Dipolar dynamos in stratified systems

Observations of low-mass stars reveal a variety of magnetic field topologies ranging from large-scale, axial dipoles to more complex magnetic fields. At the same time, three-dimensional spherical simulations of convectively driven dynamos reproduce a similar diversity, which is commonly obtained either with Boussinesq models or with more realistic models based on the anelastic approximation, which take into account the variation of the density with depth throughout the convection zone. Nevertheless, a conclusion from different anelastic studies is that dipolar solutions seem more difficult to obtain as soon as substantial stratifications are considered. In this paper, we aim at clarifying this point by investigating in more detail the influence of the density stratification on dipolar dynamos. To that end, we rely on a systematic parameter study that allows us to clearly follow the evolution of the stability domain of the dipolar branch as the density stratification is increased. The impact of the density stratification both on the dynamo onset and the dipole collapse is discussed and compared to previous Boussinesq results. Furthermore, our study indicates that the loss of the dipolar branch does not ensue from a specific modification of the dynamo mechanisms related to the background stratification, but could instead result from a bias as our observations naturally favour a certain domain in the parameter space characterized by moderate values of the Ekman number, owing to current computational limitations. Moreover, we also show that the critical magnetic Reynolds number of the dipolar branch is scarcely modified by the increase of the density stratification, which provides an important insight into the global understanding of the impact of the density stratification on the stability domain of the dipolar dynamo branch

Topology and field strength in spherical, anelastic dynamo simulations

Numerical modelling of convection driven dynamos in the Boussinesq approximation revealed fundamental characteristics of the dynamo-generated magnetic fields and the fluid flow. Because these results were obtained for an incompressible fluid, their validity for gas planets and stars remains to be assessed. A common approach is to take some density stratification into account with the so-called anelastic approximation. The validity of previous results obtained in the Boussinesq approximation is tested for anelastic models. We point out and explain specific differences between both types of models, in particular with respect to the field geometry and the field strength, but we also compare scaling laws for the velocity amplitude, the magnetic dissipation time, and the convective heat flux. Our investigation is based on a systematic parameter study of spherical dynamo models in the anelastic approximation. We make use of a recently developed numerical solver and provide results for the test cases of the anelastic dynamo benchmark. The dichotomy of dipolar and multipolar dynamos identified in Boussinesq simulations is also present in our sample of anelastic models. Dipolar models require that the typical length scale of convection is an order of magnitude larger than the Rossby radius. However, the distinction between both classes of models is somewhat less explicit than in previous studies. This is mainly due to two reasons: we found a number of models with a considerable equatorial dipole contribution and an intermediate overall dipole field strength. Furthermore, a large density stratification may hamper the generation of dipole dominated magnetic fields. Previously proposed scaling laws, such as those for the field strength, are similarly applicable to anelastic models. It is not clear, however, if this consistency necessarily implies similar dynamo processes in both settings.Comment: 14 pages, 11 figure

Oscillatory dynamos and their induction mechanisms

Context: Large-scale magnetic fields resulting from hydromagnetic dynamo action may differ substantially in their time dependence. Cyclic field variations, characteristic for the solar magnetic field, are often explained by an important omega-effect, i.e. by the stretching of field lines due to strong differential rotation. Aims: The dynamo mechanism of a convective, oscillatory dynamo model is investigated. Methods: We solve the MHD-equations for a conducting Boussinesq fluid in a rotating spherical shell. For a resulting oscillatory model, dynamo coefficients have been computed with the help of the so-called test-field method. Subsequently, these coefficients have been used in a mean-field calculation in order to explore the underlying dynamo mechanism. Results: Although the rather strong differential rotation present in this model influences the magnetic field, the omega-effect alone is not responsible for its cyclic time variation. If the omega-effect is suppressed, the resulting alpha^2-dynamo remains oscillatory. Surprisingly, the corresponding alpha-omega dynamo leads to a non-oscillatory magnetic field. Conclusions: The assumption of an alpha-omega mechanism does not explain the occurrence of magnetic cycles satisfactorily

