Éditeur(s) : Elsevier Science Bv
Résumé : The biodynamic and saturation models offer promising lines of enquiry to predict the bioaccumulation of metals by aquatic organisms. However, in order to construct these models, the accumulation strategies have to be defined for each metal/organism couple in controlled conditions. This study aims at modelling the waterborne bioaccumulation of Ni and the influence of the water's geochemical properties on this process in a crustacean that is widely distributed in Europe, Gammarus pulex. In the laboratory, G. pulex was exposed to several Ni concentrations (from 0.001 to 100 mg L(-1)) in aquatic microcosms. Our results show that G. pulex is very tolerant to Ni (LC50(48 h) = 477 mg L(-1) Ni). Time course experiments enabled the construction of a biodynamic model by determining the uptake (k(u)) and elimination (k(e)) rate constants. When the exposure concentration exceeded 1 mg L(-1) Ni, the metal uptake reached a maximum due to a limited number of binding sites for Ni. Therefore, the organism's maximal capacity to accumulate the metal (B(max)) and the half-saturation constant (K) were determined to establish the saturation model. We showed that the two models are comparable for the lowest exposure concentrations (<1 mg L(-1) Ni), with k(u)/k(e) = B(max)/K. Then, the bioaccumulation of Ni was recorded in waters exhibiting various concentrations of three major ions (Na(+), Mg(2+) and Ca(2+)). Only Ca had an inhibitory effect on the Ni uptake. This study reports for the first time the bioaccumulation of Ni in G. pulex. Because of its high tolerance to Ni and its high capacity to accumulate this metal, this crustacean could be used as an indicator of Ni bioavailability in freshwaters. (C) 2011 Elsevier B.V. All rights reserved.
Aquatic Toxicology (0166-445X) (Elsevier Science Bv), 2011-08 , Vol. 104 , N. 3-4 , P. 161-167

Droits : 2011 Elsevier B.V. All rights reserved.
http://archimer.ifremer.fr/doc/00041/15217/18005.pdf
DOI:10.1016/j.aquatox.2011.04.011
http://archimer.ifremer.fr/doc/00041/15217/

