Éditeur(s) : Gauthier-Villars
Résumé : Calcareous nannofossil assemblages of the family Noelaerhabdaceae have been studied in sediments of seventeen Quaternary cores raised from various climatic areas of the Atlantic and Pacific oceans. These sections display a regular, hiatus-free sedimentation for the last 500000 years. They have been dated using oxygen-isotopic measurements, variations of calcium carbonate content, variations of total nannofossil abundance, thorium measurements and volcanic ash horizons. Coccoliths of the genus Gephyrocapsa have been placed in three distinct taxonomic groups, based on morphological criteria inferred from light-microscope observations. Their acmes, as well as the acme of Emiliania huxleyi, are considered as stratigraphic markers. These markers characterize most of the last thirteen glacial-interglacial climatic stages, as well as some climatic events of lower magnitude (8.5 and 6.5). Most of these markers have global stratigraphic significance: acme of ''closed'' Gephyrocapsa during stages 13,11 and 9, and during event 8.5; acme of ''small'' Gephyrocapsa during stage 7 and event 6.5; acme of ''open'' Gephyrocapsa at top of event 6.5, and during stages 5 and 3; acme of E. huxleyi during stages 3 and 1. Others are only valid south of the southernmost latitude reached by the North-Atlantic polar front during the Quaternary: acme of ''closed'' Gephyrocapsa during stage 12; acme of ''small'' Gepkyrocapsa in early and middle stage 5; acme of E. huxleyi during stage 2. Others are only valid south of 20-degrees-S: acme of ''small'' Gephyrocapsa at the 10/9 stage boundary; acme of ''open'' Gephyrocapsa during stage 6.
Oceanologica Acta (0399-1784) (Gauthier-Villars), 1993 , Vol. 16 , N. 4 , P. 349-362

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/00099/21061/18687.pdf
http://archimer.ifremer.fr/doc/00099/21061/

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 Public Library of Science
Résumé : International audience
Two of the crucial aspects of human immunodeficiency virus (HIV) infection are (i) viral persistence in reservoirs (precluding viral eradication) and (ii) chronic inflammation (directly associated with all-cause morbidities in antiretroviral therapy (ART)-controlled HIV-infected patients). The objective of the present study was to assess the potential involvement of adipose tissue in these two aspects. Adipose tissue is composed of adipocytes and the stromal vascular fraction (SVF); the latter comprises immune cells such as CD4+ T cells and macrophages (both of which are important target cells for HIV). The inflammatory potential of adipose tissue has been extensively described in the context of obesity. During HIV infection, the inflammatory profile of adipose tissue has been revealed by the occurrence of lipodystrophies (primarily related to ART). Data on the impact of HIV on the SVF (especially in individuals not receiving ART) are scarce. We first analyzed the impact of simian immunodeficiency virus (SIV) infection on abdominal subcutaneous and visceral adipose tissues in SIVmac251 infected macaques and found that both adipocytes and adipose tissue immune cells were affected. The adipocyte density was elevated, and adipose tissue immune cells presented enhanced immune activation and/or inflammatory profiles. We detected cell-associated SIV DNA and RNA in the SVF and in sorted CD4+ T cells and macrophages from adipose tissue. We demonstrated that SVF cells (including CD4+ T cells) are infected in ART-controlled HIV-infected patients. Importantly, the production of HIV RNA was detected by in situ hybridization, and after the in vitro reactivation of sorted CD4+ T cells from adipose tissue. We thus identified adipose tissue as a crucial cofactor in both viral persistence and chronic immune activation/inflammation during HIV infection. These observations open up new therapeutic strategies for limiting the size of the viral reservoir and decreasing low-grade chronic inflammation via the modulation of adipose tissue-related pathways
ISSN: 1553-7366

Droits : http://creativecommons.org/licenses/by/
hal-01207287
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01207287
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01207287/document
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01207287/file/journal.ppat.1005153.pdf
DOI : 10.1371/journal.ppat.1005153

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Adult fish exhibit a strong neurogenic capacity due to the persistence of radial glial progenitor cells. In zebrafish, radial glial cells display well-established markers such as the estrogen-synthesizing enzyme (AroB) and the brain lipid binding protein (Blbp), which is known to strongly bind omega-3 polyunsaturated fatty acids such as docosahexaenoic acid (DHA). While Blpb is mainly described in the telencephalon of adult zebrafish, its expression in the remaining regions of the brain is poorly documented. The present study was designed to further investigate Blbp expression in the brain, its co-expression with AroB, and its link with radial glial cells proliferation in zebrafish. We generated a complete and detailed mapping of Blbp expression in the whole brain and show its complete co-expression with AroB, except in some tectal and hypothalamic regions. By performing PCNA and Blbp immunohistochemistry on cyp19a1b-GFP (AroB-GFP) fish, we also demonstrated preferential Blbp expression in proliferative radial glial cells in almost all regions studied. To our knowledge, this is the first complete and detailed mapping of Blbp-expressing cells showing strong association between Blbp and radial glial cell proliferation in the adult brain of fish. Given that zebrafish is now recognized models for studying neurogenesis and brain repair, our data provide detailed characterization of Blbp in the entire brain and open up a broad field of research investigating the role of omega-3 polyunsaturated fatty acids in neural stem cell activity in fish
ISSN: 1567-133X

hal-01237088
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01237088
DOI : 10.1016/j.gep.2015.11.003
PUBMED : 26611722

