Josephson current in a superconductor -- ferromagnet -- superconductor junction with in-plane ferromagnetic domains

We study a diffusive superconductor--ferromagnet--superconductor (SFS) junction with in-plane ferromagnetic domains. Close to the superconducting transition temperature, we describe the proximity effect in the junction with the linearized Usadel equations. We find that properties of such a junction depend on the size of the domains relative to the magnetic coherence length. In the case of large domains, the junction exhibits transitions to the $\pi$ state, similarly to a single-domain SFS junction. In the case of small domains, the magnetization effectively averages out, and the junction is always in the zero state, similarly to a superconductor--normal metal--superconductor (SNS) junction. In both those regimes, the influence of domain walls may be approximately described as an effective spin-flip scattering. We also study the inhomogeneous distribution of the local current density in the junction. Close to the 0--$\pi$ transitions, the directions of the critical current may be opposite in the vicinity of the domain wall and in the middle of the domains.Comment: 9 pages, 6 figure

Josephson current in a superconductor-ferromagnet junction with two non-collinear magnetic domains

We study the Josephson effect in a superconductor--ferromagnet--superconductor (SFS) junction with ferromagnetic domains of non-collinear magnetization. As a model for our study we consider a diffusive junction with two ferromagnetic domains along the junction. The superconductor is assumed to be close to the critical temperature $T_c$, and the linearized Usadel equations predict a sinusoidal current-phase relation. We find analytically the critical current as a function of domain lengths and of the angle between the orientations of their magnetizations. As a function of those parameters, the junction may undergo transitions between 0 and $\pi$ phases. We find that the presence of domains reduces the range of junction lengths at which the $\pi$ phase is observed. For the junction with two domains of the same length, the $\pi$ phase totally disappears as soon as the misorientation angle exceeds $\pi/2$. We further comment on possible implication of our results for experimentally observable 0--$\pi$ transitions in SFS junctions.Comment: 9 pages, 4 figures, minor changes, references adde

Real-time pollen identification using holographic imaging and fluorescence measurements

Over the past few years, a diverse range of automatic real-time instruments has been developed to respond to the needs of end users in terms of information about atmospheric bioaerosols. One of them, the SwisensPoleno Jupiter, is an airflow cytometer used for operational automatic bioaerosol monitoring. The instrument records holographic images and fluorescence information for single aerosol particles, which can be used for identification of several aerosol types, in particular different pollen taxa. To improve the pollen identification algorithm applied to the SwisensPoleno Jupiter and currently based only on the holography data, we explore the impact of merging fluorescence spectra measurements with holographic images. We demonstrate, using measurements of aerosolised pollen, that combining information from these two sources results in a considerable improvement in the classification performance compared to using only a single source (balanced accuracy of 0.992 vs. 0.968 and 0.878). This increase in performance can be ascribed to the fact that often classes which are difficult to resolve using holography alone can be well identified using fluorescence and vice versa. We also present a detailed statistical analysis of the features of the pollen grains that are measured and provide a robust, physically based insight into the algorithm's identification process. The results are expected to have a direct impact on operational pollen identification models, particularly improving the recognition of taxa responsible for respiratory allergies.</p

Recommended Terminology for Aerobiological Studies

Aerobiology is an interdisciplinary science where researchers with different backgrounds are involved in different topics related to microorganism, airborne biological particles, e.g. pollen and spores, and phenology. Some concepts, words or expressions used in aerobiology have a clear definition, but are however frequently misused. Therefore, the working group “Quality Control” of the European Aerobiology Society (EAS) and the International Association of Aerobiology (IAA) would like to clarify some of them, their use and presentation

Pharmacology and Surface Electrostatics of the K Channel Outer Pore Vestibule

In spite of a generally well-conserved outer vestibule and pore structure, there is considerable diversity in the pharmacology of K channels. We have investigated the role of specific outer vestibule charged residues in the pharmacology of K channels using tetraethylammonium (TEA) and a trivalent TEA analog, gallamine. Similar to Shaker K channels, gallamine block of Kv3.1 channels was more sensitive to solution ionic strength than was TEA block, a result consistent with a contribution from an electrostatic potential near the blocking site. In contrast, TEA block of another type of K channel (Kv2.1) was insensitive to solution ionic strength and these channels were resistant to block by gallamine. Neutralizing either of two lysine residues in the outer vestibule of these Kv2.1 channels conferred ionic strength sensitivity to TEA block. Kv2.1 channels with both lysines neutralized were sensitive to block by gallamine, and the ionic strength dependence of this block was greater than that for TEA. These results demonstrate that Kv3.1 (like Shaker) channels contain negatively charged residues in the outer vestibule of the pore that influence quaternary ammonium pharmacology. The presence of specific lysine residues in wild-type Kv2.1 channels produces an outer vestibule with little or no net charge, with important consequences for quaternary ammonium block. Neutralizing these key lysines results in a negatively charged vestibule with pharmacological properties approaching those of other types of K channels

