Éditeur(s) : HAL CCSD Elsevier
Résumé : This study analyzes the records of several trace metals sensitive to redox conditions in continental shelf sediments off Concepcion, Chile (36 degrees S). The continental margin off Concepcion (36 S; 73 W) lies beneath an important upwelling center characterized by high primary production rates and, consequently, high fluxes of organic matter. In spring and summer, this material settles to the seafloor where it decays, producing periods of very low oxygen content in bottom waters (<1 mL L-1). In addition, an oxygen minimum zone develops at similar to 100-400 m water depth, where dissolved oxygen levels are <0.5 mL L-1. This situation changes during strong El Nino events, when dissolved oxygen at the bottom increases drastically (>1 mL L-1).;The goals of this study were to determine the input of trace metals to the sediment and to decipher how this information can be used to reveal variations in primary productivity or bottom oxygenation. Gravity cores collected at two stations - VG06-2 over the mid-shelf station (88 m water depth, upper boundary of the oxygen minimum zone) and VG06-3 over the outer shelf (120 m water depth, within the oxygen minimum zone) - were sampled for high resolution profiles (1 cm) of trace metals, biogenic opal, stable isotopes, and total organic carbon. The results suggest that the variability in the trace metal distribution on the continental shelf off Concepcion is determined by redox conditions and the organic carbon flux to the bottom. Some sections of the sediment cores from the outer shelf showed appreciable authigenic enrichment of U, Cd, and Mo (EF: 5-10, 2-5, and 10-16 respectively) along with heavier values of delta N-15, suggesting periods of suboxic conditions. During these periods, fluxes of organic material to the bottom were higher, as indicated by elevated TOC and opal contents. Alternating periods of higher and lower trace metal contents were not observed mid-shelf as they were on the outer shelf. Rather, the mid-shelf samples showed authigenic enrichment of U, Cd, and Mo (EF: 1-6, 4-5, and 10-20, respectively) throughout the core except in a 10-cm-thick gray layer. In general, authigenic enrichment of U. Mo, and Cd occurred at both sites, coincident with olive green layers in the cores. These layers were associated with periods of elevated primary productivity and suboxic conditions. Such periods did not seem to last as long as the oxygenated periods, which had higher inputs of refractive detrital material, coincident with the occurrence of distinct gray sediment layers.
ISSN: 0079-6611

hal-00682159
https://hal.archives-ouvertes.fr/hal-00682159
DOI : 10.1016/j.pocean.2011.07.010

Éditeur(s) : Université des Antilles Études caribéennes
Résumé : Depuis le passage du cyclone Hugo en 1989, la Guadeloupe est plus ou moins préparée à affronter un nouvel évènement cyclonique (alerte météo, abris anti-cycloniques, etc.). En revanche, pour ce qui concerne les tsunamis, ce n’est que depuis quelques années (après le tsunami de 2004 dans l’océan indien, le séisme de Haïti de 2010 et le tsunami du Japon de 2011) qu’une prise de conscience du risque encouru dans la Caraïbe et plus particulièrement dans l’archipel guadeloupéen s’est faite. Des projets d’évaluation de ces risques ont alors vu le jour et c’est dans le cadre de l’un d’eux (projet INTERREG IV TSUNAHOULE) que l’étude de l’aléa submersion marine pour la réserve naturelle de Petite-Terre a été réalisée. Au travers de 3 scénarios extrêmes choisis en accord avec les connaissances météorologiques et géologiques de la région, les impacts modélisés d’un tsunami, d’une houle de nord longue période et d’un cyclone de catégorie 4-5 sont présentés et discutés distinctement après avoir dressé un bilan des différents enjeux de la réserve, ce qui mène à une réflexion sur la vulnérabilité des occupants de la réserve face à ces aléas naturels.
Since the tropical hurricane Hugo devastated Guadeloupe Archipelago in 1989, the island is more or less prepared to face another cyclonic event (alerts, shelters, etc.). On the other hand, tsunamis have only become a great concern in the Caribbean and more particularly in Guadeloupe for a couple of years (after the 2004 Indian Ocean tsunami, the 2010 Haiti earthquake and the 2011 Japan tsunami). Thus research projects have been led to try to assess marine submersion hazards as the INTERREG IV TSUNAHOULE project in which this study of the natural sanctuary of Petite-Terre has been done. Through 3 extreme scenarios chosen in agreement with meteorological and geological knowledge in the region, the modeled impact of a tsunami, a long period north swell, and a 4-5 category hurricane are presented and discussed separately after having detailed the different stakes of the sanctuary, which leads to start on thought about the vulnerability of its inhabitants, temporary or not, in front of those natural hazards.
Guadeloupe
Petite-Terre

Droits : info:eu-repo/semantics/openAccess
urn:doi:10.4000/etudescaribeennes.6643
http://journals.openedition.org/etudescaribeennes/6643