Éditeur(s) : HAL CCSD BioMed Central
Résumé : International audience
UNLABELLED: ABSTRACT: BACKGROUND: Malaria is a major health issue in French Guiana. Amerindian communities remain the most affected. A previous study in Camopi highlighted the predominant role of environmental factors in the occurrence of malaria. However, all parameters involved in the transmission were not clearly identified. A new survey was conducted in order to clarify the risk factors for the presence of malaria cases in Camopi. METHODS: An open cohort of children under seven years of age was set up on the basis of biologically confirmed malaria cases for the period 2001-2009. Epidemiological and observational environmental data were collected using two structured questionnaires. Data were analysed with a multiple failures multivariate Cox model. The influence of climate and the river level on malaria incidence was evaluated by time-series analysis. Relationships between Anopheles darlingi human biting rates and malaria incidence rates were estimated using Spearman's rank correlation. RESULTS: The global annual incidence over the nine-year period was 238 per 1,000 for Plasmodium falciparum, 514 per 1,000 for Plasmodium visa and 21 per 1,000 for mixed infections. The multivariate survival analysis associated higher malaria incidence with living on the Camopi riverside vs. the Oyapock riverside, far from the centre of the Camopi hamlet, in a home with numerous occupants and going to sleep late. On the contrary, living in a house cleared of all vegetation within 50 m and at high distance of the forest were associated with a lower risk. Meteorological and hydrological characteristics appeared to be correlated with malaria incidence with different lags. Anopheles darlingi human biting rate was also positively correlated to incident malaria in children one month later. CONCLUSIONS: Malaria incidence in children remains high in young children despite the appearance of immunity in children around three years of age. The closeness environment but also the meteorological parameters play an important role in malaria transmission among children under seven years of age in Camopi.
ISSN: 1475-2875

inserm-00633771
http://www.hal.inserm.fr/inserm-00633771
http://www.hal.inserm.fr/inserm-00633771/document
http://www.hal.inserm.fr/inserm-00633771/file/1475-2875-10-246.pdf
DOI : 10.1186/1475-2875-10-246

Éditeur(s) : HAL CCSD European Geosciences Union
Résumé : We propose to assess the error done when temperature is considered as a conservative tracer in fluviokarst studies. As a matter of fact, heat exchanges occur between karstic Conduit System (CS) and Porous Fractured Matrix (PFM) that prevents from using this approximation without caution. The conservative tracer approximation boils down to consider the cooling of CS water by PFM flow in an open thermodynamic system where the CS is bounded by an Adiabatic Wall (AW). The resulting CS water temperature contrasts with the one obtained from more complete models (CW), which also take into account heat conduction within the CS, within the PFM, and from the CS to PFM through CS a Conductive Wall. In order to assess first orders of this error, the dimensionless equations, characteristic of CS cooling by PFM, have been solved thanks to Alternate Finite Difference Implicit methods both in AW and CW configurations. Four groups of dimensionless numbers appear in the various terms of energy and mass equations among which the Peclet and Reynolds numbers depict the large morphologic and hydrologic variability of natural karstic systems. A parametric exploration of the differences between AW and CW models has then been conducted vs. Peclet numbers (Pe numbers varying from 106 to 109, at constant CS Reynolds number) and vs. Reynolds numbers (Red varying from 103 to 107, at constant Peclet number). The error curves bound finite volumes in the Peclet–Reynolds space that converge uniformly to zero for the extreme values of these parameters. However, for Peclet and Reynolds numbers characteristic of realistic fluviokarst configurations, the errors reach finite values, that give first order information assessing the error done by considering temperatures as conservative tracers. Maximum relative errors around 10−2 (in fact 0.0092) have been found varying Pe; while it remained slightly lower than 0.7 × 10−2 varying Red. An illustrative example of the temperature conservative tracer AW approximation is presented with the data obtained from the main morphologic and hydrologic properties of the Cent–Font resurgence (Hérault, France). According to the results, the error reached at the output of the fluviokarst is 0.00613 (for Pe = 1.4993 × 108 and Red = 4.2969 × 104). When rescaled to the physical domain, this error leads to a temperature difference of 1.77 K between the CW and AW configurations.
ISSN: 1812-2108

hal-01358348
https://hal.archives-ouvertes.fr/hal-01358348
https://hal.archives-ouvertes.fr/hal-01358348/document
https://hal.archives-ouvertes.fr/hal-01358348/file/hessd-11-169-2014.pdf
DOI : 10.5194/hessd-11-169-2014

