Éditeur(s) : Copernicus Gesellschaft Mbh
Résumé : During the GWADASEIS cruise (Lesser Antilles volcanic arc, February-March 2009) a very high resolution (VHR) seismic-reflection survey was performed in order to constrain Late Quaternary to Present faulting. The profiles we obtained evidence frequent "ponding" of reworked sediments in the deepest areas, similar to the deposition of Mediterranean "homogenites". These bodies are acoustically transparent (few ms t.w.t. thick) and are often deposited on the hanging walls of dominantly normal faults, at the base of scarps. Their thickness appears sufficient to compensate (i.e. bury) co-seismic scarps between successive earthquakes, resulting in a flat and horizontal sea floor through time. In a selected area (offshore Montserrat and Nevis islands), piston coring (4 to 7m long) was dedicated to a sedimentological analysis of the most recent of these particular layers. It corresponds to non-stratified homogenous calcareous silty sand (reworked calcareous plankton and minor volcanoclastics). This layer can be up to 2 m thick, and overlies fine-grained hemipelagites. The upper centimeters of the latter represent the normal RedOx water/sediment interface. Pb-210 and Cs-137 activities lack in the massive sands, while a normal profile of unsupported Pb-210 decrease is observed in the hemipelagite below, together with a Cs-137 peak corresponding to the Atmospheric Nuclear Experiments (1962). The RedOx level was thus capped by a recent instantaneous major sedimentary event considered as post-1970 AD; candidate seismic events to explain this sedimentary deposits are either the 16 March 1985 earthquake or the 8 October 1974 one (M-w = 6.3 and M-w = 7.4, respectively). This leads to consider that the syntectonic sedimentation in this area is not continuous but results from accumulation of thick homogenites deposited after the earthquakes (as observed in the following weeks after Haiti January 2010 event, McHugh et al., 2011). The existence of such deposits suggests that, in the area of study, vertical throw likely results from cumulated effects of separated earthquakes rather than from aseismic creep. Examination of VHR profiles shows that all major co-seismic offsets are recorded in the fault growth sequence and that co-seismic offsets can be precisely estimated. By using a sedimentation rate deduced from Pb-210 decrease curve (0.5 mmyr(-1)) and taking into account minor reworking events detected in cores, we show that the Redonda system may have been responsible for five > M-6 events during the last 34 000 yr. The approach presented in this work differs from fault activity analyses using displaced sets of isochronous surfaces and postulating co-seismic offsets. Combining VHR seismic imagery and coring we can decipher co-seismic vs. slow continuous displacement, and thus actually estimate the amplitude and the time distribution of major co-seismic offsets.
Natural Hazards And Earth System Sciences (1561-8633) (Copernicus Gesellschaft Mbh), 2012 , Vol. 12 , N. 5 , P. 1755-1767

Droits : Author(s) 2012. CC Attribution 3.0 License.
http://archimer.ifremer.fr/doc/00089/20040/21990.pdf
DOI:10.5194/nhess-12-1755-2012
http://archimer.ifremer.fr/doc/00089/20040/

Éditeur(s) : HAL CCSD Elsevier Masson
Résumé : International audience
Symbioses with the dinoflagellate Symbiodinium are widespread among marine invertebrates and protists, especially in nutritionally demanding habitats, such as tropical coral reefs, where they play a major role in ecosystem survival. Moreover, apart from corals and sea anemones, many of the Symbiodinium species and clades involved in these partnerships remain to be characterized. This study provides new insights into nudibranch and sponge associations with Symbiodinium by sequencing regions of the Symbiodinium 28S rDNA and the host mitochondrial COI oxidase. Specimens were sampled between 2011 and 2013 from locations around the islands of Moorea and Tahiti, French Polynesia. Our results revealed that some of the sponges and nudibranchs harbored typical Symbiodinium from clade B or C while others harbored new, undescribed Symbiodinium-like dinoflagellates. A detailed analysis of the different life stages of the nudibranch Phestilla lugubris and of its specific coral prey, Porites rus, suggests a prey-predator horizontal transfer of the symbiont and its vertical inheritance from the parent to the eggs.
Les symbioses à zooxanthelles, dinoflagellés du genre Symbiodinium, sont largement répandues chez les invertébrés marins et les protozoaires, notamment dans les eaux oligotrophes, où ils jouent un rôle important dans la survie des récifs coralliens. De plus, excepté chez les coraux et les anémones, les différentes espèces et clades de Symbiodinium impliqués dans ces associations restent à être caractérisés. Notre étude, grâce à l’utilisation des marqueurs génétiques 28S ADNr des Symbiodinium et la sous-unité 1 de la cytochrome oxydase mitochondriale (COI) de l’hôte, procure de nouvelles données quant aux associations des éponges et des nudibranches avec les Symbiodinium. L’échantillonnage a eu lieu autour de Moorea et de Tahiti (Polynésie française), entre 2011 et 2013. Nos résultats révèlent que certaines espèces d’éponges et de nudibranches possèdent les clades B et C communément retrouvés, chez les coraux notamment, alors que d’autres présentent de nouveaux dinoflagellés « Symbiodinium-like ». Une analyses détaillée des Symbiodinium à différents stades du cycle de vie du nudibranche corallivore Phestilla lugubris et de son corail hôte Porites rus suggèrent l’existence d’un transfert horizontal de Symbiodinium proie–prédateur et un transfert vertical du parent P. lugubris à ses œufs.
ISSN: 1631-0691

hal-01145518
https://hal.archives-ouvertes.fr/hal-01145518
DOI : 10.1016/j.crvi.2015.01.005

