Éditeur(s) : HAL CCSD Wiley-Blackwell: No OnlineOpen
Résumé : International audience
Eight chemically defined, naturally occurring compounds were extracted from the tropical flora of the Caribbean island of Guadeloupe: pilocarpine, an alkaloid from Pilocarpus racemosus; heraclenol and isomeranzin, coumarins from Triphasia trifolia; lochnerin, an indole alkaloid from Rauwolfia biauriculata; ibogaine and voacangine, indole alkaloids from Tabernaemontana citrifolia; texalin, an oxazole from Amyris elemifera; and canellal, a sesquiterpene dialdehyde from Canella winterana. An essential oil fraction from Canella winterana was also tested. The antimycobacterial activity of these substances was tested against Mycobacterium tuberculosis, M. avium and M. kansasii using the Middlebrook 7H11 agar medium, the Bactec 460-TB radiometric methodology, and determination of bacterial viable counts. Three compounds, namely ibogaine, voacangine and texalin, showed antimycobacterial activity. Investigations on the structure-modification and structure-activity relationships of these compounds may help determine new targets for future drug development.
FEMS Immunology and Medical Microbiology

pasteur-00931155
https://hal-riip.archives-ouvertes.fr/pasteur-00931155
PUBMED : 9626931

Éditeur(s) : HAL CCSD American Geophysical Union
Résumé : International audience
More than 10 years of geodetic measurements demonstrate an uplift rate of 1–3 mm/yr of the high topography region of the Western Alps. By contrast, no significant horizontal motion has been detected. Two uplift mechanisms have been proposed: (1) the isostatic response to denudation responsible for only a fraction of the observed uplift and (2) the rebound induced by the Wurmian ice cap melting which predicts a broader uplifting region than the one evidenced by geodetic observations. Using a numerical model to fit the geodetic data, we show that a crustal viscosity contrast between the foreland and the central part of the Alps, the latter being weaker with a viscosity of 1021 Pa s, is needed. The vertical rates are enhanced if the strong uppermost mantle beneath the Moho is interrupted across the Alps, therefore allowing a weak vertical rheological anomaly over the entire lithosphere.
ISSN: 0094-8276

hal-01332757
https://hal.archives-ouvertes.fr/hal-01332757
DOI : 10.1002/2016GL067821

Éditeur(s) : HAL CCSD Geological Society of London
Résumé : International audience
This paper presents the background for the calculation of various numbers that can be used to characterize crystal-preferred orientation (CPO), also known as texture in materials science, for large datasets using the combined scripting possibilities of MTEX and MatLab®. The paper is focused on three aspects in particular: the strength of CPO represented by orientation and misorientation distribution functions (ODFs, MDFs) or pole figures (PFs); symmetry of PFs and components of ODFs; and elastic tensors. The traditional measurements of texture strength of ODFs, MDFs and PFs are integral measurements of the distribution squared. The M-index is a partial measure of the MDF as the difference between uniform and measured misorientation angles. In addition there other parameters based on eigen analysis, but there are restrictions on their use. Eigen analysis does provide some shape factors for the distributions. The maxima of an ODF provides information on the modes. MTEX provides an estimate of the lower bound uniform fraction of an ODF. Finally, we illustrate the decomposition of arbitrary elastic tensor into symmetry components as an example of components in anisotropic physical properties. Ten examples scripts and their output are provided in the appendix.
Geological Society Special Publication

