Éditeur(s) : HAL CCSD Elsevier
Résumé : In order to address the question of the processes involved during shear zone nucleation, we present a petro-structural analysis of millimetre-scale shear zones within the Roffna rhyolite (Suretta nappe, Eastern central Alps). Field and microscopic evidences show that ductile deformation is localized along discrete fractures that represent the initial stage of shear zone nucleation. During incipient brittle deformation, a syn-kinematic metamorphic assemblage of white mica + biotite + epidote + quartz precipitated at ca. 8.5 ± 1 kbar and 480 ± 50 °C that represent the metamorphic peak conditions of the nappe stacking in the continental accretionary wedge during Tertiary Alpine subduction. The brittle to ductile transition is characterized by the formation of two types of small quartz grains. The Qtz-IIa type is produced by sub-grain rotation. The Qtz-IIb type has a distinct CPO such that the orientation of c-axis is perpendicular to the shear fracture and basal and rhombhoedric slip systems are activated. These Qtz-IIb grains can either be formed by recrystallization of Qtz-IIa or by precipitation from a fluid phase. The shear zone widening stage is characterized by a switch to diffusion creep and grain boundary sliding deformation mechanisms. During the progressive evolution from brittle nucleation to ductile widening of the shear zone, fluid–rock interactions play a critical role, through chemical mass-transfer, metasomatic reactions and switch in deformation mechanisms.
ISSN: 0191-8141

hal-01355954
https://hal.archives-ouvertes.fr/hal-01355954
DOI : 10.1016/j.jsg.2016.02.015

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Trivalent inorganic arsenic [As(III)] is an efficient anticancer agent used to treat patients suffering from acute promyelocytic leukemia. Recently, experimental studies have clearly demonstrated that this metalloid can also cure lymphoproliferative and/or pro-inflammatory syndromes in different murine models of chronic immune-mediated diseases. T helper (Th) 1 and Th17 lymphocytes play a central role in development of these diseases, in mice and humans, especially by secreting the potent pro-inflammatory cytokine interferon-γ and IL-17A, respectively. As(III) impairs basic functions of human T cells but its ability to modulate secretion of pro-inflammatory cytokines by differentiated Th lymphocytes is unknown. In the present study, we demonstrate that As(III), used at concentrations clinically achievable in plasma of patients, has no effect on the secretion of interferon-γ from Th1 cells but almost totally blocks the expression and the release of IL-17A from human Th17 lymphocytes co-stimulated for five days with anti-CD3 and anti-CD28 antibodies, in the presence of differentiating cytokines. In addition, As(III) specifically reduces mRNA levels of the retinoic-related orphan receptor (ROR)C gene which encodes RORγt, a key transcription factor controlling optimal IL-17 expression in fully differentiated Th17 cells. The metalloid also blocks initial expression of IL-17 gene induced by the co-stimulation, probably in part by impairing activation of the JNK/c-Jun pathway. In conclusion, our results demonstrate that As(III) represses expression of the major pro-inflammatory cytokine IL-17A produced by human Th17 lymphocytes, thus strengthening the idea that As(III) may be useful to treat inflammatory immune-mediated diseases in humans.
ISSN: 0041-008X

inserm-00872871
http://www.hal.inserm.fr/inserm-00872871
DOI : 10.1016/j.taap.2012.05.004
PUBMED : 22617429

Éditeur(s) : HAL CCSD Cold Spring Harbor Laboratory Press
Résumé : International audience
Meiotic recombination is required for the segregation of homologous chromosomes and is essential for fertility. In most mammals, the DNA double-strand breaks (DSBs) that initiate meiotic recombination are directed to a subset of genomic loci (hot spots) by sequence-specific binding of the PRDM9 protein. Rapid evolution of the DNA-binding specificity of PRDM9 and gradual erosion of PRDM9-binding sites by gene conversion will alter the recombination landscape over time. To better understand the evolutionary turnover of recombination hot spots and its consequences, we mapped DSB hot spots in four major subspecies of Mus musculus with different Prdm9 alleles and in their F1 hybrids. We found that hot spot erosion governs the preferential usage of some Prdm9 alleles over others in hybrid mice and increases sequence diversity specifically at hot spots that become active in the hybrids. As crossovers are disfavored at such hot spots, we propose that sequence divergence generated by hot spot turnover may create an impediment for recombination in hybrids, potentially leading to reduced fertility and, eventually, speciation
ISSN: 0890-9369

hal-01281480
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01281480
DOI : 10.1101/gad.270009.115
PUBMED : 26833728

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : International audience
Necroptosis is a programmed cell death pathway that has been shown to be of central pathophysiological relevance in multiple disorders (hepatitis, brain and cardiac ischemia, pancreatitis, viral infection and inflammatory diseases). Necroptosis is driven by two serine threonine kinases, RIPK1 (Receptor Interacting Protein Kinase 1) and RIPK3, and a pseudo-kinase MLKL (Mixed Lineage Kinase domain-Like) associated in a multi-protein complex called necrosome. In order to find new inhibitors for use in human therapy, a chemical library containing highly diverse chemical structures was screened using a cell-based assay. The compound 6E11, a natural product derivative, was characterized as a positive hit. Interestingly, this flavanone compound: inhibits necroptosis induced by death receptors ligands TNF-α (Tumor Necrosis Factor) or TRAIL (TNF-Related Apoptosis-Inducing Ligand); is an extremely selective inhibitor, among kinases, of human RIPK1 enzymatic activity with a nM Kd; has a non-ATP competitive mode of action and a novel putative binding site; is weakly cytotoxic towards human primary blood leukocytes or retinal pigment epithelial cells at effective concentrations; protects human aortic endothelial cells (HAEC) from cold hypoxia/reoxygenation injury more effectively than necrostatin-1 (Nec-1) and Nec-1s. Altogether, these data demonstrate that 6E11 is a novel potent small molecular inhibitor of RIPK1-driven necroptosis.
ISSN: 2045-2322

hal-01616456
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01616456
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01616456/document
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01616456/file/s41598-017-12788-4.pdf
DOI : 10.1038/s41598-017-12788-4

