Éditeur(s) : HAL CCSD
Résumé : The recent accumulation of genomic sequence data has shown that gene evolution is not strictly tree-Like. Many evolutionary processes, like exon shuffling, gene fusion or nonhomologous recombination remodel genes by creating composite structures that are made from parts with different evolutionary histories. The development of sequence similarity networks provides an analytical framework to study the impact of these processes on molecular evolution, by structuring the resemblance relationships between sequences and by formalizing, in terms of graph theory, the detection of composite genes (intransitive triplets) and gene families (clique minimal separators). The size of current data sets, typically several million sequences, has also required the development of new tools and methods: sequence comparison parallelization, large networks visualization with Louvain communities and large cycles identification. When applied to eukaryotic and viral genome data sets, these methods have shown that composite genes are found throughout cellular organisms and mobile genetic elements. Proportionally, composite genes are more numerous in eukaryotic genomes; in absolute number, they are more numerous in viruses. In the latter, composite genes functional distribution is biased (enrichment of genes families that are essential for the perpetuation of the viral cycle), and the various parts of composite genes sometimes even originate from the genetic material of different viral classes. More generally, the extent of combinatorial processes, by unravelling other evolutionary bonds than homology bonds in the strictest sense, legitimates a pluralistic study of similarity relationships between sequences.
L’accumulation récente de données de séquences génomiques a montré que l’évolution des gènes n’est pas strictement arborescente. De nombreux processus évolutifs, comme l’exon shuffling, la fusion de gènes ou la recombinaison illégitime remodèlent les gènes, créant des structures composites, formées de parties dont les histoires évolutives sont différentes. Le développement de réseaux de similarité de séquences fournit un cadre analytique permettant d’étudier l’impact de ces processus sur l’évolution moléculaire, en structurant les relations de ressemblance entre séquences et en formalisant en termes de graphes la détection de gènes (triplets intransitifs) et de familles de gènes (cliques minimales séparatrices) composites. La taille des jeux de données actuels, de l’ordre de plusieurs millions de séquences, a également requis le développement de nouveaux outils et méthodes : parallélisation des comparaisons de séquences, visualisation de très grands réseaux par simplification en communautés de Louvain et identification de grands cycles. Appliquées à des jeux de données de génomes eucaryotes et viraux, ces méthodes ont démontré la présence de gènes composites dans tout le vivant et les éléments génétiques mobiles. En proportion, les gènes composites sont plus nombreux dans les génomes eucaryotes ; en nombre absolu, ils sont plus nombreux à être portés par des virus. Chez ces derniers, la distribution fonctionnelle des gènes composites est biaisée (enrichissement dans les familles essentielles pour la perpétuation du cycle viral), et les éléments des gènes composites trouvent même parfois leurs origines dans le matériel génétique de classes virales différentes. Plus généralement, l’étendue des processus combinatoires, en révélant des liens évolutionnaires autres que les liens d’homologie au sens fort, justifie une étude pluraliste des relations de similarité entre séquences.
https://tel.archives-ouvertes.fr/tel-01127379

NNT : 2014PA066358
tel-01127379
https://tel.archives-ouvertes.fr/tel-01127379
https://tel.archives-ouvertes.fr/tel-01127379/document
https://tel.archives-ouvertes.fr/tel-01127379/file/2014PA066358.pdf

Éditeur(s) : HAL CCSD Société géologique de France
Résumé : International audience
The Messinian salinity crisis (MSC) is characterized by gigantic erosion that remodels the margins while a thick, essentially evaporitic and detrital, sedimentary sequence forms in the deep basins. Based on recent (MAURESC, 2003) and earlier (MESEA 1, 1990; MAGIRAA, 1996; GEOBREST, 2002) seismic reflection data, this work brings to light the record of the MSC on the Provençal margin, which has until now been rarely explored from this perspective. Beyond its strictly regional interest, this study fits into a larger synthesis of MSC seismic markers in the Mediterranean and Black Sea marine domain [Lofi et al., 2011] and employs the new nomenclature established on this occasion. The results obtained reveal a Messinian detrital body (CU unit) of 625 metres maximum thickness at the foot of the margin, accumulating at the mouths of the principal canyons. Its form, facies and extension assimilate it to clastic fans, fed by subaerial erosion linked to the MSC. The relative geometry of CU and the Messinian units MU and UU deposited in the deep basin give indications to their chronostratigraphic relations. The deposition of the CU unit is posterior to the basal part of the mobile unit consisting of halite (MU), but contemporary to its top. These results agree with the recent scenarii, which propose that the precipitation of MU in the basin began early, during the lowering of the sea level, and ended at a low level during the MSC [Blanc, 2000; Martin et al., 2001; Sage et al., 2005; Ryan, 2009]. The UU unit surmounts MU and is subdivided into two sub-units with perceptibly different seismic facies : UU1 at the base and UU2 at the summit. UU1 could correspond to a unit containing more halite and/or more clastic material than UU2. The UU1 sub-unit could be partially contemporary to the CU unit. Concerning salt tectonics and its markers, three structural provinces have been evidenced in the sector of study, respectively : an upslope domain in extension (normal faults), an intermediary domain in translation (tabular MU) and a downslope domain in contraction (salt diapirs). These domains are directly linked to the gravity spreading and/or gliding of the brittle sedimentary cover formed by the CU, UU and Plio-Quatenary units and of the mobile level, MU. In the study area, a close relation between the distribution and thickness of CU and salt tectonics has additionally been evidenced at the mouths of the large Messinian canyons, being best expressed where CU is thick.
EISSN: 1777-5817

