New <i>Methyloceanibacter</i> diversity from North Sea sediments includes methanotroph containing solely the soluble methane monooxygenase

Marine methylotrophs play a key role in the global carbon cycle by metabolizing reduced one-carbon compounds that are found in high concentrations in marine environments. Genome, physiology and diversity studies have been greatly facilitated by the numerous model organisms brought into culture. However, the availability of marine representatives remains poor. Here, we report the isolation of four novel species from North Sea sediment enrichments closely related to the Alphaproteobacterium Methyloceanibacter caenitepidi. Each of the newly isolated Methyloceanibacter species exhibited a clear genome sequence divergence which was reflected in physiological differences. Notably one strain R-67174 was capable of oxidizing methane as sole source of carbon and energy using solely a soluble methane monooxygenase and represents the first marine Alphaproteobacterial methanotroph brought into culture. Differences in maximum cell density of >1.5 orders of magnitude were observed. Furthermore, three strains were capable of producing nitrous oxide from nitrate. Together, these findings highlight the metabolic and physiologic variability within closely related Methyloceanibacter species and provide a new understanding of the physiological basis of marine methylotrophy

Statistical Model of Shape Moments with Active Contour Evolution for Shape Detection and Segmentation

This paper describes a novel method for shape representation and robust image segmentation. The proposed method combines two well known methodologies, namely, statistical shape models and active contours implemented in level set framework. The shape detection is achieved by maximizing a posterior function that consists of a prior shape probability model and image likelihood function conditioned on shapes. The statistical shape model is built as a result of a learning process based on nonparametric probability estimation in a PCA reduced feature space formed by the Legendre moments of training silhouette images. A greedy strategy is applied to optimize the proposed cost function by iteratively evolving an implicit active contour in the image space and subsequent constrained optimization of the evolved shape in the reduced shape feature space. Experimental results presented in the paper demonstrate that the proposed method, contrary to many other active contour segmentation methods, is highly resilient to severe random and structural noise that could be present in the data

Floquet scattering theory of quantum pumps

We develop the Floquet scattering theory for quantum mechanical pumping in mesoscopic conductors. The nonequilibrium distribution function, the dc charge and heat currents are investigated at arbitrary pumping amplitude and frequency. For mesoscopic samples with discrete spectrum we predict a sign reversal of the pumped current when the pump frequency is equal to the level spacing in the sample. This effect allows to measure the phase of the transmission coefficient through the mesoscopic sample. We discuss the necessary symmetry conditions (both spatial and temporal) for pumping.Comment: 11 pages, 5 figure

Charge Pumping in Mesoscopic Systems coupled to a Superconducting Lead

We derive a general scattering-matrix formula for the pumped current through a mesoscopic region attached to a normal and a superconducting lead. As applications of this result we calculate the current pumped through (i) a pump in a wire, (ii) a quantum dot in the Coulomb blockade regime, and (iii) a ballistic double-barrier junction, all coupled to a superconducting lead. Andreev reflection is shown to enhance the pumped current by up to a factor of 4 in case of equal coupling to the leads. We find that this enhancement can still be further increased for slightly asymmetric coupling.Comment: 5 pages, 2 figure

Crohn's disease in a southern European country: Montreal classification and clinical activity

BACKGROUND: Given the heterogeneous nature of Crohn's disease (CD), our aim was to apply the Montreal Classification to a large cohort of Portuguese patients with CD in order to identify potential predictive regarding the need for medical and/or surgical treatment. METHODS: A cross-sectional study was used based on data from an on-line registry of patients with CD. RESULTS: Of the 1692 patients with 5 or more years of disease, 747 (44%) were male and 945 (56%) female. On multivariate analysis the A2 group was an independent risk factor of the need for steroids (odds ratio [OR] 1.6, 95% confidence interval [CI] 1.1-2.3) and the A1 and A2 groups for immunosuppressants (OR 2.2; CI 1.2-3.8; OR 1.4; CI 1.0-2.0, respectively). An L3+L3(4) and L(4) location were risk factors for immunosuppression (OR 1.9; CI 1.5-2.4), whereas an L1 location was significantly associated with the need for abdominal surgery (P < 0.001). After 20 years of disease, less than 10% of patients persisted without steroids, immunosuppression, or surgery. The Montreal Classification allowed us to identify different groups of disease severity: A1 were more immunosuppressed without surgery, most of A2 patients were submitted to surgery, and 52% of L1+L1(4) patients were operated without immunosuppressants. CONCLUSIONS: Stratifying patients according to the Montreal Classification may prove useful in identifying different phenotypes with different therapies and severity. Most of our patients have severe disease