Éditeur(s) : HAL CCSD
Résumé : Spermatogenesis in mammals is a complex biological function including cellular processes such as proliferation, meiosis and differentiation, aiming to the production of male gametes in the testis. If the seminiferous epithelium is well described in terms of organization and cellular morphology of cells that compose it, the processes by which undifferentiated diploid germ cells enter meiosis and give haploid cells that undergo many morphological transformations, are not fully decrypted. These processes rely on the coordinated and sequential expression of genes, including specific products for each stage of germ cell development These gene products are essential at each key stage of spermatogenesis. Transcriptomics since the 1990s, and proteomics since the 2000s have contributed to the improved. understanding of these mechanisms. A long term proteomic study aiming at characterizing the proteomes of Sertoli cells and germ cells, and a recent study that characterized and quantified the transcriptome of isolated rat testicular cells at high resolution using de novo sequencing of transcripts (RNA-Seq), have been the basis of my thesis work. The latter study showed the accumulation of long non-Coding RNAs (lncRNAs) and testicular unannotated transcripts (TUTs) at meiotic and post-Meiotic stages of spermatogenesis in the rat. In this context, my thesis work aimed at validating the coding potential of many genes expressed in germ cells using RNA-Seq combined with shotgun proteomics, a so-Called PIT (Proteomics Informed by transcriptomics) approach. In this approach, the protein sequences translated from the transcripts assembled by RNA-Seq in the different testicular cell types are integrated into a custom database of protein sequences used to query mass spectrometry data obtained from proteins of meiotic and post-Meiotic cells. The PIT approach showed that 69 TUTs or lncRNA (corresponding to 44 loci) code for proteins in meiotic cells and post meiotic cells, and we confirmed experimentally the meiotic and post-Meiotic expression for two new transcripts encoding for VAMP9, a protein of the SNARE family, and a new testicular enolase T-ENOL. The post-Meiotic expression of T-ENOL protein was confirmed by immunohistochemistry using a polyclonal antibody raised against the recombinant protein. This approach also allowed us to identify new isoforms of known proteins, specific to each stage of spermatogenesis. Germ cells and Sertoli cells maintain a dialogue which is necessary to the success of spermatogenesis and spermiogenesis. Another part of my work aimed at identifying membrane proteins, in germ cells and residual bodies, that may be involved in the dialogue between Sertoli cells and germ cells, using a ICPL relative quantification proteomic approach. The ICPL analysis enabled us to establish a list of 166 proteins whose expression is differential between pachytene spermatocytes, round spermatids and residual bodies. Their differential expression suggests that these proteins may play a role in spermiogenesis. Thanks to the Gene Ontology annotations, a list of 8 proteins with a putative role in signal transduction, cell recognition or differentiation, thus potentially involved in the dialogue between Sertoli and germ cells was drawn. In addition, I provided a first proteome of rat Sertoli cells, germ cells and residual bodies obtained by shotgun proteomics.
La spermatogenèse chez les mammifères est une fonction biologique complexe incluant des processus de prolifération cellulaire, de méiose et de différenciation uniques visant à la production des gamètes mâles au sein du testicule. Si l’épithélium séminifère est bien décrit sur le plan de son organisation et de la morphologie des cellules qui le composent, les processus par lesquels les cellules germinales diploïdes indifférenciées entrent en méiose pour donner ensuite des cellules haploïdes subissant par la suite de nombreuses transformations morphologiques, ne sont pas totalement décryptés. Ils reposent sur l’expression coordonnée et séquentielle de gènes dont les produits spécifiques de chaque stade de développement des cellules germinales sont essentiels aux étapes clés de la spermatogenèse. La transcriptomique depuis les années 1990 et la protéomique depuis les années 2000 ont contribué à l’amélioration de la connaissance de ces mécanismes. Une étude protéomique visant à caractériser par des approches systématiques et différentielles les protéomes des cellules de Sertoli et de la lignée germinale, et d’autre part une étude récente, réalisée dans notre unité, qui a permis de caractériser et de quantifier le transcriptome des cellules testiculaires isolées de rat en utilisant le séquençage de novo des transcrits (RNA-Seq), ont été à la base de mes travaux de thèse. Cette dernière étude a mis en évidence l’accumulation de longs ARNs non codants (lncRNAs) et de transcrits testiculaires non annotés (TUTs) aux stades méiotique et post- méiotique de la spermatogenèse chez le rat. Dans ce contexte, mon travail a consisté à valider le potentiel codant de nombreux gènes exprimés dans les cellules germinales par une approche dite PIT (Proteomics Informed by Transcriptomics) couplant protéomique Shotgun et RNA-Seq. Dans ce type d’approche, les séquences protéiques déduites des transcrits des différents types cellulaires, assemblés par RNA-Seq, sont intégrées dans une base personnalisée de séquences protéiques utilisée pour interroger les données de spectrométrie de masse obtenues à partir de protéines de cellules méiotiques et post-Méiotiques. L’approche PIT a permis de montrer que 69 TUTs ou lncRNA (correspondant à 44 loci) codent pour des protéines dans les cellules méiotiques et post méiotiques. L’expression post-Méiotique de deux nouveaux transcrits, l’un codant pour la protéine VAMP9, une protéine de la famille SNARE, et l’autre pour une nouvelle énolase T-ENOL a pu être confirmée. L’expression post-Méiotique de T-ENOL a été confirmée par immunohistochimie à l’aide d’un anticorps polyclonal produit contre la protéine recombinante. Cette approche nous a également permis d’identifier de nouvelles isoformes de protéines connues spécifiques de chaque stade de la spermatogenèse. Les cellules germinales et les cellules de Sertoli entretiennent le dialogue nécessaire au bon déroulement de la spermatogenèse. Une autre partie de mon travail a consisté à identifier des protéines membranaires des cellules germinales et des corps résiduels, susceptibles d’intervenir dans le dialogue entre les cellules de Sertoli et les cellules germinales, par une approche protéomique de quantification relative ICPL. Cette approche a permis d’établir une liste de 166 protéines différentiellement exprimées entre les spermatocytes pachytène, les spermatides rondes et les corps résiduels, qui sont susceptibles de jouer un rôle dans la spermiogénèse. Grâce aux annotations de le Gene Ontology, j’ai pu établir une liste de 8 protéines ayant un rôle supposé dans la transduction du signal, la reconnaissance cellulaire ou bien la différenciation. Par ailleurs, j’ai pu établir par protéomique Shotgun un premier protéome des cellules de Sertoli, des cellules germinales et des corps résiduels chez le rat.
https://tel.archives-ouvertes.fr/tel-01127389

Droits : info:eu-repo/semantics/OpenAccess
NNT : 2014REN1S064
tel-01127389
https://tel.archives-ouvertes.fr/tel-01127389
https://tel.archives-ouvertes.fr/tel-01127389/document
https://tel.archives-ouvertes.fr/tel-01127389/file/2014REN1S064.pdf

Éditeur(s) : Elsevier
Résumé : Regardless of the degree of closure of a recirculation system, effluents are produced and replacement water is needed, which limits the possibility of locating a seawater production system away from the shoreline. At the Palavas Ifremer station, in the south of France, a High Rate Algal Pond (HRAP) was operated during several years to treat the effluent from a recirculating aquaculture system before reusing it. The effect of the HRAP-treated water on the recirculation system and on the fish was investigated and the optimal algae growing conditions were defined. The experiments were carried out in three rearing systems: one flow through, one recirculating and one recirculating with a HRAP. The water flow rate, temperature, pH and salinity conditions were similar in all systems. The effect of reusing the HRAP-treated water is very limited (1) on the functioning of the recirculation system and (2) on fish performance, but it allows a significant reduction of the dissolved inorganic nitrogen and phosphorus concentration in the rearing water. HRAP treatment reduced metal accumulation in muscle and liver of RAS fish, except for chromium and arsenic. All biomarkers presented no significant difference between systems, except for Superoxide Dismutase (SOD) and EROD, which showed a higher concentration in RAS and in both recirculating system respectively. (c) 2005 Elsevier B.V. All rights reserved.
Aquaculture (0044-8486) (Elsevier), 2006-03 , Vol. 252 , N. 1 , P. 92-101

Droits : 2005 Elsevier
http://archimer.ifremer.fr/doc/2006/publication-2306.pdf
DOI:10.1016/j.aquaculture.2005.11.053
http://archimer.ifremer.fr/doc/00000/2306/