Combined inactivation of the Clostridium cellulolyticum lactate and malate dehydrogenase genes substantially increases ethanol yield from cellulose and switchgrass fermentations

<p>Abstract</p> <p>Background</p> <p>The model bacterium <it>Clostridium cellulolyticum </it>efficiently degrades crystalline cellulose and hemicellulose, using cellulosomes to degrade lignocellulosic biomass. Although it imports and ferments both pentose and hexose sugars to produce a mixture of ethanol, acetate, lactate, H₂and CO₂, the proportion of ethanol is low, which impedes its use in consolidated bioprocessing for biofuels production. Therefore genetic engineering will likely be required to improve the ethanol yield. Plasmid transformation, random mutagenesis and heterologous expression systems have previously been developed for <it>C. cellulolyticum</it>, but targeted mutagenesis has not been reported for this organism, hindering genetic engineering.</p> <p>Results</p> <p>The first targeted gene inactivation system was developed for <it>C. cellulolyticum</it>, based on a mobile group II intron originating from the <it>Lactococcus lactis </it>L1.LtrB intron. This markerless mutagenesis system was used to disrupt both the paralogous <smcaps>L</smcaps>-lactate dehydrogenase (<it>Ccel_2485; ldh</it>) and <smcaps>L</smcaps>-malate dehydrogenase (<it>Ccel_0137; mdh</it>) genes, distinguishing the overlapping substrate specificities of these enzymes. Both mutations were then combined in a single strain, resulting in a substantial shift in fermentation toward ethanol production. This double mutant produced 8.5-times more ethanol than wild-type cells growing on crystalline cellulose. Ethanol constituted 93% of the major fermentation products, corresponding to a molar ratio of ethanol to organic acids of 15, versus 0.18 in wild-type cells. During growth on acid-pretreated switchgrass, the double mutant also produced four times as much ethanol as wild-type cells. Detailed metabolomic analyses identified increased flux through the oxidative branch of the mutant's tricarboxylic acid pathway.</p> <p>Conclusions</p> <p>The efficient intron-based gene inactivation system produced the first non-random, targeted mutations in <it>C. cellulolyticum</it>. As a key component of the genetic toolbox for this bacterium, markerless targeted mutagenesis enables functional genomic research in <it>C</it>. <it>cellulolyticum </it>and rapid genetic engineering to significantly alter the mixture of fermentation products. The initial application of this system successfully engineered a strain with high ethanol productivity from cellobiose, cellulose and switchgrass.</p

Quantitative proteomic analysis of the influence of lignin on biofuel production by Clostridium acetobutylicum ATCC 824

Background: Clostridium acetobutylicum has been a focus of research because of its ability to produce high-value compounds that can be used as biofuels. Lignocellulose is a promising feedstock, but the lignin–cellulose–hemicellulose biomass complex requires chemical pre-treatment to yield fermentable saccharides, including cellulose-derived cellobiose, prior to bioproduction of acetone–butanol–ethanol (ABE) and hydrogen. Fermentation capability is limited by lignin and thus process optimization requires knowledge of lignin inhibition. The effects of lignin on cellular metabolism were evaluated for C. acetobutylicum grown on medium containing either cellobiose only or cellobiose plus lignin. Microscopy, gas chromatography and 8-plex iTRAQ-based quantitative proteomic technologies were applied to interrogate the effect of lignin on cellular morphology, fermentation and the proteome. Results: Our results demonstrate that C. acetobutylicum has reduced performance for solvent production when lignin is present in the medium. Medium supplemented with 1 g L−1 of lignin led to delay and decreased solvents production (ethanol; 0.47 g L−1 for cellobiose and 0.27 g L−1 for cellobiose plus lignin and butanol; 0.13 g L−1 for cellobiose and 0.04 g L−1 for cellobiose plus lignin) at 20 and 48 h, respectively, resulting in the accumulation of acetic acid and butyric acid. Of 583 identified proteins (FDR < 1 %), 328 proteins were quantified with at least two unique peptides. Up- or down-regulation of protein expression was determined by comparison of exponential and stationary phases of cellobiose in the presence and absence of lignin. Of relevance, glycolysis and fermentative pathways were mostly down-regulated, during exponential and stationary growth phases in presence of lignin. Moreover, proteins involved in DNA repair, transcription/translation and GTP/ATP-dependent activities were also significantly affected and these changes were associated with altered cell morphology. Conclusions: This is the first comprehensive analysis of the cellular responses of C. acetobutylicum to lignin at metabolic and physiological levels. These data will enable targeted metabolic engineering strategies to optimize biofuel production from biomass by overcoming limitations imposed by the presence of lignin

