaw cell of radius a and thickness b. We derive a generalized version of Darcy's law in such cylindrical background, and find it recovers the usual Darcy's law for flow in flat, rectangular cells, with corrections of higher order in b/a. We focus our interest on the influence of cell's radius of curvature on the instability characteristics. Linear and slightly nonlinear flow regimes are studied through a mode-coupling analysis. Our analytical results reveal that linear growth rates and finger competition are inhibited for increasingly larger radius of curvature. The absence of tip-splitting events in cylindrical cells is also discussed.Comment: 14 pages, 3 ps figures, Revte

A connection between stress and development in the multicelular prokaryote Streptomyces coelicolor

Morphological changes leading to aerial mycelium formation and sporulation in the mycelial bacterium Streptomyces coelicolor rely on establishing distinct patterns of gene expression in separate regions of the colony. sH was identified previously as one of three paralogous sigma factors associated with stress responses in S. coelicolor. Here, we show that sigH and the upstream gene prsH (encoding a putative antisigma factor of sH) form an operon transcribed from two developmentally regulated promoters, sigHp1 and sigHp2. While sigHp1 activity is confined to the early phase of growth, transcription of sigHp2 is dramatically induced at the time of aerial hyphae formation. Localization of sigHp2 activity using a transcriptional fusion to the green fluorescent protein reporter gene (sigHp2–egfp) showed that sigHp2 transcription is spatially restricted to sporulating aerial hyphae in wild-type S. coelicolor. However, analysis of mutants unable to form aerial hyphae (bld mutants) showed that sigHp2 transcription and sH protein levels are dramatically upregulated in a bldD mutant, and that the sigHp2–egfp fusion was expressed ectopically in the substrate mycelium in the bldD background. Finally, a protein possessing sigHp2 promoter-binding activity was purified to homogeneity from crude mycelial extracts of S. coelicolor and shown to be BldD. The BldD binding site in the sigHp2 promoter was defined by DNase I footprinting. These data show that expression of sH is subject to temporal and spatial regulation during colony development, that this tissue-specific regulation is mediated directly by the developmental transcription factor BldD and suggest that stress and developmental programmes may be intimately connected in Streptomyces morphogenesis

Hadron Masses From Novel Fat-Link Fermion Actions

The hadron mass spectrum is calculated in lattice QCD using a novel fat-link clover fermion action in which only the irrelevant operators in the fermion action are constructed using smeared links. The simulations are performed on a 16^3 x 32 lattice with a lattice spacing of a=0.125 fm. We compare actions with n=4 and 12 smearing sweeps with a smearing fraction of 0.7. The n=4 Fat-Link Irrelevant Clover (FLIC) action provides scaling which is superior to mean-field improvement, and offers advantages over nonperturbative 0(a) improvement, including a reduced exceptional configuration problem.Comment: 12 pages, 4 figures, new simulation with mean-field improved clover, further discussion of actio

Physics in the Real Universe: Time and Spacetime

The Block Universe idea, representing spacetime as a fixed whole, suggests the flow of time is an illusion: the entire universe just is, with no special meaning attached to the present time. This view is however based on time-reversible microphysical laws and does not represent macro-physical behaviour and the development of emergent complex systems, including life, which do indeed exist in the real universe. When these are taken into account, the unchanging block universe view of spacetime is best replaced by an evolving block universe which extends as time evolves, with the potential of the future continually becoming the certainty of the past. However this time evolution is not related to any preferred surfaces in spacetime; rather it is associated with the evolution of proper time along families of world linesComment: 28 pages, including 9 Figures. Major revision in response to referee comment

Higher moments of nucleon spin structure functions in heavy baryon chiral perturbation theory and in a resonance model

The third moment $d_2$ of the twist-3 part of the nucleon spin structure function $g_2$ is generalized to arbitrary momentum transfer $Q^2$ and is evaluated in heavy baryon chiral perturbation theory (HBChPT) up to order ${\mathcal{O}}(p^4)$ and in a unitary isobar model (MAID). We show how to link $d_2$ as well as higher moments of the nucleon spin structure functions $g_1$ and $g_2$ to nucleon spin polarizabilities. We compare our results with the most recent experimental data, and find a good description of these available data within the unitary isobar model. We proceed to extract the twist-4 matrix element $f_2$ which appears in the $1/Q^2$ suppressed term in the twist expansion of the spin structure function $g_1$ for proton and neutron.Comment: 30 pages, 7 figure

Pulsar kicks from a dark-matter sterile neutrino

We show that a sterile neutrino with mass in the 1-20 keV range and a small mixing with the electron neutrino can simultaneously explain the origin of the pulsar motions and the dark matter in the universe. An asymmetric neutrino emission from a hot nascent neutron star can be the explanation of the observed pulsar velocities. In addition to the pulsar kick mechanism based on resonant neutrino transitions, we point out a new possibility: an asymmetric off-resonant emission of sterile neutrinos. The two cases correspond to different values of the masses and mixing angles. In both cases we identify the ranges of parameters consistent with the pulsar kick, as well as cosmological constraints.Comment: 5 pages, 2 figures; final version; discussion and references adde

Quantification of neonicotinoid pesticides in six cultivable fish species from the River Owena in Nigeria and a template for food safety assessment

The Owena River Basin in Nigeria is an area of agricultural importance for the production of cocoa. To optimise crop yield, the cocoa trees require spraying with neonicotinoid insecticides (Imidacloprid, Thiacloprid Acetamiprid and Thiamethoxam). It is proposed that rainwater runoff from the treated area may pollute the Owena River and that these pesticides may thereby enter the human food chain via six species of fish (Clarias gariepinus, Clarias anguillaris, Sarotherodon galilaeus, Parachanna obscura, Oreochromis niloticus and Gymnarchus niloticus) which are cultured in the river mostly for local consumption. This work aims to establish a working method to quantify the likely levels of the insecticides in the six species of fish, firstly by undertaking a laboratory-based study employing the QuEChERS method to extract the four neonicotinoids from fish purchased in marketplace in the UK, spiked with known quantities of the pesticide and using liquid chromatography coupled with tandem mass spectrometry (LC-MS-MS) as the detection method; secondly, by using these samples to optimise the detection method for very low levels of pesticides, then applying the optimised techniques to the analysis of three of each six species of fish taken from the Owena River. A significant benefit of this combined technique is that only small samples of fish are required. Success with this part of the study showed that very low concentrations of the insecticides could be detected in fish muscle. The third aim is to apply a simple quantitative risk assessment model using the data sets obtained, together with information about daily diet, human body weight and recommended safety limits of pesticides in food to illustrate how human health may be affected by the consumption of these fish. The multiple determinations of neonicotinoids in edible fishes in Nigeria are pioneer research and fill a gap in addressing the relationship between waterborne pesticides and food quality in the country. Fundamentally, this work is an exercise to demonstrate the applicability of the aforementioned instrumental method of analysis to fish muscle, which requires only a small sample size of fish; a large number of fish is not required for a proof of concept, in this case. Although not a monitoring programme for the whole Owena River Basin ecosystem per se, this work successfully demonstrates the technical feasibility of a system of chemical analysis and establishes the foundation for ecological surveys in the immediate future. Parameters involving exposures to xenobiotics in ecotoxicological modelling can now be expressed in terms of both mass and molar concentrations of a chemical in animal tissues if so desired