hal-01277689
https://hal.archives-ouvertes.fr/hal-01277689
DOI : 10.1144/SP409.8

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The Massif du Sud is a large ophiolitic complex that crops out in the southern region of New Caledonia (SW Pacific). It is dominated by harzburgite tectonite that locally shows a transitional gradation to massive dunite up section. Clinopyroxene, orthopyroxene and plagioclase progressively appear in dunite up to the transition to layered wehrlite and orthopyroxene-gabbro. The dunite-wehrlite and wehrlite-gabbro contacts are parallel and the latter defines the paleo-Moho.;Highly depleted modal, mineral and bulk rock compositions indicate that harzburgites are residues after high degrees (20-30%) of partial melting mainly in the spinet-stability field. Their relative enrichment in HFSE, LREE and MREE is due to re-equilibration of melting residues with percolating melts. Dunite formed in the Moho transition zone by reaction between residual mantle harzburgite and olivine-saturated melts that led to pyroxene dissolution and olivine precipitation. Rare clinopyroxene and plagioclase crystallized in interstitial melt pores of dunite from primitive, low-TiO2, ultra-depleted liquids with a geochemical signature transitional between those of island arc tholeiites and boninites.;Ascending batches of relatively high-SiO2, ultra-depleted melts migrated through the Moho transition zone and generated wehrlite by olivine dissolution and crystallization of clinopyroxene, orthopyroxene and plagioclase in variable amounts. These liquids were more evolved and were produced by higher degrees of melting or from a more depleted source compared with melts that locally crystallized clinopyroxene in dunite. Ultra-depleted magmas, non-cogenetic with those that formed the Moho transition zone, ascended to the lower crust and generated gabbroic cumulates with subduction-related affinity. Thus, the ultramafic and mafic rocks in the Moho transition zone and lower crust of the Massif du Sud ophiolite are not products of fractional crystallization from a single magma-type but are the result of migration and accumulation of different melts in a multi-stage evolution. The record of high partial melting in the mantle section, and migration and accumulation of ultra-depleted subduction-related melts in the Moho transition zone and lower crust support that the Massif du Sud ophiolite is a portion of forearc lithosphere generated in an extensional regime during the early phases of the subduction zone evolution. Our results show the existence of different types of ultra-depleted melt compositions arriving at the Moho transition zone and lower crust of an infant intraoceanic paleo-arc. Ultra-depleted melts may thus be a significant component of the melt budget generated in oceanic spreading forearcs prior to aggregation and mixing of a large range of melt compositions in the crust.
ISSN: 0009-2541

hal-00429333
https://hal.archives-ouvertes.fr/hal-00429333
DOI : 10.1016/j.chemgeo.2009.06.004

Éditeur(s) : HAL CCSD
Résumé : International audience
Traffic air pollution is a major health problem and is recognized as an important risk factor for cardiovascular disease. Even so the role of particles-induced adverse health effects is well established, recent studies outlined the contribution of nitrogen dioxide (NO2) in these effects, in particular on the cardiovascular function. The main sources of this pollutant are oxidation catalysts used to reduce emissions of carbon monoxide and non-methane hydrocarbons from the exhaust of diesel engines and also to facilitate filter regeneration. However, the contribution of NO2 compared to other gaseous and particulate pollutants remains unknown. Consequently, the main objective of this study was to analyze the specific contributions of NO2 in the traffic-related air pollution-induced cardiovascular adverse effects. For this, Wistar rats were exposed for 3 weeks (3h/day, 5 days/week) to either a continuous flow of catalyzed diesel exhaust (DE), particle free or whole DE (particles concentration 2mg/m3), either to a continuous flow of NO2 used at a concentration identical to that measured in the exhaust line. The composition of the emission and the NO2 analyses were monitored on-line during the whole experiment. We evaluated cardiac function and biological effects after 16h recovery in clean air. DE or NO2 exposures induced a modest cardiac dysfunction characterized by an increase in left ventricular diameters and a decrease in fractional shortening. In the case of DE, the presence of particles did not worsen the impairment of cardiac function. In parallel to this effect, mitochondrial function was altered as illustrated by the reduction of the oxygen consumption and of the ATP production. Mitochondrial reactive oxygen species was increased only by the NO2 exposure. In conclusion, these results suggest that DE-induced cardiac dysfunction is due to, at least in part, to NO2 present in DE.
Archives of Cardiovascular Diseases Supplements
Toulouse, France

hal-01150495
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01150495
DOI : 10.1016/S1878-6480(15)30036-7