Éditeur(s) : HAL CCSD Endocrine Society
Résumé : International audience
Sertoli cells (SCs), the only somatic cells within seminiferous tubules, associate intimately with developing germ cells. They not only provide physical and nutritional support but also secrete factors essential to the complex developmental processes of germ cell proliferation and differentiation. The SC transcriptome must therefore adapt rapidly during the different stages of spermatogenesis. We report comprehensive genome-wide expression profiles of pure populations of SCs isolated at 5 distinct stages of the first wave of mouse spermatogenesis, using RNA sequencing technology. We were able to reconstruct about 13 901 high-confidence, nonredundant coding and noncoding transcripts, characterized by complex alternative splicing patterns with more than 45% comprising novel isoforms of known genes. Interestingly, roughly one-fifth (2939) of these genes exhibited a dynamic expression profile reflecting the evolving role of SCs during the progression of spermatogenesis, with stage-specific expression of genes involved in biological processes such as cell cycle regulation, metabolism and energy production, retinoic acid synthesis, and blood-testis barrier biogenesis. Finally, regulatory network analysis identified the transcription factors endothelial PAS domain-containing protein 1 (EPAS1/Hif2α), aryl hydrocarbon receptor nuclear translocator (ARNT/Hif1β), and signal transducer and activator of transcription 1 (STAT1) as potential master regulators driving the SC transcriptional program. Our results highlight the plastic transcriptional landscape of SCs during the progression of spermatogenesis and provide valuable resources to better understand SC function and spermatogenesis and its related disorders, such as male infertility.
ISSN: 0888-8809

hal-01146846
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01146846
DOI : 10.1210/me.2014-1356
PUBMED : 25710594

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
Two types of olivine occur in kimberlites from Greenland, Canada and southern Africa. The first, xenocrystic olivine, displays several different forms. Most distinctive are 'nodules', a term we use to describe the large (1-5 mm), rounded, single crystals or polycrystalline aggregates that are a common constituent of many kimberlites. Olivine compositions are uniform within single nodules but vary widely from nodule to nodule, from Fo81 to 93. Within many nodules, sub- to euhedral asymmetric tablets have grown within larger anhedral olivine grains. Dislocation structures, particularly in the anhedral grains, demonstrate that this olivine was deformed before being incorporated into the kimberlite magma. Olivine grains in the kimberlite matrix between the nodules have morphologies similar to those of the tablets, suggesting that most matrix olivine grains are parts of disaggregated nodules. We propose that a sub- to euhedral form is not sufficient to identify phenocrysts in kimberlites and provide some criteria, based on morphology, internal deformation and composition, that distinguish phenocrysts from xenocrysts. The second type of olivine is restricted to rims surrounding xenocrystic grains. Only this olivine crystallized from the kimberlite magma. Major and trace element data for the rim olivine are used to calculate the composition of the parental kimberlite liquid, which is found to contain between about 20 and 30% MgO. The bulk compositions of many kimberlites contain higher MgO contents as a result of the presence of xenocrystic olivine. The monomineralic, dunitic, character of the nodules, and the wide range from Fo-rich to Fo-poor olivine compositions, provide major constraints on the origin of the nodules. Dunite is a relatively rare rock in the mantle and where present its olivine is persistently Fo-rich. The dunitic source of the nodules in kimberlites lacked minerals such as pyroxene and an aluminous phase, which make up about half of most mantle-derived rocks. It appears that these minerals were removed from the mantle peridotite that was to become the source of the nodules, and the Fo content of the retained olivine was modified during interaction with CO2-rich fluids whose arrival at the base of the lithosphere immediately preceded the passage of the kimberlite magmas. Fragments of the resultant dunite were entrained into the kimberlite, where they were retained both as intact nodules and as disaggregated grains in the matrix.
ISSN: 0022-3530

insu-00543321
https://hal-insu.archives-ouvertes.fr/insu-00543321
BIBCODE : 10.1093/petrology/egp080
DOI : 10.1093/petrology/egp080

