Éditeur(s) : HAL CCSD
Résumé : The recent accumulation of genomic sequence data has shown that gene evolution is not strictly tree-Like. Many evolutionary processes, like exon shuffling, gene fusion or nonhomologous recombination remodel genes by creating composite structures that are made from parts with different evolutionary histories. The development of sequence similarity networks provides an analytical framework to study the impact of these processes on molecular evolution, by structuring the resemblance relationships between sequences and by formalizing, in terms of graph theory, the detection of composite genes (intransitive triplets) and gene families (clique minimal separators). The size of current data sets, typically several million sequences, has also required the development of new tools and methods: sequence comparison parallelization, large networks visualization with Louvain communities and large cycles identification. When applied to eukaryotic and viral genome data sets, these methods have shown that composite genes are found throughout cellular organisms and mobile genetic elements. Proportionally, composite genes are more numerous in eukaryotic genomes; in absolute number, they are more numerous in viruses. In the latter, composite genes functional distribution is biased (enrichment of genes families that are essential for the perpetuation of the viral cycle), and the various parts of composite genes sometimes even originate from the genetic material of different viral classes. More generally, the extent of combinatorial processes, by unravelling other evolutionary bonds than homology bonds in the strictest sense, legitimates a pluralistic study of similarity relationships between sequences.
L’accumulation récente de données de séquences génomiques a montré que l’évolution des gènes n’est pas strictement arborescente. De nombreux processus évolutifs, comme l’exon shuffling, la fusion de gènes ou la recombinaison illégitime remodèlent les gènes, créant des structures composites, formées de parties dont les histoires évolutives sont différentes. Le développement de réseaux de similarité de séquences fournit un cadre analytique permettant d’étudier l’impact de ces processus sur l’évolution moléculaire, en structurant les relations de ressemblance entre séquences et en formalisant en termes de graphes la détection de gènes (triplets intransitifs) et de familles de gènes (cliques minimales séparatrices) composites. La taille des jeux de données actuels, de l’ordre de plusieurs millions de séquences, a également requis le développement de nouveaux outils et méthodes : parallélisation des comparaisons de séquences, visualisation de très grands réseaux par simplification en communautés de Louvain et identification de grands cycles. Appliquées à des jeux de données de génomes eucaryotes et viraux, ces méthodes ont démontré la présence de gènes composites dans tout le vivant et les éléments génétiques mobiles. En proportion, les gènes composites sont plus nombreux dans les génomes eucaryotes ; en nombre absolu, ils sont plus nombreux à être portés par des virus. Chez ces derniers, la distribution fonctionnelle des gènes composites est biaisée (enrichissement dans les familles essentielles pour la perpétuation du cycle viral), et les éléments des gènes composites trouvent même parfois leurs origines dans le matériel génétique de classes virales différentes. Plus généralement, l’étendue des processus combinatoires, en révélant des liens évolutionnaires autres que les liens d’homologie au sens fort, justifie une étude pluraliste des relations de similarité entre séquences.
https://tel.archives-ouvertes.fr/tel-01127379

NNT : 2014PA066358
tel-01127379
https://tel.archives-ouvertes.fr/tel-01127379
https://tel.archives-ouvertes.fr/tel-01127379/document
https://tel.archives-ouvertes.fr/tel-01127379/file/2014PA066358.pdf

Éditeur(s) : HAL CCSD Société géologique de France
Résumé : International audience
The Messinian salinity crisis (MSC) is characterized by gigantic erosion that remodels the margins while a thick, essentially evaporitic and detrital, sedimentary sequence forms in the deep basins. Based on recent (MAURESC, 2003) and earlier (MESEA 1, 1990; MAGIRAA, 1996; GEOBREST, 2002) seismic reflection data, this work brings to light the record of the MSC on the Provençal margin, which has until now been rarely explored from this perspective. Beyond its strictly regional interest, this study fits into a larger synthesis of MSC seismic markers in the Mediterranean and Black Sea marine domain [Lofi et al., 2011] and employs the new nomenclature established on this occasion. The results obtained reveal a Messinian detrital body (CU unit) of 625 metres maximum thickness at the foot of the margin, accumulating at the mouths of the principal canyons. Its form, facies and extension assimilate it to clastic fans, fed by subaerial erosion linked to the MSC. The relative geometry of CU and the Messinian units MU and UU deposited in the deep basin give indications to their chronostratigraphic relations. The deposition of the CU unit is posterior to the basal part of the mobile unit consisting of halite (MU), but contemporary to its top. These results agree with the recent scenarii, which propose that the precipitation of MU in the basin began early, during the lowering of the sea level, and ended at a low level during the MSC [Blanc, 2000; Martin et al., 2001; Sage et al., 2005; Ryan, 2009]. The UU unit surmounts MU and is subdivided into two sub-units with perceptibly different seismic facies : UU1 at the base and UU2 at the summit. UU1 could correspond to a unit containing more halite and/or more clastic material than UU2. The UU1 sub-unit could be partially contemporary to the CU unit. Concerning salt tectonics and its markers, three structural provinces have been evidenced in the sector of study, respectively : an upslope domain in extension (normal faults), an intermediary domain in translation (tabular MU) and a downslope domain in contraction (salt diapirs). These domains are directly linked to the gravity spreading and/or gliding of the brittle sedimentary cover formed by the CU, UU and Plio-Quatenary units and of the mobile level, MU. In the study area, a close relation between the distribution and thickness of CU and salt tectonics has additionally been evidenced at the mouths of the large Messinian canyons, being best expressed where CU is thick.
EISSN: 1777-5817

hal-00622998
https://hal-brgm.archives-ouvertes.fr/hal-00622998
DOI : 10.2113/gssgfbull.182.2.181

