Streptomyces genus as a source of probiotics and its potential for its use in health.

The effect of a probiotic on gut microbiota depends not only on the species of microorganism but specifically on the strain. In human beings, as in other animals, specific probiotics have been associated with numerous beneficial properties, which include weight modulation (gain or loss), immune modulation, and prevention of many disorders such as lactose intolerance, cardiovascular diseases, and antibiotic-associated diarrhoea. Streptomyces are an essential group of soil bacteria in the Actinomycetes family. They are related to producing a wide range of secondary metabolites known for their beneficial effects on human health. However, according to the human microbiome analysis, a lower prevalence of Streptomyces genus exists than in other non-human microbiomes. This difference can be associated with current lifestyles. In this article, we review the benefits associated with different compounds produced by Streptomyces, with a particular focus on the production of exopolysaccharides, antibiotics, and other secondary metabolites and the potential innovative use of Streptomyces spp. as probiotics.

Extreme wave excitation from localized phase-shift perturbations.

The modulation instability is a focusing mechanism responsible for the formation of strong wave localizations not only on the water surface, but also in a variety of nonlinear dispersive media. Such dynamics is initiated from the injection of sidebands, which translate into an amplitude modulation of the wave field. The nonlinear stage of unstable wave evolution can be described by exact solutions of the nonlinear Schrödinger equation (NLSE). In that case, the amplitude modulation of such coherent extreme wave structures is connected to a particular phase-shift seed in the carrier wave. In this Letter, we show that phase-shift localization applied to the background, excluding any amplitude modulation excitation, can indeed trigger extreme events. Such rogue waves can be for instance generated by considering the parametrization of fundamental breathers, and thus by seeding only the local phase-shift information to the regular carrier wave. Our wave tank experiments show an excellent agreement with the expected NLSE hydrodynamics and confirm that even though delayed in their evolution, breather-type extreme waves can be generated from a purely regular wave train. Such a focusing mechanism awaits experimental confirmation in other nonlinear media, such optics, plasma, and Bose-Einstein condensates.

The static local field correction of the warm dense electron gas: An ab initio path integral Monte Carlo study and machine learning representation.

The study of matter at extreme densities and temperatures as they occur in astrophysical objects and state-of-the-art experiments with high-intensity lasers is of high current interest for many applications. While no overarching theory for this regime exists, accurate data for the density response of correlated electrons to an external perturbation are of paramount importance. In this context, the key quantity is given by the local field correction (LFC), which provides a wave-vector resolved description of exchange-correlation effects. In this work, we present extensive new path integral Monte Carlo (PIMC) results for the static LFC of the uniform electron gas, which are subsequently used to train a fully connected deep neural network. This allows us to present a representation of the LFC with respect to continuous wave-vectors, densities, and temperatures covering the entire warm dense matter regime. Both the PIMC data and neural-net results are available online. Moreover, we expect the presented combination of ab initio calculations with machine-learning methods to be a promising strategy for many applications.

Glucose metabolism in patients with psoriasis.

BACKGROUND: Epidemiological studies strongly suggest that psoriasis predisposes to type 2 diabetes. Several theories have been proposed to explain how these disease entities might be pathophysiologically connected. OBJECTIVES: Our primary objective was to elucidate whether clinical data support the notion of common pathophysiological denominators in patients with psoriasis and type 2 diabetes, and thus to delineate the association between the two conditions that has arisen on the basis of epidemiological studies. METHODS: We reviewed clinical studies investigating parameters of glucose metabolism in patients with psoriasis. The PubMed and Embase databases were searched for studies investigating glucose metabolism in adult patients with psoriasis as a primary or secondary end point. Studies had to include a relevant control group. RESULTS: Twenty-six clinical studies reporting on insulin resistance, glucose tolerance or insulin secretion were eligible for review. The results were widely conflicting, with less than half of the studies showing results suggestive of defective glucose metabolism in patients with psoriasis. In general, the studies suffered from a lack of information regarding possible confounders and patient characteristics. Furthermore, the research methods varied, and in all but one study they might not have been appropriate to detect early and subtle defects in glucose metabolism. CONCLUSIONS: The available literature does not unequivocally support common pathophysiological denominators in psoriasis and type 2 diabetes. Well-designed clinical studies are needed to expose potential diabetogenic defects in the glucose metabolism in patients with psoriasis.