Éditeur(s) : HAL CCSD Institut de Géographie Alpine
Résumé : International audience
The international symposium on «Urban Growth and Natural Hazards, in particular in Developing Countries» was held in the University Blaise Pascal, Clermont-Ferrand (France) on December 2 and 3, 1994. This meeting brought together about 70 research people, Ph.D. students, and professionals from France and 12 countries, representing universities, research agencies, as well as government and private companies. The symposium aimed to gather specialized people who are engaged and acting in programmes on hazard appraisal, risk prevention and urban management in city environment. These people aimed to compare experiences acquired in two different fields: on the one hand urban growth and its consequences, and on the other hand, natural hazards and effects, in particular in Developing Countries.Half-way through the International Decade for Natural Hazard Disaster Reduction, we strove to reconcile two points of view usually distincts: nature-oriented research and society-oriented research on hazards. These convergent approaches should merge, not only to improve knowledge of natural hazards and risks, but also to cope with hazard and risk situation on a day-basis in a city. We also choose to study both approaches in Developing Countries (DC) because most of the large cities of the world already are or will be located there in near future. In addition, city location in DC coincides with tropical areas where natural hazards are most frequent threats to life, in particular in mountains, on seashores, and on active convergent plate margins. We stress the fact that the 3 following topics are often lacking in studies which have been carried out on natural hazard appraisal and management. 1) How should we include social and economical factors, and particularly a sound analysis of vulnerability of people and values at risk ? 2) How should we cope with hazard management in large cities of Developing Countries ? 3) What is the specific task of research people in hazard case studies engaged in urban environment and management?Three themes correspond to the three sessions of the symposium. (1) Natural hazards and environmental factors : inventory, diagnostic and classification, (2) Vulnerability of urban society and environment : concepts, approaches, and classification, (3) Tools for urban risk prevention and risk management in case of crisis and catastrophes.
Ce numéro de la Revue de Géographie Alpine reprend une dizaine parmi les 41 contributions exposées par des chercheurs français et étrangers lors du colloque international « Croissance urbaine et risques naturels dans les pays en développement » qui s'est déroulé à l'Université Blaise Pascal, Clermont-Ferrand, les 2 et 3 décembre 1994. L'objectif général du colloque était de rassembler les diverses compétences existant en France et à l'étranger dans le domaine de l'évaluation et de la gestion des risques naturels et de confronter les expériences acquises à l'interface entre les villes en croissance et le champ d'action des phénomènes naturels créateurs de risques. Le colloque a donc réuni des chercheurs, des doctorants et des praticiens français et leurs collègues étrangers chargés de prévention, de gestion des risques naturels et de gestion urbaine, principalement dans les grandes villes des pays en développement (P.E.D.).Parvenus à mi-chemin de la Décennie Internationale pour la Prévention des Catastrophes Naturelles, nous avons porté des regards croisés sur les approches naturalistes et sociologiques des risques naturels. Il est maintenant nécessaire de faire converger ces approches, non seulement dans la connaissance des menaces et des risques, mais dans la gestion du risque quotidien en milieu urbain. Nous avons concentré ces approches dans les pays en développement ; en effet, le site de leurs grandes villes coïncide souvent avec le champ d'action des phénomènes naturels générateurs de risques, notamment dans la zone intertropicale et en particulier dans les marges continent ales actives (par exemple autour du Pacifique).Nous avons porté l'accent sur 3 points principaux, qui semblent en partie faire défaut dans les études et les méthodes actuellement mises en oeuvre dans la gestion des risques naturels : 1) comment prendre en compte les aspects socio-économiques, en particulier les types d'analyse des vulnérabilités ? 2) comment aborder la gestion des risques en milieu urbain dans les P.E.D. ? 3) quel rôle doit jouer le chercheur en Sciences de l'Homme, de la Société et de la Terre dans les analyses, les expertises consacrées aux risques et surtout dans leur gestion globale, à la charnière des sociétés citadines précaires et des milieux « naturels » contraignants ?Les contributions ont été regroupées, exposées et discutées lors du colloque sous forme de 3 thèmes. (1) Les phénomènes naturels créateurs de dommages (= menaces) : diagnostic, inventaire et typologie, (2) Les vulnérabilités des sociétés et des espaces urbanisés : concepts, typologie et modes d'analyse, (3) Les outils d'aide à la prévention et à la gestion du risque en milieu urbain.
Colloque international : "Croissance urbaine et risques naturels dans les pays en développement"
Clermont-Ferrand, Université Blaise Pascal, France

ISBN : 0035-1121
hal-01165252
https://hal.archives-ouvertes.fr/hal-01165252

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
The processes active in the deep crust above an oceanic subduction zone during its evolution have been constrained through a detailed geochemical study (major and trace elements and Sr, Nd and Pb isotopes) of representative samples through an 30 km thick exhumed crustal section of the Cretaceous Kohistan oceanic island arc (Northern Pakistan). The use of both trace elements and radiogenic isotopes reveals two distinct geochemical suites (suites A and B) within the JijalPatanKiruKamila (JPKK) complex. Suite A is characterized by a progressive enrichment in Pb-207 and a decrease in Nd-143/Nd-144 with increasing La-N/Sm-N. Suite B has higher Pb-207/Pb-204 and lower Nd-143/Nd-144 ratios with approximately constant La-N/Sm-N. By combining trace elements with different partitioning behaviour it is demonstrated that there is an increasing contribution of the subduction component in the magmas with time. It is also possible to distinguish a slab component imprint carried by aqueous fluids from one corresponding to sediment melts. Intrusive granites are abundant in the upper levels of the JPKK section. All were generated at the arc root level (Jijal crustal section) during dehydration-melting of hornblende-rich plutonic rocks. A three-stage geodynamic model is proposed for the evolution of the arc over a period of 30 Myr. The first stage (117105 Ma) starts with the onset of subduction, which was followed by the building of the volcanic arc. The second stage (10599 Ma to 9691 Ma) corresponds to a major igneous event, which was characterized by abundant magma underplating and granulite-facies metamorphism at the arc base. Recycling of the residualcumulative lower crust into the convective asthenospheric mantle was efficient during this stage, and was probably related to thermo-mechanical erosion of the base of the crust. The last stage (9585 Ma) corresponds to a period of low magmatic activity, which marked the end of the intra-oceanic subduction. This is related to the formation of a cold blanket above the slab surface as a result of thermo-mechanical erosion of the cold walls of the subduction zone (i.e. the upper part of the slab and the base of the overriding plate), and corner flow dragging the cold material into the zone of melt generation. Ultimately, a voluminous magmatic pulse occurred around 85 Ma (forming the Chilas complex), before arccontinent collision.
ISSN: 0022-3530

hal-00420068
https://hal.archives-ouvertes.fr/hal-00420068
DOI : 10.1093/petrology/egp010