Éditeur(s) : HAL CCSD Société géologique de France
Résumé : International audience
The Messinian salinity crisis (MSC) is characterized by gigantic erosion that remodels the margins while a thick, essentially evaporitic and detrital, sedimentary sequence forms in the deep basins. Based on recent (MAURESC, 2003) and earlier (MESEA 1, 1990; MAGIRAA, 1996; GEOBREST, 2002) seismic reflection data, this work brings to light the record of the MSC on the Provençal margin, which has until now been rarely explored from this perspective. Beyond its strictly regional interest, this study fits into a larger synthesis of MSC seismic markers in the Mediterranean and Black Sea marine domain [Lofi et al., 2011] and employs the new nomenclature established on this occasion. The results obtained reveal a Messinian detrital body (CU unit) of 625 metres maximum thickness at the foot of the margin, accumulating at the mouths of the principal canyons. Its form, facies and extension assimilate it to clastic fans, fed by subaerial erosion linked to the MSC. The relative geometry of CU and the Messinian units MU and UU deposited in the deep basin give indications to their chronostratigraphic relations. The deposition of the CU unit is posterior to the basal part of the mobile unit consisting of halite (MU), but contemporary to its top. These results agree with the recent scenarii, which propose that the precipitation of MU in the basin began early, during the lowering of the sea level, and ended at a low level during the MSC [Blanc, 2000; Martin et al., 2001; Sage et al., 2005; Ryan, 2009]. The UU unit surmounts MU and is subdivided into two sub-units with perceptibly different seismic facies : UU1 at the base and UU2 at the summit. UU1 could correspond to a unit containing more halite and/or more clastic material than UU2. The UU1 sub-unit could be partially contemporary to the CU unit. Concerning salt tectonics and its markers, three structural provinces have been evidenced in the sector of study, respectively : an upslope domain in extension (normal faults), an intermediary domain in translation (tabular MU) and a downslope domain in contraction (salt diapirs). These domains are directly linked to the gravity spreading and/or gliding of the brittle sedimentary cover formed by the CU, UU and Plio-Quatenary units and of the mobile level, MU. In the study area, a close relation between the distribution and thickness of CU and salt tectonics has additionally been evidenced at the mouths of the large Messinian canyons, being best expressed where CU is thick.
EISSN: 1777-5817

hal-00498286
https://hal.archives-ouvertes.fr/hal-00498286

Éditeur(s) : HAL CCSD Elsevier
Résumé : Several nuclides of the ;238;U (;234;U, ;230;Th, ;226;Ra, ;210;Pb) and ;235;U (;231;Pa, ;227;Ac) decay series have been measured through gamma spectrometry in the U-bearing episyenites of the Bernardan mine (northwest Massif Central, France), in order to study recent mobilizations in the U-deposit and their time-scales. (;230;Th/;238;U) and (;231;Pa/;235;U) ratios show that U has been little affected during the last 350 ky, especially in the U-rich samples. In contrast, ;226;Ra was subjected to a general redistribution, with a clear tendency for Ra to be lost from the U-rich samples and added to U-poor samples. The highest Ra excesses are present in low-U samples, and are related to adsorption onto iron hydroxides. Ra appears to have been redistributed within the mineralised episyenitic bodies, which seem to remain in ;226;Ra–;238;U radioactive equilibrium, a result consistent with the earlier study of Leroy [1984. Episyénitisation dans le gisement d'uranium du Bernardan (Marche): Comparaison avec des gisements similaires du Nord-Ouest du Massif Central français. Miner. Depos. 19, 26–35]. As shown by the ;226;Ra and ;210;Pb data, the Ra redistribution was very active between 8 and 0.1 ky, and this might be a consequence of the hydrological changes in groundwater circulation accompanying the Holocene climate warming.
ISSN: 0009-2541

hal-00407600
https://hal.archives-ouvertes.fr/hal-00407600
DOI : 10.1016/j.chemgeo.2007.06.020

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The Chalkidiki block is a major domain in the North Aegean that, contrary to other domains in the region, largely escaped thermal perturbations during Tertiary extension. As a result, the Chalkidiki block is an ideal candidate to glean information related to the timing of Mesozoic thermal events using appropriate geochronological techniques. We have undertaken a laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS) study (U-Th-Pb on monazites and U-Pb on zircons) coupled with 40Ar/39Ar dating on nine samples from various structural levels within the thrust system of the Chalkidiki block. The eastern, and structurally lower part of the system revealed a complete isotopic reset of Carboniferous – Early Triassic monazites coeval with partial monazite destruction, REE-mobilisation and formation of apatite-allanite-epidote coronas at ~ 132 Ma, a reaction that is commonly observed in amphibolite-facies rocks. These coronas formed after crystallisation of garnet (i.e., at T > 580 °C) and, in all probability, either close to the peak-temperature conditions (~ 620 °C) on a prograde path or during retrogression between the peak-temperature and the low-temperature boundary of the amphibolite facies. Cooling of these rocks and arrival at mid-crustal levels occurred at 95–100 Ma. By contrast, the western, and structurally uppermost part of the system went through the same event by 120–125 Ma. Further structural considerations with respect to medium-temperature geochronology data imply that syn-metamorphic thrusting must have ceased by early Late Cretaceous. We emphasize that, with the sole exception of the Chalkidiki block, no pre-45 Ma medium-temperature geochronology data are preserved in other North Aegean domains, a feature that is clearly related to the extension-induced thermal perturbation of the region during the Tertiary.
ISSN: 0040-1951

insu-01329472
https://hal-insu.archives-ouvertes.fr/insu-01329472
https://hal-insu.archives-ouvertes.fr/insu-01329472/document
https://hal-insu.archives-ouvertes.fr/insu-01329472/file/kydonakis-tectono-2016.pdf
DOI : 10.1016/j.tecto.2016.06.006

