Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The Karukéra spur is an easternmost submerged rise of the Lesser Antilles fore-arc in the Guadeloupe archipelago, culminating about 4000 m above the fore-arc basin 150 km west of the deformation front. The analysis of 3500 km 2D high-resolution multichannel seismic reflection and multibeam bathymetric data, and the study of 14 core samples, allow for the first time to reconstruct its sedimentary anatomy and tectonic evolution. Seven seismic units (US1 to US7) are evidenced, organised into four major depositional sequences separated by erosional surfaces. Units US1 to US4 thicken to the south-southeast on the spur. The sedimentary deposits rest upon a deeply eroded metamorphic basement of the Caribbean Plate as in La Désirade Island. Sequence 1 (units US1 and US2) remains unknown in its lower part because it does not outcrop. Its upper part comprises early Miocene shallow water carbonates. Sequence S2 (Unit US3) only comprises an upper Miocene transgressive systems tract deposited into basinal environment. It is bounded by major erosional surfaces SB2 and SB3. Sequence 3 (US4 to US6) is Zanclean to Pleistocene. It is dominantly composed of shallow water, reefal deposits. Sequence 4 corresponds to recent deposits. The Karukéra spur experienced three main extensional episodes with alternations between uplift and subsidence periods. Uplifts are responsible for emersions and erosions. Subsidence severely drowned shallow water deposits. The first extensional episode led to the formation of horsts and grabens in the basement, prior to early Miocene deposits. The second extensional episode occurred during upper Miocene, in accordance with data in surrounding islands. The third tectonic episode developed since Calabrian. Noticeable is the constant reactivation of N130°–N150°, N150°–N180° and N40° trending faults since early Miocene and the neoformation of E–W trending faults since Calabrian. Our results suggest that at the latitude of Guadeloupean archipelago the Lesser Antilles subduction zone is an erosional margin because of the successive sweepings of the Santa Lucia then Tiburon Ridges.
ISSN: 0025-3227

hal-01172231
https://hal.archives-ouvertes.fr/hal-01172231
DOI : 10.1016/j.margeo.2015.02.007

Éditeur(s) : HAL CCSD American Society for Microbiology
Résumé : International audience
Human leishmaniasis are widely spread diseases with different clinical forms caused by about 20 species within the Leishmania genus. Leishmania species identification is relevant for therapeutic management and prognosis, especially for cutaneous and muco-cutaneous forms. Several methods are available to identify Leishmania species from culture, but they have not been standardized for the majority of the currently described species, with the exception of MultiLocus Enzyme Electrophoresis. Moreover, these techniques are expensive, time-consuming and not available in all laboratories. Within the last decade, mass spectrometry (MS) has been adapted for microorganism identification, including Leishmania However, no commercial reference mass spectral database is available. In this study, a reference mass spectral library (MSL) for Leishmania isolates, accessible through a free web-based application (mass spectral identification, MSI), was constructed and tested. It includes mass spectral data for 33 different Leishmania species, including species that infect humans, animals and phlebotomine vectors. Four laboratories on two continents evaluated MSI performance using 268 samples of which 231 were Leishmania strains. All Leishmania strains, but one, were correctly identified at least at the complex level. A risk of species misidentification within the L. donovani, L. guyanensis and L. braziliensis complexes was observed, as already reported with other techniques. The tested application was reliable, with identification results comparable to those obtained with reference methods, but with a more favorable cost-efficiency ratio. This free online identification system relies on a scalable database and can be implemented directly in the user's computers.
ISSN: 0095-1137

hal-01571305
https://hal.archives-ouvertes.fr/hal-01571305
DOI : 10.1128/JCM.00845-17
PUBMED : 28724559

Éditeur(s) : HAL CCSD Wiley-VCH Verlag
Résumé : International audience
Proteomic profiling plays a decisive role in the elucidation of molecular signatures representative of a specific clinical context. MuStem cell-based therapy represents a promising approach for clinical applications to cure Duchenne Muscular Dystrophy (DMD). To expand our previous studies collected in the clinically relevant DMD animal model, we decided to investigate the skeletal muscle proteome four months after systemic delivery of allogenic MuStem cells. Quantitative proteomics with isotope-coded protein labelling (ICPL) was used to compile quantitative changes in the protein expression profiles of muscle in transplanted Golden Retriever Muscular Dystrophy (GRMD) dogs as compared to GRMD dogs. A total of 492 proteins were quantified, including 25 that were overrepresented and 46 that were underrepresented after MuStem cell transplantation. Interestingly, this study demonstrates that somatic stem cell therapy impacts on the structural integrity of the muscle fascicle by acting on fibres and its connections with the extracellular matrix. We also show that cell infusion promotes protective mechanisms against oxidative stress and favours the initial phase of muscle repair. This study allows us to identify putative candidates for tissue markers that might be of great value in objectively exploring the clinical benefits resulting from our cell-based therapy for DMD.
ISSN: 1615-9853

Droits : info:eu-repo/semantics/OpenAccess
hal-01332030
https://hal.archives-ouvertes.fr/hal-01332030
https://hal.archives-ouvertes.fr/hal-01332030/document
https://hal.archives-ouvertes.fr/hal-01332030/file/Quantitative%20proteome%20profiling%20of%20dystrophic%20dog%20skeletal%20muscle_accepted.pdf
DOI : 10.1002/pmic.201600002