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Ecosystems are commonly affected by natural, episodic disturbances that can abruptly and drastically alter communities. Although it has been shown that resilient ecosystems can eventually recover to pre-disturbed states, the extent to which communities in early stages of recovery could be affected by multiple anthropogenic stressors is poorly understood. Pervasive and rising anthropogenic stressors in coastal marine systems that could interactively affect the recovery of these systems following natural disturbances include high sedimentation, nutrient enrichment, and overfishing. Using a 6-month field experiment, we examined the effects of all combinations of these three stressors on key functional groups in the benthic community growing on simulated, post-disturbance reef patches within a system recovering from large-scale natural disturbances (corallivorous seastar outbreak and cyclone). Our study revealed that sedimentation, nutrient enrichment, and overfishing (simulated using exclusion cages) interactively affected coral survival and algal growth, with taxon-specific effects at multiple scales. First, our treatments affected corals and algae differently, with sedimentation being more detrimental to macroalgal growth but less detrimental to coral (Porites rus) survival in caged plots, driving significant interactions between sedimentation and caging for both taxa. We also observed distinct responses between coral species and between algal functional groups, with the most extensive responses from algal turf biomass, for which sedimentation suppressed the synergistic (positive) combined effect of nutrient enrichment and caging. Our findings suggest that different combinations of ubiquitous anthropogenic stressors, related to either sea- or land-based activities, interactively influence community recovery from disturbance and may alter species compositions in the resulting community. Our findings further suggest that anthropogenic stressors could promote further degradation of coral reefs following natural disturbances by inhibiting recovery to coral-dominated states that provide vital ecosystem services to coastal populations worldwide.
ISSN: 0722-4028

hal-01430977
https://hal-univ-perp.archives-ouvertes.fr/hal-01430977
DOI : 10.1007/s00338-016-1489-x

Éditeur(s) : Société Française d'Ichtyologie
Résumé : On the basis of geographical distribution and morphological analysis of the Atlantic Howella , two subspecies of H. brodiei have been established, H. brodiei brodiei for the IndoPacific and H. brodiei atlanlica for the tropical and boreal Atlantic. H. sherborni has been recognized as a separate species, probably distributed circumglobally in southern Ocean but presently recorded only from the South Atlantic, the central South Pacific and from off southern and south-eastern Australia respectively. H. b. atlanlica and H. b. brodiei are distinct by having 3 scale rows between the lateral line and the origin of the second dorsal fin, while H. sherborni has 4 scale rows there. H. sherborni is in geographical contact with the two subspecies while H. b. brodiei and H. b. atlantica are geographically isolated from each other. The new subspecies, H. b. atlantica occurs in the North Atlantic and the tropical South Atlantic. Specimens from 75 mm SL and longer, predominantly occur in the boreal areas, while specimens less than that length occur in the tropical areas respectively. A day and night bathymetric distribution and a size-depth stratification have been observed. NOT CONTROLLED OCR
L'étude de la distribution et l'analyse des caractères méristiques des Howella de l'Atlantique montre la présence dans les régions tempérées nord et tropicales d'une sous-espèce nouvelle, H. brodiei atlantica, et dans la zone tempérée sud de H. sherborni. H. sherborni, caractérisé par 4 rangées d'écailles entre la ligne latérale et l'origine de la seconde dorsale, est au contact, dans l'Atlantique, de H. b. atlantica et, dans les Océans Indien et Pacifique de H. b. brodiei; ces deux sous-espèces, isolées géographiquement, possèdent 3 rangées d'écailles entre la ligne latérale et l'origine de la seconde dorsale. Les exemplaires d'H. b. atlanlica mesurant 75 mm LS ou plus ont été capturés dans la zone tempérée de l'Atlantique nord et ceux de moins de 75 mm principalement dans l'Atlantique tropical et subtropical nord. Les différences de distribution bathymétrique, le jour et la nuit et selon les tailles, sont étudiées chez H. b. atlanlica et H. sherborni. OCR NON CONTRÔLE
Cybium (Société Française d'Ichtyologie), 1991-02 , Vol. 15 , N. 2 , P. 111-128

Droits : 1991 Société Française d'Ichtyologie
http://archimer.ifremer.fr/doc/1991/publication-3769.pdf
http://archimer.ifremer.fr/doc/00000/3769/

