Showing papers by "University of Nice Sophia Antipolis published in 2013"

The mechanisms of Hedgehog signalling and its roles in development and disease.

Abstract: The cloning of the founding member of the Hedgehog (HH) family of secreted proteins two decades ago inaugurated a field that has diversified to encompass embryonic development, stem cell biology and tissue homeostasis. Interest in HH signalling increased when the pathway was implicated in several cancers and congenital syndromes. The mechanism of HH signalling is complex and remains incompletely understood. Nevertheless, studies have revealed novel biological insights into this system, including the function of HH lipidation in the secretion and transport of this ligand and details of the signal transduction pathway, which involves Patched 1, Smoothened and GLI proteins (Cubitus interruptus in Drosophila melanogaster), as well as, in vertebrates, primary cilia.

Recent advances in designing superhydrophobic surfaces.

Abstract: The interest in superhydrophobic surfaces has grown exponentially over recent decades. Since the lotus leaf dual hierarchical structure was discovered, researchers have investigated the foundations of self-cleaning behavior. Generally, surface micro/nanostructuring combined with low surface energy of materials leads to extreme anti-wetting properties. The great number of papers on this subject attests the efforts of scientists in mimicking nature to generate superhydrophobicity. Besides the thirst for knowledge, scientists have been driven by the many possible industrial applications of superhydrophobic materials in several fields. Many methods and techniques have been developed to fabricate superhydrophobic surfaces, and the aim of this paper is to review the recent progresses in preparing manmade superhydrophobic surfaces.

A User’s Guide to Optimal Transport

Abstract: This text is an expanded version of the lectures given by the first author in the 2009 CIME summer school of Cetraro. It provides a quick and reasonably account of the classical theory of optimal mass transportation and of its more recent developments, including the metric theory of gradient flows, geometric and functional inequalities related to optimal transportation, the first and second order differential calculus in the Wasserstein space and the synthetic theory of metric measure spaces with Ricci curvature bounded from below.

Asteroseismic fundamental properties of solar-type stars observed by the nasa kepler mission

Abstract: We use asteroseismic data obtained by the NASA Kepler mission to estimate the fundamental properties of more than 500 main-sequence and sub-giant stars Data obtained during the first 10 months of Kepler science operations were used for this work, when these solar-type targets were observed for one month each in survey mode Stellar properties have been estimated using two global asteroseismic parameters and complementary photometric and spectroscopic data Homogeneous sets of effective temperatures, T eff, were available for the entire ensemble from complementary photometry; spectroscopic estimates of T eff and [Fe/H] were available from a homogeneous analysis of ground-based data on a subset of 87 stars We adopt a grid-based analysis, coupling six pipeline codes to 11 stellar evolutionary grids Through use of these different grid-pipeline combinations we allow implicitly for the impact on the results of stellar model dependencies from commonly used grids, and differences in adopted pipeline methodologies By using just two global parameters as the seismic inputs we are able to perform a homogenous analysis of all solar-type stars in the asteroseismic cohort, including many targets for which it would not be possible to provide robust estimates of individual oscillation frequencies (due to a combination of low signal-to-noise ratio and short dataset lengths) The median final quoted uncertainties from consolidation of the grid-based analyses are for the full ensemble (spectroscopic subset) approximately 108% (54%) in mass, 44% (22%) in radius, 0017 dex (0010 dex) in log g, and 43% (28%) in mean density Around 36% (57%) of the stars have final age uncertainties smaller than 1 Gyr These ages will be useful for ensemble studies, but should be treated carefully on a star-by-star basis Future analyses using individual oscillation frequencies will offer significant improvements on up to 150 stars, in particular for estimates of the ages, where having the individual frequency data is most important

Superhydrophobic Surfaces by Electrochemical Processes

Abstract: This review is an exhaustive representation of the electrochemical processes reported in the literature to produce superhydrophobic surfaces. Due to the intensive demand in the elaboration of superhydrophobic materials using low-cost, reproducible and fast methods, the use of strategies based on electrochemical processes have exponentially grown these last five years. These strategies are separated in two parts: the oxidation processes, such as oxidation of metals in solution, the anodization of metals or the electrodeposition of conducting polymers, and the reduction processed such as the electrodeposition of metals or the galvanic deposition. One of the main advantages of the electrochemical processes is the relative easiness to produce various surface morphologies and a precise control of the structures at a micro- or a nanoscale.

