Éditeur(s) : HAL CCSD Elsevier
Résumé : Extracting and purifying a representative fraction of bacteria from soil is necessary for the application of many techniques of microbial ecology. Here the influence of different soil types on the quantitative and qualitative recovery of bacteria by soil grinding and Nycodenz density gradient centrifugation was investigated. Three soils presenting contrasted physicochemical characteristics were used for this study. For each soil, the total (AODC: acridine orange direct count) and culturable (cfu: colony-forming units) bacterial densities were measured in three distinct fractions: (i) the primary soil, (ii) the soil pellet (soil remaining after centrifugation), and (iii) the extracted cells. The automated-ribosomal intergenic spacer analysis (A-RISA) was used to characterize the community structure directly from the DNA extracted from each fraction. The physicochemical characteristics of soils were found to influence both the efficiency of bacterial cell recovery and the representativeness of the extracted cells in term of community structures between the different fractions. Surprisingly, the most representative extracted cells were obtained from the soil exhibiting the lowest efficiency of cell recovery. Our results demonstrated that quantitative and qualitative cell recovery using Nycodenz density gradient centrifugation are not necessarily related and could be differentially biased according to soil type.
ISSN: 1164-5563

hal-01031904
https://hal.archives-ouvertes.fr/hal-01031904
DOI : 10.1016/j.ejsobi.2005.08.003

Éditeur(s) : Université de Paris 6 – Pierre et Marie Curie
Résumé : Since 1997, a new pathology seasonally occurs in new caledonian shrimp farms during the warm season and was named Summer Syndrome. Diseased Litopenaeus stylirostris shrimp suffer from a septicemic vibriosis which was attributed to V. nigripulchritudo. Preliminary studies based on a collection of V. nigripulchritudo strains have brought to light different virulence levels according to experimental infections results; three virulence statuses were defined: highly (HP), moderately (MP) and non pathogenic (NP). The aim of this work was to genetically characterize virulent V. nigripulchritudo strains. In a first step the genetic diversity of 58 V. nigripulchritudo strains was analyzed by MLST and AP-PCR, revealing a cluster of HP and MP strains, characterized by a low genetic variability and that includes all Summer Syndrome-associated isolates. This confirms the emergence of one cluster of pathogenic V. nigripulchritudo simultaneously with the emergence of the Summer Syndrome ; in a second step, 368 genetic markers of virulence were identified by a Suppressive Subtractive Hybridization performed between the genomes of a HP strain and a genetically close, NP isolate; the distribution of the screened SSH fragments was studied in 58 V. nigripulchritudo isolates by macro-array: 78 DNA fragments were selected, allowing to characterize clusters identified and pathogenic statuses; 13 are specific of the HP strains involved in Summer Syndrome. Interestingly, 10 of these markers are carried by a plasmid pSFn1 that contains sequences highly similar to those of a plasmid pAK1, detected in Vibrio shilonii, a coral pathogen. The origin and consequences of this plasmid acquisition are discussed.
Depuis 1997, les élevages de crevettes en Nouvelle-Calédonie sont confrontés à une nouvelle maladie, le Syndrome d'été, une vibriose septicémique dont l'agent étiologique est Vibrio nigripulchritudo. Les résultats d'infection expérimentale sur une collection de souches, ont montré l'existence de trois pathotypes distincts : hautement (HP), moyennement (MP) et non pathogène (NP). L'étude du polymorphisme génétique de 58 souches par typage moléculaire en MLST et AP-PCR, a mis en évidence un groupe phylogénétique particulier caractérisé par un très faible degré de variabilité génétique (confirmant l'émergence de ce groupe en parallèle à l'émergence du Syndrome d'été) et constitué uniquement de souches HP (dont toutes celles associées au Syndromed'été) et de souches MP. Afin d'identifier des marqueurs génétiques de la virulence des souches responsables du Syndrome d'été, et parmi ces marqueurs des gènes codant potentiellement pour des effecteurs de la virulence, une approche soustractive par SSH a été développée entre une souche HP de type Syndrome d'été et une souche NP : 368 marqueurs génétiques ont ainsi été mis en évidence ; la distribution de ces marqueurs a été étudiée chez les 58 souches de la collection par une approche en macroarray : 78 marqueurs ont été sélectionnés, qui permettent de caractériser les différents groupes phylogénétiques et les différents pathotypes, dont 13 fragments spécifiques des souches HP type Syndrome d'été. Parmi ces 13 fragments, 10 ont été localisés sur le plasmide pSFn1 qui a été entièrement séquencé. Ce même plasmide a été purifié uniquement des souches HP de type Syndrome d'été. Par ailleurs, une très forte homologie a été mise en évidence entre pSFn1 et pAK1, un autre plasmide également séquencé et retrouvé chez la souche V. shilonii AK1, responsable du blanchiment du corail Oculina patagonica en Méditerranée. Ces résultats ont ouvert la discussion sur le rôle de pSFn1 dans la virulence de V. nigripulchritudo.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/2008/these-3906.pdf
http://archimer.ifremer.fr/doc/00000/3906/