Éditeur(s) : HAL CCSD
Résumé : International audience
The presence of photosynthetic zooxanthellae (dinoflagellates) in the tissue of many cnidarians is the main reason for their ecological success (i.e. coral reefs). It could also be the main cause of their demise, as the worldwide bleaching of reef-building coral is nothing less than the breakdown of this symbiotic association. The stability of this relationship is the principal marker for the biomonitoring of cnidarian health. We have therefore developed a new, simple method to isolate zooxanthellae in a few steps using NaOH solution. The protocol was validated in three symbiotic cnidarian species: a sea anemone, a gorgonian and a coral. Our method allows the isolation of intact and viable zooxanthellae with better yields than classic methods, especially for species with a calcareous skeleton. Moreover, the isolated zooxanthellae were free of host nucleic contaminants, facilitating subsequent specific molecular analyses.
Journal of Experimental Biology

hal-01546180
https://hal.archives-ouvertes.fr/hal-01546180
DOI : 10.1242/jeb.074955

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
The extent to which Marine Protected Areas (MPAs) benefit corals is contentious. On one hand, MPAs could enhance coral growth and survival through increases in herbivory within their borders; on the other, they are unlikely to prevent disturbances, such as terrestrial runoff , that originate outside their boundaries. We examined the effect of spatial protection and terrestrial sediment on the benthic composition of coral reefs in Saint Lucia. In 2011 (10 to 16 years after MPAs were created), we resurveyed 21 reefs that had been surveyed in 2001 and analyzed current benthic assemblages as well as changes in benthic cover over that decade in relation to protection status, terrestrial sediment influence (measured as the proportion of terrigenous material in reef-associated sediment) and depth. The cover of all ben-thic biotic components has changed significantly over the decade, including a decline in coral and increase in macroalgae. Protection status was not a significant predictor of either current benthic composition or changes in composition, but current cover and change in cover of several components were related to terrigenous content of sediment deposited recently. Sites with a higher proportion of terrigenous sediment had lower current coral cover, higher macroalgal cover and greater coral declines. Our results suggest that terrestrial sediment is an important factor in the recent degradation of coral reefs in Saint Lucia and that the current MPA network should be complemented by measures to reduce runoff from land.
ISSN: 1932-6203

hal-01281152
https://hal-univ-perp.archives-ouvertes.fr/hal-01281152
https://hal-univ-perp.archives-ouvertes.fr/hal-01281152/document
https://hal-univ-perp.archives-ouvertes.fr/hal-01281152/file/journal.pone.0146855.PDF
DOI : 10.1371/journal.pone.0146855

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
The Nile delta sedimentation constitutes a continuous high resolution (1.6 mm/year) record of Ethiopian African monsoon regime intensity. Multiproxy analyses performed on core MS27PT recovered in hemipelagic Nile sediment margin (<90 km outward of the Rosetta mouth of the Nile) allow the quantification of the Saharan aeolian dust and the Blue/White Nile River suspended matter frequency fluctuations during the last 21 cal. ka BP. The radiogenic Sr and Nd isotopes, clay mineralogy, bulk elemental composition and palynological analyses reveal large changes in source components, oscillating between a dominant aeolian Saharan contribution during the LGM and the Late Holocene (~4 to 2 cal. ka BP), a dominant Blue/Atbara Nile River contribution during the early Holocene (15 to 8.4 cal. ka BP) and a probable White Nile River contribution during the Middle Holocene (8.4 to 4 cal. ka BP). The following main features are highlighted: 1. The rapid shift from the LGM arid conditions to the African Humid Period (AHP) started at about 15 cal. ka BP. AHP extends until 8.4 cal. ka BP, and we suggest that the Ethiopian African Monsoon maximum between 12 and 8 cal. ka BP is responsible for a larger Blue/Atbara Nile sediment load and freshwater input into the Eastern Mediterranean Sea. 2. The transition between the AHP and the arid Late Holocene is gradual and occurs in two main phases between 8.4 and 6.5 cal. ka BP and 6.5 to 3.2 cal. ka BP. We suggest that the main rain belt shifted southward from 8.4 to ~4 cal. ka BP and was responsible for progressively reduced sediment load and freshwater input into the eastern Mediterranean Sea. 3. The aridification along the Nile catchments occurred from ~4 to 2 cal. ka BP. A dry period, which culminates at 3.2 cal. ka BP, and seems to coincide with a re-establishment of increased oceanic primary productivity in the western Mediterranean Sea. We postulate that the decrease in thermo-haline water Mediterranean circulation could be part of a response to huge volumes of fresh-water delivered principally by the Nile River from 12 to 8.4 cal. ka BP in the eastern Mediterranean. We propose that the large hydrological change in Ethiopian latitude could be a trigger for the 8.2 ka cooling event recorded in high latitude. Revel R., Colin C., Bernasconi S., Combourieu-Nebout N., Ducassou E., Grousset F.E., Rolland Y., Migeon S., Brunet P., Zhaa Y., Bosch D., Mascle J.,. "21,000 years of Ethiopian African moonsoon variability recorded in sediments of the western Nile deep sea fan", Regional Environmental Change,
ISSN: 1436-3798