A link between host plant adaptation and pesticide resistance in the polyphagous spider mite Tetranychus urticae.

Abstract: Plants produce a wide range of allelochemicals to defend against herbivore attack, and generalist herbivores have evolved mechanisms to avoid, sequester, or detoxify a broad spectrum of natural defense compounds. Successful arthropod pests have also developed resistance to diverse classes of pesticides and this adaptation is of critical importance to agriculture. To test whether mechanisms to overcome plant defenses predispose the development of pesticide resistance, we examined adaptation of the generalist two-spotted spider mite, Tetranychus urticae, to host plant transfer and pesticides. T. urticae is an extreme polyphagous pest with more than 1,100 documented hosts and has an extraordinary ability to develop pesticide resistance. When mites from a pesticide-susceptible strain propagated on bean were adapted to a challenging host (tomato), transcriptional responses increased over time with ∼7.5% of genes differentially expressed after five generations. Whereas many genes with altered expression belonged to known detoxification families (like P450 monooxygenases), new gene families not previously associated with detoxification in other herbivores showed a striking response, including ring-splitting dioxygenase genes acquired by horizontal gene transfer. Strikingly, transcriptional profiles of tomato-adapted mites resembled those of multipesticide-resistant strains, and adaptation to tomato decreased the susceptibility to unrelated pesticide classes. Our findings suggest key roles for both an expanded environmental response gene repertoire and transcriptional regulation in the life history of generalist herbivores. They also support a model whereby selection for the ability to mount a broad response to the diverse defense chemistry of plants predisposes the evolution of pesticide resistance in generalists.

Genomic evidence for ameiotic evolution in the bdelloid rotifer Adineta vaga

Abstract: Loss of sexual reproduction is considered an evolutionary dead end for metazoans, but bdelloid rotifers challenge this view as they appear to have persisted asexually for millions of years. Neither male sex organs nor meiosis have ever been observed in these microscopic animals: oocytes are formed through mitotic divisions, with no reduction of chromosome number and no indication of chromosome pairing. However, current evidence does not exclude that they may engage in sex on rare, cryptic occasions. Here we report the genome of a bdelloid rotifer, Adineta vaga (Davis, 1873), and show that its structure is incompatible with conventional meiosis. At gene scale, the genome of A. vaga is tetraploid and comprises both anciently duplicated segments and less divergent allelic regions. However, in contrast to sexual species, the allelic regions are rearranged and sometimes even found on the same chromosome. Such structure does not allow meiotic pairing; instead, we find abundant evidence of gene conversion, which may limit the accumulation of deleterious mutations in the absence of meiosis. Gene families involved in resistance to oxidation, carbohydrate metabolism and defence against transposons are significantly expanded, which may explain why transposable elements cover only 3% of the assembled sequence. Furthermore, 8% of the genes are likely to be of non-metazoan origin and were probably acquired horizontally. This apparent convergence between bdelloids and prokaryotes sheds new light on the evolutionary significance of sex.

A guided tour of multiparameter full-waveform inversion with multicomponent data: From theory to practice

Abstract: Building high-resolution models of several physical properties of the subsurface by multiparameter full waveform inversion (FWI) of multicomponent data will be a challenge for seismic imaging for the next decade. The physical properties, which govern propagation of seismic waves in visco-elastic media, are the velocities of the P- and S-waves, density, attenuation, and anisotropic parameters. Updating each property is challenging because several parameters of a different nature can have a coupled effect on the seismic response for a particular propagation regime (from transmission to reflection). This is generally referred to as trade-off or crosstalk between parameters. Moreover, different parameter classes can have different orders of magnitude or physical units and footprints of different strength in the wavefield, which can make the inversion poorly conditioned if it is not properly scaled.