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Tectonic mixing of slab- and mantle-derived materials at the interface between converging plates highly enhances fluid-mediated mass transfer from the slab to the overlying mantle. Subduction mélanges can provide information about the interaction among different slices accreted at plate interface domains, with implications on the tectonic and geochemical evolution of the plate-interface itself. At Cima di Gagnone, pelitic schists and gneiss enclose chlorite harzburgite and garnet peridotite lenses, like in subduction mélanges located in-between downgoing slabs and overlying mantle. These peridotites host MORB-type eclogite and metarodingite, and derive from dehydration of serpentinized mantle protoliths. Their enrichment in fluid-mobile B, As, Sb, U, Th is the result of an early-stage oceanic serpentinization, followed by interaction with host metasediments during subduction burial. Here we define the element exchange process in the Gagnone mélange by means of the B, Sr and Pb isotope analysis of its main lithologies (ultramafic, mafic rocks and paragneiss). The 87Sr/86Sr and 206Pb/204Pb ratios of ultramafic rocks (0.7090–0.7124 and 18.292–18.837, respectively) show enrichments in radiogenic Sr and Pb after exchange with the host paraschist (up to 0.7287 87Sr/86Sr; 18.751 206Pb/204Pb). The δ11B values of peridotites (down to −10‰) point to a combined effect of (1) 11B release to deserpentinization fluids (serpentinized protoliths likely had positive δ11B and lower radiogenic Sr, Pb), and of (2) exchange with fluids from the surrounding metasediments. The whole Gagnone rock-suite is finally overprinted by retrograde fluids that essentially bring to an increase in radiogenic Pb (about 19.0 206Pb/204Pb) and to values of 0.710 87Sr/86Sr and of −10‰ δ11B. The recognition of different stages of interaction between mantle rocks and sedimentary/crustal reservoirs allows us to define the geochemical effects related to the early coupling of such rocks along the plate-interface. Our study shows that ultramafic rocks involved in subduction-zone metamorphism and serpentinization uptake radiogenic Pb and Sr released by associated sedimentary reservoirs. The exchange process envisioned here is not only representative of subduction mélanges: it can also be a proxy of mass transfer between slab and serpentinized supra-subduction mantle, as occurs in forearcs. Dehydration of the Gagnone-type serpentinized mantle releases crust-derived components to arcs, without direct involvement of metasediment dehydration and/or melting in subarc environments. The retention of appreciable amounts of fluid-mobile elements, radiogenic Pb and Sr in dehydrated Gagnone peridotites has implications on element recycling in the deep Earth’s mantle.
ISSN: 0016-7037

hal-01174137
https://hal.archives-ouvertes.fr/hal-01174137
DOI : 10.1016/j.gca.2015.04.024

Éditeur(s) : Université des Antilles Études caribéennes
Résumé : The aim of this paper is to study Moroccan music festivals against the existing theories on globalization, while coming up with new concepts aimed at overcoming the problems often facing experts in popular culture and media studies who feel that globalization thesis lapses into fatal gestures of leveling, reductionism, and totalitarianism, especially when it tries to account for current discussions related to the circulation of artifacts and cultural texts. The general consensus has it that modern technologies have hugely altered the meaning and revolutionized the traditional functions attached to art and cultural industries. The grotesque circulation of western cultural artifacts is justifiably judged to be many times agonizing for theorists in cultural studies, linguistics and political science, etc who want to be sure that the unequal transmissions of products across the world will not harm local cultural, linguistic and economic capital of the less dominant other. Moroccan music festivals for instance are seen to be increasingly governed by a complex whirlpool of the far-too-melodramatic implications of today’s world global connections. In view of this, this paper, which borrows from data collected during between 2010 and 2011, will examine cultural industries, music festivals in general and the Essaouira festival in particular, in relation to world flows, while holding the argument that the appropriation of western artifacts locally has always been part of a not-so-novel process of mobility of what we call world cultural nomadictates (nomadic dictates). The paper gives a detailed definition of this concept and develops other new concepts (e.g. recurents, exclusives) related to the «glocal» face of culture and art in Morocco in an attempt to find an escape route outside the impasses of the globalization/cultural imperialism theses surrounding the study of cultural industries. To drive this idea home, we will open up the discussion at hand onto existing controversies around notions of place, authenticity, urbanism, tourism and consumption.
L'objectif de cette recherche est d’étudier les festivals de musique marocains en portant un regard critique sur les théories existantes de la mondialisation et en proposant de nouveaux concepts afin de surmonter les problèmes auxquels les théoriciens de la culture populaire et des médias se sont souvent confrontés. Selon eux, le concept de mondialisation sombre dans le réductionnisme et le totalitarisme, surtout lorsqu’il s’agit de la circulation des objets et des textes culturels. Un consensus général semble s’être développé autour de l’idée selon laquelle les technologies modernes ont considérablement altéré et révolutionné le sens et les fonctions traditionnelles de l'art et des industries culturelles. L'insolite diffusion des objets culturels occidentaux est à juste titre source d’angoisse pour les théoriciens des études culturelles, de la linguistique, et des sciences politiques qui veulent s'assurer que la transmission inégale des produits dans le monde ne nuira pas au capital local, culturel, linguistique et économique de l'autre (le moins dominant). Les festivals de musique marocains, par exemple, sont perçus comme étant de plus en plus tributaires des vicissitudes de la mondialisation actuelle. Dans cette perspective, cette recherche, s'inspire de données recueillies au cours de deux années de travail de terrain (2010/2011), et se penche sur les flux mondiaux de produits culturels qui mettent en interface les industries culturelles, les festivals de musique en général et celui d'Essaouira en particulier. Elle maintient l'idée selon laquelle l'appropriation des objets occidentaux par les communautés locales a toujours fait partie d'un processus de mobilité, qui n'est pas si récent, de ce que nous appelons les ‘nomadictâtes’ culturels du monde (dictâtes nomades). En explicitant la définition de ce concept, cette recherche développe d'autres concepts liés à la notion de glocalité de la culture et de l'art au Maroc. Enfin, elle suggère aussi une issue à l’impasse des théories de la mondialisation traditionnelles et celle de l’impérialisme culturel en particulier dans lesquelles l’étude des industries culturelles semble s’être emprisonnée. Pour ce faire, nous exposons le débat actuel sur les controverses autour des notions de lieu, d'authenticité, d'urbanisme, de tourisme, et de consommation.
Maroc