hal-00498286
https://hal.archives-ouvertes.fr/hal-00498286

Éditeur(s) : HAL CCSD PeerJ
Résumé : International audience
Acoustic recording has been recognized as a valuable tool for non-intrusive monitoring of the marine environment, complementing traditional visual surveys. Acoustic surveys conducted on coral ecosystems have so far been restricted to barrier reefs and to shallow depths (10–30 m). Since they may provide refuge for coral reef organisms, the monitoring of outer reef slopes and describing of the soundscapes of deeper environment could provide insights into the characteristics of different biotopes of coral ecosystems. In this study, the acoustic features of four different habitats, with different topographies and substrates, located at different depths from 10 to 100 m, were recorded during daytime on the outer reef slope of the north Coast of Moorea Island (French Polynesia). Barrier reefs appeared to be the noisiest habitats whereas the average sound levels at other habitats decreased with their distance from the reef and with increasing depth. However, sound levels were higher than expected by propagation models, supporting that these habitats possess their own sound sources. While reef sounds are known to attract marine larvae, sounds from deeper habitats may then also have a non-negligible attractive potential, coming into play before the reef itself.
ISSN: 2167-8359

Droits : http://creativecommons.org/licenses/by/
hal-01654685
http://hal.upmc.fr/hal-01654685
http://hal.upmc.fr/hal-01654685/document
http://hal.upmc.fr/hal-01654685/file/peerj-4019.pdf
DOI : 10.7717/peerj.4019

Éditeur(s) : HAL CCSD CGMW/SGF
Seismic Atlas of the Messian Salinity Crisis markers in the Mediterranean and Black Seas

ISBN : 2-85363-097-8
hal-00817416
https://hal.archives-ouvertes.fr/hal-00817416

Éditeur(s) : HAL CCSD
Résumé : Due to their phylogenetic position outside from Bilateria, cnidarians and ctenophores are key phyla to understanding the origin and early evolution of molecular mechanisms, cell types, or body plan features at the level of Metazoa. Unlike other non-bilaterian phyla (sponges and placozoans), they possess neurons and muscle cells. The first part of my work relates to the problem of the origin of the metazoan nervous system. Recent studies have suggested a dual origin for nerve cells, with ctenophore neurons having emerged independently from those of cnidarians and bilaterians. This hypothesis relies on phylogenomic analyses supporting ctenophores as sister-group to all other metazoans, and on the purported absence in ctenophores of almost all well-known neuro-transmission systems, including the cholinergic system. Refuting this claim, I present substantial evidence in favour of acetylcholine (Ach) being used in the ctenophore Pleurobrachia pileus as an extra-cellular messenger, including within the nervous system. This conclusion arises from the conjunction of multiple approaches at the molecular scale (orthology analyses, Ach immuno-localisation, gene in situ hybridisation), at the cellular scale (calcium imaging on muscle cells exposed to Ach) and at the organism scale (pharmacological treatments with an Ach analogue and Ach antagonists). In the second part of my thesis, I address the conservation of molecular mechanisms involved in the control of cellular proliferation. Notably, the Hippo pathway is known for its role in bilaterians in the negative control of cellular proliferation. I show that components of this pathway are conserved in Pleurobrachia pileus and in Clytia hemisphaerica and that the nuclear vs. cytoplasmic localisation of the transcriptional co-factor Yorkie is correlated to the extent of proliferation within C. hemisphaerica tissues. Finally, RNAseq differential gene expression analyses along a cellular conveyor belt of the C. hemisphaerica medusa suggests a tendency for conservation of function among a set of genes whose mammalian orthologues have documented roles in the arrest of cellular proliferation.
Les Cnidaires et les Cténaires sont deux embranchements extérieurs aux Bilatériens qui, de par leur position phylogénétique, constituent des modèles d'étude cruciaux pour comprendre l'origine et l'évolution de mécanismes moléculaires ou encore de types cellulaires à grande échelle chez les Métazoaires. Ils sont les deux seuls embranchements non-Bilatériens à posséder des cellules nerveuses ainsi que des cellules musculaires. La première partie de mon travail de thèse s'inscrit dans le contexte de la compréhension de l'origine du système nerveux des Métazoaires. Des études récentes suggèrent une origine double du système nerveux ; ainsi celui des Cténaires aurait été acquis de manière convergente par rapport à celui des Cnidaires et des Bilatériens. Cela repose sur des données récentes de phylogénomique proposant les Cténaires en tant que groupe-frère de tous les autres Métazoaires et sur l'absence supposée chez les Cténaires de quasiment tous les systèmes de neurotransmission connus y compris le système cholinergique. A l'encontre de ces hypothèses, j'ai pu mettre en évidence l'existence d'un système cholinergique chez le Cténaire Pleurobrachia pileus ainsi que son étroite association avec le système nerveux. Cette conclusion repose sur une multiplicité d'approches à l'échelle moléculaire (analyses d'orthologie, immunolocalisation, hybridations in situ), cellulaire (imagerie calcique) et de l'organisme (approche pharmacologique). Dans la seconde partie de ma thèse, j'aborde la question de la conservation des mécanismes moléculaires impliqués dans le contrôle de la prolifération cellulaire à l'échelle des Métazoaires. J'ai pu mettre en évidence la conservation des acteurs.
https://tel.archives-ouvertes.fr/tel-01633223