Direct imaging of a cold jovian exoplanet in orbit around the sun-like star gj 504

Abstract: Several exoplanets have recently been imaged at wide separations of >10?AU from their parent stars. These span a limited range of ages ( 0.5?mag), implying thick cloud covers. Furthermore, substantial model uncertainties exist at these young ages due to the unknown initial conditions at formation, which can lead to an order of magnitude of uncertainty in the modeled planet mass. Here, we report the direct-imaging discovery of a Jovian exoplanet around the Sun-like star GJ 504, detected as part of the SEEDS survey. The system is older than all other known directly imaged planets; as a result, its estimated mass remains in the planetary regime independent of uncertainties related to choices of initial conditions in the exoplanet modeling. Using the most common exoplanet cooling model, and given the system age of 160?Myr, GJ 504b has an estimated mass of 4 Jupiter masses, among the lowest of directly imaged planets. Its projected separation of 43.5?AU exceeds the typical outer boundary of ~30?AU predicted for the core accretion mechanism. GJ 504b is also significantly cooler (510 K) and has a bluer color (J ? H = ?0.23?mag) than previously imaged exoplanets, suggesting a largely cloud-free atmosphere accessible to spectroscopic characterization. Thus, it has the potential of providing novel insights into the origins of giant planets as well as their atmospheric properties.

The VIMOS Public Extragalactic Redshift Survey (VIPERS) - Galaxy clustering and redshift-space distortions at z ≃ 0.8 in the first data release

Abstract: We present in this paper the general real- and redshift-space clustering properties of galaxies as measured in the first data release of the VIPERS survey. VIPERS is a large redshift survey designed to probe the distant Universe and its large-scale structure at 0.5 < z < 1.2. We describe in this analysis the global properties of the sample and discuss the survey completeness and associated corrections. This sample allows us to measure the galaxy clustering with an unprecedented accuracy at these redshifts. From the redshift-space distortions observed in the galaxy clustering pattern we provide a first measurement of the growth rate of structure at z = 0.8: f\sigma_8 = 0.47 +/- 0.08. This is completely consistent with the predictions of standard cosmological models based on Einstein gravity, although this measurement alone does not discriminate between different gravity models.

Past, present, and future of radiotherapy for the benefit of patients.

Abstract: Radiotherapy has been driven by constant technological advances since the discovery of X-rays in 1895. Radiotherapy aims to sculpt the optimal isodose on the tumour volume while sparing normal tissues. The benefits are threefold: patient cure, organ preservation and cost-efficiency. The efficacy and tolerance of radiotherapy were demonstrated by randomized trials in many different types of cancer (including breast, prostate and rectum) with a high level of scientific evidence. Such achievements, of major importance for the quality of life of patients, have been fostered during the past decade by linear accelerators with computer-assisted technology. More recently, these developments were augmented by proton and particle beam radiotherapy, usually combined with surgery and medical treatment in a multidisciplinary and personalized strategy against cancer. This article reviews the timeline of 100 years of radiotherapy with a focus on breakthroughs in the physics of radiotherapy and technology during the past two decades, and the associated clinical benefits.

Inference of Inhomogeneous Clouds in an Exoplanet Atmosphere

Abstract: We present new visible and infrared observations of the hot Jupiter Kepler-7b to determine its atmospheric properties. Our analysis allows us to (1) refine Kepler-7b's relatively large geometric albedo of Ag = 0.35 ± 0.02, (2) place upper limits on Kepler-7b thermal emission that remains undetected in both Spitzer bandpasses and (3) report a westward shift in the Kepler optical phase curve. We argue that Kepler-7b's visible flux cannot be due to thermal emission or Rayleigh scattering from H2 molecules. We therefore conclude that high altitude, optically reflective clouds located west from the substellar point are present in its atmosphere. We find that a silicate-based cloud composition is a possible candidate. Kepler-7b exhibits several properties that may make it particularly amenable to cloud formation in its upper atmosphere. These include a hot deep atmosphere that avoids a cloud cold trap, very low surface gravity to suppress cloud sedimentation, and a planetary equilibrium temperature in a range that allows for silicate clouds to potentially form in the visible atmosphere probed by Kepler. Our analysis does not only present evidence of optically thick clouds on Kepler-7b but also yields the first map of clouds in an exoplanet atmosphere.