Detection of unstable periodic orbits in mineralising geological systems.

Worldwide, mineral exploration is suffering from rising capital costs, due to the depletion of readily recoverable reserves and the need to discover and assess more inaccessible or geologically complex deposits. For gold exploration, this problem is particularly acute. We propose an innovative approach to mineral exploration and orebody characterisation, based on the analysis of geological core data as a spatial dynamical system, using the mathematical tools of dynamical system analysis. This approach is highly relevant for orogenic gold deposits, which-in contrast to systems formed at chemical equilibrium-exhibit many features of nonlinear dynamical systems, including episodic fluctuations on various length and time scales. Feedback relationships between thermo-chemical and deformation processes produce recurrent fluid temperatures and pressures and the deposition of vein-filling minerals such as pyrite and gold. We therefore relax the typical assumption of chemical equilibrium and analyse the underlying processes as aseismic, non-adiabatic, and inherent to a hydrothermal, nonlinear dynamical open-flow chemical reactor. These processes are approximated using the Gray-Scott model of reaction-diffusion as a complex toy system, which captures some of the features of the underlying mineralisation processes, including the spatiotemporal Turing patterns of unsteady chemical reactions. By use of this analysis, we demonstrate the capability of recurrence plots, recurrence power spectra, and recurrence time probabilities to detect underlying unstable periodic orbits as one sign of deterministic dynamics and their robustness for the analysis of data contaminated by noise. Recurrence plot based quantification is then applied to three mineral concentrations in the core data from the Sunrise Dam gold deposit in the Yilgarn region of Western Australia. Using a moving window, we reveal the episodic recurring low-dimensional dynamic structures and the period doubling route to instability with depth, embedded in and originating from higher-dimensional processes of the complex mineralisation system.

Phase Domain Walls in Weakly Nonlinear Deep Water Surface Gravity Waves.

We report a theoretical derivation, an experimental observation and a numerical validation of nonlinear phase domain walls in weakly nonlinear deep water surface gravity waves. The domain walls presented are connecting homogeneous zones of weakly nonlinear plane Stokes waves of identical amplitude and wave vector but differences in phase. By exploiting symmetry transformations within the framework of the nonlinear Schrödinger equation we demonstrate the existence of exact analytical solutions representing such domain walls in the weakly nonlinear limit. The walls are in general oblique to the direction of the wave vector and stationary in moving reference frames. Experimental and numerical studies confirm and visualize the findings. Our present results demonstrate that nonlinear domain walls do exist in the weakly nonlinear regime of general systems exhibiting dispersive waves.

Lipidomics informatics for life-science.

Lipidomics encompasses analytical approaches that aim to identify and quantify the complete set of lipids, defined as lipidome in a given cell, tissue or organism as well as their interactions with other molecules. The majority of lipidomics workflows is based on mass spectrometry and has been proven as a powerful tool in system biology in concert with other Omics disciplines. Unfortunately, bioinformatics infrastructures for this relatively young discipline are limited only to some specialists. Search engines, quantification algorithms, visualization tools and databases developed by the 'Lipidomics Informatics for Life-Science' (LIFS) partners will be restructured and standardized to provide broad access to these specialized bioinformatics pipelines. There are many medical challenges related to lipid metabolic alterations that will be fostered by capacity building suggested by LIFS. LIFS as member of the 'German Network for Bioinformatics' (de.NBI) node for 'Bioinformatics for Proteomics' (BioInfra.Prot) and will provide access to the described software as well as to tutorials and consulting services via a unified web-portal.

In situ starch and crude protein degradation in the rumen and in vitro gas production kinetics of wheat genotypes.