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

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

Éditeur(s) : HAL CCSD
Résumé : Evolution of organisms, genomes and genes does not strictly follow a tree-like process; symbiosis, horizontal gene transfers and gene fusions build high level composite objects with components of phylogenetically distinct origins. Such processes have been called introgressive events and are significant in evolution. They are involved in some major evolutionary transitions such as eukaryogenesis, photosynthesis acquisition in eukaryotes and the origins of major archaeal clades. Eukaryogenesis would have involved (at least) two kinds of partners: an archaeon and an alpha-proteobacterium. Photosynthetic eukaryotes arose from the integration of a cyanobacterium into a eukaryotic cell and recent findings suggested that most archaeal lineages emerged after massive acquisitions of bacterial genes. These composite lineages carry highly chimeric genomes where genes from symbiotic partners co-localize into the same genome. During my PhD thesis, I used sequence similarity networks and phylogenetic methods in order to study reticulate evolution. My research specifically focused on a previously hidden component of composite genomes: symbiogenetic genes (S genes). These chimeric genes are found in genetic mergers, and originate from the association of genes of symbiotic partners. Some association rules have been discovered. In a broad perspective, the discovery of S-genes extends the concept of genome chimerism to the within-gene level.
L'évolution des organismes, des génomes et des gènes n'est pas strictement arborescente; les symbioses, les transferts horizontaux de gènes ou encore la fusion de gènes créent des objets composites formés de parties dont les histoires évolutives sont différentes. Ces processus non arborescents sont appelés introgressifs et ont un impact non négligeable en évolution. Ils sont à l'origine de transitions évolutives majeures comme l'émergence des eucaryotes, des eucaryotes photosynthétiques ou encore de nombreux groupes d'Archaea. Dans le cas des eucaryotes, l'association et la stabilisation d'une Archaea et d'une alpha-protéobactérie a permis l'émergence d'un nouveau groupe d'organismes composites aux propriétés émergentes. L'acquisition de la photosynthèse chez les eucaryotes s'est faite via l'endosymbiose d'une cyanobactérie et, bien que débattue, l'apparition des grands groupes d'Archaea semble être concomitante avec l'acquisition de nombreux gènes d'origine bactérienne. Ces superorganismes ont la particularité d'avoir des génomes composés de gènes de différents partenaires symbiotiques. L'objectif de mon travail de thèse a constitué à étudier l'aspect introgressif de l'évolution par des méthodes de réseaux de similarité de séquence et des méthodes phylogénétiques. Je me suis particulièrement focalisé sur la détection de nouveaux gènes chimériques nommés gènes symbiogénétiques (S-gènes) car composés de parties originaires des différents partenaires symbiotiques. De tels gènes existent dans les génomes et plusieurs règles d'association ont pu être mises en évidence. Plus généralement, la présence de S-gènes étend la notion de mosaïcisme génomique au niveau infra-génique.
https://tel.archives-ouvertes.fr/tel-01536344

NNT : 2016PA066534
tel-01536344
https://tel.archives-ouvertes.fr/tel-01536344
https://tel.archives-ouvertes.fr/tel-01536344/document
https://tel.archives-ouvertes.fr/tel-01536344/file/2016PA066534.pdf

Éditeur(s) : HAL CCSD Cambridge University Press
Résumé : International audience
Genetic variation was examined in two complex cases of Indo-Pacific pygmy angelfishes (genus Centropyge; Pomacanthidae). The lemonpeel pygmy angelfish C. flavissima (Cuvier and Valenciennes) has a geographically disjunct Indian vs. Pacific distribution and the individuals from these two regions differ by their colour patterns. Previous research on C. flavissima has shown mitochondrial introgression from two related species, C. eibli in the eastern Indian Ocean and C. vrolikii in the Pacific Ocean. Using the 16S rDNA and the CO1 gene as phylogeographic markers, we found no mitochondrial haplotypes in common between Indian Ocean C. flavissima and C. eibli, confirming partial genetic isolation, albeit recent. Also, we found substantial genetic differences between Indian and Pacific C. flavissima populations at the nuclear ETS-2 intron locus. The Indian Ocean form of C. flavissima, thus geographically isolated by >2000 km distance from its Pacific Ocean counterpart, is described as a new species, Centropyge cocosensis sp. nov. Centropyge cocosensis sp. nov. differs in appearance from C. flavissima in having a conspicuous blue iris and a fainter, bluish eye ring. We also found that the yellow pygmy angelfish C. heraldi Woods and Schultz consists of two genetically distinct entities, one distributed widely in the northern tropical Indo-West Pacific, the other distributed in the southern Pacific Ocean. The name originally given to the blackfin pygmy angelfish, C. woodheadi Kuiter, is here resurrected to designate the latter.
EISSN: 1755-2672

hal-01340521
https://hal-univ-perp.archives-ouvertes.fr/hal-01340521
DOI : 10.1007/s12526-016-0509-y

Éditeur(s) : HAL CCSD Ecological Society of America
Résumé : Reliable assessment of fish origin is of critical importance for exploited species, since nursery areas must be identified and protected to maintain recruitment to the adult stock. During the last two decades, otolith chemical signatures (or "fingerprints") have been increasingly used as tools to discriminate between coastal habitats. However, correct assessment of fish origin from otolith fingerprints depends on various environmental and methodological parameters, including the choice of the statistical method used to assign fish to unknown origin. Among the available methods of classification, Linear Discriminant Analysis (LDA) is the most frequently used, although it assumes data are multivariate normal with homogeneous within-group dispersions, conditions that are not always met by otolith chemical data, even after transformation. Other less constrained classification methods are available, but there is a current lack of comparative analysis in applications to otolith microchemistry. Here, we assessed stock identification accuracy for four classification methods (LDA, Quadratic Discriminant Analysis [QDA], Random Forests [RF], and Artificial Neural Networks [ANN]), through the use of three distinct data sets. In each case, all possible combinations of chemical elements were examined to identify the elements to be used for optimal accuracy in fish assignment to their actual origin. Our study shows that accuracy differs according to the model and the number of elements considered. Best combinations did not include all the elements measured, and it was not possible to define an ad hoc multielement combination for accurate site discrimination. Among all the models tested, RF and ANN performed best, especially for complex data sets (e. g., with numerous fish species and/or chemical elements involved). However, for these data, RF was less time-consuming and more interpretable than ANN, and far more efficient and less demanding in terms of assumptions than LDA or QDA. Therefore, when LDA and QDA assumptions cannot be reached, the use of machine learning methods, such as RF, should be preferred for stock assessment and nursery identification based on otolith microchemistry, especially when data set include multispecific otolith signatures and/or many chemical elements.
ISSN: 1051-0761

hal-00644549
https://hal.archives-ouvertes.fr/hal-00644549
DOI : 10.1890/09-1887.1