Éditeur(s) : HAL CCSD European Geosciences Union
Résumé : International audience
The exchanges of carbon, water and energy between the atmosphere and the Amazon basin have global implications for the current and future climate. Here, the global atmospheric inversion system of the Monitoring of Atmospheric Composition and Climate (MACC) service is used to study the seasonal and interannual variations of biogenic CO 2 fluxes in Amazonia during the period 2002–2010. The system assimilated surface measurements of atmospheric CO 2 mole fractions made at more than 100 sites over the globe into an atmospheric transport model. The present study adds measurements from four surface stations located in tropical South America, a region poorly covered by CO 2 observations. The estimates of net ecosystem exchange (NEE) optimized by the inversion are compared to an independent estimate of NEE upscaled from eddy-covariance flux measurements in Amazonia. They are also qualitatively evaluated against reports on the seasonal and interannual variations of the land sink in South America from the scientific literature. We attempt at assessing the impact on NEE of the strong droughts in 2005 and 2010 (due to severe and longer-than-usual dry seasons) and the extreme rainfall conditions registered in 2009. The spatial variations of the seasonal and in-terannual variability of optimized NEE are also investigated. While the inversion supports the assumption of strong spatial heterogeneity of these variations, the results reveal critical limitations of the coarse-resolution transport model, the surface observation network in South America during the recent years and the present knowledge of modelling uncertainties in South America that prevent our inversion from capturing the seasonal patterns of fluxes across Amazonia. However, some patterns from the inversion seem consistent with the anomaly of moisture conditions in 2009.
ISSN: 1680-7316

hal-01557375
https://hal.univ-lorraine.fr/hal-01557375
https://hal.univ-lorraine.fr/hal-01557375/document
https://hal.univ-lorraine.fr/hal-01557375/file/acp-15-8423-2015.pdf
DOI : 10.5194/acp-15-8423-2015-supplement

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Multiproxy analyses were performed on core MS27PT recovered in hemipelagic sediments deposited on the Nile margin in order to reconstruct Nile River palaeohydrological fluctuations during the last 100,000 years. The strontium and neodymium isotope composition of the terrigenous fraction and the major element distribution reveal large and abrupt changes in source, oscillating between a dominant aeolian Saharan contribution during arid periods and a dominant Nile River contribution during pluvial periods. Iron content shows a strong correlation with strontium and neodymium isotopes. This allows the use of a high-resolution continuous Fe record as a proxy of Blue Nile sediment input over the last 100,000 years. The detailed Fe record, with approximately 10 years resolution during pluvial periods, is consistent with subtropical African records of well-dated lake level fluctuations and thus constitutes a first continuous high resolution record of the East African monsoon regime intensity over Ethiopia.;The detailed Fe record shows the two main known pluvial periods attributed to strengthening of the African monsoon over Ethiopia, the Nabtian period from 14 to 8 ka cal BP and the Saharan period from 98 to 72 ka BR For the first time, the last glacial period (Marine Isotope Stage (MIS) 2,3 and 4) is documented with a continuous record showing large oscillations between high and low East African palaeo-monsoon regimes.;The end of the Nabtian period occurred at 8 ka in core MS27PT, i.e. much earlier than on the East Equatorial African region where it ended around 5.5 ka. We interpret this as evidence that the southward shift of the rain belt occurred 3000 years earlier over the Eastern Ethiopian Highland and propose that the gradual southward migration of the rain belt was associated with highly variable intensity and longer rainy seasons from 8 to 5 ka. During the last glacial period, two wet periods are present around 60-50 ka BP and 38-30 ka BP. These two humid periods are in phase with the rise of atmospheric CH4 concentrations suggesting that wetland tropical African area was one of the sources of the atmospheric CH4 during the MIS 3. During the Last Glacial Maximum and MIS 4, high Saharan aeolian influxes in phase with records of aeolian dust deposited in East Antarctica are documented. This study highlights the importance of reconstructions of monsoon rainfall fluctuation at high temporal resolution to better understand the link between low- and high-latitude climate variability at millennial timescales.
ISSN: 0277-3791

hal-00496481
https://hal.archives-ouvertes.fr/hal-00496481
DOI : 10.1016/j.quascirev.2010.02.006