hal-00836300
https://hal.archives-ouvertes.fr/hal-00836300

Résumé : Les poissons herbivores jouent un rôle écologique majeur face au phénomène de « coral-algal phase-shift », qui sévit depuis le début des années 80 dans les récifs coralliens de la Caraïbe. Dans cette étude, les habitudes alimentaires des principales espèces de poissons herbivores ont été étudiées afin de comprendre comment ces espèces utilisent et se partagent les ressources trophiques en milieu récifal et dans les herbiers. Les niches trophiques de ces espèces ont été décrites par deux méthodes complémentaires: les analyses des contenus des tractus digestifs et les analyses des isotopes stables du carbone C3C/ 12C) et de l'azoteCSN/ '4N). La qualité nutritionnelle des sources alimentaires a été évaluée par leurs concentrations de macronutriments (protéines, lipides, glucides solubles et insolubles) afin d'expliquer en partie le choix des ressources par les herbivores. Parmi les 14 espèces de poissons étudiées, appartenant aux familles des Pomacentridae, des Acanthuridae et des Scaridae, huit types de niches trophiques ont été décrits, indiquant une diversité fonctionnelle de ces espèces. Les niches trophiques décrites sont occupées par une ou plusieurs espèces, indépendamment de leur morphologie et de leurs affinités taxinomiques. Les résultats de cette étude suggèrent une complémentarité entre ces espèces, en terme d'utilisation des ressources, et soulèvent la question de leur conservation afin de préserver leur rôle écologique dans les écosystèmes côtiers de la Caraïbe.
Herbivorous fishes play a major ecological role against the « coral-algal phase-shift » phenomenon in the coral reefs of the Caribbean. In this study, the feeding patterns of the most important species of herbivorous fishes have been studied to understand how these species use and share the trophic resources on reefs and seagrass beds . Trophic niches of these species have been described by two complementary methods: the analyses oftheir digestive contents and the analyses of stable isotopes of carbon C3C/ J2C) and nitrogen (lsN/14N). The nutritional quality of the sources has been evaluated by their concentrations of macronutrients (proteins, lipids, soluble and insoluble carbohydrates) to explain partially the choice of resources by herbivorous fishes . Among the 14 studied species of herbivorous fishes (Pomacentridae, Acanthuridae and Scaridae), eight types of trophic niches have been described, indicating a functional diversity of these species . The trophic niches are occupied by one or several species, independently oftheir morphology or their taxonomie affinities. The results of this study suggest a complementarity among these species and raise the question of their conservation to preserve their ecological role on marine ecosystems of the Caribbean.

http://www.theses.fr/2013AGUY0597/document

Éditeur(s) : Elsevier
Résumé : Analysis of new high-resolution seismic-reflection profiles, chirp profiles and previously published sidescan data, together with piston cores on the Danube Fan provide new insight into the recent sedimentation processes in the deep northwestern Black Sea.The latest channel-levee system on the Danube Fan developed probably during the Neoeuxinian lowstand (oxygene isotope stage 2) in a semi-freshwater basin with a water level about 100 m lower than today. Sediment supplied by the Danube was transported to the deep basin through the Viteaz Canyon, which was directly connected to the leveed channel of this system on the middle slope. Channel avulsion was common in the middle fan, as indicated by four main phases of bifurcation. Each phase developed after the same pattern: breaching of the lower and narrower left levee by turbidity currents, building of a unit of High Amplitude Reflection Packets (HARP) by the unchannelized flow while the former channel was abandoned, followed by initiation of a new meandering leveed channel. The northward migration through successive bifurcations is influenced by the asymmetry between levees, hence by the Coriolis effect. In the lower fan where the levees became too low to maintain a stable pathway for the turbiditic flows, channel migration occurred. Locations of HARPs and channels after bifurcation are controlled by the pre-existing bathymetry. Sedimentary deposits are confined between the high levees of unit 0 (the initial phase of the youngest channel-levee system) to the south, and the steep relief of the Dniepr Fan to the north.The HARPs of the most recent phase of avulsion are the most severely constrained by local topography and form a very narrow elongate structure that is at most half as thick as the previous HARPs. Their distal part is not covered by channel-levee systems and is visible both on sidescan mosaics and on chirp profiles and was sampled in core BLKS 98-20.Sea level controlled fan activity but the evolution of the last channel-levee system with several bifurcations during a single sea level lowstand suggests that the primary control of channel avulsion and sand delivery is probably autocyclic.The presence of important HARP sand bodies in the mud-rich Danube Fan is presumed by analogy with a similar seismic facies on the Amazon Fan and indicated by the sands cored in BLKS98-20. However, only drilling of the HARP units could verify this interpretation.
Marine Geology (0025-3227) (Elsevier), 2001-09 , Vol. 179 , N. 1-2 , P. 25-37

Droits : 2001 Elsevier Science B.V. All rights reserved
http://archimer.ifremer.fr/doc/2001/publication-474.pdf
DOI:10.1016/S0025-3227(01)00197-9
http://archimer.ifremer.fr/doc/00000/474/