Éditeur(s) : HAL CCSD
Résumé : Ctenophores are one of the four animal phyla positioned outside from the Bilateria. Most ctenophore species are planktonic and gelatinous, and are easily recognisable by their eight comb rows used for swimming. Ctenophore systematics remains nowadays poorly understood. Anatomical characters do not help much in placing them within the animal tree, and similarly the grounds for establishment of their internal phylogeny as well as delimitation of species are notoriously weak due to a paucity of informative morpho-anatomical characters. Until now, the use of molecular data has failed to improve significantly this situation. The aim of this PhD thesis was to bring a contribution to our understanding of ctenophore evolution at different taxonomic scales. At the metazoan level, the position of ctenophores was addressed using a phylogenomic approach. Taxonomic sampling was significantly improved through sequencing and assembly of transcriptomes of 22 non-bilaterian species (belonging to ctenophores, cnidarians and sponges). Two independent datasets were analysed, one consisting in an update of an existing supermatrix of 128 genes, the other one (4235 genes) having been entirely built de novo, thanks to a newly-devised semi-automated protocol intended to eliminate all major potential causes of artefacts (contaminations, paralogies, missing data). Results clearly contradict recent phylogenomic studies which claimed Ctenophora to be the most early-diverging animal lineage, our analyses instead supporting Porifera as the sister-group to other metazoans. The exact position of ctenophores remains however uncertain at this stage, different conditions of analyses yielding three contradictory hypotheses as open possibilities. At the intra-phyletic level, analyses of a ADNr 18S and ITS (internal transcribed spacers) dataset, together with study of duplicated genes and the results of phylogenomic analyses, allowed resolving most phylogenetic relationships between ctenophore orders and families, including the placement of the ctenophore tree root. Finally, at smaller taxonomic scale, in-depth comparison between two species of the genus Pleurobrachia using immunohistochemistry demonstrates the potential of these techniques for uncovering new structural “micro-anatomical” characters useful for diagnosis and identification of ctenophore species. It is our hope that this work will contribute to improving the systematics of a poorly known phylum of great importance for understanding early animal evolution.
Les cténophores représentent l’un des quatre embranchements animaux extérieurs aux Bilateria. La majoritédes espèces sont planctoniques et gélatineuses, et sont reconnaissables à leurs huit rangées de peignes dont lebattement permet la nage. Leur systématique est encore de nos jours mal comprise. L'anatomie descténophores offre peu de caractères aussi bien pour placer la lignée dans l’arbre des métazoaires, que pourétablir les relations de parenté au sein de l’embranchement et délimiter les espèces, et jusqu’à présent lesdonnées moléculaires n’ont pas permis de résoudre ces problèmes de manière satisfaisante. L’objectif de cetravail de thèse est de contribuer à améliorer notre compréhension de l'évolution des cténophores àdifférentes échelles taxonomiques. A l’échelle des métazoaires, la position phylogénétique des cténophores aété abordée par une approche phylogénomique. Un effort significatif a été réalisé pour améliorerl’échantillonnage taxonomique à travers le séquençage et l’assemblage des transcriptomes de 22 espèces denon-Bilateria (cténophores, cnidaires, spongiaires). Deux jeux de données indépendants ont été analysés, lepremier représentant une mise à jour d’une supermatrice existante de 128 gènes ; le second (4235 gènes)ayant été entièrement construit de novo via un protocole original comportant la mise au point de nouvellesméthodes pour traiter de manière semi-automatisée les principales sources potentielles d’artéfact(contaminations, paralogies, données manquantes). Les résultats contredisent certaines études récentes enmontrant que les spongiaires et non les cténophores représentent le groupe-frère des autres métazoaires. Laposition exacte de ces derniers reste à ce stade incertaine (trois options se présentant suivant les analyses). Al’échelle intra-phylétique, l'analyse d'un jeu de données comprenant les marqueurs ADNr 18S et InternalTranscribed Spacers (ITS), associée à des analyses de gènes dupliqués chez les cténophores et aux analysesphylogénomiques précédentes, a permis de résoudre une grande partie des relations phylogénétiques entre lesordres et les familles de cténophores, tout en permettant de préciser la position de la racine. Enfin, à uneéchelle taxonomique plus fine, une comparaison approfondie entre deux espèces du genre Pleurobrachia aumoyen de marquages immunohistochimiques montre le potentiel de ces techniques comme source denouveaux caractères structuraux « micro-anatomiques » à valeur diagnostique pour la délimitation etl’identification des espèces de cténophores. En conclusion, ce travail se veut une contribution au progrès dela systématique d’un embranchement encore méconnu et d’une grande importance pour la compréhensiondes évènements anciens de l’évolution animale.
https://tel.archives-ouvertes.fr/tel-01165014

NNT : 2014PA066448
tel-01165014
https://tel.archives-ouvertes.fr/tel-01165014
https://tel.archives-ouvertes.fr/tel-01165014/document
https://tel.archives-ouvertes.fr/tel-01165014/file/these_archivage_3158995o.pdf