NNT : 2015PA066629
tel-01633223
https://tel.archives-ouvertes.fr/tel-01633223
https://tel.archives-ouvertes.fr/tel-01633223v2/document
https://tel.archives-ouvertes.fr/tel-01633223/file/2015PA066629.pdf

Éditeur(s) : HAL CCSD Le Cherche midi CNRS
Résumé : 192 pages
National audience
https://hal.archives-ouvertes.fr/hal-01118878

ISBN : 978-2-7491-4075-9
hal-01118878
https://hal.archives-ouvertes.fr/hal-01118878

Éditeur(s) : HAL CCSD
Résumé : Joint inversions are now commonly used in Earth Sciences. They have been developed to better understand Earth structure since they provide more constraints on the inverted parameters. We propose a new process to simultaneously invert several data sets in order to better image 3-D crustal and upper mantle structures. Our inversion uses 3 kind of data which present a good complementarity : (1) P receiver functions to provide Moho depth variations, (2) teleseismic delay times of P waves to retrieve velocity anomalies in the crust and upper mantle, (3) gravity anomalies to image density variations at lithospheric scale. In our scheme, receiver functions are first inverted. The resulting Moho depths are then interpolated and incorporated as a priori information into the joint inversion of teleseismic delay times and gravity anomalies process. In our new approach, we perform a model space search for Moho variations, P-velocity and density structure to find acceptable fit to the three data sets. In order to preferentially sample the good data fit region, we chose the Neighborhood algorithm of Sambridge to optimistically survey the model space. We model the delay times with a 3-D raytracing using velocity nodes evenly spaced and linked with density nodes via a linear relationship. This relationship can evolve through depth, simulating its pressure dependance. We test our scheme on synthetic examples, and apply the method in a continental rifting region where deformation processes are complex and badly known. This joint inversion thus provides more constraints on the inverted parameters, and allows us to better image crust - mantle interactions in the case of the Hangai dome (Central Mongolia). Indeed, in this area, we expect an asthenospheric upwelling to dynamically support the topography, but we image a density - velocity anomaly in the lower crust. The effects on topography and the origin (composition vs. thermal) of this anomaly are still under debate.
Les inversions conjointes sont maintenant communément utilisées en Sciences de la Terre. Elles ont été développées afin d'améliorer notre connaissance et compréhension de la structure interne de la Terre puisqu'elles apportent de plus en plus de contraintes sur les paramètres inversés. Dans cette thèse, nous proposons un nouveau processus d'inversion conjointe qui prend en compte trois paramètres différents et qui mène à l'obtention d'un modèle lithosphérique tridimensionnel. Notre méthode utilise trois types de données gravimétriques et sismologiques qui présentent une bonne complémentarité : (1) Les fonctions récepteur P afin d'obtenir les variations de profondeur du Moho, (2) les délais de temps d'arrivées P des téléséismes pour retrouver les anomalies de vitesse dans la croûte et le manteau supérieur, (3) les anomalies gravimétriques qui donnent accès aux variations de densité à l'échelle lithosphérique. Dans le schéma d'inversion proposé, nous inversons d'abord les fonctions récepteur. Les variations de profondeur du Moho qui en résultent sont alors interpolées puis incorporées comme information a priori dans le processus d'inversion conjointe gravimétrie - tomographie télésismique. Que ce soit pour les fonctions récepteur ou pour la partie conjointe, notre méthode d'inversion se base sur un algorithme de recherche afin de trouver la structure qui minimise l'écart aux trois types de données. Nous avons opté pour l'algorithme de voisinage qui présente l'avantage de concentrer sa recherche dans les régions qui minimisent l'écart aux données sans toutefois abandonner les autres régions afin de limiter les risques de convergence vers un minimum local. Nous utilisons un modèle 3-D constitué de noeuds de vitesse afin de modéliser les délais de temps. Ces noeuds de vitesse sont liés aux noeuds de densité grâce à une relation linéaire entre vitesse et densité. Cette relation peut évoluer avec la profondeur de manière à simuler les effets dus aux variations de pression. Nous avons réalisé plusieurs tests synthétiques afin d'évaluer le comportement de notre nouvelle méthode. Ils ont permis de montrer que les variations du Moho ainsi que les anomalies de vitesse et densité sont bien retrouvées. Ils ont également montré l'importance de la prise en compte de ces trois types de données dans un même schéma d'inversion, notamment en ce qui concerne la faculté de discerner les variations d'interfaces des anomalies volumiques. Nous avons ensuite appliqué la méthode dans une région continentale en phase de rifting où les processus de déformation sont complexes et mal connus. Notre nouvelle méthode a apporté davantage de contraintes sur les paramètres inversés et a permis d'obtenir un modèle correctement résolu de la croûte et du manteau supérieur sous le dôme de Hangai (Mongolie Centrale). Une anomalie asthénosphérique sous le dôme est souvent invoquée pour expliquer sa topographie élevée mais c'est une anomalie (en vitesse et densité) crustale (croûte inférieure) qui s'exprime dans nos modèles. Ses effets sur la topographie et son origine (compositionnelle et/ou thermique) sont encore débattus et nécessiteraient des études plus poussées (paramétriques, VP =VS, ...).
https://tel.archives-ouvertes.fr/tel-00783524