Éditeur(s) : Gauthier-Villars
Résumé : The mangroves of Senegal are limited to the inlet of the Casamance - a river with very low discharge - and to the Sine-Saloum. The mineralogical and geochemical analysis of sediments (derived from 30 deep bore-holes) shows the thickness of the mangrove substrate, which overlies the continental terminal formation. Kaolinite and smectite account for over 90% of the clay fraction. The former is derived from the continental terminal whereas the latter is of marine origin. The chemical composition of the mangrove sediments is remarkably stable and clays play an overwhelming role in the preservation of organic matter and pyrite. Since 1968, a drought in Senegal has caused an important increase in the salinity levels of streams and water-tables; a considerable modification of vegetation zones in the Casamance, especially manifest in the extension of bare flats locally known as "tannes" at the expense of mangroves and marked changes in the morphology and geochemistry of mangrove soils. Compared to most mangrove areas in the humid tropics, mangroves in Senegal are characterized by a very fragile equilibrium.
Oceanologica Acta, Special issue (0399-1784) (Gauthier-Villars), 1982

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/00246/35744/34252.pdf
http://archimer.ifremer.fr/doc/00246/35744/

Éditeur(s) : EDP Sciences
Résumé : The present work was carried out on the hydroelectric reservoir Petit-Saut on the Sinnamary river in French Guiana. Measurements were performed during the wet and dry seasons along a longitudinal gradient, from upstream of the reservoir in two inflow rivers, to the Sinnamary estuary downstream of the dam. Gold extraction has led to a marked increase in suspended matter and total mercury (HgT) in one of the rivers. Dissolved monomethylmercury (MMHg) measured in surface waters were similar for both rivers: 0.03-0.05 ng l(-1) (1.0-1.7% of the dissolved HgT). These results indicate similar methylation efficiency and/or transfer of MMHg into the dissolved fraction of the water column, independently of the amounts of inorganic mercury transported. Dissolved MMHg concentrations in surface waters of the reservoir were similar to those in the rivers, but were more than 10 times higher in deep anoxic waters, up to 0.6 ng l(-1) (20 % of dissolved HgT). The MMHg concentration profiles in the water column suggest that methylation occurs mainly in anoxic waters and sediments in relation with the activity of sulfate reducing bacteria. Dissolved MMHg concentrations measured in the Sinnamary at the base of the dam were still high (0.5 - 0.6 ng l(-1); 20 to 35% of the dissolved HgT).
Journal de Physique IV (1155-4339) (EDP Sciences), 2003-05 , Vol. 107 , P. 327-331

Droits : EDP Sciences
http://archimer.ifremer.fr/doc/2003/publication-5283.pdf
DOI:10.1051/jp4:20030308
http://archimer.ifremer.fr/doc/00000/5283/

Éditeur(s) : Aix-Marseille II
Résumé : Les caractères texturaux et granulométriques, la fraction terrigène et la couleur sont étudiés sur 206 échantillons de sédiments meubles prélevés à la benne Neyrpic dans le Grand Lagon Nord de la Nouvelle-Calédonie (8 400 km²), selon un plan d'échantillonnage systématique et une maille de 3 milles nautiques. Sur la base de ces premiers résultats, qui font largement appel à la cartographie, 66 échantillons ont ensuite été sélectionnés pour une étude plus approfondie de leur composition biogène et des variations quantitatives et qualitatives de la biophase sédimentaire dans l'espace. Six environnements de dépôt, dont la différenciation résulte des interactions entre physiographie, hydrodyamisme et nature des peuplements benthiques, ont été identifiés et caractérisés : les zones de passes, les zones d'arrière-récif, la plaine lagonaire, les aires de décantation centrales de la plaine, le domaine côtier et les fonds de baies côtières. Sur l'ensemble du lagon, l'hydrodynamisme, plutôt faible, n'a qu'une action limitée sur les sédiments. La sédimentation fine est nettement prépondérante sur la sédimentation grossière. L'influence terrigène, cantonnée pour l'essentiel au domaine côtier est réduite et n'est décellable qu'au niveau de la phase fine des sédiments. La sédimentation organogène carbonatée domine très largement. La couleur des sédiments apparaît comme un bon indicateur de l'influence continentale et s'avère intéressante dans la distinction des environnements de dépôt. LeS Mollusques, les foraminifères, les Halimeda et les Scléractiniaires jouent un rôle majeur dans l'élaboration de la biophase sédimentaire. Toutefois la répartition des débris coralliens reste étroitement limitée à la proximité des édifices récifaux et la contribution directe du système récifal à la sédimentogénèse de la plaine lagonaire est très réduite. La tendance général est à une sédimentation biogène autochtone ou para-autocthone dont la nature reflèterait directement la distribution et la composition des peuplements générateurs actuellement en place.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/00104/21566/19146.pdf
http://archimer.ifremer.fr/doc/00104/21566/