Éditeur(s) : HAL CCSD Copernicus Publications on behalf of the European Geosciences Union
Résumé : International audience
The main goal of this study is to give the preliminary estimates of the tsunami risks for the Lesser Antilles. We investigated the available data of the tsunamis in the French West Indies using the historical data and catalogue of the tsunamis in the Lesser Antilles. In total, twenty-four (24) tsunamis were recorded in this area for last 400 years; sixteen (16) events of the seismic origin, five (5) events of volcanic origin and three (3) events of unknown source. Most of the tsunamigenic earthquakes (13) occurred in the Caribbean, and three tsunamis were generated during far away earthquakes (near the coasts of Portugal and Costa Rica). The estimates of tsunami risk are based on a preliminary analysis of the seismicity of the Caribbean area and the historical data of tsunamis. In particular, we investigate the occurrence of historical extreme runup tsunami data on Guadeloupe, and these data are revised after a survey in Guadeloupe.
Natural Hazards and Earth System Science

Droits : info:eu-repo/semantics/OpenAccess
hal-00330894
https://hal.archives-ouvertes.fr/hal-00330894
https://hal.archives-ouvertes.fr/hal-00330894/document
https://hal.archives-ouvertes.fr/hal-00330894/file/nhess-1-221-2001.pdf

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : International audience
Treacher Collins/Franceschetti syndrome (TCS; OMIM 154500) is a disorder of craniofacial development belonging to the heterogeneous group of mandibulofacial dysostoses. TCS is classically characterized by bilateral mandibular and malar hypoplasia, downward-slanting palpebral fissures, and microtia. To date, three genes have been identified in TCS:,TCOF1, POLR1D, and POLR1C. We report a clinical and extensive molecular study, including TCOF1, POLR1D, POLR1C, and EFTUD2 genes, in a series of 146 patients with TCS. Phenotype-genotype correlations were investigated for 19 clinical features, between TCOF1 and POLR1D, and the type of mutation or its localization in the TCOF1 gene. We identified 92/146 patients (63%) with a molecular anomaly within TCOF1, 9/146 (6%) within POLR1D, and none within POLR1C. Among the atypical negative patients (with intellectual disability and/or microcephaly), we identified four patients carrying a mutation in EFTUD2 and two patients with 5q32 deletion encompassing TCOF1 and CAMK2A in particular. Congenital cardiac defects occurred more frequently among patients with TCOF1 mutation (7/92, 8%) than reported in the literature. Even though TCOF1 and POLR1D were associated with extreme clinical variability, we found no phenotype-genotype correlation. In cases with a typical phenotype of TCS, 6/146 (4%) remained with an unidentified molecular defect.
ISSN: 1098-3600

hal-01134364
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01134364
DOI : 10.1038/gim.2015.29
PUBMED : 25790162

Éditeur(s) : Elsevier
Résumé : The Latin American shrimp Litopenaeus stylirostris was introduced in three different Pacific islands (Tahiti, New Caledonia via Tahiti, and Hawaii) and hatchery-propagated for 7-25 generations to develop shrimp farming based on these domesticated stocks. Three microsatellite markers have been used in an attempt to assess the genetic bases of the populations available to start a selective breeding program. The comparison of eight hatchery stocks (five New Caledonian, two Hawaiian and one Tahitian stocks) and one wild Ecuadorian population showed a much lower variability in the domesticated stocks than in the wild population, especially in New Caledonia and Tahiti (2-3.7 vs. 14-27 alleles per locus; 20-60% vs. 90% expected heterozygosity). The Tahitian and the New Caledonian stocks share the same alleles, suggesting that the loss of alleles occurred during the common past of these populations. On the contrary, New Caledonian and Hawaiian populations share only one common allele at the three loci studied. Although the low genetic variability and the resulting inbreeding of the New Caledonian stocks do not seem to affect their present performance, the results of this study demonstrate the usefulness of the introduction of new stocks in order to increase the potential responses to new controlled or uncontrolled selective pressures. The introduction in New Caledonia of the Hawaiian domesticated stocks, which would provide the local shrimp industry with 40% of the allelic diversity of the species, is advised and preferred to the one of wild animals in order to take advantage (i) of the spontaneous selection which occurred during domestication and (ii) of their favourable sanitary "specific pathogen free" status (no presence of four viruses: WSV, YHV, IHHNV, TSV) which limits the risk of introduction of pathogens.
La crevette d'Amérique latine Litopaenus stylirostris a été introduite dans trois îles du Pacifique (à Tahiti, en Nouvelle-Calédonie via Tahiti, et à Hawaii), et a été ensuite reproduite en écloserie pendant 7 à 25 générations à des fins d'aquaculture. Trois marqueurs microsatellites ont été utilisés pour évaluer les bases génétiques des populations disponibles pour le démarrage d'un programme d'amélioration génétique. L'étude comparative de 8 populations domestiquées (cinq néo-calédoniennes, deux hawaiiennes et une tahitienne) et d'une population sauvage d'Equateur révèle une variabilité très réduite dans les populations d'élevage, en particulier en Nouvelle-Calédonie et à Tahiti (2 à 3.7 allèles par locus au lieu de 14 à 27 en population sauvage ; 20% à 60% d'hétérozygotie au lieu de 90%). Les souches tahitiennes et calédoniennes disposent des mêmes allèles, ce qui suggère que la perte d'allèles a eu lieu lors de l'histoire commune des ces populations. A l'inverse, les populations néo-calédoniennes et hawaiiennes n'ont en commun qu'un seul allèle sur les 3 locus étudiés. Bien que la très faible variabilité génétique du cheptel calédonien ne semble pas affecter ses performances actuelles, les résultats de cette étude démontrent l'utilité de l'introduction de variabilité afin d'augmenter la capacité de réponse à de nouvelles pressions de sélection (contrôlées ou non). L'introduction des souches hawaiiennes en Nouvelle-Calédonie qui permettrait à la filière locale de disposer de 40% de la diversité allélique de l'espèce) est préconisée de préférence à celle d'animaux sauvages afin de bénéficier (i) de la sélection spontanée qu'elles ont subi lors de leur domestication et (ii) de leur statut sanitaire « specific pathogen free, SPF » (absence de 4 virus : WSV, YHV, IHHNV, TSV) qui limite les risques de transferts de pathogènes.
Aquatic Living Resources (0990-7440) (Elsevier), 2003-12 , Vol. 16 , N. 6 , P. 501-508