tel-00783524
https://tel.archives-ouvertes.fr/tel-00783524
https://tel.archives-ouvertes.fr/tel-00783524/document
https://tel.archives-ouvertes.fr/tel-00783524/file/Basuyau2011.pdf

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
Genetic diversity is crucial for species' maintenance and persistence, yet is often overlooked in conservation studies. Species diversity is more often reported due to practical constraints, but it is unknown if these measures of diversity are correlated. In marine invertebrates, adults are often sessile or sedentary and populations exchange genes via dispersal of gametes and larvae. Species with a larval period are expected to have more connected populations than those without larval dispersal. We assessed the relationship between measures of species and genetic diversity, and between dispersal ability and connectivity. We compiled data on genetic patterns and life history traits in nine species across five phyla. Sampling sites spanned 600km in the northwest Mediterranean Sea and focused on a 50-km area near Marseilles, France. Comparative population genetic approaches yielded three main results. (i) Species without larvae showed higher levels of genetic structure than species with free-living larvae, but the role of larval type (lecithotrophic or planktotrophic) was negligible. (ii) A narrow area around Marseilles, subject to offshore advection, limited genetic connectivity in most species. (iii) We identified sites with significant positive contributions to overall genetic diversity across all species, corresponding with areas near low human population densities. In contrast, high levels of human activity corresponded with a negative contribution to overall genetic diversity. Genetic diversity within species was positively and significantly linearly related to local species diversity. Our study suggests that local contribution to overall genetic diversity should be taken into account for future conservation strategies.
ISSN: 0962-1083

hal-01681650
https://hal.archives-ouvertes.fr/hal-01681650
DOI : 10.1111/mec.14389