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : International audience
Meiotic recombination predominantly occurs at discrete genomic loci called recombination hotspots, but the features defining these areas are still largely unknown (reviewed in refs 1-5). To allow a comprehensive analysis of hotspot-associated DNA and chromatin characteristics, we developed a direct molecular approach for mapping meiotic DNA double-strand breaks that initiate recombination. Here we present the genome-wide distribution of recombination initiation sites in the mouse genome. Hotspot centres are mapped with approximately 200-nucleotide precision, which allows analysis of the fine structural details of the preferred recombination sites. We determine that hotspots share a centrally distributed consensus motif, possess a nucleotide skew that changes polarity at the centres of hotspots and have an intrinsic preference to be occupied by a nucleosome. Furthermore, we find that the vast majority of recombination initiation sites in mouse males are associated with testis-specific trimethylation of lysine 4 on histone H3 that is distinct from histone H3 lysine 4 trimethylation marks associated with transcription. The recombination map presented here has been derived from a homogeneous mouse population with a defined genetic background and therefore lends itself to extensive future experimental exploration. We note that the mapping technique developed here does not depend on the availability of genetic markers and hence can be easily adapted to other species with complex genomes. Our findings uncover several fundamental features of mammalian recombination hotspots and underline the power of the new recombination map for future studies of genetic recombination, genome stability and evolution.
ISSN: 0028-0836

hal-00877681
https://hal.archives-ouvertes.fr/hal-00877681
DOI : 10.1038/nature09869
PUBMED : 21460839

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
Motivation: Gene fusion is an important evolutionary process. It can yield valuable information to infer the interactions and functions of proteins. Fused genes have been identified as non-transitive patterns of similarity in triplets of genes. To be computationally tractable, this approach usually imposes an a priori distinction between a dataset in which fused genes are searched for, and a dataset that may have provided genetic material for fusion. This reduces the `genetic space' in which fusion can be discovered, as only a subset of triplets of genes is investigated. Moreover, this approach may have a high-false-positive rate, and it does not identify gene families descending from a common fusion event. Results: We represent similarities between sequences as a network. This leads to an efficient formulation of previous methods of fused gene identification, which we implemented in the Python program FusedTriplets. Furthermore, we propose a new characterization of families of fused genes, as clique minimal separators of the sequence similarity network. This well-studied graph topology provides a robust and fast method of detection, well suited for automatic analyses of big datasets. We implemented this method in the C++ program MosaicFinder, which additionally uses local alignments to discard false-positive candidates and indicates potential fusion points. The grouping into families will help distinguish sequencing or prediction errors from real biological fusions, and it will yield additional insight into the function and history of fused genes.
ISSN: 1367-4803

hal-01544795
https://hal.archives-ouvertes.fr/hal-01544795
DOI : 10.1093/bioinformatics/btt049

Éditeur(s) : HAL CCSD
Résumé :  
Wood samples were taken from the upper and lower sides of 21 naturally tilted trees from 18 families of angiosperms in the tropical rain forest in French Guyana. The measurement of growth stresses ensured that the two samples were taken from wood tissues in a different mechanical state: highly tensile stressed wood on the upper side, called tension wood, and lower tensile stressed wood on the lower side, called opposite wood. Eight species had tension wood fibres with a distinct gelatinous layer (G-layer). The distribution of gelatinous fibres varied from species to species. One of the species, Casearia javitensis (Flacourtiaceae), showed a peculiar multilayered secondary wall in its reaction wood. Comparison between the stress level and the occurrence of G-layer indicates that the G-layer is not a key factor in the production of high tensile stressed wood.
IAWA Journal

hal-01032051
https://hal.archives-ouvertes.fr/hal-01032051

Éditeur(s) : HAL CCSD
Résumé : International audience
The Amerindian genetic heritage is extremely poor in the French Antilles (Martinique and Guadeloupe archipelago). However, the early and important valorisation of the cultural Amerindian legacies has played a role, since the beginning of the 20th century, in the local expression of a specific cultural identity, distinct from the French national one. The absence of declared Amerindian descendants has for a part supported this strong valorisation. Unlike the African heritages, the Amerindian legacies were not linked to a painful and socially sensitive memory. However, before the last decades, the deep social integration of those legacies was limited by the progress of the identity building process. Nowadays, the identity discourse centered on "Antillanité" and "Créolité" notions allows the progressive disappearance of those bottlenecks and authorizes the transformation of those Amerindian legacies in French Antillean heritage elements socially recognised.
L'héritage amérindien est extrêmement faible du point de vue génétique dans les Antilles françaises. Cependant, sa valorisation importante et précoce a implicitement joué un rôle particulier dans l'expression d'une identité locale distincte de l'identité nationale française. Cette forte valorisation a sans doute été favorisée par le fait qu'en l'absence de descendants déclarés, l'histoire amérindienne, pour l'essentiel détachée du phénomène colonial, n'était liée à aucune mémoire douloureuse. Cependant, avant les dernières décennies, la place faite à cet héritage ne pouvait être que limitée du fait même de l'état de la pensée identitaire. Aujourd'hui, avec le développement d'un discours centré sur les notions de créolité et d'antillanité, les sources de ce blocage sont en train de céder petit à petit. Nous assistons ainsi à la transformation de cet héritage en un des éléments reconnus du patrimoine antillais.
Outre-Mers

Droits : info:eu-repo/semantics/OpenAccess
hal-01020219
https://hal.univ-antilles.fr/hal-01020219
https://hal.univ-antilles.fr/hal-01020219/document
https://hal.univ-antilles.fr/hal-01020219/file/De_l_archA_ologie_prA_colombienne_au_patrimoine.pdf