Droits : 2003 Published by Elsevier, Paris.
http://archimer.ifremer.fr/doc/2003/publication-596.pdf
DOI:10.1016/j.aquliv.2003.07.001
http://archimer.ifremer.fr/doc/00000/596/

Éditeur(s) : Elsevier Science Bv
Résumé : We developed a growth model for Crassostrea gigas oyster shells based on the use of in situ temporal manganese markings to calibrate natural cathodoluminescence (CL) changes in the shell hinge sections. A 30 min to 4-h exposure period with Mn2+ (90-120 mg l(-1)) was sufficient to create a detectable mark in the shells. This makes the Mn2+ markings the fastest mollusc shells marking technique to date. The natural CL from juvenile and adult shells cultured in four standard shellfish-farming locations along the English Channel and French Atlantic coasts, exhibited a seasonal pattern (maximum CL intensity occurring during summer periods, minimum CL intensity occurring during winter). Hydrobiological data recorded at Baie des Veys site allows us to attribute the seawater temperature as the main parameter controlling CL of shells. Chlorophyll a and seawater manganese concentration were not decisive in the luminescence intensity of the shells. A relationship between oyster hinge growth and the length of shells makes the umbo investigations a promising tool for oyster-farming and/or wild stock assessments. Shell growth varied at spatial and temporal scales (higher growth rates were observed during summer-autumn and lower during the winter period), depending on seawater temperature changes. Sub-monthly Mn2+ markings support the fact that shell deposition can occur under temperatures below 6 degrees C, which has to be taken into account for both shellfish production and environmental monitoring derived from chemical compositions of the shells. Finally, our results point out the efficiency of age and shell growth rate determination by CL analysis in further shellfish ecosystem researches.
Aquaculture (0044-8486) (Elsevier Science Bv), 2010-02 , Vol. 300 , N. 1-4 , P. 206-217

Droits : 2010 Elsevier B.V. All rights reserved.
http://archimer.ifremer.fr/doc/00002/11300/7912.pdf
DOI:10.1016/j.aquaculture.2009.12.018
http://archimer.ifremer.fr/doc/00002/11300/

Éditeur(s) : Proceedings of the 59th Annual Gulf and Caribbean Fisheries Institute
Résumé : In most of marine fishes cultured, larvae in their early development are fed with live prey (rotifer and/or artemia). In hatcheries, culture of these preys is labour consuming, needs specific facilities and represent an important part of production cast. On the other hand, world artemia production is subjected to fluctuation of harvest in the wild which could Iimit fish farming industry in the near future. A dried formula adapted to marine fish larvae has been perfected by Ifremer's center of Brest (France) and is distributed by a feeding company since 1999. This artificial microbound diet has been successfully tested on several temperate fishes such as European seabass (Dicentrarchus labrax), Atlantic cod (Gadus morhua) or European seabream (Sparus aurata) in a co-feeding (i.e. artemia and dried diet) strategy. Experiments described here were carried out ta evaluate the performances obtained during total substitution of artemia by this diet in Red drum (Sciaenops ocellatus) larval culture. ln 2004 and 2005, four experiments were conducted on feed technology aspects (experimental or industrial manufacturing), weaning strategy (direct or co-feeding) and feed distribution method (prototypes or classical self feeder) in comparison to the standardized method using live preys. At the end of larval phase (day 15) and at day 30, end of nursery phase (0.6 g), survival relative to control (RTC) was respectively 96.9% and 111.0% in the best treatment. Concerning growth, the weight RTC reached at day 15 and day 30 was respectively 82.8% and 72.4%. However, it is important to note that rearing protocols have to be adapted ta the use of these micro pellets in order toprevent degradation of culture quality. These results show that this new product can be applied on industrial scale in private hatcheries. But further research is needed ta evaluate replacement of rotifers by this dried formula in order to completely eliminate live prey in larval culture of Red drum.
Dans la plupart des poisons marins élevés, les larves sont nourries avec des proies vivantes (rotifères et/ou artémia) au début de leur développement. Dans les écloseries, la culture de ces proies est consommatrice de main d'oeuvre, nécessite des installations spécifiques et entre pour une part importante dans le coût de production. Par ailleurs, la production mondiale d'artémia est dépendante de la fluctuation des récoltes dans le milieu naturel, ce qui pourrait gêner la filière piscicole marine dans un futur proche. Une formulation alimentaire inerte adaptée aux larves de poisson marin a été mise au point par le centre Ifremer de Brest (France) et est commercialisée par un provendier depuis 1999. Ces microparticules artificielles ont été testée avec succès sur plusieurs poissons tempérés comme le bar européen (Dicentrarchus labrax), la morue atlantique (Gadus morha) ou la daurade européenne (Sparus aurata) dans un contexte de co-feeding (i.e. artémia et aliment inerte). Les expériences décrites ici ont été menées afin d'évaluer les performances obtenues lors de la substitution totale des artémia par cet aliment dans l'élevage larvaire de l'ombrine (Sciaenops ocellatus). En 2004 et 2005, quatre expériences ont été menées sur l'aspect technologie alimentaire (fabrication expérimentale ou industrielle), la stratégie de sevrage (direct ou co-feeding) et le mode de distribution de l'aliment (distributeur classique ou prototypes) en comparaison au standard sur proies vivantes. En fin de phase larvaire (jour 15) et au jour 30 après une phase de prégrossissement (0.6g), la survie par rapport au témoin (RTC) était respectivement de 96.9% et 111 .1% dans le meilleur traitement. Concernant la croissance, les poids obtenus aux jours 15 et 30 atteignaient respectivement 82.8% et 72.4%. Cependant il est important de relever que les protocoles d'élevage doivent être adaptés à l'utilisation de ces microparticules afin de prévenir une dégradation de la qualité d'élevage. Ces résultats montrent que ce nouveau produit peut être appliqué à l'échelle industrielle dans les écloseries privées. Cependant, les recherches doivent être poursuivies pour évaluer les possibilités de remplacement des rotifères par ces aliments inertes afin de s'affranchir complètement de l'utilisation de proies vivantes dans l'élevage larvaire de l'ombrine.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/2006/acte-6597.pdf
http://archimer.ifremer.fr/doc/00000/6597/