Éditeur(s) : HAL CCSD De Boeck Supérieur
Résumé : International audience
L’objectif de cette 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.
ISSN: 0247-106X

hal-01540818
https://hal.archives-ouvertes.fr/hal-01540818

Éditeur(s) : HAL CCSD Society for Molecular Biology and Evolution
Résumé : International audience
Complex nongradual evolutionary processes such as gene remodeling are difficult to model, to visualize, and to investigate systematically. Despite these challenges, the creation of composite (or mosaic) genes by combination of genetic segments from unrelated gene families was established as an important adaptive phenomena in eukaryotic genomes. In contrast, almost no general studies have been conducted to quantify composite genes in viruses. Although viral genome mosaicism has been well-described, the extent of gene mosaicism and its rules of emergence remain largely unexplored. Applying methods from graph theory to inclusive similarity networks, and using data from more than 3,000 complete viral genomes, we provide the first demonstration that composite genes in viruses are 1) functionally biased, 2) involved in key aspects of the arm race between cells and viruses, and 3) can be classified into two distinct types of composite genes in all viral classes. Beyond the quantification of the widespread recombination of genes among different viruses of the same class, we also report a striking sharing of genetic information between viruses of different classes and with different nucleic acid types. This latter discovery provides novel evidence for the existence of a large and complex mobilome network, which appears partly bound by the sharing of genetic information and by the formation of composite genes between mobile entities with different genetic material. Considering that there are around 10E31 viruses on the planet, gene remodeling appears as a hugely significant way of generating and moving novel sequences between different kinds of organisms on Earth.
ISSN: 1759-6653

Droits : http://creativecommons.org/licenses/by/
hal-01324848
http://hal.upmc.fr/hal-01324848
http://hal.upmc.fr/hal-01324848/document
http://hal.upmc.fr/hal-01324848/file/Genome%20Biol%20Evol-2014-Jachiet-2195-205.pdf
DOI : 10.1093/gbe/evu168