Éditeur(s) : Elsevier Science Bv
Résumé : Mechanisms controlling the transfer and retention of silicon (Si) along continental margins are poorly understood, but play a major role in the functioning of coastal ecosystems and the oceanic biological pump of carbon. Deep-sea fans are well recognized as carbon sink spots, but we lack knowledge about the importance of the fans in the global Si cycle. Here, we provide a first estimate of the role played by the Congo deep-sea fan, one of the biggest in the world, in the Si cycle. Sediment cores sampled in the deep-sea fan were analyzed to build a Si mass balance. An exceptionally high accumulation rate of amorphous silica aSiO(2) (2.29 +/- 0.58 mol Si m(-2) y(-1)) was found, due to a high sedimentation rate and the presence of aluminum in the sediments. Although favored by bioirrigation, recycling fluxes remained low (0.3 mol Si m(-2) y(-1)) and reconstructed input fluxes could only be explained by lateral inputs coming from the canyon. Preliminary calculations show that the rapid transport of aSiO(2) through the canyon and the excellent preservation efficiency in the sediments imply that 50% of aSiO(2) river inputs from the Congo River accumulate annually in the deep-sea fan. Si:C ratios in deep-sea fan sediments were very low (0.2) and only three times as high as those measured in the river itself, which suggests that material from the river and the continental shelf was delivered directly through the canyon, with very little time for Si and C cycle decoupling to take place.
Journal Of Marine Systems (0924-7963) (Elsevier Science Bv), 2015-01 , Vol. 141 , P. 71-79

Droits : 2014 Elsevier B.V. All rights reserved.
http://archimer.ifremer.fr/doc/00251/36242/35797.pdf
DOI:10.1016/j.jmarsys.2014.07.010
http://archimer.ifremer.fr/doc/00251/36242/

Éditeur(s) : HAL CCSD Geological Society of America
Résumé : International audience
Because of its essential role in coupling climate and tectonics, denudation is a key parameter when constraining the history of Earth’s surface. This is particularly true at the Pliocene-Pleistocene transition, and the potential impact of the onset of Quaternary glaciations remains strongly debated. In the present study, we measured in situ cosmogenic 10Be within continuous late Cenozoic sedimentary sections that had already been dated using magnetostratigraphy. The new data were obtained from four sedimentary basins in the northern and southern Tianshan range (Central Asia). We first thoroughly discuss how in situ cosmogenic 10Be concentrations can be corrected for radioactive decay and for the contribution of postdepositional cosmogenic accumulation to derive the paleo–denudation rates. Our analysis shows that, in the four sedimentary records, the potential bias remains low enough to consider the derived denudation rates reliable. The four records, although likely influenced by local particularities due to lithological heterogeneity and local tectonics, display similar trends of continuously increasing denudation between ca. 9 Ma and the present. These rates have remained relatively high but steady since 4 Ma, ∼1.5 m.y. before the onset of the Quaternary glacial cycles. Though the rejuvenation of the Tianshan range since 11 Ma may explain most of the progressive increase (×5) in denudation, our data suggest that the Quaternary glaciations had only a limited impact on denudation in the Tianshan. Our data, however, indicate an increase in the spatial and high-frequency variability (<1 m.y.) of the denudation rates between 3 and 1 Ma. This may correspond to a transient readjustment of the landscape in response to the onset of Quaternary glacial cycles.
ISSN: 0016-7606

hal-01685766
https://hal.archives-ouvertes.fr/hal-01685766
DOI : 10.1130/B31475.1

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Excess gas phase in magmas erupting explosively is well known worldwide. However, the origin of this gas phase, in excess of what can be dissolved in the erupting magma at depth, and the rate of gas accumulation is less well defined. The 2010 mildly explosive eruption at Eyjafjallajökull, Iceland, produced mingled tephra of benmoreitic and trachytic composition whereas alkali basalt was emitted during preceding flank eruption. Tephra of the first explosive phase are composed of three glass types, alkaline rhyolite, mixed benmoreite, and basalt, which suggests that the basaltic magma intruded a pre-existing rhyolitic magma chamber, and ultimately triggered the eruption. The mixed benmoreitic tephra (erupted on 15 and 17 April 2010) had large 210Po in excess of 210Pb View the MathML source[(Po210/Pb210)0=1.88] at the time of eruption, and possibly a small 210Pb excess over its parent 226Ra. In contrast, the preceding flank eruption produced basalt with View the MathML source(Po210)0=0, upon eruption, and the final trachyte had lost most of its 210Po during open-system degassing. The 210Po excess in the first erupted benmoreites is interpreted to result from 210Po degassing of basaltic magma and the accumulation of 210Po-enriched gas, either in the upper part of the basaltic intrusion, below the rhyolite–basalt interface, or in the pre-existing residual rhyolitic magma chamber. From a simple model of radon and polonium accumulation in the rhyolitic reservoir, the ratio of the mass of basalt magma degassing over the mass of magma accumulating the excess gas decreased from 20 to 15 over 2 days, implying zoned magma reservoir, with the uppermost and gas-richest part erupting first. The duration of pre-eruptive gas accumulation in this model is approximately one year. This corresponds closely to the initiation of a seismic swarm beneath Eyjafjallajökull, early June 2009, which was the first pre-eruptive signal detected. The coincidence between initiation of gas accumulation at relatively shallow depth and deeper seismicity strongly suggests that the excess gas phase originated from a basalt magma batch intruded at depth, and that this gas phase reached the surface approximately a year later.
ISSN: 0012-821X

hal-01217142
https://hal.archives-ouvertes.fr/hal-01217142
DOI : 10.1016/j.epsl.2015.06.054