Éditeur(s) : HAL CCSD Météo et Climat
Résumé : International audience
The Convective and Orographically- induced Precipitation Study (COPS) is a coordinated international project, comprised of an observational field campaign and a research programme aiming to advance the quality of fore- casts of orographically-induced pre- cipitation by four-dimensional obser- vations and modelling of its life cycle. The COPS field campaign took place during June-July-August 2007 over eastern France and south-western Germany. Its main objective was to provide an unprecedented comprehen- sive set of in situ and remotely-sensed meteorological observations of the entire depth of the troposphere. After a short overview of the project, the paper focuses on the French contribution to the COPS field phase, describes the experimental setup and highlights some key observations.
L’étude des précipitations convectives induites par l’orographie (Cops selon l’acronyme anglais) est un projet inter- national coordonné qui comprend une campagne d’observations de terrain et un programme scientifique et qui vise à améliorer la qualité des prévisions des précipitations orographiques convectives à la fois par l’observation quadridimensionnelle et la modélisa- tion de leur cycle de vie. La campagne de terrain s’est déroulée en juin-juillet- août 2007 sur l’est de la France et le sud-ouest de l’Allemagne. Son objectif majeur était de fournir un jeu d’obser- vations météorologiques, in situ et à distance, aussi complet que possible et sur toute la profondeur de la colonne troposphérique.Après une brève revue d’ensemble du projet, l’article se concentre sur la contribution française à la campagne Cops, décrit le dispositif expérimental mis en œuvre et met en valeur quelques observations clés.
ISSN: 0026-1181

insu-01504075
https://hal-insu.archives-ouvertes.fr/insu-01504075
https://hal-insu.archives-ouvertes.fr/insu-01504075/document
https://hal-insu.archives-ouvertes.fr/insu-01504075/file/meteo_2009_64_32.pdf
DOI : 10.4267/2042/23632