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Orogenic wedges locally present chaotic tectonostratigraphic units that contain exotic blocks of various size, origin, age and lithology, embedded in a sedimentary matrix. The occurrence of ophiolitic blocks, sometimes huge, in such “mélanges” raises questions on (i) the mechanisms responsible for the incorporation of oceanic basement rocks into an accretionary wedge and (ii) the mechanisms allowing exhumation and redeposition of these exotic elements in “mélanges” during wedge growth.To address these questions, we present the results of a series of analogue experiments performed to characterize the processes and parameters responsible for accretion, exhumation and tectonosedimentary reworking of oceanic basement lithospheric fragments in an accretionary wedge.The experimental setup is designed to simulate the interaction between tectonics, erosion and sedimentation. Different configurations are applied to study the impact of various parameters, such as irregular oceanic floor due to structural inheritance, or the presence of layers with contrasted rheology that can affect deformation partitioning in the wedge (frontal accretion vs basal accretion) influencing its growth. Image correlation technique allows extracting instantaneous velocity field, and tracking of passive particles. By retrieving the particle paths determined from models, the pressure-temperature path of mélange units or elementary blocks can be discussed. The experimental results are then compared with observations from ophiolite-bearing mélanges in Taiwan (Lichi and Kenting mélanges) and Raman spectroscopy of carbonaceous material (RSCM) Thermometry data on rocks from the northern Apennines (Casanova mélange). A geological scenario is proposed following basic observations. The tectonic evolution of the retroside of doubly vergent accretionary wedges is mainly controlled by backthrusting and backfolding. The retro wedge is characterized by steep slopes that are prone to gravitational instabilities. It triggers submarine landslides inducing huge mass transfers. This erosion combined with backthrusting could favour exhumation of the ophiolitic fragments formerly accreted at the base of the wedge along the rough seafloor-sediments interface. Such an exhumed material can be reworked and deposited as debris- flows in proximal basins located at the foot of the retrowedge slope forming a tectono-sedimentary mélange. These syntectonic basins are continuously deformed and involved in prograding backthrusting-induced deformation.
ISSN: 0264-3707

hal-01395127
https://hal.archives-ouvertes.fr/hal-01395127
DOI : 10.1016/j.jog.2016.05.008

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
1. The Before-After Control-Impact Paired Series (BACIPS) design distinguishes natural spatial and temporalvariability from variation induced by an environmental impact (or intervention) of interest. BACIPS is a powerfultool to derive inferences about interventions when classic experimental approaches (e.g. which rely on spatialreplicates and random assignment of treatments) are not feasible or desirable. Previously applied BACIPSdesigns generally assume that effects are sudden, constant and long-lived: that is, that systems exhibit ‘stepchanges’in response to interventions. However, complex ecological interactions or gradual interventions maycreate delayed and/or progressive responses, potentially impeding the reliability of classic (step-change) analyses.2. We propose a novel approach, the Progressive-Change BACIPS, which generalizes and expands the scope ofBACIPS analyses.We evaluate the relative performance of this approach using both simulated and real data thatexhibit step-change, linear, asymptotic and sigmoid responses following an intervention.We quantify the statisticalpower and accuracy of the Progressive-Change BACIPS under varying initial population densities, intensityof spatial sampling, effect sizes and number of sampling dates After the intervention.3. We show that Progressive-Change BACIPS identified the correct model among the set of candidate modelsunder most conditions and led to accurate estimates of the parameters that were used to generate the simulateddata. When data were sparse, and the dynamics complex, simpler (more parsimonious) models were favouredover the more complex models that actually generated the simulated data. Application of the Progressive-Change BACIPS to existing data sets from the literature led to strong support for specific models (over alternatives)and led to more specific inferences than possible under the classic BACIPS approach.4. The Progressive-Change BACIPS proposed here is more flexible than the original BACIPS formulationbecause the data are used to inform the form of the final model, rather than having the form of the modelimposed on the data. This leads to better estimates of the effects of environmental impacts and the time-scalesover which they operate. As a result, the Progressive-Change BACIPS should be applicable to a wide range ofstudies and should help improve investigation of time-dependent effects. R code to perform Progressive-ChangeBACIPS analysis is provided.
ISSN: 2041-210X

hal-01416668
https://hal-univ-perp.archives-ouvertes.fr/hal-01416668
DOI : 10.1111/2041-210X.12655

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
The implication of oxidative stress as primary mechanism inducing doxorubicin (DOX) cardiotoxicity is still questionable as many in vitro studies implied supra-clinical drug doses or unreliable methodologies for reactive oxygen species (ROS) detection. The aim of this study was to clarify whether oxidative stress is involved in compliance with the conditions of clinical use of DOX, and using reliable tools for ROS detection. We examined the cytotoxic mechanisms of 2 μM DOX 1 day after the beginning of the treatment in differentiated H9c2 rat embryonic cardiac cells. Cells were exposed for 2 or 24 h with DOX to mimic a single chronic dosage or to favor accumulation, respectively. We found that apoptosis was prevalent in cells exposed for a short period with DOX: cells showed typical hallmarks as loss of anchorage ability, mitochondrial hyperpolarization followed by the collapse of mitochondrial activity, and nuclear condensation. Increasing the exposure period favored a shift to necrosis as the cells preferentially exhibited early DNA impairment and nuclear swelling. In either case, measuring the fluorescence lifetime of 1-pyrenebutyric acid or the intensities of dihydroethidium or amplex red showed a consistent pattern in ROS production which was a slight increased level far from representative of an oxidative stress. Moreover, pre-treatment with dexrazoxane provided a cytoprotective effect although it failed to detoxify ROS. Our data support that oxidative stress is unlikely to be the primary mechanism of DOX cardiac toxicity in vitro.
ISSN: 0300-8177

hal-01285736
https://hal-univ-perp.archives-ouvertes.fr/hal-01285736
DOI : 10.1007/s11010-016-2653-x