Droits : info:eu-repo/semantics/openAccess
urn:doi:10.4000/etudescaribeennes.5993
http://journals.openedition.org/etudescaribeennes/5993

Éditeur(s) : Oxford Univ Press
Résumé : This study presents the results of a deep seismic survey across the north Algerian margin, based on the combination of 2-D multichannel and wide-angle seismic data simultaneously recorded by 41 ocean bottom seismometers deployed along a north-south line extending 180 km off Jijel into the Algerian offshore basin, and 25 land stations deployed along a 100-km-long line, cutting through the Lesser Kabylia and the Tellian thrust-belt. The final model obtained using forward modelling of the wide-angle data and pre-stack depth migration of the seismic reflection data provides an unprecedented view of the sedimentary and crustal structure of the margin. The sedimentary layers in the Algerian basin are 3.75 km thick to the north and up to 4.5-5 km thick at the foot of the margin. They are characterized by seismic velocities from 1.9 to 3.8 km s(-1). Messinian salt formations are about 1 km thick in the study area, and are modelled and imaged using a velocity between 3.7 and 3.8 km s(-1). The crust in the deep sea basin is about 4.5 km thick and of oceanic origin, presenting two distinct layers with a high gradient upper crust (4.7-6.1 km s(-1)) and a low gradient lower crust (6.2-7.1 km s(-1)). The upper-mantle velocity is constrained to 7.9 km s(-1). The ocean-continent transition zone is very narrow between 15 and 20 km wide. The continental crust reaches 25 km thickness as imaged from the most landward station and thins to 5 km over a less than 70 km distance. The continental crust presents steep and asymmetric upper- and lower-crustal geometry, possibly due to either asymmetric rifting of the margin, an underplated body, or flow of lower crustal material towards the ocean basin. Present-time deformation, as imaged from three additional seismic profiles, is characterized by an interplay of gravity-driven mobile-salt creep and active thrusting at the foot of the tectonically inverted Algerian margin.
Geophysical Journal International (0956-540X) (Oxford Univ Press), 2014-09 , Vol. 198 , N. 3 , P. 1486-1503

Droits : 2014 The Royal Astronomical Society
http://archimer.ifremer.fr/doc/00217/32836/32150.pdf
DOI:10.1093/gji/ggu179
http://archimer.ifremer.fr/doc/00217/32836/

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
CP12 is a small chloroplast protein involved in the Benson-Calvin cycle. Since it was demonstrated that the CP12 protein shared different conformational properties between reduced and oxidized states we took advantage of the segregational properties of the Traveling Wave Ion Mobility (TWIM) guide to study subtle conformational changes related to redox changes. Electrospray ionization mass (ESI-MS) spectra of the CP12 protein were recorded in the positive ion mode using an ESI source fitted on a quadrupole time-of-flight (QToF) hybrid mass spectrometer equipped with a TWIM cell (Synapt HDMS G1, Waters Corp., Manchester) under non-denaturing conditions. Non-covalent experiments were performed using the same instrument without the use of the TWIM device. Whatever the CP12 form studied, our results showed that CP12 protein was represented by two conformers in equilibrium that displayed very slight differences. These observations led us to propose that CP12 protein structure is rather undergoing transient subtle structural changes than having two different conformational populations in solution. In addition, using non-denaturing experiments, NAD and CP12 stoichiometry were determined with respect to the GAPDH tetramer and the redox state of CP12. In this study we showed that the use of the segregational property of the ion mobility (TWIM, Synapt G1 HDMS, Waters, Manchester, UK) allowed differentiation of subtle conformational changes between redox states of the CP12 protein. Standard non-denaturing experiments revealed different binding stoichiometry according to the redox state of the CP12 protein.
ISSN: 0951-4198

hal-01122181
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01122181
DOI : 10.1002/rcm.6442
PUBMED : 23239332

Éditeur(s) : Oxford Univ Press
Résumé : In subduction zones, melting and dehydration of the subducted slab introduce material into the mantle wedge and modify its chemical and isotopic composition. As a consequence, island arc lavas differ significantly from mid-ocean ridge basalts and ocean island basalts. In some arcs, the composition of lavas is strongly influenced by the sedimentary material introduced with the slab; in others, magma composition is mainly affected by aqueous fluids released by the slab. The Lesser Antilles arc is known for its extreme continental-crust-like signature but for some Lesser Antilles lavas subducted sediments are barely involved and enrichment in fluid-mobile elements (Ba, U, Sr, Pb, etc.) is the dominant feature. Here we evaluate whether La/Sm is a quantitative proxy of sediment involvement in volcanic arcs, and we relate dehydration and melting processes to the temperature and pressure conditions of the slab. We use Martinique as a case study because in this island both dehydration and sediment melting fingerprints coexist. We measured major and trace elements for about 130 age-constrained samples, carefully chosen to cover all volcanic phases of Martinique (25 Ma to present). Using these results we demonstrate that: (1) weathering does not modify the La/Sm ratio; (2) fractional crystallization of amphibole and/or garnet does not increase La/Sm by more than 20%; (3) rare earth element transfer from wall-rock to magma during fractionation is not significant; (4) melting of the mantle source increases La/Sm by only about 20%. As a consequence, we show that the proportion of slab sediment incorporated in the mantle wedge controls the La/Sm ratio of the source. The observed correlations between La/Sm and Nd and Hf isotopic compositions indicate that the effect of sediment addition is the overwhelming factor: La/Sm is a good proxy for slab sediment proportion in Martinique. We observe a geographical gradient between slab dehydration and sediment melting on the island. Whereas lavas located on the western side of the island display a clear sedimentary input in their source, lavas located on the eastern side of the island, closer to the trench, are clearly influenced by dehydration of the subducted slab. In addition, the aqueous fluids clearly come from the subducted basalt and they did not interact with the overlying sediments. The influence of sediment added to the source of the magmas increases from the eastern part to the western part of the island. We relate this geographical change to the pressure and temperature conditions at the slab surface. Sediments probably cross their solidus under Martinique and hydrous melting is triggered. Finally, we show that under all volcanic arcs where the signature of sediments overwhelms the signature of fluids, the slab surface reaches P-T conditions that allow the subducted sediments to melt. Inversely, under most volcanic arcs where the signal of aqueous fluids dominates over sediment melts, the subducted slab is not hot enough for the sedimentary pile to melt.
Journal Of Petrology (0022-3530) (Oxford Univ Press), 2012-12 , Vol. 53 , N. 12 , P. 2441-2464