Éditeur(s) : HAL CCSD
Résumé : The present PhD thesis is devoted to the numerical simulation and analysis of shear on cohesive granular materials. In the framework of the Contact Dynamics method, we developed a model of cohesive bonding, which mimics cohesion by cementation. This model involves three contact strength parameters (a tensile strength, a coefficient of sliding friction, and a coefficient of rolling friction) as well as a local criterion, which controls the creation and the breaking of cohesive bonds. All contacts are cohesive at the beginning of the numerical simulations, and contact rupture leads to an irreversible loss of tensile strength (debonding). We varied systematically the three contact strength parameters and studied their influence on the shear strength, the dilatancy, and the microstructure of the granular media. Our results show that internal friction and macroscopic tensile strength have different origins at the contact scale. We also find that the microstructure of the granular media, when sheared at the steady state (also known as the `critical state"), is strongly affected by the local coefficients of sliding and rolling friction. In particular, the mechanical role of the weak network changes with these two contact parameters, which results from the formation of a new structure of force transmission. On the other hand, we also applied the same numerical simulation method to the simulation of landslides. We developed a methodology, which takes into account the initial morphology of the hillslope, the strength of geomaterials, and a triggering factor, integrating in the same model the initiation and propagation phases of the landslide. To illustrate this methodology, we applied it to the simulation of a hypothetical example of avalanche triggered by the progressive rise of a water table.
Ce travail de thèse porte sur la modélisation numérique et l'analyse du cisaillement dans les milieux granulaires cohésifs. Dans le cadre de la méthode de la Dynamique des Contacts, nous avons développé un modèle de cohésion qui cherche à imiter la cohésion par cimentation. Ce modèle fait intervenir trois paramètres de résistance au niveau des contacts (une résistance à la traction, un coefficient de frottement de glissement, et un coefficient de frottement de roulement) ainsi qu'un critère de création et de rupture des liens cohésifs. Les contacts sont cohésifs au début des simulations et leur rupture entraîne la perte irréversible de la résistance à la traction. Nous avons fait varier les trois paramètres microscopiques et nous avons étudié leur influence dans la résistance au cisaillement, la dilatance, et la microstructure du milieu. Nos résultats montrent que le frottement interne et l'adhésion macroscopiques ont des origines microscopiques différentes. Nous observons aussi que la microstructure du milieu cisaillé à l'état stationnaire (aussi connu comme ``l'état critique") est fortement affectée par l'angle de frottement et la résistance au roulement au niveau des contacts. En particulier, le rôle mécanique du réseau faible change avec ces deux paramètres microscopiques, ce qui résulte de la formation d'une nouvelle structure de transmission de forces. D'autre part, nous avons appliqué cette méthode de simulation numérique à l'étude d'un processus naturel : les glissements de terrain. Nous avons développé une méthodologie qui tient compte de la morphologie initiale du système, de la résistance des géomatériaux, et d'un mécanisme de déclanchement, ce qui permet d'intégrer dans le même modèle les phases d'initiation et de propagation du glissement. Pour illustrer cette méthodologie, nous l'avons appliquée à la modélisation d'un exemple hypothétique d'avalanche déclenchée par la montée progressive du niveau d'une nappe d'eau.
https://tel.archives-ouvertes.fr/tel-00311303

tel-00311303
https://tel.archives-ouvertes.fr/tel-00311303
https://tel.archives-ouvertes.fr/tel-00311303/document
https://tel.archives-ouvertes.fr/tel-00311303/file/these_estrada.pdf

Résumé : Depuis octobre 1992 une étude est conduite par le laboratoire "Ressources Halieutiques" de l'IFREMER Cayenne pour analyser les mécanismes de recrutement du stock de crevettes pénéïdes (Penaeus subtilis) du plateau guyanais. En effet, le cycle de cette espèce étant très court, ces mécanismes conditionnent directement les rendements de la flottille industrielle crevettière guyanaise. Les variabilités intra et inter annuelles du recrutement sont considérées comme très fortes, aussi une optimisation de la gestion de cette pêcherie passe par une meilleure compréhension de ces mécanismes et notamment de leurs facteurs de variation. Cette étude s'intègre dans un programme de coopération régionale entre l'IFREMER et le Ministère de l'Agriculture, de l'Elevage et des Pêches du Surinam financé par des fonds FEDER et du FIC. Elle est respectivement menée par l'IFREMER et le laboratoire du Département des pêches du Surinam dans leurs Zones Economiques Exclusives. Ce programme prévoyait une série de huit campagnes en mer, précédées par une campagne commune de mise au point, qui devaient être conduites en parallèle par chacun des deux laboratoires français et surinamien sur les plateaux de Guyane (campagnes RESUBGUY) et du Surinam (campagnes RESUBSUR) afin d'analyser le phénomène de recrutement sur la plus large échelle possible d'observation (plateau guyano-surinamien). Deux campagnes annuelles ont été programmées pour chaque pays, en mai et en octobre, et ce sur deux années (1993 et 1994). Cette périodicité est fonction des résultats des travaux conduits par l'IFREMER et l'ORSTOM sur la phase pré-recrutée de Penaeus subtilis. Ceux-ci ont mis en évidence deux principales périodes annuelles distinctes de recrutement (avril-mai; septembre-octobre). Les résultats présentés ici proviennent de la cinquième et dernière campagne de la série initiée par l'IFREMER en octobre 1992. La première campagne avait servi de mise au point pour notamment standardiser la méthodologie entre les équipes de l'IFREMER et celle du Département des pêches du Surinam. L'étude ne s'est pas limitée à l'examen des seules captures de crevettes Penaeus subtilis, puisqu'elle a également inclue l'analyse de la composition des prises accessoires des crevettiers. Les "by-catches" considérées dans ce travail sont surtout représentées par la crevette "sea-bob", Xiphopenaeus kroyeri, ainsi que par les principales espèces de poissons dont certains d'intérêt commercial (ou ayant une forte probabilité de le devenir dans un futur proche). Enfin, une attention particulière a aussi été portée sur les captures accidentelles de tortues marines afin d'en estimer l'importance réelle.