The objective of this study was to determine the variation of in situ ruminal degradation characteristics of dry matter (DM), crude protein (CP) and starch (ST), and to determine the effective degradation (ED) of wheat genotypes. Further, multivariate associations of these in situ values with their corresponding in vitro gas production (GP) kinetics and laboratory measurements were evaluated using correlation and multiple linear regression analyses. Grains of 20 genotypes of wheat were characterized by proximate constituents, amino acid (AA) composition and physical characteristics. Ruminal degradation kinetics were determined by in situ degradation of DM, CP and ST, and subsequent evaluation of in vitro GP relative to time courses. In situ and GP measurements were fitted to an exponential equation, and ED was calculated using passage rates in the rumen of 5%/h (ED5) and 8%/h (ED8). To predict ED8 of CP (EDCP8) and ST (EDST8), correlations were evaluated and stepwise multiple linear regression analyses were applied. Estimated degradation parameters varied considerably between wheat genotypes irrespective of the nutrient tested. Variance in a, b and c was not reflected in the variation of the ED, due to high degradation rates (c). The assumed passage rate also impacted estimation of the ED minimally. Estimated GP parameters varied only slightly among wheat genotypes. Nevertheless, regression models explained up to 80 and 99% of the variance in EDCP8 and EDST8, respectively, and associations between EDST8 and EDCP8 and chemical and physical characteristics of grains were detected. As ST is the primary nutrient in wheat grains and can comprise substantial portions of dairy rations, the total amount of ST as well as its ED in the rumen should be taken into account when wheat is incorporated into dairy rations. Conversely, variance in wheat grain CP degradation was very low and can largely be neglected in practical ration formulation for ruminants.

CBP/p300 acetyltransferases regulate the expression of NKG2D ligands on tumor cells.

Tumor surveillance of natural killer (NK) cells is mediated by the cytotoxicity receptor natural-killer group 2 member D (NKG2D). Ligands for NKG2D are generally not expressed on healthy cells, but induced on the surface of malignant cells. To date, NKG2D ligand (NKG2D-L) induction was mainly described to depend on the activation of the DNA damage response, although the molecular mechanisms that regulate NKG2D-L expression remain largely unknown. Here, we show that the acetyltransferases CBP (CREB-binding protein) and p300 play a crucial role in the regulation of NKG2D-L on tumor cells. Loss of CBP/p300 decreased the basal cell surface expression of human ligands and reduced the upregulation of MICA/B and ULBP2 in response to histone deacetylase inhibitors or DNA damage. Furthermore, CBP/P300 deficiency abrogated the sensitivity of stressed cells to NK cell-mediated killing. CBP/p300 were also identified as major regulators of mouse NKG2D ligand RAE-1 in vitro and in vivo using the Eµ-Myc lymphoma model. Mechanistically, we observed an enhanced activation of the CBP/p300 binding transcription factor CREB (cAMP response element-binding protein) correlating to the NKG2D-L upregulation. Moreover, increased binding of CREB and CBP/p300 to NKG2D-L promoters and elevated histone acetylation were detectable. This study provides strong evidence for a major role of CBP and p300 in orchestrating NKG2D-L induction and consequently immunosurveillance of tumors in mice and humans. These findings might help to develop novel immunotherapeutic approaches against cancer.

Rogue waves of the Sasa-Satsuma equation in a chaotic wave field.

We study the properties of the chaotic wave fields generated in the frame of the Sasa-Satsuma equation (SSE). Modulation instability results in a chaotic pattern of small-scale filaments with a free parameter-the propagation constant k. The average velocity of the filaments is approximately given by the group velocity calculated from the dispersion relation for the plane-wave solution. Remarkably, our results reveal the reason for the skewed profile of the exact SSE rogue-wave solutions, which was one of their distinctive unexplained features. We have also calculated the probability density functions for various values of the propagation constant k, showing that probability of appearance of rogue waves depends on k.

Gray solitons on the surface of water.

The dynamics of surface gravity water waves can be described by the self-defocusing nonlinear Schrödinger equation. Recent observations of black solitons on the surface of water confirmed its validity for finite, below critical depth. The black soliton is a limiting case of a family of gray soliton solutions with finite amplitude depressions. Here, we report observations of gray solitons in water waves, thus, complementing our previous observations of black solitons.

Hydrodynamic supercontinuum.