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/00113/22392/20234.pdf
DOI:10.1093/petrology/egs055
http://archimer.ifremer.fr/doc/00113/22392/

Éditeur(s) : HAL CCSD BioMed Central
Résumé : International audience
Background: Access to health care is a global public problem. In French Guiana, there exists social inequalities which are specially marked amongst immigrants who make up a third of the population. Health care inequalities are prevalent. The objective of this study was to determine factors associated with why health care amongst the poor population of Cayenne was renounced.Study design The study was cross sectional. It focused on knowledge, attitudes, practices and beliefs of the population living in poor neighborhoods of the Cayenne area. Methods: Populations coming at the Red Cross mobile screening unit in poor urban areas of Cayenne were surveyed from July 2013 to June 2014. Structured questionnaires consisted of 93 questions. Written informed consent was requested at the beginning of the questionnaire. The predictors for renouncing medical care were determined using logistic regression models and tree analysis. Results: Twenty percent of persons had renounced care. Logistic regression showed that renouncement of health care was negatively associated with having no regular physician Adjusted Odds Ratio (AOR)=0.43 (95%CI=0.24-0.79) and positively associated with being embarrassed to ask certain questions AOR=6.81 (95%CI=3.98-11.65) and having been previously refused health care by a doctor AOR=3.08 (95%CI=1.43-6.65) . Tree analysis also showed that three of these variables were linked to renouncement, with feeling shy to ask certain questions as the first branching.Conclusion: Although most people felt it was easy to see a doctor, one in five had renounced health care. The variables identified by the models suggest vulnerable persons generally had previous negative encounters with the health system and felt unwanted or non eligible for healthcare. Health care mediation and welcoming staff may be simple solutions to the above problems which were underscored in our observations.
ISSN: 1472-6963

hal-01288656
https://hal.archives-ouvertes.fr/hal-01288656
https://hal.archives-ouvertes.fr/hal-01288656/document
https://hal.archives-ouvertes.fr/hal-01288656/file/Predictive%20factors%20for%20renouncing%20to%20care%20in%20FG.pdf
PUBMEDCENTRAL : PMC4731954

Éditeur(s) : HAL CCSD Springer
Résumé : International audience
One of the most important topics that occupy public health problems is the air quality. That is the reason why mechanical ventilation and air handling units (AHU) were imposed by the different governments in the collective or individual buildings. Many buildings create an artificial climate using heating, ventilation and airconditioning (HVAC) systems. Among the existing aerosols in the indoor air, we can distinguish the bioaerosol with biological nature such as bacteria, viruses, fungi. Respiratory viral infections are a major public health issue because they are usually highly infective. We spend about 90% of our time in closed environments such as homes, workplaces or transport. Some studies have shown that AHU contribute to the spread and transport of viral particles within buildings. The aim of this work is to study the characterization of viral bioaerosols in indoor environments and to understand the fate of mengovirus eukaryote RNA virus on glass fiber filter F7 used in AHU. In this study, a setup close to reality of AHU system was used. The mengovirus aerosolized was characterized and measured with the Electrical Low Pressure Impact (ELPI) and the Scanner Mobility Particle Size (SMPS) and detected with RT-qPCR. The results about quantification and the level of infectivity of mengovirus on the filter and in the biosampler showed that mengovirus can pass through the filter and remain infectious upstream and downstream the system. Regarding the virus effectiveness on the filter under a constant air flow, and mengovirus was remained infectious during 10 hours after aerosolization.
ISSN: 1867-0334

hal-01636427
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01636427
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01636427/document
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01636427/file/Fate%20of%20mengovirus%20on%20fiberglass%20filter_accepted.pdf
DOI : 10.1007/s12560-017-9310-8