Éditeur(s) : HAL CCSD Kluwer Academic Publishers
Résumé : International audience
The interlocking leaves of tank-forming bromeliads (Bromeliaceae) collect rainwater and detritus, thus creating a freshwater habitat for specialized organisms. Their abundance and the possibility of quantifying communities with accuracy give us unparalleled insight into how changes in local to regional environments influence community diversity in small water bodies. We sampled 365 bromeliads (365 invertebrate communities) along a southeastern to northwestern range in French Guiana. Geographic locality determined the species pool for bromeliad invertebrates, and local environments determined the abundance patterns through the selection of traits that are best adapted to the bromeliad habitats. Patterns in community structure mostly emerged from patterns of predator species occurrence and abundance across local-regional environments, while the set of detritivores remained constant. Water volume had a strong positive correlation with invertebrate diversity, making it a biologically relevant measure of the pools' carrying capacity. The significant effects of incoming detritus and incident light show that changes in local environments (e.g., the conversion of forest to cropping systems) strongly influence freshwater communities. Because changes in local environments do not affect detritivores and predators equally, one may expect functional shifts as sets of invertebrates with particular traits are replaced or complemented by other sets with different traits.
Hydrobiologia

hal-00845572
https://hal.archives-ouvertes.fr/hal-00845572

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
In the Tifnoute Valley, three plutonic units have been defined: the Askaoun intrusion, the Imourkhssen intrusion and the Ougougane group of small intrusions. They are made of quartz diorite, granodiorite and granite and all contain abundant mafic microgranular enclaves (MME). The Askaoun granodiorite and the Imourkhssen granite have been dated by LA-ICP-MS on zircon at 558 ± 2 Ma and 561 ± 3 Ma, respectively. These granitic intrusions are subcontemporaneous to the widespread volcanic and volcano-detrital rocks from the Ouarzazate Group (580-545 Ma), marking the post-collisional transtensional period in the Anti-Atlas and which evolved towards alkaline and tholeiitic lavas in minor volume at the beginning of the Cambrian anorogenic intraplate extensional period. Geochemically, the Tifnoute Valley granitoids belong to an alkali-calcic series (high-K calc-alkaline) with typical Nb-Ta negative anomalies and no alkaline affinities. Granitoids and enclaves display positive εNd-560Ma (+0.8 to +3.5) with young Nd-TDM between 800 and 1200 Ma and relatively low 87Sr/86Sr initial ratios (Sri: 0.7034 and 0.7065). These values indicate a mainly juvenile source corresponding to a Pan-African metasomatized lithospheric mantle partly mixed with an old crustal component from the underlying West African Craton (WAC). Preservation in the Anti-Atlas of pre-Pan-African lithologies (c. 2.03 Ga basement, c. 800 Ma passive margin greenschist-facies sediments, allochthonous 750-700 Ma ophiolitic sequences) indicates that the Anti-Atlas lithosphere has not been thickened and was never an active margin during the Neoproterozoic. After a transpressive period, the late Ediacaran period (580-545 Ma) is marked by movement on near vertical transtensional faults, synchronous with the emplacement of the huge Ouarzazate Group and the Tifnoute Valley granitoids. We propose here a geodynamical model where the Tifnoute Valley granitoids as well as the Ouarzazate Group were generated during the post-collisional metacratonic evolution of the northern boundary of the West African craton. The convergence with the peri-Gondwanan active margin produced brittle fracturing of the cratonic boundary without thickening, allowing rising of magmas. The Tifnoute Valley granitoids display a metasomatized lithospheric mantle source mixed with a minor ancient (2 Ga) continental crust component from the underlying WAC.
ISSN: 0930-0708

halsde-00782152
https://hal.archives-ouvertes.fr/halsde-00782152
DOI : 10.1007/s00710-012-0245-3

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Field study, thermochronology and geochemistry of the east Lungmu Co (LMC) range highlight some of the geological events that shaped western Tibet. The LMC fault zone has long been interpreted as the boundary between the Tianshuihai terrane of Laurasian affinity and the Qiangtang block of Gondwanian affinity. In the LMC range, the Paleozoic series is intruded by the Mangtsa leucogranite whose zircon have a U/Pb age of 116.9 ± 1 Ma and by mafic rocks with U/Pb zircon ages ranging from 116.9 ± 1 to 95.1 ± 1.7 Ma. Geochemistry of the mafic rocks indicates that they have been emplaced in a supra-subduction zone setting, probably the north dipping Nujiang suture zone. 40Ar/39Ar micas ages of the granite indicate that cooling below ~ 350 °C occurred between 105 and 85 Ma. 40Ar/39Ar K-feldspar data suggest a fast cooling event at 60-55 Ma, which we relate to the reactivation of the LMC suture zone as a thrust at the onset of the India-Eurasia collision. The last, and still active, deformation event corresponds to left-lateral strike-slip faulting along the ENE-WSW LMC fault.
ISSN: 1342-937X

hal-00660491
https://hal.archives-ouvertes.fr/hal-00660491
DOI : 10.1016/j.gr.2011.07.026