We report the experimental observation of multi-bound-soliton solutions of the nonlinear Schrödinger equation (NLS) in the context of hydrodynamic surface gravity waves. Higher-order N-soliton solutions with N=2, 3 are studied in detail and shown to be associated with self-focusing in the wave group dynamics and the generation of a steep localized carrier wave underneath the group envelope. We also show that for larger input soliton numbers, the wave group experiences irreversible spectral broadening, which we refer to as a hydrodynamic supercontinuum by analogy with optics. This process is shown to be associated with the fission of the initial multisoliton into individual fundamental solitons due to higher-order nonlinear perturbations to the NLS. Numerical simulations using an extended NLS model described by the modified nonlinear Schrödinger equation, show excellent agreement with experiment and highlight the universal role that higher-order nonlinear perturbations to the NLS play in supercontinuum generation.

Super-rogue waves in simulations based on weakly nonlinear and fully nonlinear hydrodynamic equations.

The rogue wave solutions (rational multibreathers) of the nonlinear Schrödinger equation (NLS) are tested in numerical simulations of weakly nonlinear and fully nonlinear hydrodynamic equations. Only the lowest order solutions from 1 to 5 are considered. A higher accuracy of wave propagation in space is reached using the modified NLS equation, also known as the Dysthe equation. This numerical modeling allowed us to directly compare simulations with recent results of laboratory measurements in Chabchoub et al. [Phys. Rev. E 86, 056601 (2012)]. In order to achieve even higher physical accuracy, we employed fully nonlinear simulations of potential Euler equations. These simulations provided us with basic characteristics of long time evolution of rational solutions of the NLS equation in the case of near-breaking conditions. The analytic NLS solutions are found to describe the actual wave dynamics of steep waves reasonably well.

Experimental observation of dark solitons on the surface of water.

We present the first ever observation of dark solitons on the surface of water. It takes the form of an amplitude drop of the carrier wave which does not change shape in propagation. The shape and width of the soliton depend on the water depth, carrier frequency, and the amplitude of the background wave. The experimental data taken in a water tank show an excellent agreement with the theory. These results may improve our understanding of the nonlinear dynamics of water waves at finite depths.

Observation of a hierarchy of up to fifth-order rogue waves in a water tank.

We present experimental observations of the hierarchy of rational breather solutions of the nonlinear Schrödinger equation (NLS) generated in a water wave tank. First, five breathers of the infinite hierarchy have been successfully generated, thus confirming the theoretical predictions of their existence. Breathers of orders higher than five appeared to be unstable relative to the wave-breaking effect of water waves. Due to the strong influence of the wave breaking and relatively small carrier steepness values of the experiment these results for the higher-order solutions do not directly explain the formation of giant oceanic rogue waves. However, our results are important in understanding the dynamics of rogue water waves and may initiate similar experiments in other nonlinear dispersive media such as fiber optics and plasma physics, where the wave propagation is governed by the NLS.

Experimental study of spatiotemporally localized surface gravity water waves.

We present experimental results on the study of spatiotemporally localized surface wave events on deep water that can be modeled using the Peregrine breather solution of the nonlinear Schrödinger equation. These are often considered as prototypes of oceanic rogue waves that can focus wave energy into a single wave packet. For small steepness values of the carrier gravity waves the Peregrine breathers are relatively wide, thus providing an excellent agreement between the theory and experimental results. For larger steepnesses the focusing leads to temporally and spatially shorter events. Nevertheless, agreement between measurements and the Peregrine breather theory remains reasonably good, with discrepancies of modulation gradients and spatiotemporal symmetries being tolerable. Lifetimes and travel distances of the spatiotemporally localized wave events determined from the experiment are in good agreement with the theory.

[Undergraduate teaching of anaesthesiology : a nationwide survey in Germany]. / Universitäre Lehre der Anästhesiologie : Bestandsaufnahme in Deutschland.