Résumé : L'agriculture actuelle est impliquée dans de multiples problématiques environnementales, sociales et économiques, aux échelles locales et globales. En agronomie, de nombreux travaux à l'échelle du champ et de l'exploitation visent aujourd'hui à concevoir des systèmes de culture et des systèmes de production en lien avec ces problématiques. En revanche, peu de travaux portent sur la conception et l'évaluation de systèmes agricoles à l'échelle du territoire, alors que cette échelle apparaît pourtant incontournable pour faire face à des enjeux de développement durable. Pour combler ce manque, nous proposons un ensemble méthodologique permettant i) de simuler les conséquences de scénarios de politiques agricoles sur les choix d'assolement des agriculteurs, décrits individuellement, en modélisant l'évolution de leurs système de production et ii) d'évaluer l'impact de ces changements d'assolements à l'échelle du territoire, à l'aide d'indicateurs qui apportent de l'information spatiale sur la contribution de l'agriculture au développement durable. L'ensemble méthodologique proposé débute par la construction d'une typologie des exploitations agricoles du territoire sur la base de la similarité de leur assolement. Parallèlement, l'adaptation d'indicateurs à l'échelle du territoire permet d'évaluer les impacts des externalités des systèmes de culture en mobilisant des procédures de changements d'échelles. Un modèle bioéconomique générique, multi-échelle, spatialement explicite, appelé MOSAICA, qui utilise la typologie et les indicateurs d'impact de l'agriculture à l'échelle régionale, est créé pour produire des mosaïques de systèmes de culture et évalue leur contribution au développement durable du territoire. Ce modèle, couplé à un itinéraire de définition de scénarios exploratoires et normatifs permet de tester l'impact de différents types de leviers agronomiques, socio-économiques, environnementaux, organisationnels et techniques sur les choix des exploitants et in fine sur la contribution de la mosaïque de systèmes de culture au développement durable du territoire. Nous avons appliqué cet ensemble méthodologique à la conception de scénarios de développement agricoles durables en Guadeloupe. Nous avons dans un premier temps développé une typologie des systèmes de production comprenant huit types distincts et relevant de processus décisionnel différents. Puis nous avons adapté à l'échelle du territoire 19 indicateurs pour l'évaluation des mosaïques de systèmes de culture. L’évaluation de la mosaïque actuelle nous a permis de repérer de faibles niveaux de contribution aux enjeux d’autonomie alimentaire et énergétique. Différents scénarios normatifs et exploratoires intégrant des leviers de changement de la mosaïque ont été testés avec MOSAICA. Les évaluations réalisées nous ont permis d'identifier que des leviers agronomiques comme le développement du maraîchage sans intrants chimiques et des leviers sociaux comme la formation de main-d'oeuvre supplémentaire permettraient d'améliorer la contribution de l’agriculture au développement durable du territoire Guadeloupéen. La modélisation mécaniste de l’évolution du territoire agricole permet d'intégrer des connaissances sur la localisation, les performances, les impacts des systèmes de culture et sur les processus décisionnels des exploitants régissant l’orientation productive et le fonctionnement des exploitations. Cette démarche permet de visualiser les changements de système de culture et leurs impacts de manière spatialement explicite, ce qui permet de générer des connaissances sur les leviers susceptibles de faire évoluer positivement l'agriculture du territoire. La démarche et les outils mis en oeuvre sont donc particulièrement utiles pour l'aide à la décision publique pour améliorer la durabilité de l'agriculture dans son ensemble.
Current agricultural systems are responsible for many different environmental, social and economic issues at both local and global scales. Agricultural sciences have contributed to the design of several methods at the farm and field scale in order to prototype cropping systems and farming systems to address these issues. However, few methods have been designed at the regional scale, while this scale seems to be essential in order to address these issues. In order to fill this gap, we here propose a new methodological framework for i) simulating the consequences of policy changes on farmer's cropping plan, described individually, by modeling the evolution of farming systems and to ii) assess the impacts of cropping system changes at the regional scale, with a set of indicators that generate spatially explicit information on the contribution of agriculture to sustainable development. The methodological framework starts with the design of a farm typology over the territory based on the similarity of farmer's crop acreages. In parallel, a set of indicators is adapted to the landscape scale in order to assess the impacts of cropping system externalities by integrating a set of scale change procedures. A generic, multi-scale, spatially explicit bioeconomic model called MOSAICA, which uses the farm typology and the indicators, is created for generating cropping system mosaics and assessing their contribution to sustainable development. This model coupled to a scenario approach composed of exploratory and normative scenarios can simulate the impact of several types of agronomic, socio-economic, environmental, organizational and technical levers of change on the farmer's choices in terms of cropping systems and in fine the impacts of new cropping system mosaics on the contribution to sustainable development of territories. We applied this methodological framework for building scenarios of sustainable agricultural development in Guadeloupe. We first developed a typology of farming systems encompassing eight types of farming systems that revealed several different farmer's decision processes. Then, we developed 19 indicators to assess cropping system mosaics. The assessment of the current cropping system mosaic showed low levels of response of the current mosaic to economic and social issues especially the food and energy self-sufficiency. Different normative and exploratory scenarios integrating levers of change have been simulated with MOSAICA. The assessment of cropping system mosaics from these scenarios highlighted the positive effect of agronomic levers of change such as organic crop-gardening and social levers such as the vocational training of supplementary workforce for improving the contribution of agriculture to sustainable development of the guadeloupean territory. The mechanistic modeling of the agricultural territory allows us to integrate a wide range of knowledge on the location of cropping systems, their levels of performance , their impacts and the decision process of farmer's that drive the farming system characteristics and the farm functioning. This methodological framework helps visualize the cropping system changes at the regional scale and their associated impacts at the landscape scale which is helpful in order to produce knowledge on the levers of change that can improve the response of local agriculture to local and global issues. The framework and tools designed are particularly useful for decision-aid on the future levels of contribution of agriculture to sustainable development.

http://www.theses.fr/2015AGUY0823/document

Éditeur(s) : HAL CCSD
Résumé : 32 pages
Wind energy production is very sensitive to instantaneous wind speed fluctuations. Thus rapid variation of wind speed due to changes in the local meteorological conditions can lead to electrical power variations of the order of the nominal power output. In small grids, as they exist for example on some islands in the French West Indies, such fluctuations can cause instabilities in case of intermediate power shortages. To palliate these difficulties, it is essential to identify and characterize the wind speed distributions. This allows to anticipate the eventuality of power shortage or power surge. Therefore, it is of interest to categorize wind speed fluctuations into distinct classes and to estimate the probability of a distribution to belong to a class. This paper presents a method for classifying wind speed histograms by estimating a finite mixture of Dirichlet distributions. The SAEM algorithm that we use provides a fine distinction between wind speed distribution classes. It's a new nonparametric method for wind speed sequences classification. However, we show that the wind speed distributions in each class correspond to specific Gram- Charlier densities.
https://hal.archives-ouvertes.fr/hal-00319608

hal-00319608
https://hal.archives-ouvertes.fr/hal-00319608
https://hal.archives-ouvertes.fr/hal-00319608v2/document
https://hal.archives-ouvertes.fr/hal-00319608/file/Article_dirichlet.pdf
ARXIV : 0810.4422

Éditeur(s) : HAL CCSD
Résumé : International audience
The extraction of knowledge from social networks is an area that has experienced significant growth in recent years. Indeed, thanks to the improvement of storage and calculation capacities, and the heterogeneity of data that can currently be extracted, much effort has been made to go beyond traditional knowledge, by proposing new kinds of patterns that take into account the context. However, while many works were interested in designing new patterns of knowledge or in optimizing existing approaches, few studies have been focused in merging patterns and on the useful knowledge emerging from such fusions. In this work, we focus on two network clustering approaches, able to extract two distinct kinds of patterns, and we seek to understand both the intersections that can exist between them and the knowledge that emerges from their fusion. The first is the classical nodes clustering approach that consists in searching for communities into a network. The second is the search for frequent conceptual links, a new link clustering approach that aims identifying frequent links between groups of nodes sharing common attributes. We propose a set of original measures that aim to evaluate the amount of shared information between these patterns when they are extracted from a same network. These measures are applied to three datasets and demonstrate the interest in simultaneously considering several sources of knowledge.
Advances in Knowledge Discovery and Management (AKDM)

hal-01514227
https://hal.archives-ouvertes.fr/hal-01514227
DOI : 10.1007/978-3-319-45763-5_13