Éditeur(s) : Pergamon-elsevier Science Ltd
Résumé : Catch data of large pelagic fish such as tuna, swordfish and billfish are highly variable ranging from short to long term. Based on fisheries data, these time series are noisy and reflect mixed information on exploitation (targeting, strategy, fishing power), population dynamics (recruitment, growth, mortality, migration, etc.), and environmental forcing (local conditions or dominant climate patterns). In this work, we investigated patterns of variation of large pelagic fish (i.e. yellowfin tuna, bigeye tuna, swordfish and blue marlin) in Japanese longliners catch data from 1960 to 2004. We performed wavelet analyses on the yearly time series of each fish species in each biogeographic province of the tropical Indian and Atlantic Oceans. In addition, we carried out cross-wavelet analyses between these biological time series and a large-scale climatic index, i.e. the Southern Oscillation Index (Sol). Results showed that the biogeographic province was the most important factor structuring the patterns of variability of Japanese catch time series. Relationships between the SOI and the fish catches in the Indian and Atlantic Oceans also pointed out the role of climatic variability for structuring patterns of variation of catch time series. This work finally confirmed that Japanese longline CPUE data poorly reflect the underlying population dynamics of tunas. (C) 2010 Elsevier Ltd. All rights reserved.
Progress In Oceanography (0079-6611) (Pergamon-elsevier Science Ltd), 2010-07 , Vol. 86 , N. 1-2 , P. 276-282

Droits : 2010 Elsevier B.V. All rights reserved.
http://archimer.ifremer.fr/doc/00011/12231/9029.pdf
DOI:10.1016/j.pocean.2010.04.019
http://archimer.ifremer.fr/doc/00011/12231/

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
Cytomegalovirus (CMV) infection is common among HIV-infected patients but its repercussion on the course of CD4+ and CD8+ T cells after cART initiation remains elusive. The French Dat'AIDS cohort enrolled 5,688 patients on first-line cART, from which we selected patients who achieved HIV suppression for at least 12 months without modification of cART, and for whom CMV serostatus was available. Five hundred and three patients fulfilled the selection criteria (74% male, median age 43 yrs, 15.5% CDC stage C), of whom 444 (88.3%) were seropositive for CMV (CMV+). Multivariate analyses using mixed-linear models adjusted for the time from HIV suppression, sex, age, transmission risk group, duration of HIV follow-up, the interaction between time from HIV suppression and CMV+ serol-ogy, and the nadir CD4 count revealed a negative correlation between CMV+ and CD4: CD8 ratio (coeff. =-0.16; p = 0.001). This correlation was also observed among patients displaying optimal CD4 recovery (!500 cells/mm3 at M12; coeff. =-0.24; p = 0.002). Hence, CMV+ serostatus antagonizes normalization of the CD4:CD8 ratio, although further analyses of the impact of co-morbidities that associate with CMV serostatus, like HCV infection, are needed to elucidate this antagonism formally. However, this might reflect a premature T cell senescence, thus advocating for a close monitoring of T cells in CMV co-infected patients. In addition, our results raise the question of the benefit of treatment for asymptomatic CMV co-infection in HIV-infected patients.
ISSN: 1932-6203

inserm-01418700
http://www.hal.inserm.fr/inserm-01418700
http://www.hal.inserm.fr/inserm-01418700/document
http://www.hal.inserm.fr/inserm-01418700/file/journal.pone.0165774.PDF
DOI : 10.1371/journal.pone.0165774

Éditeur(s) : Elsevier
Résumé : Previous studies conducted on the continental shelf in the Southeast Bay of Biscay influenced by Gironde waters (one of the two largest rivers on the French Atlantic coast) showed the occurrence of late winter phytoplankton blooms and phosphorus limitation of algal growth thereafter. In this context, the importance of dissolved organic phosphorus (DOP) for both algae and bacteria was investigated in 1998 and 1999 in terms of stocks and fluxes. Within the mixed layer, although phosphate decreased until exhaustion from winter to spring, DOP remained high and phosphate monoesters made up between I I to 65% of this pool. Total alkaline phosphatase activity (APA, V-max) rose gradually from winter (2-8 nM h(-1)) to late spring (100-400 nM h-1), which was mainly due to an increase in specific phytoplankton (from 0.02 to 3.0 nmol mu gC(-1) h(-1)) and bacterial APA (from 0.04 to 4.0 nmol mu gC(-1) h(-1)), a strategy to compensate for the lack of phosphate. At each season, both communities had equal competitive abilities to exploit DOP but, taking into account biomass, the phytoplankton community activity always dominated (57-63% of total APA) that of bacterial community (9-11%). The dissolved APA represented a significant contribution. In situ regulation of phytoplanktonic APA by phosphate (induction or inversely repression of enzyme synthesis) was confirmed by simultaneously conducted phosphate-enrichment bioassays. Such changes recorded at a time scale of a few days could partly explain the seasonal response of phytoplankton communities to phosphate depletion.
Journal of Experimental Marine Biology and Ecology (0022-0981) (Elsevier), 2005-05 , Vol. 318 , N. 2 , P. 213-225

Droits : 2005 Elsevier B.V. All rights reserved
http://archimer.ifremer.fr/doc/2005/publication-608.pdf
DOI:10.1016/j.jembe.2004.12.017
http://archimer.ifremer.fr/doc/00000/608/

Éditeur(s) : Pergamon-elsevier Science Ltd
Résumé : We report the northernmost and deepest known occurrence of deep-water pycnodontine oysters based on two surveys along the French Atlantic continental margin to the La Chapelle continental slope (2006) and the Guilvinec Canyon (2008) The combined use of multibeam bathymetry seismic profiling CTD casts and a remotely operated vehicle (ROV) made it possible to describe the physical habitat and to assess the oceanographic control for the recently described species Neopycnodonte zibrowii These oysters have been observed in vivo in depths from 540 to 846 m colonizing overhanging banks or escarpments protruding from steep canyon flanks Especially in the Bay of Biscay such physical habitats may only be observed within canyons where they are created by both long-term turbiditic and contouritic processes Frequent observations of sand ripples on the seabed indicate the presence of a steady but enhanced bottom current of about 40 cm/s The occurrence of oysters also coincides with the Interface between the Eastern North Atlantic Water and the Mediterranean Outflow Water A combination of this water mass mixing internal tide generation and a strong primary surface productivity may generate an enhanced nutrient flux which is funnelled through the canyon When the ideal environmental conditions are met up to 100 individuals per m(2) may be observed These deep-water oysters require a vertical habitat which is often incompatible with the requirements of other sessile organisms and are only sparsely distributed along the continental margins The discovery of these giant oyster banks illustrates the rich biodiversity of deep-sea canyons and their underestimation as true ecosystem hotspots (C) 2010 Elsevier Ltd All rights reserved
Deep-sea Research Part I-oceanographic Research Papers (0967-0637) (Pergamon-elsevier Science Ltd), 2010-12 , Vol. 57 , N. 12 , P. 1561-1572