Éditeur(s) : HAL CCSD
Résumé : International audience
OBJECTIVES: Semen composition is influenced by HIV-1 infection, yet the impact of semen components on HIV infection of primary target cells has only been studied in samples from HIV-uninfected donors. DESIGN: We compared the effect of seminal plasma from chronically HIV-infected (SP+) versus uninfected donors (SP-) on HIV-1 infection of PBMCs and CD4+T cells. METHODS: Primary cells were infected with HIV-1 in the presence of SP+ or SP- and analyzed for infection level, metabolic activity, HIV receptor expression, proliferation and activation. SP+ and SP- were compared for infection-enhancing peptides, cytokines and prostaglandin E2 levels. RESULTS: SP- efficiently enhanced HIV-1 R5 infection of CD4+ T cells, whereas SP+ enhancing activity was significantly reduced. RANTES concentrations were elevated in SP+ relative to SP-, while the concentrations of infectivity-enhancing peptides (SEVI, SEM1, SEM2) were similar. CCR5 membrane expression levels were reduced on CD4+T cells shortly post-exposure to SP+ compared with SP- and correlated to R5-tropic HIV-1 infection levels, and CCR5 ligands' concentrations in semen. SP+ and SP- displayed similar enhancing activity on PBMC infection by X4-tropic HIV-1. Addition/depletion of RANTES from seminal plasmas modulated their effect on PBMC infection by R5-tropic HIV-1. CONCLUSIONS: Semen from HIV-infected donors exhibit a significantly reduced enhancing potential on CD4+ T cell infection by R5-tropic HIV-1 when compared with semen from uninfected donors. Our data indicate that elevated seminal concentrations of RANTES in HIV+ men can influence the ability of semen to enhance infection.This is an open-access article distributed under the terms of the Creative Commons Attribution-Non Commercial-No Derivatives 4.0 License, where it is permissible to download and share the work provided it is properly cited. The work cannot be changed in any way or used commercially. http://creativecommons.org/licenses/by-nc-nd/4.0
AIDS

hal-01274885
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01274885
DOI : 10.1097/QAD.0000000000001048
PUBMED : 26854806

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Generation and emplacement of felsic magmas in the Paleoproterozoic Baoulé-Mossi domain, West African Craton does not match the apparent peaks of global crust generation identified between ca. 2900–2600, 1900–1600 and 1200–900 Ma. In contrast, across the Baoulé-Mossi domain, the emplacement of felsic intrusions ranges from ca. 2300 to 2000 Ma. It has proven difficult to place this magmatism within a robust geodynamic framework due to the lack of accurate geochronological data from across the West African Craton. The present study addresses this issue by presenting eighty-four new felsic intrusions zircon ion microprobe and LA-ICP-MS U-Pb ages from areas that up until now have not been targeted for geochronology. The new dataset, when fully integrated with existing age data, reveals a craton-wide diachronous geochronological pattern characterized by a magmatic front that migrated westward. This migration proceeded at a rate of 35 km per million years, with an apparent offset of the initiation and cessation of felsic magmatic activity between the east and west of approximately 50 million years. The new data also show that although the entire Baoulé-Mossi domain was subject to continuous magmatic activity for at least 150 million years, this magmatic activity displays a rather different record in the eastern and western portions of the domain. The differences are expressed as a westward migration of the magmatic activity, cessation of activity around ca. 2100 Ma (easternmost portion) and ca. 2050 Ma (westernmost portion) and a higher incidence of inherited ages in the westernmost portion when compared to the easternmost region. In addition, the new U-Pb data identify some of the oldest felsic intrusions in the region, including a granite from Burkina Faso (2265 ± 17 Ma) and a diorite porphyry (2216 ± 5 Ma) in southern Mali. This study also reveals inherited Archean zircon cores from across southern Mali. The combination of the new data presented here, along with previously published data, suggests that the Baoulé-Mossi domain formed from the accretion of two major crustal blocks. The Archean inherited ages open a window for further investigation of the interaction between the Archean Kénéma-Man and the Paleoproterozoic Baoulé-Mossi domains.
ISSN: 0301-9268

hal-01623272
https://hal.archives-ouvertes.fr/hal-01623272
DOI : 10.1016/j.precamres.2017.07.036

Éditeur(s) : Pergamon-elsevier Science Ltd
Résumé : Society's needs for a network of in situ ocean observing systems cross many areas of earth and marine science. Here we review the science themes that benefit from data supplied from ocean observatories. Understanding from existing studies is fragmented to the extent that it lacks the coherent long-term monitoring needed to address questions at the scales essential to understand climate change and improve geo-hazard early warning. Data sets from the deep sea are particularly rare with long-term data available from only a few locations worldwide. These science areas have impacts on societal health and well-being and our awareness of ocean function in a shifting climate. Substantial efforts are underway to realise a network of open-ocean observatories around European Seas that will operate over multiple decades. Some systems are already collecting high-resolution data from surface, water column, seafloor, and sub-seafloor sensors linked to shore by satellite or cable connection in real or near-real time, along with samples and other data collected in a delayed mode. We expect that such observatories will contribute to answering major ocean science questions including: How can monitoring of factors such as seismic activity, pore fluid chemistry and pressure, and gas hydrate stability improve seismic, slope failure, and tsunami warning? What aspects of physical oceanography, biogeochemical cycling, and ecosystems will be most sensitive to climatic and anthropogenic change? What are natural versus anthropogenic changes? Most fundamentally, how are marine processes that occur at differing scales related? The development of ocean observatories provides a substantial opportunity for ocean science to evolve in Europe. Here we also describe some basic attributes of network design. Observatory networks provide the means to coordinate and integrate the collection of standardised data capable of bridging measurement scales across a dispersed area in European Seas adding needed certainty to estimates of future oceanic conditions. Observatory data can be analysed along with other data such as those from satellites, drifting floats, autonomous underwater vehicles, model analysis, and the known distribution and abundances of marine fauna in order to address some of the questions posed above. Standardised methods for information management are also becoming established to ensure better accessibility and traceability of these data sets and ultimately to increase their use for societal benefit. The connection of ocean observatory effort into larger frameworks including the Global Earth Observation System of Systems (GEOSS) and the Global Monitoring of Environment and Security (GMES) is integral to its success. It is in a greater integrated framework that the full potential of the component systems will be realised. Crown Copyright (C) 2011 Published by Elsevier Ltd. All rights reserved.
Progress In Oceanography (0079-6611) (Pergamon-elsevier Science Ltd), 2011-10 , Vol. 91 , N. 1 , P. 1-33