Éditeur(s) : Elsevier Science Bv
Résumé : In bivalve aquaculture, dominant fouling organisms are filter feeders which can compete for food with reared bivalves, sometimes causing mortality or reducing their growth rate. This study investigated the effect of biofouling on the farmed pearl oyster Pinctada margaritifera in two lagoons of French Polynesia. Survival, growth and reproduction of 2 year-old pearl oysters were monitored with regular sampling schedules, from the initial stage of colonization up to 20 months of biofouling accumulation. Control groups of pearl oysters were kept free of biofouling as is the current practice in pearl farms. After more than a year of monitoring, no significant difference was recorded in shell growth rate between pearl oysters reared with epibionts and the control group of pearl oysters, at both sites. Mean annual shell growth rate (height) was 30.5 ± 9.2 mm in Tahiti and 24.8 ± 7.7 mm in Mangareva. Neither the survival nor the reproduction indices were negatively affected by biofouling. In Mangareva, where biofouling development was quantified during 1 year, the rate of colonization appeared to be high during the first 3 months before slowing down. These results raise questions about the necessity of removing biofouling at this stage of pearl oyster production (i.e. before grafting).
Aquaculture (0044-8486) (Elsevier Science Bv), 2014-10 , Vol. 434 , P. 18-26

Droits : 2014 Elsevier B.V. All rights reserved.
http://archimer.ifremer.fr/doc/00201/31188/29587.pdf
DOI:10.1016/j.aquaculture.2014.07.012
http://archimer.ifremer.fr/doc/00201/31188/

Éditeur(s) : The Royal Society
Résumé : One of the most ubiquitous and long-lasting recent changes to the surface of our planet is the accumulation and fragmentation of plastics. Within just a few decades since mass production of plastic products commenced in the 1950s, plastic debris has accumulated in terrestrial environments, in the open ocean, on shorelines of even the most remote islands and in the deep sea. Annual clean-up operations, costing millions of pounds sterling, are now organized in many countries and on every continent. Here we document global plastics production and the accumulation of plastic waste. While plastics typically constitute approximately 10 per cent of discarded waste, they represent a much greater proportion of the debris accumulating on shorelines. Mega- and macro-plastics have accumulated in the highest densities in the Northern Hemisphere, adjacent to urban centres, in enclosed seas and at water convergences ( fronts). We report lower densities on remote island shores, on the continental shelf seabed and the lowest densities (but still a documented presence) in the deep sea and Southern Ocean. The longevity of plastic is estimated to be hundreds to thousands of years, but is likely to be far longer in deep sea and non-surface polar environments. Plastic debris poses considerable threat by choking and starving wildlife, distributing non-native and potentially harmful organisms, absorbing toxic chemicals and degrading to micro-plastics that may subsequently be ingested. Well-established annual surveys on coasts and at sea have shown that trends in mega- and macro-plastic accumulation rates are no longer uniformly increasing: rather stable, increasing and decreasing trends have all been reported. The average size of plastic particles in the environment seems to be decreasing, and the abundance and global distribution of micro-plastic fragments have increased over the last few decades. However, the environmental consequences of such microscopic debris are still poorly understood.
Philosophical Transactions of the Royal Society B (0962-8436) (The Royal Society), 2009-07 , Vol. 364 , N. 1526 , P. 1985-1998

Droits : The Royal Society 2009
http://archimer.ifremer.fr/doc/2009/publication-6952.pdf
DOI:10.1098/rstb.2008.0205
http://archimer.ifremer.fr/doc/00000/6952/

Éditeur(s) : HAL CCSD American Geophysical Union - AGU
Résumé : IODP Expedition 335 "Superfast Spreading Rate Crust 4" returned to ODP Hole 1256D with the intent of deepening this reference penetration of intact ocean crust several hundred meters into cumulate gabbros. This was the fourth cruise of the superfast campaign to understand the formation of oceanic crust accreted at fast spreading ridges, by exploiting the inverse relationship between spreading rate and the depth to low velocity zones seismically imaged at active mid-ocean zones, thought to be magma chambers. Site 1256 is located on 15-million-year-old crust formed at the East Pacific Rise during an episode of superfast ocean spreading (>200 mm/yr full rate). Three earlier cruises to Hole 1256D have drilled through the sediments, lavas and dikes and 100 m into a complex dike-gabbro transition zone. The specific objectives of IODP Expedition 335 were to: (1) test models of magmatic accretion at fast spreading ocean ridges; (2) quantify the vigor of hydrothermal cooling of the lower crust; (3) establish the geological meaning of the seismic Layer 2-3 boundary at Site 1256; and (4) estimate the contribution of lower crustal gabbros to marine magnetic anomalies. It was anticipated that even a shortened IODP Expedition could deepen Hole 1256D a significant distance (300 m) into cumulate gabbros. Operations on IODP Expedition 335 proved challenging from the outset with almost three weeks spent re-opening and securing unstable sections of the Hole. When coring commenced, the destruction of a hard-formation C9 rotary coring bit at the bottom of the hole required further remedial operations to remove junk and huge volumes of accumulated drill cuttings. Hole-cleaning operations using junk baskets returned large samples of a contact-metamorphic aureole between the sheeted dikes and a major heat source below. These large (up to 3.5 kg) irregular samples preserve magmatic, hydrothermal and structural relationships hitherto unseen because of the narrow diameter of drill core and previous poor core recovery. Including the ~60 m-thick zone of granoblastic dikes overlying the uppermost gabbro, the dike-gabbro transition zone at Site 1256 is over 170 m thick, of which more than 100 m are recrystallized granoblastic basalts. This zone records a dynamically evolving thermal boundary layer between the principally hydrothermal domain of the upper crust and a deeper zone of intrusive magmatism. The recovered samples document a sequence of evolving geological conditions and the intimate coupling between temporally and spatially intercalated intrusive, hydrothermal, contact-metamorphic, partial melting and retrogressive processes. Despite the operational challenges, we achieved a minor depth advance to 1522 m, but this was insufficient penetration to complete any of the primary objectives. However, Hole 1256D has been thoroughly cleared of junk and drill cuttings that have hampered operations during this and previous Expeditions. At the end of Expedition 335, we briefly resumed coring and stabilized problematic intervals with cement. Hole 1256D is open to its full depth and ready for further deepening in the near future.
InterRidge News