Droits : 2010 Elsevier Ltd All rights reserved.
http://archimer.ifremer.fr/doc/00023/13419/14034.pdf
DOI:10.1016/j.dsr.2010.09.002
http://archimer.ifremer.fr/doc/00023/13419/

Éditeur(s) : Elsevier
Résumé : Sediment cores acquired in 2004 off the Rhone prodelta show consistent anomalous methane concentrations of up to 87,440 ppm. Methane compositional and isotopic data support a biogenic origin, although there are a few sites that show strongly depleted delta C-13 values (-53%o PDB) suggesting a mixed source for the gas (biogenic and thermogenic). Anomalous methane concentrations (samples with more than 90 ppm) are discussed and integrated with organic carbon data, sedimentary rates and ADCP profiles. Highest gas concentrations were found directly off the river mouth (20-40 m water depth) and where the IFREMER models point to the thickest accumulation (> 2 m) in response to the Rhone flood event. In areas unaffected by the high flux of organic matter and rapid/thick flood deposition, or in between flood events, the conditions for methanogenesis and gas accumulation have not been met; in these areas, the physical and biological reworking of the surficial sediment may effectively oxidize and mineralize organic matter and limit bacterial methanogenesis in the sub-surface. We propose that in the Rhone prodelta flood deposits deliver significant amounts of terrigenous organic matter that can be rapidly buried, effectively removing this organic matter from aerobic oxidation and biological uptake and leading to the potential for methanogenesis with burial.
Marine Geology (0025-3227) (Elsevier), 2006-12 , Vol. 234 , N. 1-4 , P. 215-231

Droits : 2006 Elsevier B.V. All rights reserved
http://archimer.ifremer.fr/doc/2006/publication-2396.pdf
DOI:10.1016/j.margeo.2006.09.005
http://archimer.ifremer.fr/doc/00000/2396/

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We report chlorine (Cl) and fluorine (F) abundances in minerals, interstitial glasses, and melt inclusions in 12 andesite-hosted, spinel harzburgite xenoliths and crosscutting pyroxenite veins exhumed from the sub-arc lithospheric mantle beneath Avacha volcano in the Kamchatka Arc (NE Russia). The data are used to calculate equilibrium mineral-melt partition coefficients (Dmineral/meltDmineral/melt) for Cl and F relevant to subduction-zone processes and unravel the history of volatile depletion and enrichment mechanisms in an arc setting.Chlorine is ∼100 times more incompatible in pyroxenes (View the MathML sourceDClmineral/melt = 0.005–0.008 [±0.002–0.003]) than F (View the MathML sourceDFmineral/melt = 0.50–0.57 [±0.21–0.24]), which indicates that partial melting of mantle sources leads to strong depletions in Cl relative to F in the residues. The data set in this study suggests a strong control of melt composition on View the MathML sourceDCl,Fpyroxene/melt, in particular H2O contents and Al/(Al + Si), which is in line with recent experiments. Fluorine is compatible in Ca-amphibole in the ‘wet’ sub-arc mantle (View the MathML sourceDFamphibole/melt = 3.5–3.7 [±1.5]) but not Cl (View the MathML sourceDClamphibole/melt = 0.03–0.05 [±0.01–0.03]), indicating that amphibole may fractionate F from Cl in the mantle wedge. The inter-mineral partition coefficients for Cl and F in this study are consistent amongst different harzburgite samples, whether they contain glass or not. In particular, disseminated amphibole hosts much of the Cl and F bulk rock budgets of spinel harzburgites (View the MathML sourceDClamphibole/pyroxene up to 14 and View the MathML sourceDFamphibole/pyroxene up to 40). Chlorine and fluorine are variably enriched (up to 1500 ppm Cl and 750 ppm F) in the parental arc picrite and boninite melts of primitive pyroxenite veins (and related melt inclusions) crosscutting spinel harzburgites.Based on the data in this study, the main inferences on the behaviour of Cl and F during melting and metasomatic processes in the sub-arc mantle are as follow:(i) Melting models show that most depleted mantle protoliths of intra-oceanic arc sources can have extremely low Cl/F (0.002–0.007) before being overprinted by subduction-derived components.(ii) Chlorine has a higher percolation distance in the mantle than F. Even for small fluid or melt volumes, Cl and F signatures of partial melting are overprinted by those of pervasive percolation, which increases Cl/F in percolating agents and bulk peridotites during chromatographic interaction and/or amphibole-forming metasomatic reactions. These processes ultimately control the bulk Cl and F compositions of the residual mantle lithosphere beneath arcs, and likely in other tectonic settings.(iii) Fluxed melting models suggest that Cl enrichment in arc picrite and boninite melts in this study, and in many arc melt inclusions reported in the literature, could be related to the infiltration of high Cl/F fluids derived from subducted serpentinite or altered crust in mantle wedge sources. However, these high Cl/F signatures should be re-evaluated with new models in light of the possible overprint of pervasive percolation effects in the mantle. The breakdown of amphibole (and/or mica) in the deep metasomatised mantle at higher pressure and temperature conditions than in the slab may explain, at least in part, the positive correlations between F abundances and Cl/F in primitive arc melt inclusions and slab depth.
ISSN: 0016-7037

hal-01553610
https://hal.archives-ouvertes.fr/hal-01553610
DOI : 10.1016/j.gca.2016.10.035