Éditeur(s) : HAL CCSD
Résumé : The main objective of this thesis was to study the influence of Guianan terra firme rainforests types on medium- and large-sized vertebrates community organization. First, we choose a model species which permitted to develop an appropriate abundance estimation method which take into account the imperfect detection and temporary immigration of mobile species, and to test environmental conditions effects at different spatial scales of analysis. Second, given that bias due to animal detection can be important in the abundance estimation, we determinated the relative role of environmental conditions and species biological traits on detection probability. From this methodological framework, we studied then processes of community organization, by identifying the main determinants involved in community organization, using composition and alpha and beta diversities, and, in a complementary manner, three metrics (taxonomic, functional, and phylogenetic). We sought from these general framework to determinate the relative role of environmental conditions and historical contingency, responsible for the current community organization, and to test the forest refugia hypothesis. Finally, we downscaled the analysis to determinate, and tried to disentangle the effects of environmental conditions and interspecific interactions on species co-occurrence. We used then functional traits to test the relationship between species co-occurrence and similarities.This thesis highlights the important role of historical contingency and facilitation in the structure of regional diversity and the local assembly processes of medium- and large-sized vertebrates, respectively, in French Guiana.
Cette thèse a pour but d’étudier l'influence de l'hétérogénéité des forêts de terre ferme en Guyane sur l'organisation des communautés de moyens et grands vertébrés. Nous avons, d'abord, choisi une espèce modèle afin de déterminer une méthode adéquate d'estimation d'abondance prenant en compte la détection imparfaite et l'immigration temporaire des espèces, et de tester l'effet des conditions environnementales à différentes échelles d'analyse. Puis, partant du constat que les biais dus à la détection dans l'estimation d'abondance pouvaient être importants, nous avons déterminé l'importance relative des conditions environnementales et des traits biologiques des espèces sur la probabilité de détection. A partir de ce cadre d'étude, nous avons étudié la composition et les diversités alpha et beta en utilisant de façon complémentaire les métriques taxonomique, fonctionnelle, et phylogénétique pour déterminer le rôle relatif de l'environnement et de la contingence historique dans l'organisation des communautés, et de tester l’hypothèse des refuges forestiers. Enfin, en descendant dans l'échelle d'analyse, nous avons tenté de démêler l'effet de l'environnement et des interactions interspécifiques sur la cooccurrence des espèces, et utilisé les traits fonctionnels des espèces pour tester le lien entre cooccurrence et similitude fonctionnelle. Cette thèse met en avant les rôles prépondérants de la contingence historique et de la facilitation dans, respectivement, la structuration de la diversité régionale et les processus d’assemblages locaux des communautés de moyens et grands vertébrés en Guyane.
https://tel.archives-ouvertes.fr/tel-01537779

NNT : 2017YANE0004
tel-01537779
https://tel.archives-ouvertes.fr/tel-01537779
https://tel.archives-ouvertes.fr/tel-01537779/document
https://tel.archives-ouvertes.fr/tel-01537779/file/these_thomas_denis.pdf

Éditeur(s) : HAL CCSD Elsevier
Résumé : Among the radionuclides that can migrate from radioactive wastes buried within consolidated argillaceous rocks, I-129 poses a particular problem due to its high mobility in geomedia and its very long half-life of 1.6 10(7) years. Previous studies carried out on such rocks showed the existence of a low iodide retardation regarding the other anion species. The purpose of the present study was two-fold. It was hoped (1) to confirm this retardation by means of radial diffusion experiments and (2) to estimate the influence of the initial iodide concentrations towards the iodide uptake. The results obtained from in-diffusion stage show that (1) no iodide uptake occurs at high initial concentrations and (2) an uptake at low initial concentrations cannot be clearly evidenced. Finally. the most singular behaviour of iodide was highlighted for all the initial iodide concentrations, from the out-diffusion stage. during which some amount of iodide, available for out-diffusion, were not involved in the diffusion process. Although the origin of such phenomenon remains unclear, a kinetic effect for the iodide uptake was proposed, assuming that the period of 55days (corresponding to the in-diffusion stage duration) would be necessary for inducing the iodide uptake. This kinetic effect, already shown elsewhere by (Descostes. M., Blin, V., Bazer-Bachi, F., Meier, P., Grenut, B., Radwan. J., Schlegel, M.L., Buschaert, S.. Coelho, D, Tevissen, E. Diffusion of anionic species in Callovo-Oxfordian argillites and Oxfordian limestones. In press for Appl. Geochem.) on similar materials, needs to be deepened.
ISSN: 0079-1946

hal-00412393
https://hal.archives-ouvertes.fr/hal-00412393
DOI : 10.1016/j.pce.2008.05.020

Éditeur(s) : HAL CCSD Oxford University Press (OUP): Policy B - Oxford Open Option A Oxford University Press (OUP)
Résumé : International audience
Peridotites exhumed in the footwall of axial detachment faults at slow-spreading ridges are highly serpentinized. Most mid-ocean ridge detachment settings are magmatically active and hydrous fluid circulation in and near the fault has been shown to be influenced by the presence of melt or magmatic lithologies. Our working area along the Southwest Indian Ridge (62–65°E) is nearly amagmatic and represents an end-member to study the hydrous alteration of exhumed peridotites without these magmatic influences. We use an integrated petrological approach combining microstructural, mineralogical and chemical observations to unravel the sequence of serpentinization in 272 dredged samples of variably serpentinized peridotites and to document the circulation of serpentinizing fluids in and near the exhumation faults. We find that serpentine recrystallization and veins overprint the initial serpentinite mesh texture in ∼25% of the samples. Oxygen isotope data suggest that this sequence developed at relatively high temperatures (271–336°C) and under increasing fluid–rock ratios, from near stoichiometry for mesh texture formation to >10 during recrystallization. Increasing fluid supersaturation relative to serpentine favors the replacement of mesh texture lizardite by chrysotile and polygonal or polyhedral serpentine. We attribute local recrystallization into antigorite to moderate Si-metasomatism, possibly following pyroxene serpentinization. We do not observe the more pronounced Si-metasomatism leading to talc replacing serpentine that is reported for the more magmatically active Mid-Atlantic Ridge detachment settings and is attributed to prior leaching of magmatic rocks. Scales of preferential fluid pathways in our samples evolved from pervasive and close-spaced (<500 µm) microfractures during the formation of the initial serpentine mesh texture, to centimeter-thick planar domains of enhanced fluid flux, spaced at ∼10 cm intervals and probably grouped in corridors that may be up to ∼100 m across. Serpentine minerals are enriched in some fluid-mobile elements (Cl, B, U) relative to the peridotite protolith, and several elements (Al, Fe, Si, Cu, As, Sb, REE) are redistributed at the millimeter to decimeter scale. Serpentinizing fluids were seawater-derived, probably mildly alkaline (small to no europium anomalies), reducing and H2-enriched (formation of magnetite). These fluids may have been similar to, though warmer than, those venting at the ultramafic-hosted Lost City hydrothermal fluid (30°N, Mid-Atlantic Ridge).
ISSN: 0022-3530

hal-01174047
https://hal.archives-ouvertes.fr/hal-01174047
DOI : 10.1093/petrology/egv014