Noise-assisted classical adiabatic pumping in a symmetric periodic potential

We consider a classical overdamped Brownian particle moving in a symmetric periodic potential. We show that a net particle flow can be produced by adiabatically changing two external periodic potentials with a spatial and a temporal phase difference. The classical pumped current is found to be independent of the friction and to vanish both in the limit of low and high temperature. Below a critical temperature, adiabatic pumping appears to be more efficient than transport due to a constant external force.Comment: six pages, 3 figure

Quantum spin pumping with adiabatically modulated magnetic barrier's

A quantum pump device involving magnetic barriers produced by the deposition of ferro magnetic stripes on hetero-structure's is investigated. The device for dc- transport does not provide spin-polarized currents, but in the adiabatic regime, when one modulates two independent parameters of this device, spin-up and spin-down electrons are driven in opposite directions, with the net result being that a finite net spin current is transported with negligible charge current. We also analyze our proposed device for inelastic-scattering and spin-orbit scattering. Strong spin-orbit scattering and more so inelastic scattering have a somewhat detrimental effect on spin/charge ratio especially in the strong pumping regime. Further we show our pump to be almost noiseless, implying an optimal quantum spin pump.Comment: 14 pages, 9 figures. Manuscript revised with additional new material on spin-orbit scattering and inelastic scattering. Further new additions on noiseless pumping and analytical results with distinction between weak and strong pumping regimes. Accepted for publication in Physical Review

Adiabatic spin pumping through a quantum dot with a single orbital level

We investigate an adiabatic spin pumping through a quantum dot with a single orbital energy level under the Zeeman effect. Electron pumping is produced by two periodic time dependent parameters, a magnetic field and a difference of the dot-lead coupling between the left and right barriers of the dot. The maximum charge transfer per cycle is found to be $e$, the unit charge in the absence of a localized moment in the dot. Pumped charge and spin are different, and spin pumping is possible without charge pumping in a certain situation. They are tunable by changing the minimum and maximum value of the magnetic field.Comment: RevTeX4, 5 pages, 3 figure

Ultrashort filaments of light in weakly-ionized, optically-transparent media

Modern laser sources nowadays deliver ultrashort light pulses reaching few cycles in duration, high energies beyond the Joule level and peak powers exceeding several terawatt (TW). When such pulses propagate through optically-transparent media, they first self-focus in space and grow in intensity, until they generate a tenuous plasma by photo-ionization. For free electron densities and beam intensities below their breakdown limits, these pulses evolve as self-guided objects, resulting from successive equilibria between the Kerr focusing process, the chromatic dispersion of the medium, and the defocusing action of the electron plasma. Discovered one decade ago, this self-channeling mechanism reveals a new physics, widely extending the frontiers of nonlinear optics. Implications include long-distance propagation of TW beams in the atmosphere, supercontinuum emission, pulse shortening as well as high-order harmonic generation. This review presents the landmarks of the 10-odd-year progress in this field. Particular emphasis is laid to the theoretical modeling of the propagation equations, whose physical ingredients are discussed from numerical simulations. Differences between femtosecond pulses propagating in gaseous or condensed materials are underlined. Attention is also paid to the multifilamentation instability of broad, powerful beams, breaking up the energy distribution into small-scale cells along the optical path. The robustness of the resulting filaments in adverse weathers, their large conical emission exploited for multipollutant remote sensing, nonlinear spectroscopy, and the possibility to guide electric discharges in air are finally addressed on the basis of experimental results.Comment: 50 pages, 38 figure

Adiabatic Transfer of Electrons in Coupled Quantum Dots

We investigate the influence of dissipation on one- and two-qubit rotations in coupled semiconductor quantum dots, using a (pseudo) spin-boson model with adiabatically varying parameters. For weak dissipation, we solve a master equation, compare with direct perturbation theory, and derive an expression for the `fidelity loss' during a simple operation that adiabatically moves an electron between two coupled dots. We discuss the possibility of visualizing coherent quantum oscillations in electron `pump' currents, combining quantum adiabaticity and Coulomb blockade. In two-qubit spin-swap operations where the role of intermediate charge states has been discussed recently, we apply our formalism to calculate the fidelity loss due to charge tunneling between two dots.Comment: 13 pages, 8 figures, to appear in Phys. Rev.