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
To quantify the seismic properties of lower crustal rocks and to better constrain the origin of the lower crustal seismic reflectivity, we determined the complete 3-D seismic properties of a lower crustal section. Eight representative samples of the main lithologic and structural units outcropping in the Val Sesia (Ivrea zone) were studied in detail. The seismic velocities were calculated using the single crystal stiffness coefficients and the lattice preferred orientation (LPO) of each mineral in all samples. The 21 stiffness coefficients characterizing the elastic behaviour of each rock are determined. Mafic and ultramafic rocks such as pyroxenite and pyroxene-bearing gabbros display complex shear wave properties. These rocks are weakly birefringent (maximum 0.1 kms-1) and it is difficult to find consistent relationships between the seismic properties and the rock structure. On the other hand, seismic properties of deformed felsic rocks are essentially controlled by mica. They display strong S-wave birefringence (0.3 km s-1) and relatively high Vp anisotropy (7.6 per cent). Amphibole also strongly influences the rock birefringence patterns. For both kind of rocks, the foliation is highly birefringent and the fast polarized shear wave is systematically oriented parallel to the foliation. We show that the number of mineral phases in the rock strongly controls the anisotropy. The seismic anisotropy has a complex role in the P-wave reflectivity. Compared to the isotropic case, anisotropy enhances the reflection coefficient for about 60 per cent of the possible lithological interfaces. For 40 per cent of the interfaces, the reflection coefficient is much lower when one considers the medium as anisotropic.
ISSN: 0956-540X

hal-01389122
http://hal.univ-reunion.fr/hal-01389122
http://hal.univ-reunion.fr/hal-01389122/document
http://hal.univ-reunion.fr/hal-01389122/file/Barruol_3D_velocities_GJI1993.pdf
DOI : 10.1111/j.1365-246X.1993.tb01519.x

Éditeur(s) : Agrocampus-ouest
Résumé : Quantitative evaluations of management measure impact on resource and fleet viability are required to provide diagnostics and feed decision process. Fisheries are complex systems where numerous dynamics interact at various spatial and temporal scales. This complexity and the difficulty to observe marine systems are responsible for the high uncertainty surrounding fishery functioning that makes it hard to identify adequate management measures. The increasing consideration of uncertainties in diagnostics argues in favor of robust management measures rather than optimal management measures. Identifying robust management measures requires the development of models that account for complexity and uncertainty in the description and prediction of management impact as well as the identification of synthetic descriptors (indicators) of the state and dynamic of the system. The aim of this work is to propose generic methodologies for developing such tools. The methodological developments are applied to the pelagic fishery of the bay of Biscay. This fishery mainly focused on anchovy and was highly impacted by fishing ban on this species since 2005. Causes for anchovy drop in biomass either environmental or due to fishing are poorly understood, making management decision much harder in a critical environmental and economic context. The adequacy of traditional management using TAC is questioned and additional spatial management measures are proposed.
Des évaluations quantitatives de l’impact de mesures de gestion sur les ressources et la viabilité des flottilles sont nécessaires pour établir des diagnostics et pour fournir des éléments d’orientation pour la gestion des pêcheries. Les pêcheries sont des systèmes complexes mettant en œuvre de nombreuses dynamiques à des échelles de temps et d’espace très variables et interagissant très fortement entre elles. Cette complexité et la difficulté d’observer les systèmes marins, conduit à une grande incertitude sur leur fonctionnement qui rend difficile la détermination des mesures de gestion adaptées. La reconnaissance de ces incertitudes, plaide de plus en plus en faveur d’une gestion robuste plutôt qu’optimale. Déterminer la robustesse des mesures de gestion nécessite le développement de modèles de description et de prédiction capable d’intégrer la complexité et l’incertitude du système, ainsi que d’outils de description synthétiques (indicateurs) de l’état et de la dynamique de la pêcherie à partir d’observations. L’objectif de ce travail est de proposer des méthodes génériques pour le développement de tels outils. Ces développements méthodologiques sont appliqués à la pêcherie pélagique du golfe de Gascogne. Cette pêcherie ciblant principalement l’anchois a été fortement perturbée par la fermeture de la pêche à cette espèce en 2005. Le déterminisme environnemental et le rôle de la pêche dans le déclin de la population d’anchois sont mal compris ce qui rend difficile la prise de décision dans un contexte économique et écologique critique. La gestion traditionnelle par TAC pourrait s’avérer insuffisante pour permettre l’exploitation durable et des mesures spatialisées sont envisagées en complément.

Droits : 2010 The Author, UEB
http://archimer.ifremer.fr/doc/00025/13630/10712.pdf
http://archimer.ifremer.fr/doc/00025/13630/

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
We report trace element analyses by laser ablation inductively coupled plasma mass spectrometry (LA-ICP-MS) of metal grains from nine different CR chondrites, distinguishing grains from chondrule interior ("interior grains"), chondrule surficial shells ("margin grains"), and the matrix ("isolated grains"). Save for a few anomalous grains, Ninormalized trace element patterns are similar for all three petrographic settings, with largely unfractionated refractory siderophile elements and depleted volatile Au, Cu, Ag, S. All three types of grains are interpreted to derive from a common precursor approximated by the least-melted, fine-grained objects in CR chondrites. This also excludes recondensation of metal vapor as the origin of the bulk of margin grains. The metal precursors were presumably formed by incomplete condensation, with evidence for high-temperature isolation of refractory platinum-group-element (PGE)-rich condensates before mixing with lower temperature PGE-depleted condensates. The rounded shape of the Ni-rich, interior grains shows that they were molten and that they equilibrated with silicates upon slow cooling (1-100 K h 1), largely by oxidation/evaporation of Fe, hence their high Pd content, for example. We propose that Ni-poorer, amoeboid margin grains, often included in the pyroxene-rich periphery common to type I chondrules, result from less intense processing of a rim accreted onto the chondrule subsequent to the melting event recorded by the interior grains. This means either that there were two separate heating events, which formed olivine/ interior grains and pyroxene/margin grains, respectively, between which dust was accreted around the chondrule, or that there was a single high-temperature event, of which the chondrule margin records a late "quenching phase," in which case dust accreted onto chondrules while they were molten. In the latter case, high dust concentrations in the chondrule-forming region (at least three orders of magnitude above minimum mass solar nebula models) are indicated.
ISSN: 1086-9379

hal-01003975
https://hal.archives-ouvertes.fr/hal-01003975
DOI : 10.1111/maps.12212