Droits : 2011 Published by Elsevier Ltd. All rights reserved.
http://archimer.ifremer.fr/doc/00044/15557/15923.pdf
DOI:10.1016/j.pocean.2011.05.001
http://archimer.ifremer.fr/doc/00044/15557/

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Transport of liquid and gaseous hydrocarbons through focused fluid flow systems is a widespread process in continental margins and sedimentary basins, which is gaining increased attention in the assessment of geohazards, environment conservation, and securing fossil energy resources. Studying the abundance, distribution and drivers for this process is crucial for understanding its role in 1) the dynamics of gas hydrate accumulation and destabilization, 2) submarine slope stability and related tsunamis, 3) the plethora of chemosynthetic benthic ecosystems that develop in deep seep sites, and 4) the input of greenhouse gases (e.g. methane) into the ocean/atmosphere system, which may influence the atmospheric carbon budget and Earth's paleo- and present climate. New ocean exploration tools provide ever more data and improve our understanding of these systems. However, the subject still suffers from a lack of interdisciplinary knowledge dissemination. The ongoing international debate about the timing and the processes that control fluid expulsion in sedimentary basins is fuelled by their implications for structural and petroleum geology. Because fluids expelled at cold seeps originate at depth they represent open windows into the underlying petroleum systems and are valuable indicators for the reservoir systems. They may also help in deciphering past and predicting future climate change because worldwide release of large amounts of fluids may have an impact on the chemistry of the ocean and atmosphere.
ISSN: 0025-3227

hal-00772472
https://hal.archives-ouvertes.fr/hal-00772472
DOI : 10.1016/j.margeo.2012.10.012

Éditeur(s) : HAL CCSD International Frequency Sensor Association (IFSA)
Résumé : International audience
This paper introduces an approach illustrating how the Open Geospatial Consortium (OGC) Sensor Web Enablement (SWE) framework can be used in order to build a franco-lebanese observatory. We present the practical application of SWE services as a source of real-time observation data and the associated technical architecture for making near real-time observations available to end users on the Web. We discuss the question of crossing sensor data with other data sources, e.g., data provided by human observations. We illustrate our approach by describing the methodology to integrate a first illustration case to monitor snow weather stations in the Lebanese Mountains.
ISSN: 1726-5479

lirmm-01381092
https://hal-lirmm.ccsd.cnrs.fr/lirmm-01381092

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : International audience
Activation of cell signaling by reactive chemicals and pollutants is an important issue for human health. It has been shown that lipophilic nitro-benzoxadiazole (NBD) compounds rapidly move across the plasma membrane and enhance Epidermal Growth Factor Receptor (EGFR) tyrosine phosphorylation in cancer cells. Unlike ligand-dependent activation, the mechanism of this induction relies on the generation of hydrogen peroxide, which is involved in the activation of the catalytic site of the receptor and the inactivation of protein tyrosine phosphatase PTP-1B. Production of H2O2 during redox transformation of NBD compounds is associated with the transition of a monomeric form of Cu/Zn superoxide dismutase 1 (SOD1) to stable dimers. The highly stable and functionally active SOD1 dimer, in the absence of adequate activities in downstream reactions, promotes the disproportionate production and accumulation of intracellular hydrogen peroxide shortly after exposure to NBD compounds. The intrinsic fluorescence of small compounds was used to demonstrate their binding to SOD1. Our data indicate that H2O2 and concomitantly generated electrophilic intermediates behave as independent entities, but all contribute to the biological reactivity of NBD compounds. This study opens a promising path to identify new biomarkers of oxidative/electrophilic stress in the progression of cancer and other diseases
ISSN: 2045-2322

hal-01279094
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01279094
DOI : 10.1038/srep21088
PUBMED : 26883293

Éditeur(s) : Copernicus Gesellschaft Mbh
Résumé : Boundary Exchange (BE - exchange of elements between continental margins and the open ocean) has been emphasized as a key process in the oceanic cycle of neodymium (Nd) (Lacan and Jeandel, 2005a). Here, we use a regional eddy-permitting resolution Ocean General Circulation Model (1/4A degrees) of the North Atlantic basin to simulate the distribution of the Nd isotopic composition, considering BE as the only source. Results show good agreement with the data, confirming previous results obtained using the same parameterization of the source in a coarse resolution global model (Arsouze et al., 2007), and therefore the major control played by the BE processes in the Nd cycle on the regional scale. We quantified the exchange rate of the BE, and found that the time needed for the continental margins to significantly imprint the chemical composition of the surrounding seawater (further referred as characteristic exchange time) is of the order of 0.2 years. However, the timescale of the BE may be subject to large variations as a very short exchange time (a few days) is needed to reproduce the highly negative values of surface waters in the Labrador Sea, whereas a longer one (up to 0.5 years) is required to simulate the radiogenic influence of basaltic margins and distinguish the negative isotopic signatures of North Atlantic Deep Water from the more radiogenic southern origin water masses. This likely represents geographical variations in erosion fluxes and the subsequent particle load onto the continental margins. Although the parameterization of the BE is the same in both configurations of the model, the characteristic exchange time in the eddy-permitting configuration is significantly lower than the previous evaluations using a low resolution configuration (6 months to 10 years), but however in agreement with the available seawater Nd isotope data. This results highlights the importance of the model dynamics in simulating the BE process.
Ocean Science (1812-0784) (Copernicus Gesellschaft Mbh), 2010 , Vol. 6 , N. 3 , P. 789-797