hal-00688821
https://hal.archives-ouvertes.fr/hal-00688821

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
BACKGROUND: Dengue fever is the most important arboviral infection that affects humans, particularly in tropical and subtropical regions. Here, we provide the first comprehensive overview of the severity of dengue epidemics in French Guiana. METHODOLOGY/PRINCIPAL FINDINGS: We monitored hospitalized cases between 2008 and 2013. Detailed clinical features and biological parameters were collected on a daily basis from all cases. Among the 1,356 cases, 216 (16%) were classified according to the WHO 2009 classification as dengue without warning signs (WS), 926 (68%) were classified as dengue with WS and 214 (16%) were classified as severe dengue. The severity rates were similar between the three major epidemics that occurred during the study period, whereas the hospitalization rate was highest in 2013. Fluid accumulation, aspartate aminotransferase (ASAT) counts>193 IU/L and platelet counts<75,000 cells/mm3 were associated with dengue severity. CONCLUSIONS/SIGNIFICANCE: Our findings provide a recent epidemiological description of the severity of dengue epidemics in French Guiana. These results highlight the potential impacts and consequences of implementing the WHO 2009 classification on hospital activity. Future studies should include virological and immunological investigations of well-documented serum samples.
ISSN: 1932-6203

hal-01477201
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01477201
DOI : 10.1371/journal.pone.0172267
PUBMED : 28196111

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
To test the impact of fluid flow on the reactivity of porous (ultra-)mafic rocks, reactive percolation experiments were realized during which CO2-enriched water was injected at two different injection rates (Q = 0.1 and 1 mL h−1) through sintered analogues of olivine-accumulation zones in basaltic flows at temperature and fluid composition conditions (T = 180 °C; NaHCO3 buffered solution) favorable for CO2-mineralization (carbonation).All experiments resulted in silicate dissolution, carbonate precipitation upstream and (proto-)serpentine formation downstream indicating a decrease in the fluid reactivity along flow paths. The measured bulk carbonation rates ranged from 4 to 7 × 10−8 s−1; these values were significantly lower than previously published values of olivine carbonation rate obtained on powders in closed batch and flow-through reactors. Our study show complex couplings, at pore scale, between fluid flow, localization of reaction zones, and chemical reaction kinetics which in turn control hydrodynamic properties, carbonation rate and efficiency and fluid reactivity. This results in carbonation rates being higher when injection rates are high and permeability ultimately controlling carbonation reactions by limiting fluid input. During experiments, notable changes in permeability occurred for only minor changes in porosity indicating a control by the geometry of the porous network: heterogeneities in the distribution of flow paths favored the localization of precipitated minerals which in turn resulted in the closure of flow paths. This mechanism was particularly efficient at low injection rates. These results imply that controlling the injection rate could allow enhancing/limiting the efficiency of in situ carbonation.
ISSN: 0883-2927

hal-01115284
https://hal.archives-ouvertes.fr/hal-01115284
DOI : 10.1016/j.apgeochem.2014.11.024

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : Approximately 4 yr of campaign and continuous Global Positioning System (GPS) measurements across the Dead Sea fault system (DSFS) in Lebanon provide direct measurements of interseismic strain accumulation along a 200-km-long restraining bend in this continental transform fault. Late Cenozoic transpression within this restraining bend has maintained more than 3000 m of topography in the Mount Lebanon and Anti-Lebanon ranges. The GPS velocity field indicates 4-5 mm yr(-1) of relative plate motion is transferred through the restraining bend to the northern continuation of the DSFS in northwestern Syria. Near-field GPS velocities are generally parallel to the major, left-lateral strike-slip faults, suggesting that much of the expected convergence across the restraining bend is likely accommodated by different structures beyond the aperture of the GPS network (e.g. offshore Lebanon and, possibly, the Palmyride fold belt in SW Syria). Hence, these geodetic results suggest a partitioning of crustal deformation involving strike-slip displacements in the interior of the restraining bend, and crustal shortening in the outer part of the restraining bend. Within the uncertainties, the GPS-based rates of fault slip compare well with Holocene-averaged estimates of slip along the two principal strike-slip faults: the Yammouneh and Serghaya faults. Of these two faults, more slip occurs on the Yammouneh fault, which constitutes the primary plate boundary structure between the Arabia and Sinai plates. Hence, the Yammouneh fault is the structural linkage that transfers slip to the northern part of the transform in northwestern Syria. From the perspective of the regional earthquake hazard, the Yammouneh fault is presently locked and accumulating interseismic strain.
ISSN: 0956-540X

hal-00406620
https://hal.archives-ouvertes.fr/hal-00406620
DOI : 10.1111/j.1365-246X.2006.03328.x