Éditeur(s) : HAL CCSD Elsevier
Résumé : Handheld energy dispersive portable X-ray spectrometers (pXRF) are generally designed and used for qualitative survey applications. We developed shipboard quantitative analysis protocols for pXRF and employed the instrument to make over 2000 individual abundance measurements for a selection of major and trace elements on over 1200 m of recovered core during the eight weeks of the International Ocean Discovery Program (IODP) Expedition 352 to the Izu-Bonin forearc. pXRF analytical performance, accuracy and precision were found to be the same on powdered rock samples and on freshly cut rock surfaces, and sample results were similar within error to measurements made via shipboard ICP-OES analysis save at low abundance levels for a few elements. Instrument performance was optimal for elements between Z = 19 and Z = 40, and the system yielded reproducible data for K, Ca, Ti, V, Cr, Mn, Fe, Cu, Zn, Rb, Sr, and Zr on both powdered samples and rock surfaces. Working curves developed via pXRF measurement of a suite of geologic standard reference materials and well-characterized lavas permitted accurate quantitative measurements for many of the examined elements on both sample powders and rock surfaces. Although pXRF has been sporadically employed on previous cruises, Expedition 352 is the first time a detailed, high-density chemostratigraphy of recovered core samples was collected using pXRF measurements of rock core surfaces. These high-resolution data allowed the recognition of chemically distinct eruptive units in near real-time. The rapid identification of geochemical trends vastly improved our selection of samples for shipboard and shore-based analysis, permitted a more comprehensive interpretation of our Expedition results, and provided key decision-making information for drilling operations.
ISSN: 0009-2541

hal-01553188
https://hal.archives-ouvertes.fr/hal-01553188
DOI : 10.1016/j.chemgeo.2017.01.007

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Studies of paleomagnetic fields during polarity transitions recorded over the past few million years frequently suggest a configurational persistence consistent with long-lived mantle control over the pattern of flux emanating from Earth's fluid core. Fundamental to an understanding of the core-mantle dynamics involved is the question of the spatial-temporal nature of the physical conditions at the base of the mantle that may be responsible. Our analysis of the field during a mid-Cenozoic, reverse-to-normal (R-N) polarity change, recorded in a continuous sequence of lava flows in southeastern Queensland, Australia, provides strong evidence that the time span over which local mantle features retain such an influence is far longer than had thus far been observed. Specifically. the reversal is dominated by two sequential groupings of transitional magnetic vector directions, each associated with a clustering of virtual geomagnetic poles (VGPs) at locations common to several more youthful reversal datasets from about the globe. Our Ar-40/Ar-39 age determinations indicate that these Australian lavas erupted 25.56 +/- 0.48 Ma, strongly suggesting that the characteristic time for invariant control by the mantle over flux emerging from the outer core is at least on order of a few tens of Myr. The availability of transitional paleomagnetic data from still earlier times within the Cenozoic may further delineate this duration and, perhaps, provide a means to track changes in the pattern of long-standing concentrations of magnetic flux at the core-mantle boundary. (C) 2008 Elsevier B.V. All rights reserved.
ISSN: 0031-9201

hal-00411919
https://hal.archives-ouvertes.fr/hal-00411919
DOI : 10.1016/j.pepi.2008.07.012

Éditeur(s) : HAL CCSD
Résumé : International audience
Symbiosis is a widespread phenomenon in the biosphere. In marine benthic environments breakdown of symbiosis is responsible for coral bleaching and dramatically affects coral reef ecosystems functioning [1]. In the water column, planktonic organisms are key component of pelagic ecosystems and a number of species form mutualistic association with microalgae forming a photosymbiosis [2]. Here we intended to investigate the genetic basis of photosymbiosis, through a transcriptomic approach on marine plankton organisms. We focused more specifically on associations occurring between radiolarian host (protist, zooplankton) and dinoflagellates symbiont (protist, phytoplankton) living inside the host cell. It has recently been highlighted that these holobionts are widespread in oligotrophic open oceans and there are also evidences of their fundamental implication in biogeochemical carbon, silica and strontium cycles [3, 4, 5, 6]. RNA-seq technologies allow obtaining an unprecedented amount of data for unicellular organisms isolated from the environment [7]. The study of such non-model holobionts datasets requires de novo assembly, which implies considerable computational resources and the potential production of chimeric sequences [8, 9].We therefore developed an original strategy aiming at accelerating and improving de novo assembly for holobiont datasets. We chose SIMKA [10] a fast kmer-based method initially developed to estimate the similarity between numerous metagenomic datasets, and which has been recently adapted to extract their common sequences. As our symbionts are identified, we used SIMKA to compare our holobionts transcriptomes to publicly available dinoflagellates transcriptomes [11] generating two datasets, one composed of reads from the symbionts and another with reads from the host (for which no reference data are currently available). Independent assemblies were then performed in parallel, accelerating the study process, and minimizing the proportion of resulting chimeric sequences. Our strategy produced a unique and comprehensive genomic dataset for Radiolaria [12, 13], and offers a pragmatic, large scale, comparison strategy to assemble and study holobionts [9]. Our new sequences obtained from holobionts study will be used for phylogenomics investigation, as reference for environmental metagenomic studies and ultimately to understand and characterize the molecular basis of symbiotic relationships in the plankton.Bibliografic references :[1] Simon K. Davy, Denis Allemand, and Virginia M. Weis. “Cell Biology of Cnidarian-Dinoflagellate Symbiosis”. In: Microbiology and Molecular Biology Reviews 76.2 (June 1, 2012), pp. 229–261. issn: 1092-2172, 1098- 5557. doi: 10.1128/MMBR.05014-11.[2] Janouškovec, J. et al. “Major transitions in dinoflagellate evolution unveiled by phylotranscriptomics”. in: PNAS 201614842 (2016). doi:10.1073/pnas.1614842114[3] Tristan Biard et al. “In situ imaging reveals the biomass of giant protists in the global ocean”. In: Nature advance online publication (Apr. 20, 2016). issn: 0028-0836. doi: 10.1038/nature17652.[4] Lionel Guidi et al. “Plankton networks driving carbon export in the olig- otrophic ocean”. In: Nature 532.7600 (Apr. 28, 2016), pp. 465–470. issn: 0028-0836. doi: 10.1038/nature16942.[5] Diane K. Stoecker et al. “Acquired phototrophy in aquatic protists”. In: Aquatic Microbial Ecology 57.3 (Nov. 24, 2009), pp. 279–310. doi: 10.3354/ame01340.[6] Johan Decelle et al. “An original mode of symbiosis in open ocean plankton”. In: Proceedings of the National Academy of Sciences 109.44 (Oct. 30, 2012), pp. 18000–18005. issn: 0027-8424, 1091-6490. doi: 10. 1073/pnas.1212303109.[7] Sergio Balzano et al. “Transcriptome analyses to investigate symbiotic relationships between marine protists”. In: Frontiers in Microbiology 6 (Mar. 17, 2015). issn: 1664-302X. doi: 10.3389/fmicb.2015.00098.[8] Li, B. et al. “Evaluation of de novo transcriptome assemblies from RNA-Seq data”. In: Genome Biology 15, 553 (2014).[9] Sangwan, N., Xia, F. & Gilbert, J. A. “Recovering complete and draft population genomes from metagenome datasets”. In: Microbiome 4, 8 (2016).[10] Gaëtan Benoit et al. “Multiple comparative metagenomics using mul- tiset k -mer counting”. In: PeerJ Computer Science 2 (Nov. 14, 2016). doi: 10.7717/peerj-cs.94.[11] Patrick J. Keeling et al. “The Marine Microbial Eukaryote Transcriptome Sequencing Project (MMETSP): Illuminating the Functional Diversity of Eukaryotic Life in the Oceans through Transcriptome Sequencing”. In: PLOS Biol 12.6 (June 2014), e1001889. issn: 1545-7885. doi: 10.1371/journal.pbio.1001889.[12] Burki, F. et al. “Evolution of Rhizaria: new insights from phylogenomic analysis of uncultured protists”. In BMC Evolutionary Biology 10, 377 (2010).
International Conference on Holobionts
Paris, France