Guidelines for the management of vitiligo: the European Dermatology Forum consensus

Abstract: The aetiopathogenic mechanisms of vitiligo are still poorly understood, and this has held back progress in diagnosis and treatment. Up until now, treatment guidelines have existed at national levels, but no common European viewpoint has emerged. This guideline for the treatment of segmental and nonsegmental vitiligo has been developed by the members of the Vitiligo European Task Force and other colleagues. It summarizes evidence-based and expert-based recommendations (S1 level).

Functional bowel symptoms in quiescent inflammatory bowel diseases: role of epithelial barrier disruption and low-grade inflammation

Abstract: Objective To determine the role of colonic barrier defects and low-grade inflammation in irritable bowel syndrome (IBS)-like symptoms in quiescent inflammatory bowel disease (IBD). Design Caecal biopsies were collected from 51 IBS, 49 quiescent IBD (31 Crohn9s disease (CD) and 18 ulcerative colitis (UC)) patients and 27 controls. IBS was assessed using the Rome III criteria and the IBS severity score. Epithelial barrier integrity was evaluated by determining the paracellular permeability of biopsies mounted in Ussing chambers and the mRNA expression of tight junction proteins (ZO-1, α-catenin and occludin). Low-grade inflammation was evaluated by counting cells, including intraepithelial lymphocytes (IELs), eosinophils and mast cells, and by determining the mRNA and protein expression of tumour necrosis factor (TNF)-α in biopsies and culture supernatants. Results IBS-like symptoms were present in 35.4 and 38% of CD and UC patients, respectively. Paracellular permeability was significantly increased in both quiescent IBD with IBS-like symptoms and IBS compared with quiescent IBD without IBS-like symptoms (p Conclusions In quiescent IBD, IBS-like symptoms related to persistent subclinical inflammation associated with increased colonic paracellular permeability. A persistent increase in TNF-α in colonic mucosa may contribute to the epithelial barrier defects associated with abdominal pain in quiescent IBD, but not in IBS. Optimisation of anti-inflammatory therapy may be considered in quiescent IBD with IBS-like symptoms.

3D mixing in hot Jupiters atmospheres. I. Application to the day/night cold trap in HD 209458b

Abstract: Context. Hot Jupiters exhibit atmospheric temperatures ranging from hundreds to thousands of Kelvin. Because of their large day-night temperature differences, condensable species that are stable in the gas phase on the dayside – such as TiO and silicates – may condense and gravitationally settle on the nightside. Atmospheric circulation may counterbalance this tendency to gravitationally settle. This three-dimensional (3D) mixing of condensable species has not previously been studied for hot Jupiters, yet it is crucial to assess the existence and distribution of TiO and silicates in the atmospheres of these planets.Aims. We investigate the strength of the nightside cold trap in hot Jupiters atmospheres by investigating the mechanisms and strength of the vertical mixing in these stably stratified atmospheres. We apply our model to the particular case of TiO to address the question of whether TiO can exist at low pressure in sufficient abundances to produce stratospheric thermal inversions despite the nightside cold trap.Methods. We modeled the 3D circulation of HD 209458b including passive (i.e. radiatively inactive) tracers that advect with the 3D flow, with a source and sink term on the nightside to represent their condensation into haze particles and their gravitational settling.Results. We show that global advection patterns produce strong vertical mixing that can keep condensable species aloft as long as they are trapped in particles of sizes of a few microns or less on the nightside. We show that vertical mixing results not from small-scale convection but from the large-scale circulation driven by the day-night heating contrast. Although this vertical mixing is not diffusive in any rigorous sense, a comparison of our results with idealized diffusion models allows a rough estimate of the effective vertical eddy diffusivities in these atmospheres. The parametrization Kzz =5 × 104 / P bar m2 s-1 , valid from ~1 bar to a few μ bar, can be used in 1D models of HD 209458b. Moreover, our models exhibit strong spatial and temporal variability in the tracer concentration that could result in observable variations during either transit or secondary eclipse measurements. Finally, we apply our model to the case of TiO in HD 209458b and show that the day-night cold trap would deplete TiO if it condenses into particles bigger than a few microns on the planet’s nightside, keeping it from creating the observed stratosphere of the planet.