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : Understanding the genetic mechanisms of speciation and basis of species differences is among the most important challenges in evolutionary biology. Two questions of particular interest are what roles divergent selection and chromosomal differentiation play in these processes. A number of recently proposed theories argue that chromosomal rearrangements can facilitate the development and maintenance of reproductive isolation and species differences by suppressing recombination within rearranged regions. Reduced recombination permits the accumulation of alleles contributing to isolation and adaptive differentiation and protects existing differences from the homogenizing effects of introgression between incipient species. Here, we examine patterns of genetic diversity and divergence in rearranged versus collinear regions in two widespread, extensively hybridizing sunflower species, Helianthus annuus and Helianthus petiolaris, using sequence data from 77 loci distributed throughout the genomes of the two species. We find weak evidence for increased genetic divergence near chromosomal break points but not within rearranged regions overall. We find no evidence for increased rates of adaptive divergence on rearranged chromosomes; in fact, collinear chromosomes show a far greater excess of fixed amino acid differences between the two species. A comparison with a third sunflower species indicates that much of the nonsynonymous divergence between H. annuus and H. petiolaris probably occurred during or soon after their formation. Our results suggest a limited role for chromosomal rearrangements in genetic divergence, but they do document substantial adaptive divergence and provide further evidence of how species integrity and genetic identity can be maintained at many loci in the face of extensive hybridization and gene flow.
ISSN: 0737-4038

hal-01032153
https://hal.archives-ouvertes.fr/hal-01032153
DOI : 10.1093/molbev/msp043

Éditeur(s) : HAL CCSD Elsevier Masson
Résumé : Fire-free forest conversion with organic inputs as an alternative to slash-and-burn could improve agro-ecosystem sustainability. We assessed soil carbon mass changes in a sandy-clayey and well-drained soil in French Guiana after forest clearing by the chop-and-mulch method and crop establishment. At the experimental site of Combi, native forest was cut down in October 2008; woody biomass was chopped and incorporated into the top 20 cm of soil. After about one year of legume and grass cover, three forms of land management were compared: grassland (Urochloa ruziziensis), maize/soybean crop rotation with disk tillage and in direct seeding without tillage. There were four replicates. We measured 14.16 kg m(-2) of carbon in 2 mm-sieved soil down to 2 m depth for the initial forest. Forest clearing did not induce significant soil compaction; neither did any specific agricultural practice. In converted soils, C stocks were measured in the 0-30 cm layer after each crop for three years. Carbon mass changes for soil fractions <2 mm (soil C stock) and >2 mm (soil C pool) in the 0-5, 5-10, 10-20 and 20-30 cm soil layers were assessed on an equivalent soil mass basis. One year and 1.5 years after deforestation, higher C stocks (+0.64 to 1.16 kg C m(-2) yr(-1)) and C pools (+0.52 to 0.90 kg C m(-2) yr(-1)) were measured in converted soils, compared to those of the forest into the top 30 cm of soil. However, the masses of carbon in these converted soils declined later. The highest rates of carbon decrease were measured between 1.5 and 2 years after forest conversion in the <2 mm soil fraction, from 0.46 kg Cm-2 yr(-1) (in grassland soils) to 0.71 kg C m(-2) yr(-1) (in cropland under no tillage). The carbon pool declined during the third year at rates of 0.41 kg C m(-2) yr(-1) (cropland under disk tillage) to 0.76 kg C m(-2) yr(-1) (grassland soils). Three years after forest conversion, C masses in the top 30 cm of soils for grassland showed similar values than for forest. In comparison, the carbon stock in cropped soils managed under no tillage in direct seeding (without mulch) was significantly 17% and 16% lower than in forest and grassland soils, respectively. None of the studied agricultural practices succeeded in accumulating carbon from the chopped forest biomass.
ISSN: 0167-8809

hal-01032438
https://hal.archives-ouvertes.fr/hal-01032438
DOI : 10.1016/j.agee.2013.11.009

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
BACKGROUND:Dengue fever is the most important arboviral infection that affects humans, particularly in tropical and subtropical regions. Here, we provide the first comprehensive overview of the severity of dengue epidemics in French Guiana.METHODOLOGY/PRINCIPAL FINDINGS:We monitored hospitalized cases between 2008 and 2013. Detailed clinical features and biological parameters were collected on a daily basis from all cases. Among the 1,356 cases, 216 (16%) were classified according to the WHO 2009 classification as dengue without warning signs (WS), 926 (68%) were classified as dengue with WS and 214 (16%) were classified as severe dengue. The severity rates were similar between the three major epidemics that occurred during the study period, whereas the hospitalization rate was highest in 2013. Fluid accumulation, aspartate aminotransferase (ASAT) counts>193 IU/L and platelet counts<75,000 cells/mm3 were associated with dengue severity.CONCLUSIONS/SIGNIFICANCE:Our findings provide a recent epidemiological description of the severity of dengue epidemics in French Guiana. These results highlight the potential impacts and consequences of implementing the WHO 2009 classification on hospital activity. Future studies should include virological and immunological investigations of well-documented serum samples
ISSN: 1932-6203

inserm-01481447
http://www.hal.inserm.fr/inserm-01481447
http://www.hal.inserm.fr/inserm-01481447/document
http://www.hal.inserm.fr/inserm-01481447/file/2017%2C%20Flamand%20-%20Epidemiological%20assessment%20of%20the%20severity%20of%20dengue%20epidemics%20in%20French%20Guiana.pdf
DOI : 10.1371/journal.pone.0172267.t003