hal-01575069
https://hal.inria.fr/hal-01575069

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
Little is known of how linkage patterns between species change along environmental gradients. The small, spatially discrete food webs inhabiting tank-bromeliads provide an excellent opportunity to analyse patterns of community diversity and food-web topology (connectance, linkage density, nestedness) in relation to key environmental variables (habitat size, detrital resource, incident radiation) and predators: prey ratios. We sampled 365 bromeliads in a wide range of understorey environments in French Guiana and used gut contents of invertebrates to draw the corresponding 365 connectance webs. At the bromeliad scale, habitat size (water volume) determined the number of species that constitute food-web nodes, the proportion of predators, and food-web topology. The number of species as well as the proportion of predators within bromeliads declined from open to forested habitats, where the volume of water collected by bromeliads was generally lower because of rainfall interception by the canopy. A core group of microorganisms and generalist detritivores remained relatively constant across environments. This suggests that (i) a highly-connected core ensures food-web stability and key ecosystem functions across environments, and (ii) larger deviations in food-web structures can be expected following disturbance if detritivores share traits that determine responses to environmental changes. While linkage density and nestedness were lower in bromeliads in the forest than in open areas, experiments are needed to confirm a trend for lower food-web stability in the understorey of primary forests.
PLoS ONE

hal-00913931
https://hal.archives-ouvertes.fr/hal-00913931
https://hal.archives-ouvertes.fr/hal-00913931/document
DOI : 10.1371/journal.pone.0071735
OATAO : 10204

Éditeur(s) : Université de la Nouvelle-Calédonie
Résumé : Estimating diversity and abundance of fish is fundamental for the understanding of community structure and dynamics of coral reefs. Observations are generally gathered using Underwater Visual Census (UVC). These informations can also be collected by underwater video techniques involving no diver and allowing a high spatial and temporal coverage. The first part of this PhD thesis is a review of publications using underwater video techniques between 1952 and 2012. The second part present two rotating video systems used to study the diversity of ichthyofauna and habitats in the lagoon of New Caledonia: the STAVIRO (for "STAtion VIdeo ROtative") and the MICADO (for "Module d’Imagerie Côtier, Autonome pour le Développement de l’Observation sous-marine"). The third part of this work is a comparison of these techniques with UVCs and an analysis of the “observer effect” for the rotating video techniques. The comparison between rotating video systems and UVC showed that: (i) fish community data collected by UVC and by STAVIRO differed significantly; (ii) species richness and density of large species were not significantly different between techniques; (iii) species richness and density of small species were higher for UVC; (iv) density of fished species was higher for STAVIRO; and (v) only UVC detected significant differences in fish assemblages structure across reef type. The comparison of fish counts obtained from the same videos by different observers showed that for a defined list of species, estimates of species richness and total abundance can be considered as similar between observers with sufficient experiences (> 6 months). The last part of this PhD is an application of rotating video techniques to the study of daily temporal variations of the ichthyofauna. Daily variations were observed depending on the time of day and the tidal state and typical patterns of variations have been described for some species groups. The outcomes of this work bring original insights of new techniques complementary to traditional techniques in order to enhance our understanding of the functioning and dynamic of coral reef.
L’estimation de la diversité et de l’abondance des espèces de poissons est fondamentale pour comprendre la structure des communautés et la dynamique des récifs coralliens. Les observations sont généralement obtenues par des recensements visuels en scaphandre autonome (UVC). Ces informations peuvent également être obtenues de manière originale grâce aux observations issues des techniques vidéo sous-marines modernes sans plongeur qui permettent des couvertures spatiales et temporelles accrues. La première phase de ce travail de thèse synthétise l’ensemble des travaux ayant été effectués avec des techniques vidéo entre 1952 et 2012. La seconde phase, présente deux systèmes vidéo rotatifs complémentaires, utilisés pour étudier la diversité de l’ichtyofaune et des habitats marins dans le lagon de Nouvelle-Calédonie : le STAVIRO (pour « STAtion VIdéo ROtative ») et le MICADO (pour « Module d’Imagerie Côtier, Autonome pour le Développement de l’Observation sous-marine »). La troisième phase de ce travail consiste à comparer ces systèmes vidéo aux UVC puis à examiner l’effet « observateur » inhérent aux techniques vidéo rotatives. Il résulte de cette étude que : (i) les observations des communautés de poissons par UVC et STAVIRO différaient significativement, (ii) la richesse spécifique et la densité des espèces de grande taille n'étaient pas significativement différentes entre les techniques, (iii) la diversité et la densité des espèces de petite taille étaient plus élevés avec les UVC; (iv) la densité des espèces pêchées était plus élevée avec les STAVIRO et (v) seuls les UVC ont détecté des différences de structure des assemblages en fonction du type de récif. L’étude de l’effet « observateur » a montré que sur une liste d’espèces définie, les dénombrements et les identifications des individus peuvent être considérées comme similaires entre observateurs ayant une expérience suffisante (> 6 mois). La dernière phase de ce travail a permis d’appliquer la technique MICADO à l’étude des variations temporelles de l’ichtyofaune d’un site corallien à l’échelle de la journée. Elle a permis de mettre en évidence des variations cycliques journalières en fonction de l’heure et de la marée et des « profils type » de variations ont pu être identifiés pour certains groupes d’espèces. Ce travail de thèse permet ainsi de participer au développement de nouvelles techniques d’observations complémentaires des techniques traditionnelles afin d’enrichir les connaissances du fonctionnement et de la dynamique des écosystèmes coralliens.