Droits : 1995 Ifremer
http://archimer.ifremer.fr/doc/00076/18749/16320.pdf
http://archimer.ifremer.fr/doc/00076/18749/

Éditeur(s) : The Oceanography Society
Résumé : Submarine hydrocarbon seeps are geologically driven "hotspots" of increased biological activity on the seabed. As part of the HERMES project, several sites of natural hydrocarbon seepage in the European seas were investigated in detail, including mud volcanoes and pockmarks, in study areas extending from the Nordic margin, to the Gulf of Cadiz, to the Mediterranean and Black seas. High-resolution seabed maps and the main properties of key seep sites are presented here. Individual seeps show ecosystem zonation related to the strength of the methane flux and distinct biogeochemical processes in surface sediments. A feature common to many seeps is the formation of authigenic carbonate constructions. These constructions exhibit various morphologies ranging from large pavements and fragmented slabs to chimneys and mushroom-shaped mounds, and they form hard substrates colonized by fixed fauna. Gas hydrate dissociation could contribute to sustain seep chemosynthetic communities over several thousand years following large gas-release events.
Oceanography (1042-8275) (The Oceanography Society), 2009-03 , Vol. 22 , N. 1 , P. 92-109

Droits : 2009 by The Oceanography Society. All rights reserved. Permission is granted to copy this article for use in teaching and research. Republication, systemmatic reproduction, or collective redistirbution of any portion of this article by photocopy machine, reposting, or other means is permitted only with the approval of The Oceanography Society. Send all correspondence to: info@tos.org or The Oceanography Society, PO Box 1931, Rockville, MD 20849-1931, USA.
http://archimer.ifremer.fr/doc/2009/publication-6387.pdf
DOI:10.5670/oceanog.2009.11
http://archimer.ifremer.fr/doc/00000/6387/

Éditeur(s) : Elsevier Science Bv
Résumé : The modern Rhone delta in the Gulf of Lions (NW Mediterranean) is a typical wave-dominated delta that developed after the stabilization of relative sea level following the last deglacial sea-level rise. Similar to most other deltas worldwide, it displays several stacked parasequences and lobes that reflect the complex interaction between accommodation, sediment supply and autogenic processes on the architecture of a wave-dominated delta. The interpretation of a large set of newly acquired very high-resolution seismic and sedimentological data, well constrained by 14C dates, provides a refined three-dimensional image of the detailed architecture (seismic bounding surfaces, sedimentary facies) of the Rhone subaqueous delta, and allows us to propose a scenario for delta evolution during the last deglaciation and Holocene. The subaqueous delta consists of “parasequence-like” depositional wedges, a few meters to 20–30 m in thickness. These wedges first back-stepped inland toward the NW in response to combined global sea-level rise and overall westward oceanic circulation, at a time when sediment supply could not keep pace with rapid absolute (eustatic) sea-level rise. At the the Younger Dryas-Preboreal transition, more rapid sea-level rise led to the formation of a major flooding surface (equivalent to a wave ravinement surface). After stabilization of global sea level in the mid-Holocene, accommodation became the leading factor controlling delta architecture. An eastward shift of depocenters occurred, probably favoured by higher subsidence rate within the thick Messinian Rhone valley fill. The transition between transgressive (backstepping geometry) and regressive (prograding geometry) (para)sequences resulted in creation of a Maximum Flooding Surface (MFS) that differs from a “classical” MFS described in the literature. It consists of a coarse-grained interval incorporating reworked shoreface material within a silty clay matrix. This distinct lithofacies results from condensation/erosion, which appears as an important process even within supply-dominated deltaic systems, due to avulsion of distributaries. The age of the MFS varies along-strike between ca. 7.8-5.6 kyr cal. BP in relation to the position of depocenters and climatically-controlled sediment supply. The last rapid climate change of the Holocene, the Little Ice Age (1250–1850 AD), had a distinct stratigraphic influence on the architecture and lithofacies of the Rhone subaqueous delta through the progradation of two deltaic lobes. In response to changes in sediment supply linked to rapid climate changes (and to anthropic factors), the Rhone delta evolved from wave-dominated to fluvial dominated, and then wave dominated again.
Sedimentary Geology (0037-0738) (Elsevier Science Bv), 2014-05 , Vol. 305 , P. 35-53

Droits : 2014 Elsevier B.V. All rights reserved.
http://archimer.ifremer.fr/doc/00179/29017/27445.pdf
DOI:10.1016/j.sedgeo.2014.02.004
http://archimer.ifremer.fr/doc/00179/29017/