Éditeur(s) : HAL CCSD Springer Verlag (Germany) Springer Verlag
Résumé : International audience
The dissolution of carbonate rocks usually leads to both porosity (ϕ) and permeability (k) increase. We present experimental evidences and physical-based models of positive and anti-correlated dynamics of k and ϕ observed during dissolution experiments of carbonate rocks. We study the way the rate of change of ϕ and k is controlled by the degree of undersaturation of the percolating solution for two different types of carbonate rocks. We document the occurrence of an anti-correlated k−ϕ trend when the flowing fluid (deionized water) has a weak capacity of dissolution. A positive correlation is found when CO2 is added to the deionized water to increase the potential dissolution rate. Detailed analyses of the microstructures of the rock performed by X-ray microtomography reveal that low dissolution rate favors detachment of solid particles and their subsequent accumulation at the pore-throat inlet. Particles are detached from the rock matrix due to the differential dissolution rate of the indurated grains and the microporous cement. We then propose a simple phenomenological model to interpret the effect of the pore-throat clogging by the accumulation of partially dissolved carbonate particles. We conjecture that permeability is controlled by the decrease of the effective hydraulic radius and the increase of the tortuosity due to partial and localized obstruction of the pore network. Conversely, increasing the level of undersaturation of the flowing solution leads to an augmented potential of dissolving most of the transported particles before they reach the throats. In this case, both k and ϕ increase and display power-law correlations.
ISSN: 0169-3913

hal-01174145
https://hal.archives-ouvertes.fr/hal-01174145
DOI : 10.1007/s11242-015-0456-2

Éditeur(s) : Pergamon-elsevier Science Ltd
Résumé : The late Quaternary has experienced large glacial/interglacial climatic variations and related 10's to 100 meters high-amplitude sea level fluctuations at Milankovich frequencies from 10's to 100 kyr during which carbonate platform tops have been exposed and re-flooded in many occasions. This study focuses on the accumulation of calci-turbidites, the aragonite onset/sharp increase in fine sediments and their timing in deep basins adjacent to carbonate platforms. A particular emphasis is developed on the occurrence of the first gravity flow event and aragonite onset/sharp increase and their linkage to the initial re-flooding of the platform tops during deglaciations. Three basins adjacent to isolated platforms in the Bahamas, the Northern Nicaragua Rise, and the Gulf of Papua, were selected to represent pure carbonate versus mixed systems, in quiescent versus tectonically active settings, and various carbonate bank top morphologies, ranging from atoll to relatively deeply and narrowly flooded flat top banks. In spite of these differences, each record illustrates a clear relationship between the timing of platform top re-flooding and initiation of significant carbonate export by gravity flows and low-density plumes into the surrounding basins. The concept of "re-flooding window" is introduced to characterize the prolific period of time during which bank and atoll-tops are flooded enough to produce large export of bank-derived aragonite and of calci-turbidites in adjacent basins. According to our datasets, the main re-flooding windows have occurred mainly on the last part of the sea level rise at each glacial termination (T), those periods being marked by some of the highest rates of sea level rise. The analysis of a long-piston core from the earthquakes-prone Walton Basin (Northern Nicaragua Rise) demonstrates that sea level, not seismic activities, played a major role as trigger mechanism for the initiation of gravity flows since the last four glacial/interglacial transitions, and supports the existence of an extra glacial termination during the early portion of the transition from MIS 7.4 to MIS 7.3 (TIIIA). (C) 2010 Elsevier Ltd. All rights reserved.
Quaternary Science Reviews (0277-3791) (Pergamon-elsevier Science Ltd), 2010-08 , Vol. 29 , N. 17-18 , P. 2010-2026

Droits : 2010 Elsevier Ltd All rights reserved.
http://archimer.ifremer.fr/doc/00012/12298/9095.pdf
DOI:10.1016/j.quascirev.2010.04.016
http://archimer.ifremer.fr/doc/00012/12298/

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The mycotoxin alternariol (AOH), a frequent contaminant in fruit and grain, is known to induce cellular stress responses such as reactive oxygen production, DNA damage and cell cycle arrest. Cellular stress is often connected to autophagy, and we employed the RAW264.7 macrophage model to test the hypothesis that AOH induces autophagy. Indeed, AOH treatment led to a massive increase in acidic vacuoles often observed upon autophagy induction. Moreover, expression of the autophagy marker LC3 was markedly increased and there was a strong accumulation of LC3-positive puncta. Increased autophagic activity was verified biochemically by measuring the degradation rate of long-lived proteins. Furthermore, AOH induced expression of Sestrin2 and phosphorylation of AMPK as well as reduced phosphorylation of mTOR and S6 kinase, common mediators of signaling pathways involved in autophagy. Transmission electron microscopy analyzes of AOH treated cells not only clearly displayed structures associated with autophagy such as autophagosomes and autolysosomes, but also the appearance of lamellar bodies. Prolonged AOH treatment resulted in changed cell morphology from round into more star-shaped as well as increased β-galactosidase activity. This suggests that the cells eventually entered senescence. In conclusion, our data identify here AOH as an inducer of both autophagy and senescence. These effects are suggested to be to be linked to AOH-induced DSB (via a reported effect on topoisomerase activity), resulting in an activation of p53 and the Sestrin2-AMPK-mTOR-S6K signaling pathway.
ISSN: 0300-483X

hal-01117627
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01117627
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01117627/document
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01117627/file/Autophagy%20and%20senescence_accepted.pdf
PUBMED : 25456271