Éditeur(s) : HAL CCSD
Résumé : Several major earthquakes have struck the 2500 km long Himalayan range during the past century. However, both the maximum size of such earthquakes and the probability of occurrence of a magnitude 9 megaquake are still a mater of debate. In this framework it is of key importance to investigate the lateral segmentation of the Himalayan arc in order to deepen our understanding of the mechanisms that control such events as well as their extents. Besides the remarkably uniform tectonic set-up and the fact that most studies on the Himalayas have focused on Central Nepal, several indications of along strike changes can be gathered.This thesis brings new constraints on lateral variations of crustal structure and of deformation between western Nepal (~80°E) and eastern Bhutan (~92°E).The first part of this thesis focuses on the lateral variations of crustal structure. In the past three years we have carried out four land gravity campaigns. We have established 366 new gravity measurement points to fill the data gaps in central and western Nepal as well as in Bhutan. This new dataset, together with available seismological data, is used to constrain thermo-mechanical models of the bending of the India plate underneath the Himalayas. While the inferred crustal geometry does not exhibit major along-strike variations over central and eastern Nepal, the shorter wavelength flexure of the lithosphere in Bhutan is associated with a weaker upper mantle rheology.The second part focuses on the lateral variations of recent deformation in the Himalayas. Fifteen years of paleoseismological investigations have extended the catalogue of major Himalayan events over the last millennium. Combining these information with secular loading, we assess the spatial and temporal stress changes on the Main Himalayan Thrust along the orogen over the last nine centuries. Our calculations indicate that inter-seismic loading has now nearly overcome the Coulomb stress decrease caused by the great ~1100 medieval earthquake. Our results also point out that the 1897 Shillong plateau earthquake does not have a major influence on the stress accumulated on the Main Himalayan Thrust since then. In order to better characterize active tectonics in the Bhutan Himalayas where no studies were done so far, we carried out a morphotectonic analysis in the south-central part of the kingdom. We show that the same amount of Holocene deformation is accommodated on the frontal thrust in Bhutan as on the neighbouring portions of the Himalayan arc. We also find evidences for two major (M>8) earthquakes on this thrust in the Bhutan Himalayas during the last millennium. Our results therefore show that Bhutan cannot be considered as a seismic gap. They also challenge the interpretation of one single ~1100 medieval mega-event that would have ruptured the Main Frontal Thrust from central Nepal to eastern Bhutan.
Au cours du dernier siècle, plusieurs séismes majeurs ont affecté l'Himalaya. Cependant, la taille maximale de ces événements et la probabilité d'occurrence de méga-séismes avec des magnitudes proches de 9 sont toujours matière à débat. L'étude de la segmentation de l'arc Himalayen est donc primordiale afin de comprendre les mécanismes qui contrôlent ces séismes ainsi que leur extension spatiale. La compréhension du cycle sismique en Himalaya est aujourd'hui essentiellement basée sur des études menées au Népal central, ce qui limite notre connaissance de son fonctionnement tri-dimensionnel. Ce travail de thèse permet d'apporter de nouvelles contraintes sur les variations latérales de la déformation crustale dans la zone comprise entre l'ouest Népal (~80°E) et l'est Bhoutan (~92°E). La première partie de cette thèse est consacrée à l'étude des variations latérales de la structure lithosphérique. Quatre campagnes gravimétriques ont été réalisées entre 2010 et 2012. Elles ont permis d'étendre le réseau gravimétrique Népalais jusqu'à l'ouest Népal et d'établir le premier réseau gravimétrique Bhoutanais. Ce nouveau jeu de données, combiné avec les données sismologiques disponibles, permet de contraindre des modèles thermo-mécaniques de la flexure de la plaque Indienne sous l'Himalaya. Les résultats suggèrent qu'il n'existe pas de variations latérales majeures du comportement mécanique de la lithosphère Indienne entre le centre et l'est Népal contrairement au Bhoutan où une rigidité flexurale plus faible est nécessaire pour expliquer les données.La deuxième partie de cette thèse est consacrée à l'étude des variations latérales des déformations récentes dans le prisme Himalayen. Les études paléosismologiques menées depuis 15 ans en Himalaya ont permis d'étendre le catalogue des événements majeurs sur le dernier millénaire. En intégrant à la fois les contraintes disponibles sur ces séismes majeurs et le chargement séculaire, nous étudions les variations spatiales et temporelles de l'état de contrainte du chevauchemlent Himalayen principal le long de l'arc. Nos calculs montrent que même dans la cas où un méga-séisme se serait produit en ~1100 en Himalaya, le chargement séculaire a quasiment compensé la chute de contrainte associée. Les modèles montrent aussi que le séisme du Shillong ne joue pas un rôle majeur sur les contraintes accumulées sur le chevauchement Himalayen depuis 1897 au niveau du Bhoutan. Enfin, nous présentons les premières contraintes sur la tectonique active au Bhoutan. L'étude morphotectonique réalisée au centre du Sud-Bhoutan a permis de montrer que la majeure partie de la déformation Holocène est accommodée au niveau du front Himalayen, comme au Népal. Nous montrons aussi des évidences de ruptures de surface avec des décalages verticaux de plusieurs mètres associés à deux séismes majeurs sur le dernier millénaire. Ces évidences remettent en cause l'interprétation d'un méga-séisme en ~1100.
https://tel.archives-ouvertes.fr/tel-01002381

NNT : 2013MON20074
tel-01002381
https://tel.archives-ouvertes.fr/tel-01002381
https://tel.archives-ouvertes.fr/tel-01002381/document
https://tel.archives-ouvertes.fr/tel-01002381/file/35970_BERTHET_2013_archivage_cor.pdf

Éditeur(s) : HAL CCSD Linnean Society of London
Résumé : International audience
The circumscription of Salicaceae has recently been enlarged to include a majority of the species formerly placed in the polyphyletic tropical family Flacourtiaceae. Several studies have reported a peculiar and infrequently formed multilayered structure of tension wood in four of the tropical genera. Tension wood is a tissue produced by trees to restore their vertical orientation, and most studies have focused on trees developing tension wood by means of cellulose-rich, gelatinous fibres, as is known in Populus L. and Salix L. (Salicaceae s.s.). This study aims to determine if the multilayered structure of tension wood is an anatomical characteristic common in other Salicaceae, and if so, how its distribution correlates to phylogenetic relationships. Therefore, we studied the tension wood of 14 genera of Salicaceae as well as two genera of Achariaceae, one genus of Goupiaceae, and one genus of Lacistemataceae, families closely related to Salicaceae or formerly placed in Flacourtiaceae. Opposite wood and tension wood were compared with light microscopy and 3D Laser Scanning Confocal Microscopy. The results indicate that a multilayered structure of tension wood is common in the family except in Salix, Populus, and one of their closest relatives, Idesia polycarpa Maxim. We suggest that tension wood may be a useful anatomical character in understanding phylogenetic relationships in Salicaceae. Further investigation is still needed on the tension wood of several other putatively close relatives of Salix and Populus, in particular Bennettiodendron Merr., Macrohasseltia L.O.Williams and Itoa Hemsl.
ISSN: 0024-4074

hal-01392845
https://hal.archives-ouvertes.fr/hal-01392845
https://hal.archives-ouvertes.fr/hal-01392845/document
https://hal.archives-ouvertes.fr/hal-01392845/file/GhislainEtAl2016_MultylayerTWSalicaceae_Bot_Jsur the_Lin_Soc_HALssfig.pdf
DOI : 10.1111/boj.12471