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The present study aims to apply the AMS method (Anisotropy of Magnetic Susceptibility) at a regional scale to track the fluid circulation direction that has produced an iron metasomatism within pre-existing dolomite host rock. The Urgonian formations hosting the Zn-Pb mineralizations in La Florida (Cantabria, northern Spain) have been taken as target for this purpose. Sampling was carried out, in addition to ferroan dolomite host rock enclosing the Zn-Pb mineralizations, in dolomite host rock and limestone to make the comparison possible between magnetic signals from mineralized rocks, where fluid circulation occurred, and their surrounding formations. AMS study was coupled with petrofabric analysis carried out by texture goniometry, Scanning Electron Microscopy (SEM) observations and also Shape Preferred Orientation (SPO) statistics. SEM observations of ferroan dolomite host rock illustrate both bright and dark grey ribbons corresponding respectively to Fe enriched and pure dolomites. SPO statistics applied on four images from ferroan dolomite host rock give a well defined orientation of ribbons related to the intermediate axis of magnetic susceptibility K2. For AMS data, two magnetic fabrics are observed. The first one is observed in ferroan dolomite host rock and characterised by a prolate ellipsoid of magnetic susceptibility with a vertical magnetic lineation. The magnetic susceptibility carrier is Fe-rich dolomite. These features are probably acquired during metasomatic fluid circulations. In Fe-rich dolomite host rock, ‹c› axes are vertical. As a rule, (0001) planes (i.e. planes perpendicular to ‹c› axes) are isotropic with respect to crystallographic properties. So, the magnetic anisotropy measured in this plane should reflect crystallographic modification due to fluid circulation. This is confirmed by the texture observed using the SEM. Consequently, AMS results show a dominant NE-SW elongation interpreted as the global circulation direction and a NW-SE secondary elongation that we have considered as sinuosities of the fluid trajectory. The second type of magnetic fabric is essentially observed in the limestone and characterised by an oblate form of the ellipsoid of magnetic susceptibility, a horizontal magnetic foliation and mixed magnetic susceptibility carriers. It is interpreted as a sedimentary fabric.
ISSN: 0012-821X

insu-00342499
https://hal-insu.archives-ouvertes.fr/insu-00342499
https://hal-insu.archives-ouvertes.fr/insu-00342499/document
https://hal-insu.archives-ouvertes.fr/insu-00342499/file/Essalhi-EPSL-2008.pdf
DOI : 10.1016/j.epsl.2008.11.011

Éditeur(s) : HAL CCSD Wiley/Blackwell
Résumé : Whole genome sequencing is helping generate robust phylogenetic hypotheses for a range of taxonomic groups that were previously recalcitrant to classical molecular phylogenetic approaches. As a case study, we performed a shallow shotgun sequencing of eight species in the tropical tree family Chrysobalanaceae to retrieve large fragments of high-copy number DNA regions and test the potential of these regions for phylogeny reconstruction. We were able to assemble the nuclear ribosomal cluster (nrDNA), the complete plastid genome (ptDNA) and a large fraction of the mitochondrial genome (mtDNA) with approximately 1000x, 450x and 120x sequencing depth respectively. The phylogenetic tree obtained with ptDNA resolved five of the seven internal nodes. In contrast, the tree obtained with mtDNA and nrDNA data were largely unresolved. This study demonstrates that genome skimming is a cost-effective approach and shows potential in plant molecular systematics within Chrysobalanaceae and other under-studied groups.
ISSN: 1755-098X

hal-01204217
https://hal.archives-ouvertes.fr/hal-01204217
DOI : 10.1111/1755-0998.12246
PRODINRA : 283530