Droits : Author(s) 2010. This work is distributed, EGU
http://archimer.ifremer.fr/doc/00013/12412/9201.pdf
DOI:10.5194/os-6-789-2010
http://archimer.ifremer.fr/doc/00013/12412/

Éditeur(s) : Pergamon-elsevier Science Ltd
Résumé : We report rare earth element (REE) and neodymium (Nd) isotope data for the organic fraction of sediments collected from various depositional environments, i.e. rivers (n=25), estuaries (n=18), open-ocean settings (n=15), and cold seeps (n=12). Sedimentary Organic Matter (SOM) was extracted using a mixed hydrogen peroxide/nitric acid solution (20%-H2O2 – 0.02M-HNO3), after removal of carbonate and oxy-hydroxide phases with dilute hydrochloric acid (0.25M-HCl). A series of experimental tests indicate that extraction of sedimentary organic compounds using H202 may be complicated occasionally by partial dissolution of sulphide minerals and residual carbonates. However, this contamination is expected to be minor for REE because measured concentrations in H2O2 leachates are about two-orders of magnitude higher than in the above mentioned phases. The mean REE concentrations determined in the H2O2 leachates for samples from rivers, estuaries, coastal seas and open-ocean settings yield relatively similar levels, with ΣREE = 109 ± 86 ppm (mean ± s; n=58). The organic fractions leached from cold seep sediments display even higher concentration levels (285 ± 150 ppm; mean ± s; n=12). The H2O2 leachates for most sediments exhibit remarkably similar shale-normalized REE patterns, all characterized by a mid-REE enrichment compared to the other REE. This suggests that the distribution of REE in leached sedimentary organic phases is controlled primarily by biogeochemical processes, rather than by the composition of the source from which they derive (e.g. pore, river or sea- water). The Nd isotopic compositions for organic phases leached from river sediments are very similar to those for the corresponding detrital fractions. In contrast, the SOM extracted from marine sediments display εNd values that typically range between the εNd signatures for terrestrial organic matter (inferred from the analysis of the sedimentary detrital fractions) and marine organic matter (inferred from the analysis of local surface seawater). A notable exception is the case of organic matter (OM) fractions leached from cold seep sediment samples, which sometimes exhibit εNd values markedly different from both terrigenous and surface seawater signatures. This suggests that a significant fraction of organic compounds in these sediments may be derived from chemosynthetic processes, recycling pore water REE characterized by a distinct isotopic composition. Overall, our results confirm that organic matter probably plays an important role in the oceanic REE budget, through direct scavenging and remineralization within the water column. Both the high REE abundances and the shape of shale-normalized patterns for leached SOM also suggest that OM degradation in sub-surface marine sediments during early diagenesis could control, to a large extent, the distribution of REE in pore waters. Benthic fluxes of organic-bound REE could hence substantially contribute to the exchange processes between particulates and seawater that take place at ocean margins. Neodymium isotopes could provide useful information for tracing the origin (terrestrial versus marine) and geographical provenance of organic matter, with potential applications in paleoceanography. In particular, future studies should further investigate the potential of Nd isotopes in organic compounds preserved in sedimentary records for reconstructing past variations of surface ocean circulation.
Geochimica Et Cosmochimica Acta (0016-7037) (Pergamon-elsevier Science Ltd), 2014-09 , Vol. 140 , P. 177-198

Droits : 2014 Elsevier Ltd. All rights reserved.
http://archimer.ifremer.fr/doc/00191/30250/28682.pdf
DOI:10.1016/j.gca.2014.05.016
http://archimer.ifremer.fr/doc/00191/30250/