BACKGROUND: In 2003 anaesthesiology was implemented as a compulsory speciality of undergraduate teaching in Germany due to the revised regulations of medical education. Besides the preexisting subject of emergency medicine an obligatory course in anaesthesiology was introduced. Thus anaesthesiology has gained considerable importance in all medical faculties. To gain insight into the current status of undergraduate medical education in the university departments of anaesthesiology a nationwide survey at all university departments in Germany was initiated. METHODS: In cooperation with the German Society of Anaesthesiology and Intensive Care Medicine (DGAI) a standardized questionnaire was developed and sent to 36 departments of anaesthesiology of all German medical faculties. Questions concerned the structure of the respective curriculum, learning goals, teaching, assessment and evaluation methods as well as facultative courses. RESULTS: Of the 36 university departments of anaesthesiology, 35 returned the questionnaire. In 66% undergraduate education in anaesthesiology is part of the fourth or fifth year of medical training. In 91% of the faculties lectures were accompanied by teaching in small student groups. A simulator-based training is integrated either in anaesthesiology and/or in emergency medicine in 91% of the departments of anaesthesiology. In 69% of the departments contents of anaesthesia, critical care medicine, emergency medicine and pain management are an integral part of undergraduate teaching in anaesthesiology. The primary learning goals are directed towards general anaesthesia and there is less focus on topics of preoperative or postoperative care, such as preoperative risk evaluation, postoperative pain management and regional anaesthesia. Besides a multiple choice test (91%) oral (63%) and/or practical examinations (71%) are used as assessment tools. In 71% of the medical faculties the respective departments of anaesthesiology are leading and organising skills laboratories. In student evaluations anaesthesiology achieved best ranking in 66% of the medical faculties compared to other specialties. The possibility to take an elective course in anaesthesiology exists in 74% of the faculties. Half of these faculties organize this elective as a longitudinal course for one complete semester, the other half as a full time course over mostly 1 or 2 weeks. At present E-learning plays a minor role. CONCLUSIONS: This survey provides detailed information about the current status of undergraduate teaching of the university departments of anaesthesiology in Germany. The study shows a remarkable consistency of structure, contents and methods of education in anaesthesiology throughout all university departments of anaesthesiology. This information is the basis for triggering synergistic effects, for improving educational standards in anaesthesiology and for introducing a platform for developing modern learning media, e.g. through the scientific society DGAI.

Enhanced gene delivery to the neonatal retina through systemic administration of tyrosine-mutated AAV9.

Delivery of therapeutic genes to a large region of the retina with minimal damage from intraocular surgery is a central goal of treatment for retinal degenerations. Recent studies have shown that AAV9 can reach the central nervous system (CNS) and retina when administered systemically to neonates, which is a promising strategy for some retinal diseases. We investigated whether the retinal transduction efficiency of systemically delivered AAV9 could be improved by mutating capsid surface tyrosines, previously shown to increase the infectivity of several AAV vectors. Specifically, we evaluated retinal transduction following neonatal intravascular administration of AAV9 vectors containing tyrosine to phenylalanine mutations at two highly conserved sites. Our results show that a novel, double tyrosine mutant of AAV9 significantly enhanced gene delivery to the CNS and retina, and that gene expression can be restricted to rod photoreceptor cells by incorporating a rhodopsin promoter. This approach provides a new methodology for the development of retinal gene therapies or creation of animal models of neurodegenerative disease.

Biodiversity information platforms: From standards to interoperability.

One of the most serious bottlenecks in the scientific workflows of biodiversity sciences is the need to integrate data from different sources, software applications, and services for analysis, visualisation and publication. For more than a quarter of a century the TDWG Biodiversity Information Standards organisation has a central role in defining and promoting data standards and protocols supporting interoperability between disparate and locally distributed systems.Although often not sufficiently recognized, TDWG standards are the foundation of many popular Biodiversity Informatics applications and infrastructures ranging from small desktop software solutions to large scale international data networks. However, individual scientists and groups of collaborating scientist have difficulties in fully exploiting the potential of standards that are often notoriously complex, lack non-technical documentations, and use different representations and underlying technologies. In the last few years, a series of initiatives such as Scratchpads, the EDIT Platform for Cybertaxonomy, and biowikifarm have started to implement and set up virtual work platforms for biodiversity sciences which shield their users from the complexity of the underlying standards. Apart from being practical work-horses for numerous working processes related to biodiversity sciences, they can be seen as information brokers mediating information between multiple data standards and protocols.The ViBRANT project will further strengthen the flexibility and power of virtual biodiversity working platforms by building software interfaces between them, thus facilitating essential information flows needed for comprehensive data exchange, data indexing, web-publication, and versioning. This work will make an important contribution to the shaping of an international, interoperable, and user-oriented biodiversity information infrastructure.