Éditeur(s) : HAL CCSD American Geophysical Union
Résumé : International audience
We present a set of single-well injection withdrawal tracer tests in a paleoreef porous reservoir displaying important small-scale heterogeneity. An improved dual-packer probe was designed to perform dirac-like tracer injection and accurate downhole automatic measurements of the tracer concentration during the recovery phase. By flushing the tracer, at constant flow rate, for increasing time duration, we can probe distinctly different reservoir volumes and test the multiscale predictability of the (non-Fickian) dispersion models. First we describe the characteristics, from microscale to meter scale, of the reservoir rock. Second, the specificity of the tracer test setup and the results obtained using two different tracers and measurement methods (salinity-conductivity and fluorescent dye­optical measurement, respectively) are presented. All the tracer tests display strongly tailed breakthrough curves (BTC) consistent with diffusion in immobile regions. Conductivity results, measured over 3 orders of magnitude only, could have been easily interpreted by the conventional mobile-immobile (MIM) diffusive mass transfer model of asymptotic log-log slope of 2. However, the fluorescent dye sensor, which allows exploring much lower concentration values, shows that a change in the log-log slope occurs at larger time with an asymptotic value of 1.5, corresponding to the double-porosity model. These results suggest that the conventional, one-slope MIM transfer rate model is too simplistic to account for the real multiscale heterogeneity of the diffusion-dominant fraction of the reservoir.
ISSN: 0043-1397

insu-00373695
https://hal-insu.archives-ouvertes.fr/insu-00373695
https://hal-insu.archives-ouvertes.fr/insu-00373695/document
https://hal-insu.archives-ouvertes.fr/insu-00373695/file/Gouze_et_al-2008-Water_Resources_Research.pdf
DOI : 10.1029/2007WR006278

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
During the early years of the Iceland Deep Drilling Project (IDDP), development of three distinctive technological and scientific approaches were formalised and then carried out until 2010 within a European funded project called HiTI (high temperature instruments for supercritical geothermal reservoir characterisation and exploitation). These approaches were: (1) development of several downhole instruments allowing them to function up to 300 ◦C and 400 ◦C, (2) identification of two new Na/Li cation ratio geothermometric relationships valid at very high temperature, (3) tracer testing with high temperature tolerant organic isomers and finally and (4) basalt rock deformation and petrophysical properties laboratory investigations at high temperature and pressure conditions.
ISSN: 0375-6505

hal-00921127
https://hal-brgm.archives-ouvertes.fr/hal-00921127
DOI : 10.1016/j.geothermics.2013.07.008

Éditeur(s) : HAL CCSD American Geophysical Union (AGU)
Résumé : International audience
The El Oro metamorphic province of SW Ecuador is a composite massif made of juxtaposed terranes of both continental and oceanic affinity that has been located in a fore-arc position since Late Paleozoic times. Various geochemical, geochronological, and metamorphic studies have been undertaken on the El Oro metamorphic province, providing an understanding of the origin and age of the distinct units. However, the internal structures and geodynamic evolution of this area remain poorly understood. Our structural analysis and thermal modeling in the El Oro metamorphic province show that this fore-arc zone underwent four main geological events. (1) During Triassic times (230–225 Ma), the emplacement of the Piedras gabbroic unit at crustal-root level (~9 kbar) triggered partial melting of the metasedimentary sequence under an E-W extensional regime at pressure-temperature conditions ranging from 4.5 to 8.5 kbar and from 650 to 900°C for the migmatitic unit. (2) At 226 Ma, the tectonic underplating of the Arenillas-Panupalí oceanic unit (9 kbar and 300°C) thermally sealed the fore-arc region. (3) Around the Jurassic-Cretaceous boundary, the shift from trench-normal to trench-parallel subduction triggered the exhumation and underplating of the high-pressure, oceanic Raspas Ophiolitic Complex (18 kbar and 600°C) beneath the El Oro Group (130–120 Ma). This was followed by the opening of a NE-SW pull-apart basin, which tilted the massif along an E-W subhorizontal axis (110 Ma). (4) In Late Cretaceous times, an N-S compressional event generated heterogeneous deformation due to the presence of the Cretaceous Celica volcanic arc, which acted as a buttress and predominantly affected the central and eastern part of the massif.
ISSN: 0278-7407

hal-01115714
https://hal.archives-ouvertes.fr/hal-01115714
DOI : 10.1002/2014TC003618

Éditeur(s) : Public Library Science
Résumé : The diversity of deep-water corals in the Caribbean Sea was studied using records from oceanographic expeditions performed by the R/V Pillsbury. Sampled stations were sorted according to broad depth ranges and ecoregions and were analyzed in terms of species accumulation curves, variance in the species composition and contributions to alpha, beta and gamma diversity. According to the analysis of species accumulation curves using the Chao2 estimator, more diversity occurs on the continental slope (200–2000 m depth) than on the upper continental shelf (60–200 m depth). In addition to the effect of depth sampling, differences in species composition related to depth ranges were detected. However, the differences between ecoregions are dependent on depth ranges, there were fewer differences among ecoregions on the continental slope than on the upper continental shelf. Indicator species for distinctness of ecoregions were, in general, Alcyonaria and Antipatharia for the upper continental shelf, but also the scleractinians Madracis myriabilis and Cladocora debilis. In the continental slope, the alcyonarian Placogorgia and the scleractinians Stephanocyathus and Fungiacyathus were important for the distinction of ecoregions. Beta diversity was the most important component of gamma diversity in the Caribbean Basin. The contribution of ecoregions to alpha, beta and gamma diversity differed with depth range. On the upper continental shelf, the Southern Caribbean ecoregion contributed substantially to all components of diversity. In contrast, the northern ecoregions contributed substantially to the diversity of the Continental Slope. Strategies for the conservation of deep-water coral diversity in the Caribbean Basin must consider the variation between ecoregions and depth ranges.
Plos One (1932-6203) (Public Library Science), 2014-03 , Vol. 9 , N. 3 , P. -