Spiral Arms in the Asymmetrically Illuminated Disk of MWC 758 and Constraints on Giant Planets

Abstract: We present the first near-IR scattered light detection of the transitional disk associated with the Herbig Ae star MWC 758 using data obtained as part of the Strategic Exploration of Exoplanets and Disks with Subaru, and 1.1 {$μ$}m Hubble Space Telescope/NICMOS data. While submillimeter studies suggested there is a dust-depleted cavity with r = 0.''35, we find scattered light as close as 0.''1 (20-28 AU) from the star, with no visible cavity at H, K', or K$_s$ . We find two small-scaled spiral structures that asymmetrically shadow the outer disk. We model one of the spirals using spiral density wave theory, and derive a disk aspect ratio of h ~{} 0.18, indicating a dynamically warm disk. If the spiral pattern is excited by a perturber, we estimate its mass to be 5$^{+3}$ $_{- 4}$ M$_J$ , in the range where planet filtration models predict accretion continuing onto the star. Using a combination of non-redundant aperture masking data at L' and angular differential imaging with Locally Optimized Combination of Images at K' and K$_s$ , we exclude stellar or massive brown dwarf companions within 300 mas of the Herbig Ae star, and all but planetary mass companions exterior to 0.''5. We reach 5{$σ$} contrasts limiting companions to planetary masses, 3-4 M$_J$ at 1.''0 and 2 M$_J$ at 1.''55, using the COND models. Collectively, these data strengthen the case for MWC 758 already being a young planetary system.

Seismic diagnostics for transport of angular momentum in stars. I. Rotational splittings from the pre-main sequence to the red-giant branch.

Abstract: Context. Rotational splittings are currently measured for several main sequence stars and a large number of red giants with the space mission Kepler. This will provide stringent constraints on rotation profiles. Aims: Our aim is to obtain seismic constraints on the internal transport and surface loss of the angular momentum of oscillating solar-like stars. To this end, we study the evolution of rotational splittings from the pre-main sequence to the red-giant branch for stochastically excited oscillation modes. Methods: We modified the evolutionary code CESAM2K to take rotationally induced transport in radiative zones into account. Linear rotational splittings were computed for a sequence of 1.3 Ms models. Rotation profiles were derived from our evolutionary models and eigenfunctions from linear adiabatic oscillation calculations. Results: We find that transport by meridional circulation and shear turbulence yields far too high a core rotation rate for red-giant models compared with recent seismic observations. We discuss several uncertainties in the physical description of stars that could have an impact on the rotation profiles. For instance, we find that the Goldreich-Schubert-Fricke instability does not extract enough angular momentum from the core to account for the discrepancy. In contrast, an increase of the horizontal turbulent viscosity by 2 orders of magnitude is able to significantly decrease the central rotation rate on the red-giant branch. Conclusions: Our results indicate that it is possible that the prescription for the horizontal turbulent viscosity largely underestimates its actual value or else a mechanism not included in current stellar models of low mass stars is needed to slow down the rotation in the radiative core of red-giant stars.