Éditeur(s) : HAL CCSD
Résumé : International audience
Volumes of magma intruded in and emitted by volcanoes through time can be estimated by reconstruction of vol-cano's morphology and time sequence. Classical approaches for quantifying magma volumes on active volcanoes are based on the difference between pre-and post-eruption digital elevation models (DEM), but this kind of approach needs the pre-eruptive surfaces to be available. For old and eroded volcanoes these surfaces are poorly constrained. However, because the geometrical form of many volcanic edifices exhibits a remarkable symmetry we propose, here, a new approach using primary volcanic landforms in order to estimate the amount of the both erupted and eroded material and to locate eruptive centers. A large fraction of composite volcanoes have near constant slope on their flanks and a form that is concave upwards near their summits. But many phenomena can lead to non-symetrical edifices and complex morphologies can result, for example from parasitic centers of volcanism on the flanks, from alternation of short effusive and explosive construction phases, from flank or caldera collapses, or from glacial and other types of erosion. In this study we propose that, on the first order approximation, complex morphologies can be modeled by piling regular cones. In this model, cones centers and slopes are derived by fitting primary volcanic landform with a linear function :elevation=f(distance from center). Such an approach allows to estimate both errors on location of the eruptive center and on the volume of the resulting cones. This model can then be used for quantifying volume of erupted and eroded material, and for quantifying catastrophic events as giant landslides or flank collapse. This approach is tested on four different active volcanoes : Mount Mayon (Philippines), Mount Fuji (Japan), Mount Etna (Sicily) and Mount Teide (Canary Island) to estimate errors in volume between modeled and actual edifices. It is then used on volcanoes of La Réunion hotspot to reconstruct the Piton des Neiges and Piton de la Fournaise volcanoes at its different stages of growing.
EGU 2014
Vienna, Austria

hal-01386609
http://hal.univ-reunion.fr/hal-01386609

Éditeur(s) : HAL CCSD Seismological Society of America
Résumé : International audience
The objective of this paper is to provide a better understanding of the relationship between the microseismicity, active tectonics, and crustal structures in the southwest Yukon Territory, Canada, in order to improve seismic‐hazard assessments in this region. We utilize data from a new dense seismic array that was deployed in the southwest Yukon in the summer of 2010. Data from the new seismic array significantly improve the magnitude completeness level in the region from ML 3.0 to 1.0. We analyze 980 events ranging in magnitudes from ML 0.2 to 4.7, at depths from 0 to 35 km. Relocation analysis using the progressive multiple event location shows that seismicity is concentrated in four main areas: (1) Yakutat block northern boundary-Fairweather fault, (2) Duke River fault, (3) southern Denali fault, and (4) a previously unrecognized northeast trending cluster that may highlight a previously unknown active fault. This cluster may contribute to stress and strain transfer inland from the Yakutat block region.
ISSN: 0037-1106

hal-00940935
https://hal.archives-ouvertes.fr/hal-00940935
DOI : 10.1785/0120130068

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We explore the relationships within Serraniformes (Li et al., 2009) using a dense taxon sampling and seven nuclear markers. Six had already used been for teleost phylogeny (IRBP, MC1R, MLL4, Pkd1, Rhodopsin, and RNF213) at other scales, and one (MLL2) is new. The results corroborate the composition of Serraniformes described in previous publications (some Gasterosteiformes, Perciformes and Scorpaeniformes). Within the clade, Notothenioidei and Zoarcoidei are each monophyletic. Cottoidei was not monophyletic due to placement of the genus Ebinania (Psychrolutidae). Our independent data confirm the sister-group relationship of Percophidae and Notothenioidei as well as the division of Platycephaloidei in four different groups (Bembridae, Platycephalidae, Hoplichthyidae and Peristediidae with Triglidae). Within Cottoidei, Liparidae and Cyclopteridae formed a clade associated with Cottidae, the genus Cottunculus (Psychrolutidae), and Agonidae. Serranidae and Scorpaenidae are not monophyletic, with the Serranidae divided in two clades (Serraninae and Epinephelinae/Anthiinae) and Scorpaenidae including Caracanthidae and the genus Ebinania (Psychrolutidae). We discuss some morphological characters supporting clades within the Scorpaenidae.
ISSN: 1055-7903

hal-01544909
https://hal.archives-ouvertes.fr/hal-01544909
DOI : 10.1016/j.ympev.2012.12.020