Droits : 2014 Ivan Hernandez-Avila. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Funding: Research visit to RSMAS was partially supported by Comisio´n de Investigacio´ n, Universidad de Oriente. No additional
http://archimer.ifremer.fr/doc/00187/29868/28326.pdf
DOI:10.1371/journal.pone.0092834
http://archimer.ifremer.fr/doc/00187/29868/

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
Correlations between major and minor transition elements in tectonically emplaced orogenic peridotites have been ascribed to variable degrees of melt extraction and melt–rock reaction processes, leading to depletion or refertilization. To elucidate how such processes are recorded in the subcontinental lithospheric mantle, we processed a large geochemical dataset for peridotites from the four tectono-metamorphic domains of the Beni Bousera orogenic massif (Rif Belt, northern Morocco). Our study reveals that variations in bulk-rock major and minor elements, Mg-number and modal mineralogy of lherzolites, as well as their clinopyroxene trace element compositions, are inconsistent with simple partial melting and mainly resulted from different reactions between melts and depleted peridotites. Up to 30% melting at < 3 GPa and cryptic metasomatism can account for the geochemical variations of most harzburgites. In Grt–Sp mylonites, melting and melt–rock reactions are masked by tectonic mixing with garnet pyroxenites and subsolidus re-equilibration. In the rest of the massif, lherzolites were mostly produced by refertilization of a refractory protolith (Mg-number ∼ 91, Ol ∼ 70%, Cpx/Opx = 0·4) via two distinct near-solidus, melt–rock reactions: (1) clinopyroxene and orthopyroxene precipitation and olivine consumption at melt/rock ratios <0·75 and variable mass ratio between crystallized minerals and infiltrated melt (R), which are recorded fairly homogeneously throughout the massif; (2) dissolution of orthopyroxene and precipitation of clinopyroxene and olivine at melt/rock ratios ≤1 and R = 0·2–0·3, which affected mainly the Ariègite–Seiland and Seiland domains. The distribution of secondary lherzolites in the massif suggests that the first refertilization reaction occurred prior to the differentiation of the Beni Bousera mantle section into petro-structural zones, whereas the second reaction was associated with the development of the tectono-metamorphic domains. Our data support a secondary, refertilization-related origin for most lherzolites in orogenic peridotite massifs.
ISSN: 0022-3530

hal-01526901
https://hal.archives-ouvertes.fr/hal-01526901
DOI : 10.1093/petrology/egx003

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
In the South Tien Shan range (Kyrgyzstan), the Late Paleozoic geodynamic evolution remains debated especially to the west of the Talas-Fergana fault (TFF) fault where suture-related high-pressure (HP) rocks are scarce. We provide new petrological and geochronological data on garnet amphibolites from the Chatkal range, to the west of the TFF, northwest of the South Tien Shan suture. These rocks are retrogressed eclogites. We used a micro-mapping approach combined with forward modeling and empirical thermobarometry to decipher the P–T path of these amphibolitized eclogites. The metamorphic peak conditions culminated at 490 ± 50 °C and 18.5 ± 2 kbar and were followed by higher temperature retrogression (∼560 °C at 11–7 kbar). In order to constrain the age of the HP stage, we dated allanite crystals texturally coeval to the HP mineral assemblage. Allanite grains dated in situ with a U–Pb LA-ICPMS methodology yield an age of 301 ± 15 Ma. Compared with previously published data for the east of the TFF, these P–T constraints allow improving the understanding of the Late Paleozoic geodynamic evolution of the South Tien Shan. To the east of TFF, the Turkestan Ocean closed around 320 Ma with the collision of the Tarim Craton with the Kazakh microcontinent. To the west of TFF, the Turkestan Ocean closed around 300 Ma, when the Alai block collided with the Kazakh microcontinent. This later collision involved nappe-stacking and intense subvertical folding in the western South Tien Shan. This complex folding explains the S-shape of the suture to the west of the TFF that cannot be observed in the eastern part. These new data allow us to propose a distinct tectonic evolution of the two sides of the TFF, which suggests that this fault was a major transform fault before being a strike-slip intra-continental fault.
ISSN: 0264-3707

hal-01347171
https://hal.archives-ouvertes.fr/hal-01347171
DOI : 10.1016/j.jog.2015.06.005

Éditeur(s) : HAL CCSD Elsevier
Résumé : Primary arc melts may form through fluxed or adiabatic decompression melting in the mantle wedge, or via a combination of both processes. Major limitations to our understanding of the formation of primary arc melts stem from the fact that most arc lavas are aggregated blends of individual magma batches, further modified by differentiation processes in the sub-arc mantle lithosphere and overlying crust. Primary melt generation is thus masked by these types of second-stage processes. Magma-hosted peridotites sampled as xenoliths in subduction zone magmas are possible remnants of sub-arc mantle and magma generation processes, but are rarely sampled in active arcs. Published studies have emphasised the predominantly harzburgitic lithologies with particularly high modal orthopyroxene in these xenoliths; the former characteristic reflects the refractory nature of these materials consequent to extensive melt depletion of a lherzolitic protolith whereas the latter feature requires additional explanation.Here we present major and minor element data for pristine, mantle-derived, lava-hosted spinel-bearing harzburgite and dunite xenoliths and associated primitive melts from the active Kamchatka and Bismarck arcs. We show that these peridotite suites, and other mantle xenoliths sampled in circum-Pacific arcs, are a distinctive peridotite type not found in other tectonic settings, and are melting residues from hydrous melting of silica-enriched mantle sources. We explore the ability of experimental studies allied with mantle melting parameterisations (pMELTS, Petrolog3) to reproduce the compositions of these arc peridotites, and present a protolith (‘hybrid mantle wedge’) composition that satisfies the available constraints. The composition of peridotite xenoliths recovered from erupted arc magmas plausibly requires their formation initially via interaction of slab-derived components with refractory mantle prior to or during the formation of primary arc melts. The liquid compositions extracted from these hybrid sources are higher in normative quartz and hypersthene (i.e., they have a more silica-saturated character) in comparison with basalts derived from prior melt-depleted asthenospheric mantle beneath ridges. These primary arc melts range from silica-rich picrite to boninite and high-Mg basaltic andesite along a residual spinel harzburgite cotectic. Silica enrichment in the mantle sources of arc-related, subalkaline picrite-boninite-andesite suites coupled with the amount of water and depth of melting, are important for the formation of medium-Fe (‘calc-alkaline’) andesite-dacite-rhyolite suites, key lithologies forming the continental crust.
ISSN: 0016-7037