Éditeur(s) : HAL CCSD
Résumé : International audience
ABSTRACT :A satellite retrieval of surface solar irradiance (SSI) based on GOES satellite data is presented and validated for the French Guiana with three years of in situ measurements from six ground stations. We propose a particle filter approach combining GOES satellite observations and in situ data. We propose an original observation function based on a joint probability distribution and taking advantages of the characteristics of both the involved type of data. The statistical results are compared with those of existing estimation methods and they are found to be in accordance with them. The daily bias ranges from -12 W/m² (-6% of the mean of measurements) to 12 W/m² (6%), depending on the stations. The daily root mean square difference ranges between 23 W/m² (10%) and 27 W/m² (15%). The correlation coefficient is close to 0.92. There is no seasonal climatic effect on the method, the bias and RMSD remain similar for both the rainy and the dry season, but better correlation is observed in the rainy season than in the dry season. Uncertainties are mainly due to the presence of specific tropical atmospheric conditions during the dry season. The method has been tested through various tests: cross-validation scheme has highlighted the potential generalization of the model in a temporal dimension; the ability of the method to effectively duplicate anomalies in surface solar irradiance time series has also been tested. The robustness of the results shows the interest of the method compared to other existing estimation methods. Because of its simplicity of implementation this method opens new prospects in estimating surface solar irradiance. It is concluded that using a particle filter and original observation function method allow a high-quality surface solar irradiance estimation in French Guiana.RESUMEUne méthode d'estimation de l'irradiance solaire de surface (SSI) à partir de données satellites GOES est présentée et validée par comparaison avec trois années de mesures in situ provenant de six stations météorologiques de Guyane Française. Dans cet article, nous proposons une approche par filtre particulaire combinant observations du satellite GOES et données in situ. Nous proposons une fonction d'observation originale basée sur une distribution de probabilité conjointe des deux types de données. Les résultats statistiques sont conformes à ceux des méthodes existantes. Le biais journalier varie de -16 W / m² (-7% de la moyenne des mesures) à 12 W / m² (6%). L'erreur quadratique moyenne (RMSD) est comprise entre 23 W / m² (10%) et 27 W / m² (15%). Le coefficient de corrélation est de 0,92. La méthode est peu sensible aux variations climatiques saisonnières, le biais et RMSD restent similaires en saison des pluies comme en saison sèche, mais une meilleure corrélation est observée pendant la saison des pluies. Les incertitudes sont principalement dues à la présence de conditions atmosphériques tropicales spécifiques en saison sèche. La méthode a été soumise à différents tests : un processus de validation croisée a mis en évidence la possible généralisation du modèle dans une dimension temporelle, la capacité du modèle à reproduire efficacement des anomalies dans les séries temporelles d'irradiance solaire de surface a aussi été testée. La robustesse des résultats obtenus montrent l'intérêt du modèle par rapport aux autres méthodes d'estimation existantes. A cause de sa simplicité de mise en oeuvre cette méthode ouvre de nouvelles perspectives en matière d'estimation de l'irradiance solaire au sol. Nous concluons que l'utilisation d'un filtre particulaire combinée à une fonction d'observation originale permet une estimation de haute qualité de l'irradiance solaire au sol en Guyane Française.
Canadian Journal of Remote Sensing

meteo-01304574
https://hal-meteofrance.archives-ouvertes.fr/meteo-01304574
DOI : 10.1080/07038992.2015.1040150

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Magnetic Resonance Imaging (MRI), a reference examination for cardiac morphology and function in humans, allows to image the cardiac right ventricle (RV) with high spatial resolution. The segmentation of the RV is a difficult task due to the variable shape of the RV and its ill-defined borders in these images. The aim of this paper is to evaluate several RV segmentation algorithms on common data. More precisely, we report here the results of the Right Ventricle Segmentation Challenge (RVSC), concretized during the MICCAI'12 Conference with an on-site competition. Seven automated and semi-automated methods have been considered, along them three atlas-based methods, two prior based methods, and two prior-free, image-driven methods that make use of cardiac motion. The obtained contours were compared against a manual tracing by an expert cardiac radiologist, taken as a reference, using Dice metric and Hausdorff distance. We herein describe the cardiac data composed of 48 patients, the evaluation protocol and the results. Best results show that an average 80% Dice accuracy and a 1cm Hausdorff distance can be expected from semi-automated algorithms for this challenging task on the datasets, and that an automated algorithm can reach similar performance, at the expense of a high computational burden. Data are now publicly available and the website remains open for new submissions (http://www.litislab.eu/rvsc/).
ISSN: 1361-8415

hal-01141170
https://hal.archives-ouvertes.fr/hal-01141170
PUBMED : 25461337

Résumé : Schemes optimisation for genetic improvement for growth of Penaeus stylirostris requires the development of technologies for grading shrimps easily. This work shows that bar and mesh graders are very suitable for early selection at post-larval stages, as long as early growth is heritable. Experimental data sets lead to the equations which give the grading weight as a function of the dimensions of the graders. Mesh graders which allow an earlier selection than bar graders (PL19 instead of PL25) open a new way to implement experimental selection into production hatcheries.
L’optimisation des schémas d’amélioration génétique de la croissance de Penaeus stylirostris, passe nécessairement par la mise au point des techniques de tri rapide et facile à mettre en oeuvre par les acteurs de la filière. Ce travail montre que les trieurs à barreaux ou à maille sont des outils adaptés à une sélection précoce en sortie d’écloserie, dans la mesure où la croissance précoce s’avèrerait héritable. Les tris expérimentaux ont permis d’établir les formules permettant de calculer les poids de tris en fonction des dimensions des trieurs. Les trieurs à maille qui permettent de trier les crevettes dès PL19 ouvrent des perspectives intéressantes pour intégrer une démarche de sélection expérimentale au sein des écloseries de production.