Droits : Université de la Nouvelle-Calédonie
http://archimer.ifremer.fr/doc/00189/30050/28536.pdf
http://archimer.ifremer.fr/doc/00189/30050/

Éditeur(s) : HAL CCSD Geological Society of America
Résumé : International audience
In this study, a novel application of a statistical approach is utilized for analysis of downhole logging data from Miocene-aged siliciclastic shelf sediments on the New Jersey Margin (eastern USA). A multivariate iterative nonhierarchical cluster analysis (INCA) of spectral gamma-ray logs from Integrated Ocean Drilling Program (IODP) Expedition 313 enables lithology within this siliciclastic succession to be inferred and, through comparison with the 1311 m of recovered core, a continuous assessment of depositional sequences is constructed. Signifi cant changes in INCA clusters corroborate most key stratigraphic surfaces interpreted from the core, and this result has particular value for surface recognition in intervals of poor core recovery. This analysis contributes to the evaluation of sequence stratigraphic models of large-scale clinoform complexes that predict depositional environments, sediment composition, and stratal geometries in response to sea-level changes. The novel approach of combining statistical analysis with detailed lithostratigraphic and seismic refl ection data sets will be of interest to any scientists working with downhole logs, especially spectral gamma-ray data, and also provides a reference for the strengths and weaknesses of multi component analysis applied to continental margin lithofacies. The method presented here is appropriate for evaluating successions elsewhere and also has value for hydrocarbon exploration where sequence stratigraphy is a fundamental tool.
EISSN: 1553-040X

insu-00858238
https://hal-insu.archives-ouvertes.fr/insu-00858238
DOI : 10.1130/GES00913.1

Éditeur(s) : HAL CCSD BioMed Central
Résumé : International audience
BackgroundFor a long time biologists and linguists have been noticing surprising similarities between the evolution of life forms and languages. Most of the proposed analogies have been rejected. Some, however, have persisted, and some even turned out to be fruitful, inspiring the transfer of methods and models between biology and linguistics up to today. Most proposed analogies were based on a comparison of the research objects rather than the processes that shaped their evolution. Focusing on process-based analogies, however, has the advantage of minimizing the risk of overstating similarities, while at the same time reflecting the common strategy to use processes to explain the evolution of complexity in both fields.ResultsWe compared important evolutionary processes in biology and linguistics and identified processes specific to only one of the two disciplines as well as processes which seem to be analogous, potentially reflecting core evolutionary processes. These new process-based analogies support novel methodological transfer, expanding the application range of biological methods to the field of historical linguistics. We illustrate this by showing (i) how methods dealing with incomplete lineage sorting offer an introgression-free framework to analyze highly mosaic word distributions across languages; (ii) how sequence similarity networks can be used to identify composite and borrowed words across different languages; (iii) how research on partial homology can inspire new methods and models in both fields; and (iv) how constructive neutral evolution provides an original framework for analyzing convergent evolution in languages resulting from common descent (Sapir’s drift).ConclusionsApart from new analogies between evolutionary processes, we also identified processes which are specific to either biology or linguistics. This shows that general evolution cannot be studied from within one discipline alone. In order to get a full picture of evolution, biologists and linguists need to complement their studies, trying to identify cross-disciplinary and discipline-specific evolutionary processes. The fact that we found many process-based analogies favoring transfer from biology to linguistics further shows that certain biological methods and models have a broader scope than previously recognized. This opens fruitful paths for collaboration between the two disciplines.
ISSN: 1745-6150