Stimulation of Different Functional Groups of Bacteria by Various Plant Residues as a Driver of Soil Priming Effect

Abstract: The turnover of organic matter in soil depends on the activity of microbial decomposers. However, little is known about how modifications of the diversity of soil microbial communities induced by fresh organic matter (FOM) inputs can regulate carbon cycling. Here, we investigated the decomposition of two 13C labeled crop residues (wheat and alfalfa) and the dynamics of the genetic structure and taxonomic composition of the soil bacterial communities decomposing 13C labeled FOM and native unlabeled soil organic matter (SOM), respectively. It was achieved by combining the stable isotope probing method with molecular tools (DNA genotyping and pyrosequencing of 16S rDNA). Although a priming effect (PE) was always induced by residue addition, its intensity increased with the degradability of the plant residue. The input of both wheat and alfalfa residues induced a rapid dynamics of FOM-degrading communities, corresponding to the stimulation of bacterial phyla which have been previously described as copiotrophic organisms. However, the dynamics and the identity of the bacterial groups stimulated depended on the residue added, with Firmicutes dominating in the wheat treatment and Proteobacteria dominating in the alfalfa treatment after 3 days of incubation. In both treatments, SOM-degrading communities were dominated by Acidobacteria, Verrucomicrobia, and Gemmatimonadetes phyla which have been previously described as oligotrophic organisms. An early stimulation of SOM-degrading populations mainly belonging to Firmicutes and Bacteroidetes groups was observed in the alfalfa treatment whereas no change occurred in the wheat treatment. Our findings support the hypothesis that the succession of bacterial taxonomic groups occurring in SOM- and FOM-degrading communities during the degradation process may be an important driver of the PE, and consequently of carbon dynamics in soil.

The Stagger-grid: A grid of 3D stellar atmosphere models - I. Methods and general properties

Abstract: Aims. We present the Stagger-grid, a comprehensive grid of time-dependent, three-dimensional (3D), hydrodynamic model atmospheres for late-type stars with realistic treatment of radiative transfer, covering a wide range in stellar parameters. This grid of 3D models is intended for various applications besides studies of stellar convection and atmospheres per se, including stellar parameter determination, stellar spectroscopy and abundance analysis, asteroseismology, calibration of stellar evolution models, interferometry, and extrasolar planet search. In this introductory paper, we describe the methods we applied for the computation of the grid and discuss the general properties of the 3D models as well as of their temporal and spatial averages (here denoted ⟨3D⟩ models).Methods. All our models were generated with the Stagger-code, using realistic input physics for the equation of state (EOS) and for continuous and line opacities. Our ~ 220 grid models range in effective temperature, T eff , from 4000 to 7000 K in steps of 500 K, in surface gravity, log g , from 1.5 to 5.0 in steps of 0.5 dex, and metallicity, [Fe/H], from − 4.0 to + 0.5 in steps of 0.5 and 1.0 dex.Results. We find a tight scaling relation between the vertical velocity and the surface entropy jump, which itself correlates with the constant entropy value of the adiabatic convection zone. The range in intensity contrast is enhanced at lower metallicity. The granule size correlates closely with the pressure scale height sampled at the depth of maximum velocity. We compare the ⟨3D⟩ models with currently widely applied one-dimensional (1D) atmosphere models, as well as with theoretical 1D hydrostatic models generated with the same EOS and opacity tables as the 3D models, in order to isolate the effects of using self-consistent and hydrodynamic modeling of convection, rather than the classical mixing length theory approach. For the first time, we are able to quantify systematically over a broad range of stellar parameters the uncertainties of 1D models arising from the simplified treatment of physics, in particular convective energy transport. In agreement with previous findings, we find that the differences can be rather significant, especially for metal-poor stars.