Éditeur(s) : HAL CCSD Springer
Résumé : Borehole logs provide in situ information about the fluctuations of petrophysical properties with depth and thus allow the characterization of the crustal heterogeneities. A detailed investigation of these measurements may lead to extract features of the geological media. In this study, we suggest a regularity analysis based on the continuous wavelet transform to examine sonic logs data. The description of the local behavior of the logs at each depth is carried out using the local Hurst exponent estimated by two (02) approaches: the local wavelet approach and the average-local wavelet approach. Firstly, a synthetic log, generated using the random midpoints displacement algorithm, is processed by the regularity analysis. The obtained Hurst curves allowed the discernment of the different layers composing the simulated geological model. Next, this analysis is extended to real sonic logs data recorded at the Kontinentales Tiefbohrprogramm (KTB) pilot borehole (Continental Deep Drilling Program, Germany). The results show a significant correlation between the estimated Hurst exponents and the lithological discontinuities crossed by the well. Hence, the Hurst exponent can be used as a tool to characterize underground heterogeneities.
ISSN: 1866-7411

hal-00617470
https://hal.archives-ouvertes.fr/hal-00617470
DOI : 10.1007/s12517-010-0129-y

Éditeur(s) : HAL CCSD Wiley
Résumé :  
Distinct ecosystem level carbon : nitrogen : phosphorus (C : N : P) stoichiometries in forest foliage have been suggested to reflect ecosystem-scale selection for physiological strategies in plant nutrient use. Here, this hypothesis was explored in a nutrient-poor lowland rainforest in French Guiana. * Variation in C, N and P concentrations was evaluated in leaf litter and foliage from neighbour trees of 45 different species, and the litter concentrations of major C fractions were also measured. * Litter C ranged from 45.3 to 52.4%, litter N varied threefold (0.68-2.01%), and litter P varied seven-fold (0.009-0.062%) among species. Compared with foliage, mean litter N and P concentrations decreased by 30% and 65%, respectively. Accordingly, the range in mass-based N : P shifted from 14 to 55 in foliage to 26 to 105 in litter. Resorption proficiencies indicated maximum P withdrawal in most species, but with a substantial increase in variation in litter P compared with foliage. * These data suggest that constrained ecosystem-level C : N : P ratios do not preclude the evolution of highly diversified strategies of nutrient use and conservation among tropical rainforest tree species. The resulting large variation in litter quality will influence stoichiometric constraints within the decomposer food web, with potentially far-ranging consequences on nutrient dynamics and plant-soil feedbacks.
ISSN: 0028-646X

hal-01032108
https://hal.archives-ouvertes.fr/hal-01032108
DOI : 10.1111/j.1469-8137.2008.02438.x

Éditeur(s) : HAL CCSD
Résumé : International audience
In this paper, we prove a new composition theorem for asymptotically antiperiodic and weighted pseudo antiperiodic functions. We also give some sufficient conditions to ensure invertibility of convolution operators in the space of antiperiodic functions. Then we prove the existence and uniqueness of asymptotically antiperiodic mild solutions to some fractional functional integro-differential equations in a Banach space using the Banach's fixed point theorem.
African Diaspora Journal of Mathematics

hal-01678067
https://hal.archives-ouvertes.fr/hal-01678067

Éditeur(s) : Gauthier-Villars
Résumé : The continental shelf is very narrow and steep to the north, and broader to the South. This shelf is structuraly influenced by the Andes. This area is mainly covered with terrigenous deposits, i.e. muds and sands which are recent on the internal shelf and relict on the external shelf. The sediments, supplied by rivers, reflect the intense erosion of the Andean backland. This erosion can only be reduced in situ by the vegetation cover. Clays are the main component of the fine fraction reaching the sea. Three different clay assemblages are observed: 1) an Andean (illite-chlorite) assemblage, reflecting the proximity of the cordillera; 2) a mid-American assemblage (smectite), which supplies the North Pacific Margin through the Choco counter-current; 3) an Equatorial assemblage (smectites) which is brought to the South by the Colombian current.
Oceanologica Acta (0399-1784) (Gauthier-Villars), 1995 , Vol. 18 , N. 1 , P. 1-18