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Chromitite pods in the Mayarí-Cristal ophiolitic massif (eastern Cuba) were formed in the Late Cretaceous when island arc tholeiites and MORB-like back-arc basin basalts reacted with residual mantle peridotites and generated chromite-rich bodies enclosed in dunite envelopes. Platinum-group minerals (PGM) in the podiform chromitites exhibit important Os-isotope heterogeneities at the kilometric, hand sample and thin section scales. 187Os/188Os calculated at the time of chromitite crystallization (~90 Ma) ranges between 0.1185 and 0.1295 (γOs = −7.1 to +1.6, relative to enstatite chondrite), and all but one PGM have subchondritic 187Os/188Os. Grains in a single hand sample have initial 187Os/188Os that spans from 0.1185 to 0.1274, and in one thin section it varies between 0.1185 and 0.1232 in two PGM included in chromite which are only several millimeters apart. As the Os budget of a single micrometric grain derives from a mantle region that was at least several m3 in size, the variable Os isotopic composition of PGM in the Mayarí-Cristal chromitites probably reflects the heterogeneity of their mantle sources on the 10-100 m scale. Our results show that this heterogeneity was not erased by pooling and mingling of individual melt batches during chromitite crystallization but was transferred to the ore deposits on mineral scale. The distribution of the Os model ages calculated for PGM shows four main peaks, at ~100, 500, 750 and 1,000 Ma. These variable Os model ages reflect the presence of different depleted domains in the oceanic (Pacific-related) upper mantle of the Greater Antilles paleo-subduction zone. The concordance between the age of crystallization of the Mayarí-Cristal chromitites and the most recent peak of the Os model age distribution in PGM supports that Os in several grains was derived from fertile domains of the upper mantle, whose bulk Os isotopic composition is best approximated by that of enstatite chondrites; on the other hand, most PGM are crystallized by melts that tapped highly refractory mantle sources.
ISSN: 0010-7999

hal-00822742
https://hal.archives-ouvertes.fr/hal-00822742
DOI : 10.1007/s00410-010-0575-2

Résumé : Les variétés modernes de canne à sucre sont d'origine bispécifique et possèdent une structure génétique complexe, aneuploïde et hautement polyploïde rendant difficile les études de résistance génétique. La feuille jaune de la canne a sucre est une maladie dont l'agent causal est le sugarcane yellow leaf virus (scylv). Ce virus a une large diversité. Seuls trois génotypes viraux, différenciables par rtpcr, ont été trouves en Guadeloupe. Les objectifs de l'étude sont d'évaluer: l/la possibilité de marquer la résistance de la plante au scylv grâce a une étude d'association pan-génomique 2/l'impact de la diversité de l'agent pathogène sur la résistance de la canne a sucre au scylv. Les études d'association ont été menées avec plus de 4000 marqueurs aflp et d'art sur quatre types de données phénotypiques (intensité et densité virale dans les feuilles et les tiges). Les phénotypes ont été mesures sur 189 variétés de cannes à sucre dans deux essais successifs dans un dispositif en trois blocs randomises. De ces variétés, 40 ont été sélectionnées et ont permis d'obtenir 10 croisements biparentaux. Les descendances obtenues ont été suivies sur deux essais. L'incidence et la diversité du scylv ont été évaluées pour les 40 variétés et les descendances. L'héritabilité au sens strict de la résistance aux scylv a été déterminée. Six marqueurs de résistance au scylv ont été identifies ainsi que deux gènes ayant potentiellement un rôle dans la résistance au virus. L'étude montre également que la résistance de la plante est variable en fonction du génotype du scylv et que cette résistance est en partie transmise aux descendances. Créer des variétés résistantes au scylv est donc possible.
Modern varieties of sugarcane have a bispecific origin and a complex genetic structure, aneuploid and highly polyploid, maklng genetic resistance study uneasy to perform. Yellow leaf of sugarcane is a viral disease whose causal agent is the sugarcane yellow leaf virus (scylv). This virus has a wide range of diversity. Only three viral genotypes, distinguishable by rt-pcr, were found in guadeloupe. The objectives of this srudy are to assess: l/the possibility to find markers associated with plant resistance to scylv through a genome wide association study 2 1 the impact of the pathogen diversity on the resistance of sugarcane to scylv. Association studies have been conducted with more than 4000 aflp and dart markers on four types of phenotypic data (virus intensity and density in leaves and canes). Phenotypes were measured on 189 varieties of sugarcane in two successive trials in a three randomized complete block design. From these varieties, 40 were selected and allowed to obtain 10 biparental crosses. The offspring were followed during two trials. The incidence and the diversity of scylv were evaluated in the 40 varieties and the offspring. The narrow sense heritability of the resistance to the scylvs was determined. Six markers of the resistance to the scylv and two genes, with potential contribution in virus resistance, have been identified. The study also shows that the resistance of the plant is variable depending on the scylv genotype and that this resistance is partly transmitted to the offspring. Breeding for scylv resistance is practicable.