Droits : 2000 Ifremer
http://archimer.ifremer.fr/doc/00203/31439/29836.pdf
http://archimer.ifremer.fr/doc/00203/31439/

Éditeur(s) : HAL CCSD IODP
Résumé : Integrated Ocean Drilling Program (IODP) Expedition 335 (14 April–4 June 2011) will be the fourth ocean cruise of the "Superfast" campaign to drill a deep hole into intact oceanic basement and will return to Ocean Drilling Program (ODP) Hole 1256D to deepen this scientific reference penetration a significant distance into cumulate gabbros. Cores and data recovered during the Superfast 4 expedition will provide hitherto unavailable observations that will test models of the accretion and evolution of the oceanic crust. Site 1256 was specifically located on oceanic crust that formed at a superfast spreading rate (>200 mm/y) to exploit the observed relationship between spreading rate and depth to axial low velocity zones, thought to be magma chambers, seismically imaged at active mid-ocean ridges. This was a deliberate strategy to reduce the drilling distance to gabbroic rocks because thick sequences of lavas and dikes have proved difficult to penetrate in past. ODP Leg 206 (2002) initiated operations at Site 1256, including the installation in Hole 1256D of a reentry cone with 16 inch casing inserted through the 250 m thick sedimentary cover and cemented into basement to facilitate deep drilling. The hole was then cored ~500 m into basement. IODP Expeditions 309 and 312 (2005) successfully completed the first sampling of an intact section of upper oceanic crust from lavas, through the sheeted dikes, and into the upper gabbros. Hole 1256D now penetrates >1500 meters below seafloor (mbsf) and >1250 m subbasement and currently resides in the dike–gabbro transition zone. The first gabbroic rocks were encountered at 1407 mbsf. Below this lies a ~100 m complex zone of fractionated gabbros intruded into contact metamorphosed dikes. Although previous cruises achieved the benchmark objective of reaching gabbro in intact ocean crust, critical scientific questions remain. These include the following: 1. Does the lower crust form by the recrystallization and subsidence of a high-level magma chamber (gabbro glacier), crustal accretion by intrusion of sills throughout the lower crust, or some other mechanism? 2. Is the plutonic crust cooled by conduction or hydrothermal circulation? 3. What is the geological nature of Layer 3 and the Layer 2/3 boundary at Site 1256? 4. What is the magnetic contribution of the lower crust to marine magnetic anomalies? Hole 1256D is poised at a depth where samples that should conclusively address these questions can be obtained, possibly with only a few hundred meters of drilling. Importantly, as of the end of Expedition 312, the hole was clear of debris and open to its full depth. Increased rates of penetration (1.2 m/h) and enhanced core recovery (>35%) in the gabbros indicate that this return to Hole 1256D could deepen the hole >300 m into plutonic rocks, past the transition from dikes to gabbro, and into a region of solely cumulate gabbroic rocks.
https://hal.archives-ouvertes.fr/hal-00564953

hal-00564953
https://hal.archives-ouvertes.fr/hal-00564953
DOI : 10.2204/iodp.sp.335.2010

Éditeur(s) : HAL CCSD Elsevier
Résumé : LA-ICP-MS and SIMS U–Pb analyses have been performed on detrital zircon grains from four heavy mineral rich metasediments collected at different levels of the Nathorst Land Group (Eleonore Bay Supergroup, Greenland). Zircons from high-grade samples collected in the sillimanite and migmatite zones exhibit modifications to their structure, which are lacking in grains from a low-grade sample (0.3 GPa and 350–400 °C). In the sillimanite zone (0.5 GPa, 650 °C), thin discontinuous rims (<20 μm) plating detrital zircon grains document a metamorphic overgrowth during the Caledonian event dated at 428 ± 25 Ma (2σ). In the migmatite zone (0.4 GPa, 700 °C), zircons underwent severe recrystallisation processes but no new zircon growth. Ilmenite, which constitutes over 50% of the heavy mineral layers, underwent recrystallisation in both high-grade samples and is likely to represent the main source of Zr available for growth of zircon rims in the sillimanite zone. However, in the migmatite zone sample, the metamorphic conditions allowed titanite overgrowth around ilmenite, which acted as a sink for Zr and inhibited new zircon growth. 207Pb/206Pb ages for 152 detrital zircons broadly range between 2800 and 990 Ma. The detrital zircon age signature is characterized by the large predominance of late Paleoproterozoic (1.85–1.60 Ga) grains in all analysed samples and by lesser amounts of Archean (2.7–2.8 Ga) and Mesoproterozoic (1.2–1.0 Ga) zircons. The overall age range indicates that detritus can be sourced from the Labradorian and Makkovikian provinces of northeastern Laurentia. The youngest grain analysed (987 ± 18 Ma) indicates that deposition took place during the Neoproterozoic, in a post-Grenvillian sedimentary environment and was likely coeval with the Mid-Neoproterozoic episode of aborted rifting that affected the eastern margin of Laurentia. The lack of detritus originating from Amazonia or Baltica, placed adjacent to Laurentia during the early stages of Rodinia fragmentation, suggests that these two continental landmasses did not constitute a topographic high during the Neoproterozoic or that the Mid-Neoproterozoic rifting opened toward an open ocean to the north of a combined Laurentia/Baltica, thus resulting in a general south to north direction of transport of the sediments.
ISSN: 0301-9268

hal-00407204
https://hal.archives-ouvertes.fr/hal-00407204
DOI : 10.1016/j.precamres.2007.01.002