hal-01553520
https://hal.archives-ouvertes.fr/hal-01553520
DOI : 10.1016/j.gca.2016.09.030

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
The formation of ovarian follicles is a finely tuned process that takes place within a narrow time-window in rodents. Multiple factors and pathways have been proposed to contribute to the mechanisms triggering this process but the role of endocrine factors, especially estrogens, remains elusive. It is currently hypothesized that removal from the maternal hormonal environment permits follicle formation at birth. However, experimentally-induced maintenance of high 17β-estradiol (E2) levels leads to subtle, distinct, immediate effects on follicle formation and oocyte survival depending on the species and dose. In this study, we examined the immediate effects of neonatal E2 exposure from post-natal day (PND) 0 to PND2 on the whole organism and on ovarian follicle formation in rats. Measurements of plasma E2, estrone and their sulfate conjugates after E2 exposure showed that neonatal female rats rapidly acquire the capability to metabolize and clear excessive E2 levels. Concomitant modifications to the mRNA content of genes encoding selected E2 metabolism enzymes in the liver and the ovary in response to E2 exposure indicate that E2 may modify the neonatal maturation of these organs. In the liver, E2 treatment was associated with lower acquisition of the capability to metabolize E2. In the ovary, E2 depleted the oocyte pool in a dose dependent manner by PND3. In 10 µg/day E2-treated ovaries, apoptotic oocytes were observed in newly formed follicles in addition to areas of ovarian cord remodeling. At PND6, follicles without any visible oocyte were present and multi-oocyte follicles were not observed. Our study reveals a major species-difference. Indeed, neonatal exposure to E2 depletes the oocyte pool in the rat ovary, whereas in the mouse it is well known to increase oocyte survival.
ISSN: 1932-6203

hal-00936582
https://hal-univ-rennes1.archives-ouvertes.fr/hal-00936582
https://hal-univ-rennes1.archives-ouvertes.fr/hal-00936582/document
https://hal-univ-rennes1.archives-ouvertes.fr/hal-00936582/file/Systemic_Compensatory_Response-accepted.pdf
DOI : 10.1371/journal.pone.0082175

Éditeur(s) : Wiley-blackwell
Résumé : Aim The aims of this study were: (1) to identify global communities of tuna and billfish species through quantitative statistical analyses of global fisheries data; (2) to describe the spatial distribution, main environmental drivers and species composition of each community detected; and (3) to determine whether the spatial distribution of each community could be linked to the environmental conditions that affect lower trophic levels by comparing the partitions identified in this study with Longhursts biogeochemical provinces. Location The global ocean from 60 degrees S to 65 degrees N. Methods We implemented a new numerical procedure based on a hierarchical clustering method and a nonparametric probabilistic test to divide the oceanic biosphere into biomes and ecoregions. This procedure was applied to a database that comprised standardized data on commercial longline catches for 15 different species of tuna and billfish over a period of more than 50 years (i.e. 1953-2007). For each ecoregion identified (i.e. characteristic tuna and billfish community), we analysed the relationships between species composition and environmental factors. Finally, we compared the biogeochemical provinces of Longhurst with the ecoregions that we identified. Results Tuna and billfish species form nine well-defined communities across the global ocean. Each community occurs in regions with specific environmental conditions and shows a distinctive species composition. High similarity (68.8% homogeneity) between the spatial distribution of the communities of tuna and billfish and the biogeochemical provinces suggests a strong relationship between these species and the physical and chemical characteristics of the global ocean. Main conclusions Despite their high tolerance for a wide range of environmental conditions, these highly migratory species are partitioned into clear geographical communities in the ocean at a global scale. The similarity between biogeochemical and biotic divisions in the ocean suggests that the global ocean is a mosaic of large biogeographical ecosystems, each characterized by specific environmental conditions that have a strong effect on the composition of the trophic web.
Journal Of Biogeography (0305-0270) (Wiley-blackwell), 2012-01 , Vol. 39 , N. 1 , P. 114-129

Droits : 2011 Blackwell Publishing Ltd
http://archimer.ifremer.fr/doc/00060/17141/14716.pdf
DOI:10.1111/j.1365-2699.2011.02582.x
http://archimer.ifremer.fr/doc/00060/17141/