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We use velocities from 65 continuous stations and 31 survey-mode GPS sites as well as kinematic modeling to investigate present day deformation along the Africa-Iberia plate boundary zone in the western Mediterranean region. The GPS velocity field shows southwestward motion of the central part of the Rif Mountains in northern Morocco with respect to Africa varying between 3.5 and 4.0 mm/yr, consistent with prior published results. Stations in the southwestern part of the Betic Mountains of southern Spain move west-southwest with respect to Eurasia (similar to 2-3 mm/yr). The western component of Betics motion is consistent with partial transfer of Nubia-Eurasia plate motion into the southern Betics. The southward component of Betics motion with respect to Iberia is kinematically consistent with south to southwest motion of the Rif Mountains with respect to Africa. We use block modeling, constrained by mapped surface faults and seismicity to estimate the geometry and rates of strain accumulation on plate boundary structures. Our preferred plate boundary geometry includes one block between Iberia and Africa including the SW Betics, Alboran Sea, and central Rif. This geometry provides a good fit to the observed motions, suggesting a wide transpressive boundary in the westernmost Mediterranean, with deformation mainly accommodated by the Gloria-Azores fault system to the West and the Rif-Tell lineament to the East. Block boundaries encompass aspects of earlier interpretations suggesting three main deformation styles: (i) extension along the NE-SW trending Trans-Alboran shear zone, (ii) dextral strike-slip in the Betics corresponding to a well defined E-W seismic lineament, and (iii) right lateral strike-slip motion extending West to the Azores and right-lateral motion with compression extending East along the Algerian Tell. We interpret differential motion in the Rif-Alboran-Betic system to be driven both by surface processes related the Africa-Eurasia oblique convergence and sub-crustal dynamic processes associated with the long history of subduction of the Neotethys ocean lithosphere. The dextral slip identified in the Betic Mountains in Southern Spain may be related to the offshore fault that produced the Great 1755 Lisbon Earthquake, and as such may represent a significant seismic hazard for the West Mediterranean region.
ISSN: 0012-821X

hal-00618337
https://hal.archives-ouvertes.fr/hal-00618337
DOI : 10.1016/j.epsl.2011.05.048

Éditeur(s) : Pergamon-elsevier Science Ltd
Résumé : The environment is impacted by natural and anthropogenic disturbances that occur at different spatial and temporal scales, and that lead to major changes and even disequilibria when exceeding the resiliency capacities of the ecosystem. With an annual mean flow of 1700 m(3) s(-1), the Rhone River is the largest of the western Mediterranean basin. Its annual solid discharges vary between 2 and 20 Mt, with flood events responsible for more than 70% of these amounts. In the marine coastal area, close to the mouth, both flocculation and aggregation lead to the formation of fine-grained deposits, i.e. the prodelta. This area is characterized by sediment accumulation rates up to 20-50 cm yr(-1) and high accumulations of particle reactive contaminants such as various man-made radionuclides released into the river by nuclear facilities or arising form prior atmospheric nuclear tests (1954-1980) and the Chernobyl accident (April 1986). This prodelta, however, cannot be considered as a permanent repository for particle reactive pollutants since it is subjected to reworking processes. Sediment dynamics had to be linked to the influences of hydrodynamic and atmospheric events such as high flow rates or storms close to the Rhone River mouth. An experiment was carried out during the winter 2006 based on the deployment of two ADCPs and six altimeters at the Grand Rhone mouth for several months. This type of installation has never been used before in this area because of the hard meteorological conditions and the strong fishing activities. However, results showed pluricentimetric rises of the sedimentary level just after river flood events and decreases during storms, generated by southeast winds. Radiotracers and grain size depth profiles helped to characterise the studied events and to establish inventories of sediments and radionuclides. A cruise (CARMEX) was carried out during this same period to collect water samples, suspended particles and sediment cores. The results enabled us to link both river flow and wind characteristics to events recorded on the sea floor, i.e. resuspension, accumulation, consolidation, etc. Deposits of 11 cm of sediments were estimated during flood periods and bottom shear stresses up to 5 N m(-2) were calculated during sediment erosion phases. (C) 2010 Elsevier Ltd. All rights reserved.
Continental Shelf Research (0278-4343) (Pergamon-elsevier Science Ltd), 2010-05 , Vol. 30 , N. 9 , P. 1095-1107

Droits : 2010 Elsevier B.V. All rights reserved.
http://archimer.ifremer.fr/doc/00006/11695/8479.pdf
DOI:10.1016/j.csr.2010.02.015
http://archimer.ifremer.fr/doc/00006/11695/