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/00097/20862/18480.pdf
http://archimer.ifremer.fr/doc/00097/20862/

Éditeur(s) : HAL CCSD American Geophysical Union (AGU)
Résumé : International audience
[1] The Pyrenees, north of the North Pyrenean fault, display a complex structure involving a succession of peridotite massifs, basement massifs, and mid-Cretaceous to Late Cretaceous basins located in a narrow domain, which was affected by a mid-Cretaceous, preorogenic, high-temperature, low-pressure metamorphism. The Late Cretaceous basins were interpreted either as pull-apart basins formed during transcurrent motion of Iberia relative to Eurasia or as remnants of a larger extensional basin. Recent models support that peridotite massifs result from the exhumation of the mantle during this preorogenic event. The northern boundary of the Agly basement massif shows evidence of ductile deformation of the basal formations of the Agly sedimentary cover. Macroscopic and microscopic kinematics indicators consistent with asymmetry of crystallographic fabrics suggest normal sense of shear and thus suggest detachment, at least partial, of the Mesozoic cover from its basement. Triassic to Early Cretaceous limestones are mylonitic and consistently shows a foliation, a NS- to NE-trending lineation, shear criteria suggesting top-to-the-north shearing and locally boudinage. At the microscopic scale, mylonites are characterized by a very fine grain size, frequently <10 µm. They contain larger, partially recrystallized calcite parent grains and undeformed quartz grains with calcite fringes crystallized in pressure shadows. In these mylonites, calcite systematically shows a weak but well-defined crystallographic-preferred orientations, suggesting HT dislocation creep combined to diffusion creep and possibly grain boundary sliding in the finest fraction of the mylonites. Paleotemperatures determined using Raman spectrometry suggest synkinematic temperature conditions in the range 340-390°C, in good agreement with observed microstructures and calcite CPO. The mylonitic fabric in Mesozoic limestones is folded by EW-trending Pyrenean folds north of the Agly basement massif, attesting that this fabric formed before the Pyrenean orogeny. These data consistently support preorogenic extension under medium-temperature conditions of the northern Agly massif and likely of the massif itself. Since simultaneously (~100 Ma) a mid-Cretaceous basin opened south of the basement massif, we suggest a model of preorogenic exhumation of the Agly massif in response to the regional extension associated to the rotation of Iberia. This model may explain the exhumation of the North Pyrenean massifs during a single preorogenic event that allowed the opening of extensional basins and the exhumation of the lithospheric mantle. All these structures being subsequently reworked during the Pyrenean orogeny.
ISSN: 0278-7407

hal-00852833
https://hal.archives-ouvertes.fr/hal-00852833
DOI : 10.1002/tect.20015

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 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

Éditeur(s) : HAL CCSD Cold Spring Harbor Laboratory Press
Résumé : “Human and Environmental Genomics” platform (Rennes) for Illumina sequencing / Proteomics Core Facility of the Cambridge Institute (Cancer Research UK)
International audience
Epigenetic mechanisms are believed to play key roles in the establishment of cell-specific transcription programs. Accordingly, the modified bases 5-methylcytosine (5mC) and 5-hydroxymethylcytosine (5hmC) have been observed in DNA of genomic regulatory regions such as enhancers, and oxidation of 5mC into 5hmC by Ten-eleven translocation (TET) proteins correlates with enhancer activation. However, the functional relationship between cytosine modifications and the chromatin architecture of enhancers remains elusive. To gain insights into their function, 5mC and 5hmC levels were perturbed by inhibiting DNA methyltransferases and TETs during differentiation of mouse embryonal carcinoma cells into neural progenitors, and chromatin characteristics of enhancers bound by the pioneer transcription factors FOXA1, MEIS1, and PBX1 were interrogated. In a large fraction of the tested enhancers, inhibition of DNA methylation was associated with a significant increase in monomethylation of H3K4, a characteristic mark of enhancer priming. In addition, at some specific enhancers, 5mC oxidation by TETs facilitated chromatin opening, a process that may stabilize MEIS1 binding to these genomic regions.
ISSN: 1088-9051

