Limits of feedback control in bacterial chemotaxis

Inputs to signaling pathways can have complex statistics that depend on the environment and on the behavioral response to previous stimuli. Such behavioral feedback is particularly important in navigation. Successful navigation relies on proper coupling between sensors, which gather information during motion, and actuators, which control behavior. Because reorientation conditions future inputs, behavioral feedback can place sensors and actuators in an operational regime different from the resting state. How then can organisms maintain proper information transfer through the pathway while navigating diverse environments? In bacterial chemotaxis, robust performance is often attributed to the zero integral feedback control of the sensor, which guarantees that activity returns to resting state when the input remains constant. While this property provides sensitivity over a wide range of signal intensities, it remains unclear how other parameters affect chemotactic performance, especially when considering that the swimming behavior of the cell determines the input signal. Using analytical models and simulations that incorporate recent experimental evidences about behavioral feedback and flagellar motor adaptation we identify an operational regime of the pathway that maximizes drift velocity for various environments and sensor adaptation rates. This optimal regime is outside the dynamic range of the motor response, but maximizes the contrast between run duration up and down gradients. In steep gradients, the feedback from chemotactic drift can push the system through a bifurcation. This creates a non-chemotactic state that traps cells unless the motor is allowed to adapt. Although motor adaptation helps, we find that as the strength of the feedback increases individual phenotypes cannot maintain the optimal operational regime in all environments, suggesting that diversity could be beneficial.Comment: Corrected one typo. First two authors contributed equally. Notably, there were various typos in the values of the parameters in the model of motor adaptation. The results remain unchange

Buoyant magnetic flux ropes in a magnetized stellar envelope: Idealized numerical 2.5-D MHD simulations

Context: The context of this paper is buoyant toroidal magnetic flux ropes, which is a part of flux tube dynamo theory and the framework of solar-like magnetic activity. Aims: The aim is to investigate how twisted magnetic flux ropes interact with a simple magnetized stellar model envelope--a magnetic "convection zone"--especially to examine how the twisted magnetic field component of a flux rope interacts with a poloidal magnetic field in the convection zone. Method: Both the flux ropes and the atmosphere are modelled as idealized 2.5-dimensional concepts using high resolution numerical magneto-hydrodynamic (MHD) simulations. Results: It is illustrated that twisted toroidal magnetic flux ropes can interact with a poloidal magnetic field in the atmosphere to cause a change in both the buoyant rise dynamics and the flux rope's geometrical shape. The details of these changes depend primarily on the polarity and strength of the atmospheric field relative to the field strength of the flux rope. It is suggested that the effects could be verified observationally.Comment: 8 pages, 5 figures (9 files), accepted by A&

The physics of twisted magnetic tubes rising in a stratified medium: two dimensional results

The physics of a twisted magnetic flux tube rising in a stratified medium is studied using a numerical MHD code. The problem considered is fully compressible (no Boussinesq approximation), includes ohmic resistivity, and is two dimensional, i.e., there is no variation of the variables in the direction of the tube axis. We study a high plasma beta case with small ratio of radius to external pressure scaleheight. The results obtained can therefore be of relevance to understand the transport of magnetic flux across the solar convection zone.Comment: To be published in ApJ, Vol. 492, Jan 10th, 1998; 25 pages, 16 figures. NEW VERSION: THE PREVIOUS ONE DIDN'T PRINT CORRECTLY. The style file overrulehere.sty is include

Flux-loss of buoyant ropes interacting with convective flows

We present 3-d numerical magneto-hydrodynamic simulations of a buoyant, twisted magnetic flux rope embedded in a stratified, solar-like model convection zone. The flux rope is given an initial twist such that it neither kinks nor fragments during its ascent. Moreover, its magnetic energy content with respect to convection is chosen so that the flux rope retains its basic geometry while being deflected from a purely vertical ascent by convective flows. The simulations show that magnetic flux is advected away from the core of the flux rope as it interacts with the convection. The results thus support the idea that the amount of toroidal flux stored at or near the bottom of the solar convection zone may currently be underestimated.Comment: 5 pages, 3 figures. Accepted for publication in Astronomy & Astrophysic

Posttraumatic ankle arthritis due to a novel Nocardia species

Introduction: Nocardial arthritis in immunocompetent patients is rare, and the optimum duration of antimicrobial therapy is unknown, although several months of antibiotic treatment is often recommended. Case report: We here report the first case of human infection with a novel Nocardia sp., summarise the epidemiology of nocardial arthritis and outline the feasibility of relatively short antibiotic treatments after careful surgical drainag