The effective temperature scale of M dwarfs

Abstract: Context. Despite their large number in the Galaxy, M dwarfs remain elusive objects and the modeling of their photospheres has long remained a challenge (molecular opacities, dust cloud formation). Aims. Our objectives are to validate the BT-Settl model atmospheres, update the M dwarf Teff-spectral type relation, and find the atmospheric parameters of the stars in our sample. Methods. We compare two samples of optical spectra covering the whole M dwarf sequence with the most recent BT-Settl synthetic spectra and use a � 2 minimization technique to determine Teff. The first sample consists of 97 low-resolution spectra obta ined with NTT at La Silla Observatory. The second sample contains 55 mid-resolution spectra obtained at the Siding Spring Observa tory (SSO). The spectral typing is realized by comparison with already classified M dwarfs. Results. We show that the BT-Settl synthetic spectra reproduce the slope of the spectral energy distribution and most of its featu res. Only the CaOH band at 5570A and AlH and NaH hydrides in the bluepart of the spectra are still missing in the models. The Teff-scale obtained with the higher resolved SSO 2.3 m spectra is consistent with that obtained with the NTT spectra. We compare our Teffscale with those of other authors and to published isochrones using the BT-Settl colors. We also present relations between effective temperature, spectral type and colors of the M dwarfs.

Updating the Vibrio clades defined by multilocus sequence phylogeny: Proposal of eight new clades, and the description of Vibrio tritonius sp. nov.

Abstract: To date 142 species have been described in the Vibrionaceae family of bacteria, classified into seven genera; Aliivibrio, Echinimonas, Enterovibrio, Grimontia, Photobacterium, Salinivibrio and Vibrio. As vibrios are widespread in marine environments and show versatile metabolisms and ecologies, these bacteria are recognized as one of the most diverse and important marine heterotrophic bacterial groups for elucidating the correlation between genome evolution and ecological adaptation. However, on the basis of 16S rRNA gene phylogeny, we could not find any robust monophyletic lineages in any of the known genera. We needed further attempts to reconstruct their evolutionary history based on multilocus sequence analysis (MLSA) and/or genome wide taxonomy of all the recognized species groups. In our previous report in 2007, we conducted the first broad multilocus sequence analysis (MLSA) to infer the evolutionary history of vibrios using nine housekeeping genes (the 16S rRNA gene, gapA, gyrB, ftsZ, mreB, pyrH, recA, rpoA, and topA), and we proposed 14 distinct clades in 58 species of Vibrionaceae. Due to the difficulty of designing universal primers that can amplify the genes for MLSA in every Vibrionaceae species, some clades had yet to be defined. In this study, we present a better picture of an updated molecular phylogeny for 86 described vibrio species and 10 genome sequenced Vibrionaceae strains, using 8 housekeeping gene sequences. This new study places special emphasis on (1) eight newly identified clades (Damselae, Mediterranei, Pectenicida, Phosphoreum, Profundum, Porteresiae, Rosenbergii, and Rumoiensis); (2) clades amended since the 2007 proposal with recently described new species; (3) orphan clades of genomospecies F6 and F10; (4) phylogenetic positions defined in 3 genome-sequenced strains (N418, EX25, and EJY3); and (5) description of V. tritonius sp. nov., which is a member of the "Porteresiae" clade.

Control of McKean–Vlasov dynamics versus mean field games

Abstract: We discuss and compare two investigation methods for the asymptotic regime of stochastic differential games with a finite number of players as the number of players tends to the infinity. These two methods differ in the order in which optimization and passage to the limit are performed. When optimizing first, the asymptotic problem is usually referred to as a mean-field game. Otherwise, it reads as an optimization problem over controlled dynamics of McKean–Vlasov type. Both problems lead to the analysis of forward–backward stochastic differential equations, the coefficients of which depend on the marginal distributions of the solutions. We explain the difference between the nature and solutions to the two approaches by investigating the corresponding forward–backward systems. General results are stated and specific examples are treated, especially when cost functionals are of linear-quadratic type.