Éditeur(s) : HAL CCSD
Résumé : Does the language in which the instructions are formulat- ed affect the execution of a bilingual's motor task? The first experiment studies whether the language used for the instructions influences the motor performances among bilingual children in situation of learning. Eighty bilin-gual French/Creole children (age means 10.4) were distributed into two experimental groups to learn how to perform a motor task. One group received instructions in French and the other one in Creole. The data suggest that the language of presentation affects the execution of a motor task. Both groups had the same performance level at the beginning of the experiment. We noticed that the group taught in Creole obtained better performances than the group taught in French at the end of the learning situation. The results are discussed in terms of their implications to physical education and motor rehabilitation of bilinguals. The two following experiments reported in the present paper concern (i) the differential imagery value of French and Creole and (ii) the influence of language on the recall of sequences of patterned movements in a bilingual population. Creole words were obtained a higher imagery value than French words, certainly because Creole is an oral and vernacular language. Motor recall scores were better when the sequence was presented in Creole compared to French. The generation of visual images by Creole would facilitate the memorization and recall of new sequences of movements. The effect of language on imagery value of words and motor recall among bilingual French–Creole subjects was discussed in terms of nature of information encoding in each language. The goal of the fourt and last study tries to know the language impact on the movement imagery ability of guadeloupean children. A person is able to represent verbal information with an image (Denis, 1989; Paivio, 1986). The language can he influence this ability on bilingual individuals? If Creole has more to do with image than French (Michelot, 2000), this survey considers a distinct language influence on the mental images vividness specified by guadeloupean children. 123 secondary school pupils (average age 13.45) altogether accepted to fill in the Movement Imagery Questionnaire of Hall and Pongrac (1983). This test enables to measure the rapidity of visual and kinaesthetic images. The “Creole” group (59 children; average age 13. 43) got the MIQ translated in Creole and the “French” group (64 children; average age 13.46) the French version of the test. Finally, language does not generally influence the movement imagery capacity. Yet, the kinaesthetic images are more vivid in French than in Creole for the subjects tested, aged from 11 to 13. The subjects aged from 14 to 16 have, only in Creole, more vivid visual images than the subjects aged from 11 to 13. The language affects the movement imagery ability with age of this guadeloupean children.
L'exécution d'une tâche motrice chez des bilingues est-elle affectée par la langue dans laquelle les consignes sont formulées ? Une première expérience a été menée en vue d'analyser si la langue de présentation des consignes influence les performances motrices d'enfants bilingues en situation d'apprentissage. Quatre-vingt bilingues français/créole (âge moyen : 10,4 ans) ont été répartis dans deux groupes expérimentaux afin d'apprendre à réaliser une tâche motrice, l'un recevant les consignes en français et l'autre en créole. Les données suggèrent que la langue de présentation affecte l'exécution d'une tâche motrice. Le groupe enseigné en créole obtient de meilleures performances en fin d'apprentissage comparativement à celles obtenues par le groupe enseigné en français, alors que les deux groupes ont au départ un niveau comparable. Ces résultats sont discutés sur le plan de leur implication pour l'éducation physique et la réadaptation motrice des bilingues. Les deux expérimentations suivantes évaluent (i) la valeur d'imagerie de mots et (ii) le rappel moteur d'enchaînements auprès de bilingues français–créole en faisant varier la langue de présentation. Les mots en créole, supposés susciter plus facilement des images mentales visuelles, car le créole est une langue orale et vernaculaire, ont effectivement obtenu une cote plus élevée que les mots français sur l'échelle de valeur d'imagerie. L'évocation d'images visuelles facilitant la mémorisation et la planification de séquences de mouvements, les performances de rappel obtenues à partir des consignes en créole ont été supérieures à celles obtenues en français. Les effets de la langue de présentation sur la valeur d'imagerie des mots et le rappel moteur d'enchaînements de morphocinèses auprès des participants bilingues sont discutés en termes de nature d'encodage de l'information verbale dans chacune des langues. L'objectif de cette quatrième et dernière recherche est de connaître l'impact de la langue sur la capacité d'imagerie du mouvement d'enfants guadeloupéens. Un individu peut se représenter des informations verbales sous une forme imagée (Denis, 1989; Paivio, 1986). La langue peut-elle influencer cette capacité chez des individus bilingues ? Le créole étant plus imagé que le français (Michelot, 2000), nous prévoyons une influence distincte de la langue sur le degré de vivacité des images mentales. Cent-vingt-trois collégiens guadeloupéens (âge moyen 13.45) ont rempli un questionnaire d'imagerie du mouvement (MIQ de Hall et Pongrac, 1983) mesurant la vivacité d'images visuelles et kinesthésiques. Un groupe «créole» (59 enfants; âge moyen 13.43) l'a passé en créole et un groupe «français» (64 enfants; âge moyen 13.46) en français. Finalement, la langue n'influence pas la capacité d'imagerie mentale de notre échantillon. Mais la vivacité des images kinesthésiques est supérieure en français chez les sujets de 11 à 13 ans et celle des images visuelles des sujets de 14 à 16 ans est supérieure à celle des sujets de 11 à 13 ans seulement en créole. La langue semble influencer la capacité d'imagerie mentale des sujets en fonction de l'âge.
https://tel.archives-ouvertes.fr/tel-00441944

Droits : info:eu-repo/semantics/OpenAccess
tel-00441944
https://tel.archives-ouvertes.fr/tel-00441944
https://tel.archives-ouvertes.fr/tel-00441944/document
https://tel.archives-ouvertes.fr/tel-00441944/file/These_Anciaux_2003_L_enfant_le_creole_et_l_EPS.pdf