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
In the Schistes Lustres of Alpine Corsica (France) serpentinized mantle rocks are associated with continental basement and meta-volcanic/-seclimentary cover rocks. The relationships among these different lithologies are especially well exposed in the Monte San Petrone unit, where Alpine metamorphism reached lawsonite-eclogite conditions. The contact between serpentinites and slivers of continental basement, relatively flat-lying over several kilometers, is characterized by evidence of cataclastic deformation pre-dating Alpine High-Pressure ductile fabrics. The serpentinite/continental basement pair is stratigraphically overlain by metasediments with a typical Jurassic-Cretaceous supra-ophiolitic lithostratigraphy, with metaradiolarites passing upward to marbles and cal cschists. Noticeably, no evidence of cataclastic deformation is found in metasediments. These observations indicate that the lithostratigraphy of the Monte San Petrone unit was established during a pre-Alpine polyphase evolution, which culminated in extensive brittle deformation along a flat-lying detachment fault prior to the deposition of Jurassic sediments. We suggest that the inferred Mesozoic extensional tectonics were related to the opening of the Westem Tethys. The Mesozoic architecture of the Monte San Petrone area, which is typical of an Ocean-Continent Transition (OCT) zone, was preserved despite Alpine deformation and metamorphism, when the different lithologies (i.e. meta-ophiolites, continent-derived rocks and metasediments) underwent a common metamorphic evolution, culminating at T=490-550 degrees C and P= 2.2-2.6 GPa. Similar tectonostratigraphic associations are observed in other high-pressure terranes of Alpine Corsica, suggesting that inherited OCT-type domains may be common in Alpine-type orogens.
ISSN: 0024-4937

hal-00617744
https://hal.archives-ouvertes.fr/hal-00617744
DOI : 10.1016/j.lithos.2011.02.013

Éditeur(s) : HAL CCSD Royal Society
Résumé : Coral bleaching events are predicted to occur more frequently in the coming decades with global warming. The susceptibility of corals to bleaching during thermal stress episodes depends on many factors, including the magnitude of thermal stress and irradiance. The interactions among these two factors, and in particular with ultra-violet radiation (UVR), the most harmful component of light, are more complex than assumed, and are not yet well understood. This paper explores the individual and combined effects of temperature and UVR on the metabolism of Acropora muricata, one of the most abundant coral species worldwide. Particulate and dissolved organic matter (POM/DOM) fluxes and organic matter (OM) degradation by the mucus-associated bacteria were also monitored in all conditions. The results show that UVR exposure exacerbated the temperature-induced bleaching, but did not affect OM fluxes, which were only altered by seawater warming. Temperature increase induced a shift from POM release and DOM uptake in healthy corals to POM uptake and DOM release in stressed ones. POM uptake was linked to a significant grazing of pico- and nanoplankton particles during the incubation, to fulfil the energetic requirements of A. muricata in the absence of autotrophy. Finally, OM degradation by mucus-associated bacterial activity was unaffected by UVR exposure, but significantly increased under high temperature. Altogether, our results demonstrate that seawater warming and UVR not only affect coral physiology, but also the way corals interact with the surrounding seawater, with potential consequences for coral reef biogeochemical cycles and food webs.
ISSN: 2046-6390

hal-01606454
https://hal.archives-ouvertes.fr/hal-01606454
DOI : 10.1242/bio.026757
PRODINRA : 406580
PUBMED : 28811302