Droits : http://creativecommons.org/licenses/by/
hal-01378396
http://hal.upmc.fr/hal-01378396
http://hal.upmc.fr/hal-01378396/document
http://hal.upmc.fr/hal-01378396/file/unity.pdf
DOI : 10.1186/s13062-016-0145-2

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : International audience
Seabirds concentrate nutrients from large marine areas on their nesting islands playing an important ecological role in nutrient transfer between marine and terrestrial ecosystems. Here we investigate the role of guano on corals reefs across scales by analyzing the stable nitrogen isotopic (delta N-15) values of the scleractinian coral Pocillopora damicornis on fringing reefs around two Pacific remote islets with large seabird colonies. Marine stations closest to the seabird colonies had higher nitrate + nitrite concentrations compared to more distant stations. Coral and zooxanthellae delta N-15 values were also higher at these sites, suggesting that guano-derived nitrogen is assimilated into corals and contributes to their nitrogen requirements. The spatial extent of guano influence was however restricted to a local scale. Our results demonstrate that seabird-derived nutrients not only spread across the terrestrial ecosystem, but also affect components of the adjacent marine ecosystem. Further studies are now needed to assess if this nutrient input has a positive or negative effect for corals. Such studies on remote islets also open fresh perspectives to understand how nutrients affect coral reefs isolated from other anthropogenic stressors.
ISSN: 2045-2322

hal-01681575
https://hal.archives-ouvertes.fr/hal-01681575
DOI : 10.1038/s41598-017-03781-y

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) : HAL CCSD European Geosciences Union (EGU)
Résumé : International audience
Storms and tsunamis, which may seriously endanger human society, are amongst the most devastating marine catastrophes that can occur in coastal areas. Many such events are known and have been reported for the Mediterranean, a region where high-frequency occurrences of these extreme events coincides with some of the most densely populated coastal areas in the world. In a sediment core from the Mar Menor (SE Spain), we discovered eight coarse-grained layers which document marine incursions during periods of intense storm activity or tsunami events. Based on radiocarbon dating, these extreme events occurred around 5250, 4000, 3600, 3010, 2300, 1350, 650, and 80 years cal BP. No comparable events have been observed during the 20th and 21st centuries. The results indicate little likelihood of a tsunami origin for these coarse-grained layers, although historical tsunami events are recorded in this region. These periods of surge events seem to coincide with the coldest periods in Europe during the late Holocene, suggesting a control by a climatic mechanism for periods of increased storm activity. Spectral analyses performed on the sand percentage revealed four major periodicities of 1228 ± 327, 732 ± 80, 562 ± 58, and 319 ± 16 years. Amongst the well-known proxies that have revealed a millennial-scale climate variability during the Holocene, the ice-rafted debris (IRD) indices in the North Atlantic developed by Bond et al. (1997, 2001) present a cyclicity of 1470 ± 500 years, which matches the 1228 ± 327-year periodicity evidenced in the Mar Menor, considering the respective uncertainties in the periodicities. Thus, an in-phase storm activity in the western Mediterranean is found with the coldest periods in Europe and with the North Atlantic thermohaline circulation. However, further investigations, such as additional coring and high-resolution coastal imagery, are needed to better constrain the main cause of these multiple events.
ISSN: 1814-9324

hal-01357199
https://hal.archives-ouvertes.fr/hal-01357199
https://hal.archives-ouvertes.fr/hal-01357199v2/document
https://hal.archives-ouvertes.fr/hal-01357199/file/cp-12-1389-2016.pdf
DOI : 10.5194/cp-12-1389-2016

Éditeur(s) : HAL CCSD Blackwell Publishing
Résumé : International audience
Pliocene and Pleistocene deposits from Grande-Terre (Guadeloupe archipelago, French Lesser Antilles) provide a remarkable example of an isolated carbonate system built in an active margin setting, with sedimentation both controlled by rapid sea-level changes and tectonic movements. Based on new field, sedimentological and palaeontological analyses, these deposits have been organized into four sedimentary sequences (S1 to S4) separated by three subaerial erosion surfaces (SB0, SB1 and SB2). Sequences S1 and S2 ('Calcaires inférieurs à rhodolithes') deposited during the late Zanclean to early Gelasian (planktonic foraminiferal Zones PL2 to PL5) in low subsidence conditions, on a distally steepened ramp dipping eastward. Red algal-rich deposits, which dominate the western part of Grande-Terre, change to planktonic foraminifer-rich deposits eastward. Vertical movements of tens of metres were responsible for the formation of SB0 and SB1. Sequence S3 ('Formation volcano-sédimentaire', 'Calcaires supérieurs à rhodolithes' and 'Calcaires à Agaricia') was deposited during the late Piacenzian to early Calabrian (Zones PL5 to PT1a) on a distally steepened, red algal-dominated ramp that changes upward into a homoclinal, coral-dominated ramp. Deposition of Sequence S3 occurred during a eustatic cycle in quiet tectonic conditions. Its uppermost boundary, the major erosion surface SB2, is related to the Cala1 eustatic sea-level fall. Finally, Sequence S4 ('Calcaires à Acropora') probably formed during the Calabrian, developing as a coral-dominated platform during a eustatic cycle in quiet tectonic conditions. The final emergence of the island could then have occurred in late Calabrian times.
ISSN: 1469-3496

hal-00760906
https://hal.archives-ouvertes.fr/hal-00760906
DOI : 10.1111/j.1365-3091.2011.01311.x