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

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

Éditeur(s) : HAL CCSD
Résumé : Mon document "Titres et travaux" contient 5 articles au format éditeur.
Mes premiers travaux de recherche, me permettant de soutenir une thèse de doctorat en décembre 1999, ont été effectués au sein du laboratoire du professeur Bernard GRANDCHAMP (unité 409 de l'INSERM) sous la direction du docteur Marie-Christine LECOMTE. Mon travail s'est intégré dans l'étude fonctionnelle et structurale de certains domaines des spectrines érythroïdes et non érythroïdes, principalement le site de tétramérisation et le domaine SH3. Concernant la tétramérisation de la spectrine érythroïde j'ai identifié les régions minimales nécessaires et suffisantes pour former le tétramère puis j'ai mis en évidence une relation entre certaines mutations de la spectrine associées à des anomalies membranaires du globule rouge et la sévérité du défaut de formation du tétramère. J'ai ensuite identifié plusieurs ligands du domaine SH3 de la spectrine non érythroïde. L'un d'entre eux m'a permis de définir une régulation de la protéolyse ciblée de cette spectrine faisant intervenir un mécanisme de phosphorylation/déphosphorylation. Ma formation initiale fut donc celle d'un biochimiste que j'ai étendue peu à peu vers la biologie moléculaire et la biologie cellulaire.
Puis, souhaitant acquérir les connaissances nécessaires au développement de modèles murins, j'ai décidé d'effectuer mon stage post-doctoral à l'Institut COCHIN (unité 567 de l'INSERM) dans une équipe co-dirigée par le docteur Sophie VAULONT et le professeur Axel KAHN. Je me suis ainsi familiarisé avec la souris comme « outil » de recherche (gestion d'un élevage, établissement de nouvelles lignées, génotypage, phénotypage). Je travaillais initialement sur le métabolisme du glucose mais j'ai complètement réorienté ma thématique de recherche au bout d'un an pour finalement identifier et caractériser une hormone, l'hepcidine, contrôlant l'homéostasie du fer.
J'ai été nommé chargé de recherche de grade 2 dans l'unité 409 de l'INSERM en octobre 2002 pour y développer une souche de souris exprimant une spectrine non érythroïde résistante à des mécanismes de protéolyse ciblée. Il s'agit donc toujours d'appréhender certaines fonctions des spectrines mais dans un contexte in vivo. En janvier 2005 j'ai intégré l'unité 665 de l'INSERM dirigée par Yves COLIN afin de poursuivre ce projet. Aujourd'hui, je suis chargé de recherche de grade 1.
Le chapitre scientifique de ce mémoire est divisé en deux parties distinctes : la première traite de mon travail sur la spectrine tandis que la seconde porte sur l'hepcidine. Chaque partie est composée d'une introduction au sujet suivie d'un résumé des travaux que j'ai effectués et/ou dirigés.
https://tel.archives-ouvertes.fr/tel-00285035

Droits : info:eu-repo/semantics/OpenAccess
tel-00285035
https://tel.archives-ouvertes.fr/tel-00285035
https://tel.archives-ouvertes.fr/tel-00285035/document
https://tel.archives-ouvertes.fr/tel-00285035/file/HDR_Titre_et_travaux_-_Gael_Nicolas.pdf

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Three-dimensional P-wave velocity structure of the mantle beneath the South Pacific Superswell is determined through passive broadband seismic experiments on the ocean floor and islands between 2003 and 2005. We collected approximately 1500 relative times of long-period teleseismic P-waves by using a waveform cross-correlation. We analyzed this data set with relative time tomography to depths of 2000 km. The resultant structure shows lateral heterogeneity of approximately +/- 2%, in which a distinct low velocity region is found beneath the center of the Superswell at a depth of 1600 km. At 1200km depth, an elongated low velocity region is found beneath the Society to Pitcairn hotspots. At 800 km depth, two linear low velocity regions are located beneath Tuamotu and Austral islands. Isolated low velocity regions are identified beneath the Society, Marquesas, and Macdonald hotspots at 400 km depth. Our new tomographic images reveal that the large low velocity region rooted in the deep lower mantle is split into two sheets at 1200 km depth and these terminate at approximately 800 km depth. This feature appears to be consistent with the characteristics of a thermo-chemical pile or dome.
ISSN: 0031-9201

hal-00413036
https://hal.archives-ouvertes.fr/hal-00413036
https://hal.archives-ouvertes.fr/hal-00413036/document
https://hal.archives-ouvertes.fr/hal-00413036/file/Tanaka_tomo_PLUME_PEPI2009_hal.pdf
DOI : 10.1016/j.pepi.2008.10.016