Résumé : En raison de la nature symbiotique des micro-organismes endophytes, cette étude visait à étudier l'activité antibactérienne, antifongique et cytotoxique chez les métabolites secondaires des extraits endophytes foliaires de plantes de l'Amazonie brésilienne et du Cerrado. Dans ce travail de thèse 147 micro-organismes cultivables ont été isolés (130 champignons, 3 bactéries e 14 champignons non-identifiés ou inconnus) à partir de 28 plantes (4 espèces collectées au Brésil et 24 en Guyane Française). Tous les micro-organismes furent identifiés par analyse moléculaire des régions spécifiques de l'ADNr en utilisant des techniques de séquençage génomique. Des champignons endophytes de l’ordre des Xylariales furent ceux de plus importante fréquence d’isolation dans cette étude, représentés par 25 isolats. Des extraits bruts à l’AcOEt furent produits à partir de cultures de chaque micro-organisme isolé. Une proportion relative signifiante (23,1%) des extraits démontra une activité sur Candida albicans ATCC 10213, pendant que 4% furent actifs sur Staphylococcus aureus ATCC 29213. Le potentiel cytotoxique des extraits fut évalué pour des lignées cellulaires humaines KB (carcinome cervical utérin), MDA-MB-435 (mélanome), et MRC-5 (fibroblastes de poumon normal), résultant en proportion signifiante avec activité d’inhibition de la prolifération cellulaire (24,4%, 23,1% e 16,3%, respectivement).Dix-huit métabolites secondaires furent isolés et identifiés à partir du fractionnement des extraits bruts de huit endophytes. Dix-sept de ces substances furent déjà décrites précédemment dans la littérature: l’acide piliformique (24) et la griséofulvine (25) isolés à partir de Xylaria cubensis SNB-GCI02; La phomopirone (26), la pyrenocine (27), l’alterpérilenol (28) et la novae-zelandine (29), isolés de Lewia infectoria SNB-GTC2402; 5-métilmelleina (31) et la dihidrosporothrioride (32) isolées à partir de Xylaria sp. SNB-GTC2501; La mycoleptodiscine (34) et la mycoleptodiscine B (35) isolées à partir de Mycoleptodiscus sp. SNB-GTC2304; le mycoepoxidiène (36) et la altiloxina A (37) isolés à partir de Diaporthe pseudomangiferae SNB-GSS10; L’acremonisol (40), le semicochliodinol (41) et le cochliodinol (42) isolés à partir de Chaetomium globosum SNB-GTC2114; la colletofragarone A2 (43) isolée à partir de Colletotrichum sp. SNB-GTC0201; la flavoglaucine (44) isolée à partir de Eurotium rubrum BBS01. Parmi ces substances, la flavoglaucine (44) isolée à partir de E. rubrum BBS01 démontra une activité comparable au contrôle fluconazol en C. albicans (CIM de 4 µg.mL-1). La substance (44) présenta IC50 >10 µM sur cellules normales MRC-5, ce qui en fait un candidat pour des études ultérieures. Dans ce travail, fut identifié pour la première fois l’activité de la colletofragarone A2 (43) isolée à partir de Colletotrichum sp. SNB-GTC0201. La substance inédite nommée pyrrocidine C (30) fut isolée à partir de L. infectoria SNB-GTC2402 et identifiée par des analyses spectroscopiques (Casella et al., 2013). La pyrrocidine C (30) fut active en S. aureus ATCC 10213 (CIM de 2 µg.mL-1) et ne fut pas considérées cytotoxique pour les cellules normales MRC-5 (IC50 >10 µM), démontrant une sélectivité dans l’action antimicrobienne. Ces résultats démontrent la grande diversité des endophytes fongiques chez les plantes de l'Amazonie brésilienne et du Cerrado et la grande chimiodiversité associée aux métabolites secondaires de ces micro-organismes. Des champignons endophytes tropicaux, comme ceux présentés dans cette étude, peuvent apparaître comme une nouvelle source de substances antimicrobiennes et cytotoxiques.
Because of the symbiotic nature of endophytes, this survey aims to investigate the probality of discovering antibacterial, antifungal and cytotoxic activities in secondary metabolites of leaf endophytes isolated from plants of Amazon and Cerrado biomes. In this study, 147 cultivable microorganisms were isolated (130 fungi, 3 bacteria and 14 unidentified or unknown microbes) from 28 plant species (4 species collected in Brazil and 24 in French Guyana). All endophytes were identified by molecular analyses of specific rDNA regions, with genomic sequencing techniques. Fungal endophytes belonging to Xylariales order were the most frequently isolated in this study, represented by 25 isolates. Crude AcOEt extracts were produced from cultures of each isolated endophyte. A significant relative proportion (23,1%) of extracts showed activity in Candida albicans ATCC 10213, while 4% were active in Staphylococcus aureus ATCC 29213. The cytotoxic potencial of the extracts was evaluated for human cell lines KB (uterin cervical carcinome), MDA-MB-435 (melanoma) and MRC-5 (normal lung fibroblasts), and a significant proportion of them showed cellular proliferation inhibition (24,4%, 23,1% e 16,3%, respectively).Eighteen secondary metabolites were isolated by the fractionation of eight endophytic extracts. Seventeen of these substances had already been previously described in the literature: piliformic acid (24) and griseofulvin (25) isolated from Xylaria cubensis SNB-GCI02; phomopiron A (26), pyrenocin A (27), alterperilenol (28) and novae-zelandin A (29) isolated from Lewia infectoria SNB-GTC2402; 5-metilmellein (31) and dihidrosporothriorid (32) isolated from Xylaria sp. SNB-GTC2501; mycoleptodiscin A (34) and mycoleptodiscin B (35) isolated from Mycoleptodiscus sp. SNB-GTC2304; mycoepoxidien (36) and altiloxin A (37) isolated from Diaporthe pseudomangiferae SNB-GSS10; acremonisol A (40), semicochliodinol A (41) and cochliodinol (42) isolated from Chaetomium globosum SNB-GTC2114; colletofragaron A2 (43) isolated from Colletotrichum sp. SNB-GTC0201; flavoglaucin (44) isolated from Eurotium rubrum BBS01. Among these substances, flavoglaucin (44), isolated from E. rubrum BBS01, showed comparable antifungal activity with the positive control fluconazol in C. albicans (MIC of 4 µg.mL-1). Flavoglaucin (44) also showed IC50 >10 µM in normal MRC-5 cells, becoming a good candidate for further studies. In this work, the cytotoxic activity of colletofragaron A2 (43), isolated from Colletotrichum sp. SNB-GTC0201 was described for the first time. The unpublished substance named pyrrocidin C (30) isolated from L. infectoria SNB-GTC2402 was identified by spectroscopic analyses (Casella et al., 2013). The pyrrocidin C (30) was active in S. aureus ATCC 10213 (MIC of 2 µg.mL-1), and was not considered cytotoxic for normal MRC-5 cells (IC50 >10 µM), showing selectivity in antimicrobial activity. These results demonstrate the great endophytic fungal diversity in plants of Amazon and Cerrado biomes, along with the chemodiversity associated to the secondary metabolites of these endophytes. Tropical fungal endophytes, like those seen in this work, may emerge as a new source of antimicrobial and cytotoxic substances.
Devido à natureza simbiótica dos micro-organismos endofíticos, este estudo teve como objetivo investigar a atividade antibacteriana, antifúngica e citotóxica em metabólitos secundários de extratos de fungos endofíticos foliares de plantas do bioma Amazônia e Cerrado. Neste trabalho de tese foram isolados 147 micro-organismos cultiváveis (130 fungos, 3 bactérias e 14 fungos não-identificados ou desconhecidos) a partir de 28 plantas (4 espécies coletadas no Brasil e 24 na Guiana Francesa). Todos os micro-organismos foram identificados por análise molecular de regiões específicas de DNAr, com uso de técnicas de sequenciamento genômico. Fungos endofíticos da ordem Xylariales foram os de maior frequência de isolamento neste estudo, representados por 25 isolados. Extratos brutos em AcOEt foram produzidos a partir de culturas de cada micro-organismo isolado. Uma proporção relativa significante (23,1%) dos extratos demonstrou atividade em Candida albicans ATCC 10213, enquanto 4% foram ativos em Staphylococcus aureus ATCC 29213. O potencial citotóxico dos extratos foi avaliado para as linhagens celulares humanas KB (carcinoma cervical uterino), MDA-MB-435 (melanoma), e MRC-5 (fibroblastos de pulmão normal), resultando em proporção significante com atividade de inibição da proliferação celular (24,4%, 23,1% e 16,3%, respectivamente). Dezoito metabólitos secundários foram isolados a partir do fracionamento de oito extratos brutos endofíticos. Dezessete destas substâncias já tinham sido descritas anteriormente na literatura: ácido pilifórmico (24) e griseofulvina (25) isoladas de Xylaria cubensis SNB-GCI02; phomopirona A (26), pyrenocina A (27), alterperilenol (28) e novae-zelandina A (29) isoladas de Lewia infectoria SNB-GTC2402; 5-metilmelleina (31) e Dihidrosporothriolida (32) isoladas de Xylaria sp. SNB-GTC2501; mycoleptodiscina A (34) e mycoleptodiscina B (35) isoladas de Mycoleptodiscus sp. SNB-GTC2304; mycoepoxidieno (36) e altiloxina A (37) isoladas de Diaporthe pseudomangiferae SNB-GSS10; acremonisol A (40), semicochliodinol A (41) e cochliodinol (42) isoladas de Chaetomium globosum SNB-GTC2114; colletofragarona A2 (43) isolada de Colletotrichum sp. SNB-GTC0201; flavoglaucina (44) isolada de Eurotium rubrum BBS01. Dentre estas substâncias, a flavoglaucina (44) isolada de E. rubrum BBS01, demonstrou atividade comparável ao controle fluconazol em C. albicans (CIM de 4 µg.mL-1). Esta substância (44) apresentou IC50 >10 µM em células normais MRC-5, tornando-se candidata para estudos posteriores. Neste trabalho foi identificado pela primeira vez a atividade citotóxica da colletofragarona A2 (43), isolada de Colletotrichum sp. SNB-GTC0201. A substância inédita nomeada pyrrocidina C (30) foi isolada a partir de L. infectoria SNB-GTC2402 e identificada através de análises espectroscópicas (Casella et al., 2013). A pyrrocidina C (30) foi ativa em S. aureus ATCC 10213 (CIM de 2 µg.mL-1), e não foi considerada citotóxica para as células normais MRC-5 (IC50 >10 µM), demonstrando seletividade na ação antimicrobiana. Estes resultados demonstram a grande diversidade fúngica endofítica em plantas do bioma Amazônia e Cerrado, e a quimiodiversidade associada aos metabólitos secundários destes micro-organismos. Fungos endofíticos tropicais, como os vistos neste trabalho, podem emergir como uma nova fonte de substâncias antimicrobianas e citotóxicas.