Dissipative Divergence of Resonant Orbits

Abstract: A considerable fraction of multi-planet systems discovered by the observational surveys of extrasolar planets reside in mild proximity to first-order mean-motion resonances However, the relative remoteness of such systems from nominal resonant period ratios (eg, 2:1, 3:2, and 4:3) has been interpreted as evidence for lack of resonant interactions Here, we show that a slow divergence away from exact commensurability is a natural outcome of dissipative evolution and demonstrate that libration of critical angles can be maintained tens of percent away from nominal resonance We construct an analytical theory for the long-term dynamical evolution of dissipated resonant planetary pairs and confirm our calculations numerically Collectively, our results suggest that a significant fraction of the near-commensurate extrasolar planets are in fact resonant and have undergone significant dissipative evolution

The inactivation of Arx in pancreatic α-cells triggers their neogenesis and conversion into functional β-like cells.

Abstract: Recently, it was demonstrated that pancreatic new-born glucagon-producing cells can regenerate and convert into insulin-producing β-like cells through the ectopic expression of a single gene, Pax4. Here, combining conditional loss-of-function and lineage tracing approaches, we show that the selective inhibition of the Arx gene in α-cells is sufficient to promote the conversion of adult α-cells into β-like cells at any age. Interestingly, this conversion induces the continuous mobilization of duct-lining precursor cells to adopt an endocrine cell fate, the glucagon+ cells thereby generated being subsequently converted into β-like cells upon Arx inhibition. Of interest, through the generation and analysis of Arx and Pax4 conditional double-mutants, we provide evidence that Pax4 is dispensable for these regeneration processes, indicating that Arx represents the main trigger of α-cell-mediated β-like cell neogenesis. Importantly, the loss of Arx in α-cells is sufficient to regenerate a functional β-cell mass and thereby reverse diabetes following toxin-induced β-cell depletion. Our data therefore suggest that strategies aiming at inhibiting the expression of Arx, or its molecular targets/co-factors, may pave new avenues for the treatment of diabetes.

miR-199a-5p Is Upregulated during Fibrogenic Response to Tissue Injury and Mediates TGFbeta-Induced Lung Fibroblast Activation by Targeting Caveolin-1

Abstract: As miRNAs are associated with normal cellular processes, deregulation of miRNAs is thought to play a causative role in many complex diseases. Nevertheless, the precise contribution of miRNAs in fibrotic lung diseases, especially the idiopathic form (IPF), remains poorly understood. Given the poor response rate of IPF patients to current therapy, new insights into the pathogenic mechanisms controlling lung fibroblasts activation, the key cell type driving the fibrogenic process, are essential to develop new therapeutic strategies for this devastating disease. To identify miRNAs with potential roles in lung fibrogenesis, we performed a genome-wide assessment of miRNA expression in lungs from two different mouse strains known for their distinct susceptibility to develop lung fibrosis after bleomycin exposure. This led to the identification of miR-199a-5p as the best miRNA candidate associated with bleomycin response. Importantly, miR-199a-5p pulmonary expression was also significantly increased in IPF patients (94 IPF versus 83 controls). In particular, levels of miR-199a-5p were selectively increased in myofibroblasts from injured mouse lungs and fibroblastic foci, a histologic feature associated with IPF. Therefore, miR-199a-5p profibrotic effects were further investigated in cultured lung fibroblasts: miR-199a-5p expression was induced upon TGFβ exposure, and ectopic expression of miR-199a-5p was sufficient to promote the pathogenic activation of pulmonary fibroblasts including proliferation, migration, invasion, and differentiation into myofibroblasts. In addition, we demonstrated that miR-199a-5p is a key effector of TGFβ signaling in lung fibroblasts by regulating CAV1, a critical mediator of pulmonary fibrosis. Remarkably, aberrant expression of miR-199a-5p was also found in unilateral ureteral obstruction mouse model of kidney fibrosis, as well as in both bile duct ligation and CCl4-induced mouse models of liver fibrosis, suggesting that dysregulation of miR-199a-5p represents a general mechanism contributing to the fibrotic process. MiR-199a-5p thus behaves as a major regulator of tissue fibrosis with therapeutic potency to treat fibroproliferative diseases.