Numerical Experiments on the Two-step Emergence of Twisted Magnetic Flux Tubes in the Sun

We present the new results of the two-dimensional numerical experiments on the cross-sectional evolution of a twisted magnetic flux tube rising from the deeper solar convection zone (-20,000 km) to the corona through the surface. The initial depth is ten times deeper than most of previous calculations focusing on the flux emergence from the uppermost convection zone. We find that the evolution is illustrated by the two-step process described below: the initial tube rises due to its buoyancy, subject to aerodynamic drag due to the external flow. Because of the azimuthal component of the magnetic field, the tube maintains its coherency and does not deform to become a vortex roll pair. When the flux tube approaches the photosphere and expands sufficiently, the plasma on the rising tube accumulates to suppress the tube's emergence. Therefore, the flux decelerates and extends horizontally beneath the surface. This new finding owes to our large scale simulation calculating simultaneously the dynamics within the interior as well as above the surface. As the magnetic pressure gradient increases around the surface, magnetic buoyancy instability is triggered locally and, as a result, the flux rises further into the solar corona. We also find that the deceleration occurs at a higher altitude than in our previous experiment using magnetic flux sheets (Toriumi and Yokoyama). By conducting parametric studies, we investigate the conditions for the two-step emergence of the rising flux tube: field strength > 1.5x10^4 G and the twist > 5.0x10^-4 km^-1 at -20,000 km depth.Comment: 42 pages, 13 figures, 2 tables, accepted for publication in ApJ. High-resolution figures will appear in the published versio

Randomized non-inferiority trial to compare trimethoprim/sulfamethoxazole plus rifampicin versus linezolid for the treatment of MRSA infection

Objectives The therapeutic arsenal for MRSA infections is limited. The aim of this study was to assess the non-inferiority of a combination of trimethoprim/sulfamethoxazole plus rifampicin versus linezolid alone for the treatment of MRSA infection. Methods We conducted a randomized, open-label, single-centre, non-inferiority trial comparing trimethoprim/sulfamethoxazole (160 mg/800 mg three times daily) plus rifampicin (600 mg once a day) versus linezolid (600 mg twice a day) alone in adult patients with various types of MRSA infection. Patients were allocated 1: 1 to either regimen. The primary outcome was clinical cure at 6 weeks after the end of treatment (non-inferiority margin 20%) assessed by both ITT and PP analyses. Secondary outcomes included the microbiologically documented persistence of MRSA in clinical cultures, mortality and adverse events. The study protocol has been registered with ClinicalTrials.gov (NCT00711854). Results Overall, 150 patients were randomized to one of the two treatment arms between January 2009 and December 2013 and were included in the ITT analysis. Of these 56/75 (74.7%) in the linezolid group and 59/75 (78.7%) in the trimethoprim/sulfamethoxazole and rifampicin group experienced clinical success (risk difference 4%, 95% CI −9.7% to 17.6%). The results were confirmed by the PP analysis, with 54/66 (81.8%) cured patients in the linezolid group versus 52/59 (88.1%) in the trimethoprim/sulfamethoxazole and rifampicin group (risk difference 6.3%, 95% CI −6.8% to 19.2%). There were no statistically significant differences between the two groups in any of the secondary outcomes, including microbiologically documented failure. Four adverse drug reactions attributed to the study medication occurred in the linezolid group versus nine in the trimethoprim/sulfamethoxazole and rifampicin group. Conclusions Compared with linezolid, trimethoprim/sulfamethoxazole and rifampicin seems to be non-inferior in the treatment of MRSA infectio

Reusing the NCBO BioPortal technology for agronomy to build AgroPortal

Many vocabularies and ontologies are produced to represent and annotate agronomic data. By reusing the NCBO BioPortal technology, we have already designed and implemented an advanced prototype ontology repository for the agronomy domain. We plan to turn that prototype into a real service to the community. The AgroPortal project aims at reusing the scientific outcomes and experience of the biomedical domain in the context of plant, agronomic, food, environment (perhaps animal) sciences. We offer an ontology portal which features ontology hosting, search, versioning, visualization, comment, recommendation, enables semantic annotation, as well as storing and exploiting ontology alignments. All of these within a fully semantic web compliant infrastructure. The AgroPortal specifically pays attention to respect the requirements of the agronomic community in terms of ontology formats (e.g., SKOS, trait dictionaries) or supported features. In this paper, we present our prototype as well as preliminary outputs of four driving agronomic use cases. With the experience acquired in the biomedical domain and building atop of an already existing technology, we think that AgroPortal offers a robust and stable reference repository that will become highly valuable for the agronomic domain