Unconventional Repertoire Profile Is Imprinted during Acute Chikungunya Infection for Natural Killer Cells Polarization toward Cytotoxicity

Chikungunya virus (CHIKV) is a worldwide emerging pathogen. In humans it causes a syndrome characterized by high fever, polyarthritis, and in some cases lethal encephalitis. Growing evidence indicates that the innate immune response plays a role in controlling CHIKV infection. We show here that CHIKV induces major but transient modifications in NK-cell phenotype and function soon after the onset of acute infection. We report a transient clonal expansion of NK cells that coexpress CD94/NKG2C and inhibitory receptors for HLA-C1 alleles and are correlated with the viral load. Functional tests reveal cytolytic capacity driven by NK cells in the absence of exogenous signals and severely impaired IFN-γ production. Collectively these data provide insight into the role of this unique subset of NK cells in controlling CHIKV infection by subset-specific expansion in response to acute infection, followed by a contraction phase after viral clearance

Natural killer cells: walking three paths down memory lane

Immunological memory has traditionally been regarded as a unique feature of the adaptive immune response, mediated in an antigen-specific manner by T and B lymphocytes. All other hematopoietic cells, including natural killer (NK) cells, are classified as innate immune cells, which have been considered short-lived but can respond rapidly against pathogens in a manner not thought to be driven by antigen. Interestingly, NK cells have recently been shown to survive long term after antigen exposure and subsequently mediate antigen-specific recall responses. In this review, we address the similarities between, and the controversies surrounding, three major viewpoints of NK memory that have arisen from these recent studies: (i) mouse cytomegalovirus (MCMV)-induced memory; (ii) cytokine-induced memory; and (iii) liver-restricted memory cells

Axisymmetric and non-axisymmetric magnetostrophic MRI modes

International audienceThe magnetorotational-instability is central to the understanding of many astrophysical magnetohydrodynamic flows (in particular accretion discs). We have recently shown that a modified version of this instability, the magnetostrophic MRI (MS-MRI), is relevant to the dynamics of the Earth liquid core (Petitdemange et al., 2008). Our previous study used a purely axial imposed magnetic field and considered only axisymmetric instabilities. We investigate here the effects of a large scale toroidal magnetic field on the development and saturation of the MS-MRI both in an axisymmetric setup and in fully three-dimensional configurations. We use direct numerical modeling of the full MHD equations (both in the linear and non-linear regimes) in a spherical geometry. We interpret our results using WKB expansions and shearing coordinates. We find that three-dimensional MS-MRI modes exhibit a strong helical structure for parameters relevant to planetary interiors. Three-dimensional MS-MRI modes share some similarities with their axisymmetric counterparts. They are amplified on the same short timescale. When non-linear effects become significant, they act to decrease the shear. During saturation, the magnetic structure expands spatially, while drifting at a constant rate along the direction of the rotation axis. A striking result is that an m=1 mode can dominate in the non-linear regime when a sufficiently large toroidal field is present. Three-dimensional MS-MRI modes could play an important role in planetary interior dynamics. They can cause rapid magnetic field variations and also act to limit the shear in the conducting liquid core