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
Bruggemann, J.H. (2016). Phylogenetic relationships within Aglaopheniidae (Cnidaria, Hydrozoa) reveal unexpected generic diversity. — Zoologica Scripta, 45, 103–114. Morphology can be misleading in the representation of phylogenetic relationships, especially in simple organisms like cnidarians and particularly in hydrozoans. These suspension feeders are widely distributed in many marine ecosystems, and the family Aglaopheniidae Marktanner-Turneretscher, 1890 is among the most diverse and visible, especially on tropical coral reefs. The taxonomy of this family is based on morphological characters with emphasis on reproductive structures for the identification of genera. This study is the most comprehensive molecular phylogeny of the Aglaopheniidae to date, including six genera and 38 species, of which 13 were investigated for the first time and sampled on tropical coral reefs throughout the Indo-Pacific region. For newly sampled individuals, we sequenced the 16S rRNA, the nuclear locus comprising the complete ITS1-5.8S rRNA gene-ITS2 and the first intron of the calmodulin nuclear gene. Phylogenetic analyses of the data revealed and confirmed a general polyphyly, or doubtful monophyly, of all sampled genera in tropical regions based on both the mitochondrial and nuclear markers. Our results revealed that several morphological characters used today are unsuited to resolve phylogenetic relationships between species and genera, as well as the high phyletic diversity within this family. Future revision of the classification of this family will require extensive geographic sampling and the use of an integrative approach.
ISSN: 0300-3256

hal-01359414
https://hal.archives-ouvertes.fr/hal-01359414
DOI : 10.1111/zsc.12135

Éditeur(s) : HAL CCSD Université des Antilles
Résumé : International audience
In this study, we propose to analyze the limits of mass tourism in the French Antilles, specifically the decline of tourism, economic limits, and ecological degradation). The recognition of these limits is overdue, and signals a need to define another model for tourism development.The popular coastal sector in the south of Martinique has been subject new regulations to protect marine resources. These regulations require the development of new practices and a greater level of awareness for tourists, for example, around coral reefs and mangroves. Ecotourism programs aim to demonstrate to visitors the forests rich natural resources and biodiversity in general. It also features the inclusion of small rural businesses that benefit from additional sources of revenue as a result of ecotourism.The situation in the French Antilles is complex: Urbanization is fraught with serious consequences for the coastline. Tourism products currently being marketed on the island are not competitive (particularly against the political dynamics of the neighbouring island of Dominica). Ecotourism and sustainable tourism are just beginning to develop in such destinations, where tourism has been declining in the last ten years. The situation of the French Antilles is paradoxical in a region that generally has a very favourable tourism. Assessing these limits through the scope of ecotourism helps to highlight the causes of these difficulties and to adapting to new tourism practices.
En el contexto de este estudio, nos proponemos analizar los límites del turismo de masas en las Antillas Francesas (depreciación del turismo, las limitaciones económicas, ecológicas y las molestias). Este reconocimiento de esos límites está en el origen de la conciencia tardía de la necesidad de definir otro modelo de desarrollo turístico.En el sector costero de la más popular, como en el sur de Martinica, se pone en la normativa nuevo lugar para proteger los recursos marinos. Esto requiere el desarrollo de nuevas prácticas y la sensibilización de los turistas, por ejemplo, alrededor de los arrecifes de coral y los manglares.Programas en torno al ecoturismo también tienen como objetivo dar al visitante la riqueza de los recursos forestales y la biodiversidad en general. También incluye las pequeñas empresas rurales que reciben los nuevos ingresos a través del turismo.Pero la situación es compleja en las Antillas francesas: la urbanización está llena de importantes consecuencias para la costa. Productos turísticos que se comercializan actualmente no son competitivos (en particular, contra la dinámica política de la cercana isla de Dominica). Ecoturismo y desarrollo sostenible están empezando a desarrollar en este destino turístico, donde el turismo está en problemas en los últimos diez años.Esta situación es bastante paradójico en un turismo regional muy favorable. Sin lugar a dudas, pensando en el ecoturismo contribuye a identificar los destinos de estos retrasos y dificultades para adaptarse a nuevas prácticas de turismo.
Dans le cadre de cette étude, l’accent est mis sur les limites du tourisme de masse dans les Antilles françaises (dépréciation du tourisme, les contraintes économiques et les nuisances écologiques). La reconnaissance de ces limites est à l'origine de la prise de conscience tardive de la nécessité de définir un autre modèle de développement touristique.Dans le sud de la Martinique, le secteur le plus populaire du littoral, de nouvelles règlementations sont mises en place pour protéger les ressources marines. Cela nécessite le développement de nouvelles pratiques et de sensibilisation des touristes notamment autour des récifs coralliens et les mangroves. Les programmes autour de l'écotourisme visent également à montrer aux visiteurs la richesse des ressources forestières et de la biodiversité en général. Il comprend également les petites entreprises rurales qui reçoivent de nouveaux revenus grâce au tourisme.La situation est complexe dans les Antilles françaises: l'urbanisation est lourde de conséquences importantes sur la côte. Les produits touristiques commercialisés actuellement ne sont pas compétitifs (notamment contre la dynamique politique de l'île voisine de la Dominique). L'écotourisme et le tourisme durable commencent tout juste à se développer dans ces destinations où le tourisme classique est en difficulté depuis une dizaine d’années ; situation assez paradoxale au regard du dynamisme de ce secteur d’activité dans la région.
ISSN: 1779-0980

hal-01624756
https://hal.archives-ouvertes.fr/hal-01624756
DOI : 10.4000/etudescaribeennes.5262