Droits : http://creativecommons.org/licenses/by-nc/
hal-01533248
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01533248
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01533248/document
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01533248/file/Genome%20Res.-2017-Mah%C3%A9-947-58.pdf
DOI : 10.1101/gr.211466.116

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : In order to analyze the large-scale structure of the genome of Norway spruce (Picea abies Karst.), a pseudo-testcross genetic linkage map was built using markers of six different types, belonging to the low (amplified fragment length polymorphisms, simple sequence repeats) or high (sequence-specific amplified polymorphisms, inter-retrotransposon amplified polymorphisms) copy-number fraction of the genome, and including expressed region-derived markers (expressed sequence tag polymorphisms). Twenty seven and 23 linkage groups of at least four markers were obtained for the female and the male parent maps, respectively. A subset of these linkage groups coalesced into 13 bi-parental linkage groups through markers shared between the two maps. This map was used to investigate the frequency of each marker type over chromosomes and the distribution of marker types relative to each other, using autocorrelation techniques. Our results show that, while the composition of chromosomes is homogeneous, low- and high-copy-number markers tend to occupy separate regions of the linkage groups, and that expressed sequences are preferentially associated with microsatellites and separated from retrotransposons. These results indicate that the spatial structure of Norway spruce chromosomes is not homogeneous
ISSN: 1614-2942

hal-01032033
https://hal.archives-ouvertes.fr/hal-01032033
DOI : 10.1007/s11295-005-0012-2

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
We report new structural, microstructural, petrological, and major- and trace-element data on ultramafic rocks from the Kondyor zoned ultramafic complex in Far-East Russia. The ultramafic rocks are subdivided into three subconcentric lithologies, from core to rim: (1) a metasomatic domain where generally phlogopite-rich dykes pervasively intrude dunite; (2) a main dunite core; (3) a pyroxenite rim. The ultramafic rocks have nearly vertical contacts with the surrounding Archaean basement (gneisses, quartzites and marbles) and hornfelsed Riphean sediments. The hornfelsed sediments show a relatively steep ( 60), outward dipping layering, which rapidly flattens to horizontal away from the inner contact. Although the Riphean sediments define a dome-like structure, the inward, shallow dipping foliation of the dunites indicates a synformal structure. Detailed petro-structural investigations indicate that the Kondyor dunites were deformed by solid-state flow under asthenospheric mantle conditions. The outward textural change from coarse- to fine-grained equigranular dunite and the outward-increasing abundance of subgrains and recrystallized olivine grains suggest dynamic recrystallization while fluid circulation was channelized within the core metasomatic zone, with a decreasing melt fraction from core to rim, and also suggest that solid-state deformation induced grain-size reduction towards the cooling border of the Kondyor massif. Based on their geochemistry, the dunites are interpreted as mantle rocks strongly affected by reaction with melts similar to the JurassicCretaceous Aldan Shield lamproites. Rim pyroxenites were formed by a melt-consuming peritectic reaction, implying the existence of at least a small, conductive thermal gradient around the dunite body while the latter was still at near-solidus temperature conditions. This suggests that the zoned structure of Kondyor was initiated at mantle depths, most probably within the subcontinental lithosphere. Upon cooling, the lamproitic melts were progressively focused in the central part of the massif and drained into vein conduits where they reacted with the wall-rock dunite. Two-dimensional numerical modelling based on finite-differences with a marker-in-cell technique incorporates temperature-dependent rheologies for both molten and non-molten host rocks. The modelling consolidates the structural, petrological and geochemical interpretations, which show that the dunites represent the synformal, flat-lying apex of an asthenospheric mantle diapir, triggered by fluid pressure channelized in the core, which nearly reached the Earths surface. We conclude that translithospheric mantle diapirism is an important mode of mass transfer in the Earth.
ISSN: 0022-3530

hal-00424508
https://hal.archives-ouvertes.fr/hal-00424508
DOI : 10.1093/petrology/egn083