Éditeur(s) : HAL CCSD Society for Molecular Biology and Evolution
Résumé : International audience
Complex nongradual evolutionary processes such as gene remodeling are difficult to model, to visualize, and to investigate systematically. Despite these challenges, the creation of composite (or mosaic) genes by combination of genetic segments from unrelated gene families was established as an important adaptive phenomena in eukaryotic genomes. In contrast, almost no general studies have been conducted to quantify composite genes in viruses. Although viral genome mosaicism has been well-described, the extent of gene mosaicism and its rules of emergence remain largely unexplored. Applying methods from graph theory to inclusive similarity networks, and using data from more than 3,000 complete viral genomes, we provide the first demonstration that composite genes in viruses are 1) functionally biased, 2) involved in key aspects of the arm race between cells and viruses, and 3) can be classified into two distinct types of composite genes in all viral classes. Beyond the quantification of the widespread recombination of genes among different viruses of the same class, we also report a striking sharing of genetic information between viruses of different classes and with different nucleic acid types. This latter discovery provides novel evidence for the existence of a large and complex mobilome network, which appears partly bound by the sharing of genetic information and by the formation of composite genes between mobile entities with different genetic material. Considering that there are around 10E31 viruses on the planet, gene remodeling appears as a hugely significant way of generating and moving novel sequences between different kinds of organisms on Earth.
ISSN: 1759-6653

Droits : http://creativecommons.org/licenses/by/
hal-01324848
http://hal.upmc.fr/hal-01324848
http://hal.upmc.fr/hal-01324848/document
http://hal.upmc.fr/hal-01324848/file/Genome%20Biol%20Evol-2014-Jachiet-2195-205.pdf
DOI : 10.1093/gbe/evu168

Éditeur(s) : HAL CCSD Royal Society
Résumé : International audience
The 2 465 177 bp genome of Sulfolobus islandicus LAL14/1, host of the model rudivirus SIRV2, was sequenced. Exhaustive comparative genomic analysis of S. islandicus LAL14/1 and the nine other completely sequenced S. islandicus strains isolated from Iceland, Russia and USA revealed a highly syntenic common core genome of approximately 2 Mb and a long hyperplastic region containing most of the strain-specific genes. In LAL14/1, the latter region is enriched in insertion sequences, CRISPR (clustered regularly interspaced short palindromic repeats), glycosyl transferase genes, toxin-antitoxin genes and MITE (miniature inverted-repeat transposable elements). The tRNA genes of LAL14/1 are preferential targets for the integration of mobile elements but clusters of atypical genes (CAG) are also integrated elsewhere in the genome. LAL14/1 carries five CRISPR loci with 10 per cent of spacers matching perfectly or imperfectly the genomes of archaeal viruses and plasmids found in the Icelandic hot springs. Strikingly, the CRISPR_2 region of LAL14/1 carries an unusually long 1.9 kb spacer interspersed between two repeat regions and displays a high similarity to pING1-like conjugative plasmids. Finally, we have developed a genetic system for S. islandicus LAL14/1 and created ΔpyrEF and ΔCRISPR_1 mutants using double cross-over and pop-in/pop-out approaches, respectively. Thus, LAL14/1 is a promising model to study virus-host interactions and the CRISPR/Cas defence mechanism in Archaea.
ISSN: 2046-6390

hal-00818894
https://hal.archives-ouvertes.fr/hal-00818894
DOI : 10.1098/rsob.130010
PUBMED : 23594878

Éditeur(s) : HAL CCSD BioMed Central
Résumé : International audience
BackgroundMalaria is endemic in French Guiana, an overseas territory of France on the Guiana Shield. Since 2005, notified malaria cases are decreasing. However, new data show that malaria affects many Brazilian gold miners working illegally in French Guiana, the majority of whom are not counted in official data. In addition, one major concern is the usual practice of improper self-treatment in this mining population, raising fear of the development of antimalarial resistance. This prospective study, conducted in 2015, aimed to estimate the prevalence of Plasmodium spp. in illegal gold miners working in French Guiana. MethodsThe recruitment of gold miners was carried out in resting sites along the French Guiana-Suriname border, where they go for supplies, medical care or leisure. After recording agreement, three malaria diagnostic methods were performed: rapid diagnostic test, microscopy and PCR,ResultsAmong 421 persons recruited in the study, malaria prevalence, detected by nested-PCR, was 22.3% (CI=[18.3-26.3], n=94/421) of which 84% were asymptomatic. ConclusionThis significant malaria reservoir in a mobile and illegal population with difficult access to a health care system raises the threat of artemisinin resistance and puts the population of the Guiana Shield at risk of new transmission foci while countries of the region aim at malaria elimination. Even though French legislation may hamper dealing with this population, France must face the reality of malaria in illegal gold miners in order to meet its commitment to malaria elimination.
ISSN: 1475-2875

hal-01346800
https://hal.archives-ouvertes.fr/hal-01346800
https://hal.archives-ouvertes.fr/hal-01346800/document
https://hal.archives-ouvertes.fr/hal-01346800/file/2016%2C%20Douine%20-%20Prevalence%20of%20Plasmodium%20spp.%20in%20illegal%20gold%20miners%20in%20French%20Guiana%20in%202015.pdf
DOI : 10.1186/s12936-016-1367-6