http://www.theses.fr/2014AGUY0836/document

Éditeur(s) : HAL CCSD Elsevier Masson
Résumé : While oceanic circulation in the Gulf of Lion (GoL) has often been studied in calm weather or with northerly winds (Tramontane or Mistral) through observations and numerical circulation models, few studies have focused on southeasterly storm events. Yet, correct representation of the circulation during storms is crucial if the suspension of sediments is to be correctly modelled throughout the Gulf. The purpose of this paper is to describe the hydrodynamics in the Gulf of Aigues-Mortes (NW of the GoL) during the storm of 18 February 2007 by using a set of data from an ADCP station placed at a depth of 65 m on the sea bed off the coast at Sète, supplemented by the ocean circulation model SYMPHONIE. This storm was characterized by a moderate south-easterly wind (15 m . s−1) and waves of up to 5 m of significant height at its apex. At the ADCP, strong currents of up to 0.8 m . s−1 near the surface and 0.5 m . s−1 near the bottom were recorded, parallel to the coast, flowing towards the south-west. The simulated currents were widely underestimated, even taking the effect of waves into account in the model. It was suspected that the representation of the wind in the atmospheric model was an underestimation. A new simulation was therefore run with an arbitrarily chosen stronger wind and its results were in much better agreement with the measurements. A simplified theoretical analysis successfully isolated the wind-induced processes, responsible for the strong currents measured during the apex and the strong vertical shear that occurred at the beginning of the storm. These processes were: 1/ the barotropic geostrophic current induced by a wind parallel to the coast and 2/ the Ekman spiral. The duration of the storm (about 36 h at the apex) explains the continuous increase of the current as predicted by the theory. The frictionally induced Ekman transport explains the current shear in the surface layer in the rising stage of the storm, and the addition of high waves and strong wind at the apex is more in favour of strong vertical mixing in the surface layer.
ISSN: 1631-0713

hal-00908200
https://hal.archives-ouvertes.fr/hal-00908200
DOI : 10.1016/j.crte.2013.07.001