Fundamental principles of data assimilation underlying the Verdandi library: applications to biophysical model personalization within euHeart

International audienceWe present the fundamental principles of data assimilation underlying the Verdandi library, and how they are articulated with the modular architecture of the library. This translates -- in particular -- into the definition of standardized interfaces through which the data assimilation library interoperates with the model simulation software and the so-called observation manager. We also survey various examples of data assimilation applied to the personalization of biophysical models, in particular for cardiac modeling applications within the euHeart European project. This illustrates the power of data assimilation concepts in such novel applications, with tremendous potential in clinical diagnosis assistance

A comparison study of data assimilation algorithms for ozone forecasts

International audienceThe Institute of Radiation Protection and Nuclear Safety (France) is planning the set-up of an automatic nuclear aerosol monitoring network over the French territory. Each of the stations will be able to automatically sample the air aerosol content and provide activity concentration measurements on several radionuclides. This should help monitor the French and neighbouring countries nuclear power plants set. It would help evaluate the impact of a radiological incident occurring at one of these nuclear facilities. This paper is devoted to the spatial design of such a network. Here, any potential network is judged on its ability to extrapolate activity concentrations measured on the network stations over the whole domain. The performance of a network is quantitatively assessed through a cost function that measures the discrepancy between the extrapolation and the true concentration fields. These true fields are obtained through the computation of a database of dispersion accidents over one year of meteorology and originating from 20 French nuclear sites. A close to optimal network is then looked for using a simulated annealing optimisation. The results emphasise the importance of the cost function in the design of a network aimed at monitoring an accidental dispersion. Several choices of norm used in the cost function are studied and give way to different designs. The influence of the number of stations is discussed. A comparison with a purely geometric approach which does not involve simulations with a chemistry-transport model is performed

Traitement de données à retour d'onde complète : modélisation du signal brut

International audienceUnlike airborne multi-echo laser scanner systems, full-waveform systems are able to digitize and record the entire backscattered signal of each laser pulse. It has been demonstrated that decomposing the return waveforms into a mixture of Gaussian components was suitable. In this paper, we focus on the improvement of peak detection and of raw signal modelling. Refined peak detection greatly increased the number of detected targets as well as their positional accuracy. Models more complex than the Gaussian model, such as the Lognormal or generalized Gaussian functions, were introduced and their contribution to waveform processing was studied. In this way, fitting of asymmetric, peaked or flattened echoes located both in urban and forested areas could be improved. Moreover, introduction of new echo parameters allowed the extraction of additional information on the target shape. This should make easier the decorrelation of geometric and radiometric influences on the signal and, as a consequence, the improvement of point cloud classification algorithms

Melanin is an essential component for the integrity of the cell wall of Aspergillus fumigatus conidia

BACKGROUND: Aspergillus fumigatus is the most common agent of invasive aspergillosis, a feared complication in severely immunocompromised patients. Despite the recent commercialisation of new antifungal drugs, the prognosis for this infection remains uncertain. Thus, there is a real need to discover new targets for therapy. Particular attention has been paid to the biochemical composition and organisation of the fungal cell wall, because it mediates the host-fungus interplay. Conidia, which are responsible for infections, have melanin as one of the cell wall components. Melanin has been established as an important virulence factor, protecting the fungus against the host\u27s immune defences. We suggested that it might also have an indirect role in virulence, because it is required for correct assembly of the cell wall layers of the conidia. RESULTS: We used three A. fumigatus isolates which grew as white or brown powdery colonies, to demonstrate the role of melanin. Firstly, sequencing the genes responsible for biosynthesis of melanin (ALB1, AYG1, ARP1, ARP2, ABR1 and ABR2) showed point mutations (missense mutation, deletion or insertion) in the ALB1 gene for pigmentless isolates or in ARP2 for the brownish isolate. The isolates were then shown by scanning electron microscopy to produce numerous, typical conidial heads, except that the conidia were smooth-walled, as previously observed for laboratory mutants with mutations in the PKSP/ALB1 gene. Flow cytometry showed an increase in the fibronectin binding capacity of conidia from mutant isolates, together with a marked decrease in the binding of laminin to the conidial surface. A marked decrease in the electronegative charge of the conidia and cell surface hydrophobicity was also seen by microelectrophoresis and two-phase partitioning, respectively. Ultrastructural studies of mutant isolates detected considerable changes in the organisation of the conidial wall, with the loss of the outermost electron dense layer responsible for the ornamentations seen on the conidial surface in wild-type strains. Finally, analysis of the conidial surface of mutant isolates by atomic force microscopy demonstrated the absence of the outer cell wall rodlet layer which is composed of hydrophobins. CONCLUSION: These results suggest that, in addition to a protective role against the host\u27s immune defences, melanin is also a structural component of the conidial wall that is required for correct assembly of the cell wall layers and the expression at the conidial surface of adhesins and other virulence factors

Impact of biomass burning on aerosol size distribution, aerosol optical properties and associated radiative forcing

The influence of biomass burning on aerosol size distributions, particle number and radiative forcing has been studied at a rural site in Spain. It has been found that air contaminated by aerosols from biomass burning presents four times the total number of particles registered in non-contaminated air. In the case of the smallest fraction of the fine mode, between 0.1 and 0.2 μm, the increase soars to over seven times the total number of particles. An analysis of the evolution of the count mean diameter in the fine mode (CMDf) in the 8 daily measurements has revealed a decrease of over 25% in this parameter in the modified measurements when compared with measurements that were not contaminated by aerosols from biomass burning. In contrast, when the aerosol transport time is long, the increases detected in CMDf range between 15% and 100% when compared with measurements of air by non-aged aerosol from biomass burning. Shortwave radiative forcings have been calculated for these high loads of fine aerosols with GAME (Global Atmospheric Model) software. For the August event, the daytime average of surface radiative forcing is –66 (±30) W/m2, and at the top of the atmosphere the forcing is –32 (±12) W/m2. Induced daytime average of atmospheric radiative forcing reaches 34 (±20) W/m2. The study demonstrates that wildfires affect not only the number of particles and the size distribution, causing a clear increase in the number of aerosols in the atmosphere, but they are also responsible for altering the local radiative balance

Secondary contact and admixture between independently invading populations of the Western corn rootworm, diabrotica virgifera virgifera in Europe

The western corn rootworm, Diabrotica virgifera virgifera (Coleoptera: Chrysomelidae), is one of the most destructive pests of corn in North America and is currently invading Europe. The two major invasive outbreaks of rootworm in Europe have occurred, in North-West Italy and in Central and South-Eastern Europe. These two outbreaks originated from independent introductions from North America. Secondary contact probably occurred in North Italy between these two outbreaks, in 2008. We used 13 microsatellite markers to conduct a population genetics study, to demonstrate that this geographic contact resulted in a zone of admixture in the Italian region of Veneto. We show that i) genetic variation is greater in the contact zone than in the parental outbreaks; ii) several signs of admixture were detected in some Venetian samples, in a Bayesian analysis of the population structure and in an approximate Bayesian computation analysis of historical scenarios and, finally, iii) allelic frequency clines were observed at microsatellite loci. The contact between the invasive outbreaks in North-West Italy and Central and South-Eastern Europe resulted in a zone of admixture, with particular characteristics. The evolutionary implications of the existence of a zone of admixture in Northern Italy and their possible impact on the invasion success of the western corn rootworm are discussed