Résumé : Qu’est ce qui explique la faiblesse d’un Etat qui s’est engagé depuis plus de vingt ans à rompre avec les pratiques de l’autoritarisme et du néo-patrimonialisme ? Pourquoi les promesses d’une démocratisation réussie, malgré le soutien massif des acteurs de la « société internationale » ont paradoxalement débouché sur la déstabilisation de l’Etat dans un contexte de crises récurrentes ? Ce sont les interrogations principales qui orientent cette recherche qui se donne pour ambition d’étudier les processus par lesquels les élites et les masses haïtiennes s’approprient la démocratie. De ce point de vue, la démocratisation s’analyse comme une ressource politique et institutionnelle revendiquée par ces dernières comme élément probant de leur adhésion à la grammaire démocratique. Dès lors, il s’agit de scruter les routes sinueuses et chaotiques empruntées par la démocratisation en Haïti, en interrogeant les diverses séquences marquantes de l’histoire politique haïtienne. L’accent est mis sur l’importation des technologies institutionnelles d’origine occidentale, notamment durant la période ouverte en 1994 avec la réinstallation de Jean-Bertrand Aristide dans ses fonctions de président et celle qui commence en 2004 avec son départ forcé du pouvoir. Ces deux séquences historiques, sous-tendues par des plans de reconstruction de l’Etat, sont marquées par la mobilisation de ressources diverses, en vue de jeter les bases d’une nouvelle gouvernance politique et économique. Elles circonscrivent également un champ de représentations conflictuelles, caractérisé par la compétition entre les Etats occidentaux et la lutte pour la répartition des enjeux de puissance entre les organisations internationales et les élites locales. L’analyse du processus de démocratisation conduit à des observations paradoxales : l’exacerbation de la violence, l’actualisation de l’autoritarisme, la multiplication des situations déviantes découlant des stratégies des acteurs locaux. Ces derniers tentent d’échapper aux contraintes imposées par des acteurs externes qui interviennent afin de sanctionner, d’arbitrer et d’imposer des décisions aux factions en luttes pour le pouvoir. Ainsi, la démocratisation passe par des crises d’adaptation, des phases contradictoires de recomposition, d’hybridation des institutions importées et parfois de contournement des normes et procédures. Entre les acteurs internes et externes s’établit et s’organise une dynamique interactive qui influence l’Etat dont la configuration finale est loin de correspondre aux objectifs affichés à travers les réformes engagées. Afin de mieux mettre en évidence les traits distinctifs de cet Etat forgé dans l’incertitude et l’imprécision, la thèse propose de restituer les dynamiques et l’historicité propres à la société haïtienne, en privilégiant l’hypothèse de la réinvention de l’Etat. Paradoxalement, l’État peut être le produit de processus de violence et la part chaotique que comporte la situation en Haïti peut recéler les prémices de sa construction.
What does explain the weakness of a State which has committed more than 20 years to break with the practices of authoritarianism and neo-patrimonialism? Why the promises of a successful democratization, despite the massive support of the actors of the “international society” paradoxically led to the destabilization of the State in the context of recurrent crises? These are the key questions guiding this research, whose ambition is to study the processes by which elites and the Haitian masses appropriate democracy. From this point of view, democratization is analyzed as a political and institutional resource claimed by them as convincing evidence of their adherence to democratic grammar. Therefore, it is scrutinizing the winding roads and chaotic way borrowed by democratization in Haiti, by querying various striking sequences of Haitian political history. Emphasis is placed on the importation of institutional technologies of Western origin, particularly during the period opened in 1994 with the resettlement of Jean-Bertrand Aristide in his duties as president and on the period which starts in 2004 with his forced departure from power. These two historical sequences, underpinned by plans for the reconstruction of the State, are marked by the mobilization of various resources, with a view to laying the foundations for new political and economic governance. They also define a field of conflicting representations, characterized by competition between Western States and the struggle for the distribution of power between the international organizations and local elites issues.The analysis of the process of democratization leads to paradoxical representations: the exacerbation of violence, the updating of authoritarianism, the multiplication of deviant situations arising from the strategies of local actors. The latter are trying to escape from the constraints imposed by external actors involved in order to punish, to arbitrate and to impose decisions on the factions struggling for power. Thus, democratization goes hand in hand with crises of adaptation, contradictory phases of re-composition, hybridization of the imported institutions and, sometimes with circumvention of the standards and procedures. Between internal and external actors are settled and organized interactive dynamics that influence the State of which the final configuration is far short of the objectives set out through the aimed reforms. In order to better highlight the distinguishing features of this State forged in uncertainty and vagueness, the thesis proposes to analyze the dynamics and historicity of Haitian society, privileging, the hypothesis of the reinvention of the State. Paradoxically, the State may be the product of process of violence and the chaotic part that includes the situation in Haiti can conceal the beginning of its construction.

http://www.theses.fr/2014AGUY0849/document

Éditeur(s) : HAL CCSD
Résumé : National audience
Traditional network generation models attempt to replicate global structural properties (degree distribution, average distance, clustering coefficient, communities, etc.) through synthetic link formation mechanisms such as triadic closure or preferential attachment. In this work, we study the evolution of a very big communication network coming from mobile telephony and we analyse the link formation process. A first study conducted on the standard mechanisms allows observing that several mechanisms are responsible for the properties observed in this network. In a second study, we characterize more precisely the link formation process by searching for correlations between the probability of creating a new link and some individual properties such as the degree, the clustering coefficient and the age of the nodes.
Conférence sur les modèles et l'analyse des réseaux : Approches mathématiques et informatiques
Saint-Etienne, France

hal-00873990
https://hal.archives-ouvertes.fr/hal-00873990