Éditeur(s) : HAL CCSD Société géologique de France
Résumé : International audience
The Messinian salinity crisis (MSC) is characterized by gigantic erosion that remodels the margins while a thick, essentially evaporitic and detrital, sedimentary sequence forms in the deep basins. Based on recent (MAURESC, 2003) and earlier (MESEA 1, 1990; MAGIRAA, 1996; GEOBREST, 2002) seismic reflection data, this work brings to light the record of the MSC on the Provençal margin, which has until now been rarely explored from this perspective. Beyond its strictly regional interest, this study fits into a larger synthesis of MSC seismic markers in the Mediterranean and Black Sea marine domain [Lofi et al., 2011] and employs the new nomenclature established on this occasion. The results obtained reveal a Messinian detrital body (CU unit) of 625 metres maximum thickness at the foot of the margin, accumulating at the mouths of the principal canyons. Its form, facies and extension assimilate it to clastic fans, fed by subaerial erosion linked to the MSC. The relative geometry of CU and the Messinian units MU and UU deposited in the deep basin give indications to their chronostratigraphic relations. The deposition of the CU unit is posterior to the basal part of the mobile unit consisting of halite (MU), but contemporary to its top. These results agree with the recent scenarii, which propose that the precipitation of MU in the basin began early, during the lowering of the sea level, and ended at a low level during the MSC [Blanc, 2000; Martin et al., 2001; Sage et al., 2005; Ryan, 2009]. The UU unit surmounts MU and is subdivided into two sub-units with perceptibly different seismic facies : UU1 at the base and UU2 at the summit. UU1 could correspond to a unit containing more halite and/or more clastic material than UU2. The UU1 sub-unit could be partially contemporary to the CU unit. Concerning salt tectonics and its markers, three structural provinces have been evidenced in the sector of study, respectively : an upslope domain in extension (normal faults), an intermediary domain in translation (tabular MU) and a downslope domain in contraction (salt diapirs). These domains are directly linked to the gravity spreading and/or gliding of the brittle sedimentary cover formed by the CU, UU and Plio-Quatenary units and of the mobile level, MU. In the study area, a close relation between the distribution and thickness of CU and salt tectonics has additionally been evidenced at the mouths of the large Messinian canyons, being best expressed where CU is thick.
EISSN: 1777-5817

hal-00622998
https://hal-brgm.archives-ouvertes.fr/hal-00622998
DOI : 10.2113/gssgfbull.182.2.181

Éditeur(s) : HAL CCSD Frontiers Media
Résumé : International audience
Crustose coralline algae (CCA) are major benthic calcifiers that play crucial roles in coral reef ecosystems. Two diseases affecting CCA have recently been investigated: coralline white band syndrome (CWBS) and coralline white patch disease (CWPD). These diseases can trigger major losses in CCA cover on tropical coral reefs, but their causative agents remain unknown. Here, we provide data from the first investigation of the bacterial communities associated with healthy and diseased CCA tissues. We show that Neogoniolithon mamillare diseased tissues had distinct microbial communities compared to healthy tissues and demonstrate that CWBS and CWPD were associated with different pathobiomes, indicating that they had different disease causations. CWBS tissues were composed of opportunistic bacteria, and the origin of the disease was undetermined. In contrast, a vibrio related to Vibrio tubiashii characterized the CWPD pathobiome, suggesting that it could be a putative disease agent and supporting the case of a temperature dependent disease associated with global warming.
ISSN: 1664-302X

Droits : http://creativecommons.org/licenses/by/
hal-01589805
http://hal.upmc.fr/hal-01589805
http://hal.upmc.fr/hal-01589805/document
http://hal.upmc.fr/hal-01589805/file/fmicb-08-01686.pdf
DOI : 10.3389/fmicb.2017.01686

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
ISSN: 1932-6203

hal-01520195
https://hal.archives-ouvertes.fr/hal-01520195
DOI : 10.1371/journal.pone.0176862

Éditeur(s) : HAL CCSD
Résumé : Le projet METYSS (Messinian Event in the Tyrrhenian from Seismic Study) concerne le bassin tyrrhénien occidental le long de la côte est-sarde et s'intègre dans le cadre d'une étude comparative des marqueurs sismiques de la Crise de Salinité Messinienne (CSM) à l'échelle du bassin méditerranéen. La mer tyrrhénienne est un bassin arrière-arc néogène lié à la subduction calabraise. Le rifting débute sur la marge est-sarde au cours du Tortonien et du Messinien, impliquant au moins localement une contemporanéité des dépôts de la CSM avec les processus de rifting qui segmente la marge en plusieurs sous-bassins. Cette région est donc particulièrement adaptée à la caractérisation et à l'organisation des dépôts messiniens en contexte de tectonique active. L'identification des marqueurs de la CSM et la détermination de leurs caractéristiques spatio-temporelles (faciès, géométrie, distribution et relations) ont été effectuées à partir de l'interprétation de 1200 km de profils sismiques multitraces HR acquis en 2009 lors de la campagne METYSS-1 sur le N/O "Téthys II". L'un des premiers résultats est que l'on retrouve dans cette zone les marqueurs caractéristiques de la CSM, comparables à ceux déjà observés dans le bassin méditerranéen occidental : surfaces d'érosion (MES, TES, BES) et unités messiniennes typiques (UU: Upper Unit; MU: Mobile Unit). La réalisation des cartes de répartition de ces unités sismiques permet d'en déterminer la variabilité spatiale, et notamment d'affiner celle de la couche de sel (MU), par rapport aux données pré-existantes. Ainsi, le long de la partie haute de la marge est-sarde, la rareté de l'unité MU et la présence des UU semblent indiquer que cette zone se situait à une profondeur intermédiaire pendant la crise. Inversement, plus profondément dans le bassin, l'épaisseur importante de la couche de sel sous les UU, témoigne d'une profondeur déjà conséquente de cette zone durant la CSM. On remarque également que dans le secteur nord de la zone d'étude, la répartition de MU est contrainte par les blocs basculés, le sel étant confiné dans les sous-bassins qui segmentent la marge. Dans le secteur sud, la répartition de la couche de sel est plus homogène dans le bassin profond, et est déformée par une tectonique salifère active. A terme, nous souhaitons utiliser les marqueurs de la CSM pour reconstituer les paléo-connexions et paléo-profondeurs des différents bassins de la zone, mais également comprendre les interactions entre tectonique crustale, tectonique salifère, et sédimentation. L'objectif est aussi de restituer l'évolution tectono-sédimentaire de la marge est-sarde depuis 6Ma.
13ème Congrès Français de Sédimentologie
Dijon, France