Characterizing Structural Transitions Using Localized Free Energy Landscape Analysis

Structural changes in molecules are frequently observed during biological processes like replication, transcription and translation. These structural changes can usually be traced to specific distortions in the backbones of the macromolecules involved. Quantitative energetic characterization of such distortions can greatly advance the atomic-level understanding of the dynamic character of these biological processes.Molecular dynamics simulations combined with a variation of the Weighted Histogram Analysis Method for potential of mean force determination are applied to characterize localized structural changes for the test case of cytosine (underlined) base flipping in a GTCAGCGCATGG DNA duplex. Free energy landscapes for backbone torsion and sugar pucker degrees of freedom in the DNA are used to understand their behavior in response to the base flipping perturbation. By simplifying the base flipping structural change into a two-state model, a free energy difference of upto 14 kcal/mol can be attributed to the flipped state relative to the stacked Watson-Crick base paired state. This two-state classification allows precise evaluation of the effect of base flipping on local backbone degrees of freedom.The calculated free energy landscapes of individual backbone and sugar degrees of freedom expectedly show the greatest change in the vicinity of the flipping base itself, but specific delocalized effects can be discerned upto four nucleotide positions away in both 5' and 3' directions. Free energy landscape analysis thus provides a quantitative method to pinpoint the determinants of structural change on the atomic scale and also delineate the extent of propagation of the perturbation along the molecule. In addition to nucleic acids, this methodology is anticipated to be useful for studying conformational changes in all macromolecules, including carbohydrates, lipids, and proteins

Automatic detection of airborne pollen: an overview

Pollen monitoring has traditionally been carried out using manual methods frst developed in the early 1950s. Although this technique has been recently standardised, it sufers from several drawbacks, notably data usually only being available with a delay of 3–9 days and usually delivered at a daily resolution. Several automatic instruments have come on to the market over the past few years, with more new devices also under development. This paper provides a comprehensive overview of all available and developing automatic instruments, how they measure, how they identify airborne pollen, what impacts measurement quality, as well as what potential there is for further advancement in the feld of bioaerosol monitoring.</p

Dynamique moléculaire et canaux ioniques

Diffusion de neutrons et Dynamique Moléculaire (DM) sont deux techniques intimement liées car elles portent sur les mêmes échelles de temps: la première apporte des informations structurales ou dynamiques sur le système physique ou biologique, la seconde permet de décoder ces informations à travers un modèle facilitant l'interprétation des résultats. Au delà de l'intérêt que la technique de DM peut avoir en relation directe avec les neutrons, il est intéressant de comprendre comment les modèles sont construits et comment les techniques de simulation peuvent aller beaucoup plus loin que de simples modélisations. Nous décrirons brièvement, dans la suite de cet exposé, la technique de DM et les méthodes plus sophistiquées de calculs d'énergie libre et de potentiels de force moyenne à partir des simulations de DM. Puis nous verrons avec deux exemples tirés de nos travaux théoriques sur les canaux ioniques comment ces calculs peuvent nous donner accès à des vitesses de réaction ou des constantes d'affinité ou de liaison. La première étude porte sur un analogue de la gramicidine A qui forme un canal conducteur d'ions interrompus par le basculement d'un cycle dioxolane [1]. La seconde concerne le canal potassique KcsA dont nous avons étudié le blocage du coté extracellulaire par l'ion Tetra Ethyl Ammonium [2]

Yet another approach to the dwell-time omission problem of single-channel analysis.

Distortion of the open-time or closed-time distributions of single channel currents, due to limited time resolution of the recording system, has been addressed by many authors. The calculation of the modified distributions generally involves the numerical inversion of a Laplace transform and is difficult to apply in fitting multistate kinetic schemes to data. Our approach is to introduce "virtual states" into the kinetic scheme, as suggested by Blatz and Magleby (1986. Biophys. J. 49:967-980) to account for missed events. To simplify the assignment of rate constants in multistate schemes we make use of Kienker's (1989. Proc. R. Soc. Lond. 236:296-309) theory to first transform schemes to uncoupled form. Our approach provides a good approximation to the exact solution, while allowing the observable dwell-time distributions, and also the second-order probability density functions, to be computed by standard matrix techniques