hal-00657315
https://hal-brgm.archives-ouvertes.fr/hal-00657315

Éditeur(s) : HAL CCSD
Résumé : The Tyrrhenian Sea is usually interpreted to be a Neogene back-arc basin that opened by continental rifting and oceanic spreading caused by the eastward migration of the Apennine subduction system from Tortonian to Pliocene times. Rifting of the Tyrrhenian Sea started first along the Eastern Sardinian margin during the Tortonian-Messinian times. The " METYSS " project aims at better constraining the relations between crustal tectonics, salt tectonics and sedimentation from Messinian times to present-day. The " METYSS 1 " cruise (2009, R/V "Téthys II"-INSU) allowed us to obtain about 1200 km of high-resolution seismic reflection profiles along the SE Corsican margin, and along the upper and middle parts of the Eastern Sardinian margin, Western Tyrrhenian. This new dataset clearly illustrates that this area has been highly dissected during the rifting stage by N-S trending normal faults delineating ridges and basins, as previously described. The Messinian seismic markers (UU and MU) locally display fan-shaped stratal geometries, but the mechanism responsible for such geometries, i.e., salt tectonics or rifting, has yet to be carefully deciphered. We also mapped the spatial distribution of the mobile salt (MU). The highly variable thickness of the confined salt basins may be related to the initial pre-Messinian basin geometry or to the fact that sediment deposition was syn-rift. Southeastward, salt tectonics appears highly vigorous. More surprisingly, our data demonstrate that some of the major faults have been significantly reactivated during the post-rift period, up to late Quaternary time. Such recent fault activity has been recorded by bathymetric scarps and associated footwall debris flows. Moreover, some of this post-rift deformation can be evidenced within the Plio-Quaternary sequence by a regional unconformity. The post-Miocene deformation style varies greatly between different areas of the margin, and can also be strongly influenced by the presence or absence of mobile Messinian evaporites (MU).
13ème Congrès Français de Sédimentologie
Dijon, France

hal-00657310
https://hal-brgm.archives-ouvertes.fr/hal-00657310

Éditeur(s) : HAL CCSD
Résumé : International audience
Until recently, our ability to implement and assess spatial marine management approaches has been limited by a lack of information regarding processes that bind marine ecosystems, including habitat locations, larval and adult movement, trophic interactions, and fisher behavior. However, recent advances in habitat-mapping technologies, genetics, marine microchemistry, animal tracking and numerical modeling have greatly enhanced our knowledge of these processes. Although these advances have yet to be fully integrated into management decisions, they have the potential to revolutionize spatial marine management. Nevertheless, this revolution will require advances in our ability to share and integrate data into models of marine ecosystems.
Current opinion in environmental sustainability

hal-00473438
https://hal.archives-ouvertes.fr/hal-00473438
DOI : 10.1016/j.cosust.2010.02.002

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The replenishment and persistence of marine species is contingent on dispersing larvae locating suitable habitatand surviving to a reproductive stage. Pelagic larvae rely on environmental cues to make behavioural decisionswith chemical information being important for habitat selection at settlement. We explored the sensory worldof crustaceans and fishes focusing on the impact anthropogenic alterations (ocean acidification, red soil, pesti-cide) have on conspecific chemical signals used by larvae for habitat selection. Crustacean (Stenopus hispidus)and fish (Chromis viridis) larvae recognized their conspecifics via chemical signals under control conditions. Inthe presence of acidified water, red soil or pesticide, the ability of larvae to chemically recognize conspecificcues was altered. Our study highlights that recruitment potential on coral reefs may decrease due to anthropo-genic stressors. If so, populations of fishes and crustaceans will continue their rapid decline; larval recruitmentwill not replace and sustain the adult populations on degraded reefs
ISSN: 0025-326X

hal-01491052
https://hal-univ-perp.archives-ouvertes.fr/hal-01491052
DOI : 10.1016/j.marpolbul.2016.08.083