http://www.theses.fr/2012AGUY0554/document

Résumé : La distribution actuelle des espèces d’arbres des forêts tropicales humides amazoniennes est le résultat de processus dynamiques sur lesquels les perturbations passées, d’origine climatique ou anthropique, peuvent avoir jouées un rôle majeur. Des outils génétiques actuels associés à des méthodes d’analyses puissantes permettent d’inférer et de dater l’empreinte génomique des évènements démographiques subits par les populations naturelles. Le but de cette thèse est de contribuer à une vision d’ensemble de l’évolution démographique de la forêt tropicale humide du plateau des Guyanes pendant le Quaternaire. J’ai d’abord étudié les propriétés des microsatellites (répétitions simple de séquences, SSR) et les limites de leurs applications en tant que marqueurs moléculaires en phylogéographie. Plusieurs allèles SSR contenu dans diverses populations de trois genres d’arbres différents ont été séquencés et le polymorphisme, porté par chaque partie des fragments ADN contenant des SSR, a été étudié. J’ai observé que la quantité de variation génétique était aussi importante dans les régions encadrant le microsatellite que dans le SSR lui-même. Ces régions ont contribué significativement à l’information phylogénétique et ont parfois été la principale source de différenciation entre les individus et les populations. Cette expérience m’a permis de choisir la meilleure stratégie à adopter pour traiter les données de variation génétique des SSR dans des modèles démographiques. J’ai ensuite utilisé ces marqueurs SSR et des méthodes ABC pour étudier l’impact local des occupations humaines précolombiennes sur les forêts en Guyane française. Les changements démographiques subis par des populations de quatre espèces d’arbres ont été comparés entre cinq sites occupés et quatre sites non perturbés. Les perturbations naturelles et induites par l’homme ont contribué à la mise en place de la diversité observée actuellement, comme le suggère des signatures d’effet fondateur détectées sur les sites perturbés ou non. Néanmoins, la taille des populations fondatrices semble être proportionnelle à l’impact humain estimé, indiquant que les perturbations anthropique ont induit un remplacement des populations plus important que les processus écologiques naturels. Pour terminer, j’ai mené une étude de démographie comparative d’espèces d’arbres tropicaux à l’échelle régionale de la Guyane française. Cinq scénarios démographiques ont été testés pour neuf populations de huit espèces en utilisant des microsatellites nucléaires et des séquences chloroplastiques. Les changements démographiques les plus récents détectés convergent vers une signature générale d’expansion de la forêt humide depuis probablement la dernière glaciation. Cela peut suggérer, soit que la composition des forêts du plateau des Guyanes était différente, ou que le couvert forestier était moins étendu. Ce résultat constitue le premier indice de changement passé, probablement d’origine climatique, subi par les communautés forestières du plateau des Guyanes ; qui n’avait jusque-là pas pu être testé avec des méthodes standards en raison d’un manque de fossiles. En conclusion, j’ai recueilli des preuves génétiques que les perturbations, à différents échelles de temps, ont marqué la structure et la composition génétique des forêts du plateau des Guyanes. L’application de ces méthodes à d’autres régions Néotropicales pourrait contribuer, à l’avenir, à reconstruire l’histoire écologique de la forêt amazonienne de façon détaillée.
The current tree species distribution in Amazonian tropical rainforests is the outcome of dynamic processes in which past perturbations, climatic or anthropogenic, may have played a major role. Currently available genetic tools associated with powerful analytical methods allow inferring and dating the genomic imprint of demographic events undergone by natural populations. The aim of my thesis is to contribute to an overview of the demographic evolution of the tropical rainforest in the Guiana shield during the Quaternary. I have first studied the properties of microsatellites or Simple sequence repeat (SSR) and the limits in their applications as molecular markers in phylogeography. Several SSR alleles in multiple populations of three divergent tree genera have been sequenced and the sources of polymorphisms, carried by each portion of SSR-containing DNA amplicons, have been broken apart. I have observed that the amount of variation was as large in flanking regions as in the SSR itself. The former contributed significantly to the phylogenetic information and sometimes was the main source of differentiation among individuals and populations. This experiment allowed me to choose the best strategy to treat SSR variation in demographic modeling. I have subsequently used SSR markers and ABC methods to study the impact of pre-Columbian human settlements at the local level on rainforests in French Guiana. Demographic changes undergone by populations of four tree species were compared between five settled and four undisturbed sites. Both natural turnover and human-induced disturbances appeared as shaping currently observed genetic diversity, with signatures of founder effect both at disturbed and undisturbed sites. Nevertheless, the size of founding populations appeared to be proportional to the estimated human impact, suggesting that human-made disturbance caused deeper population turnover than background ecological processes. Finally, I have conducted a comparative demography study of tropical tree species at the regional level across French Guiana. Five demographic scenarios have been tested for nine populations from eight species using both nuclear microsatellites and chloroplastic sequences. The most recent demographic signals detected converge on a global signature of expansion of the rainforest since probably the last glaciation. This finding can suggest either that the composition of the Guiana shield rainforests was different, or that its global extent was smaller, during earlier epochs of the Pleistocene than today. This result is the first firm indication of changes undergone by the forest communities of the Guiana shield in the distant climatic past – something which could not be tested with standard methods due to almost complete lack of fossil evidence. In conclusion, I have gathered genetic evidence that disturbances, both in historical and geological times, have marked the structure and composition of forests in the Guiana shield.The extensive application of these methods to other regions of the Neotropics maycontribute, in the future, to the detailed reconstruction of the ecological history ofAmazonian forests.

http://www.theses.fr/2012AGUY0568/document

Éditeur(s) : HAL CCSD
Résumé : This work deals with the dating of Mount Etna lava flows and eruptive fissure deposits to the last four millennia following field investigations and stratigraphic data (BRANCA et alii, 2011a). We have studied 24 of these volcanic products, including 301 large samples, through high precision archeomagnetic dating checked by 226Ra-230Th radiochronology, thus providing additional material to the previous paper by TANGUY et alii (2007). In most cases our results allow attributing ages to the historical period, although two flows are shown to be prehistoric. For the historic lavas, archeoma - gnetic ages can be defined within decades, except for three of them that erupted during a time span (Greco-Roman epoch) when the geomagnetic field underwent little variation. Although 60% of these volcanics exhibit ages comprised between 700 AD and 1850, only one (1285) is mentioned by contemporary written accounts. We conclude that i) historical documents alone are insufficient to reconstruct a coherent sequence of eruptions, and ii) a multidisciplinary approach is necessary to obtain a comprehensive eruptive history of such a very active volcano, useful for both scientific and civil protection purposes, even for such a geologically recent period as that of the last 10 or 20 centuries. Thanks to these new archeomagnetic and 226Ra-230Th data coupled with stratigraphic data, a comprehensive volcanic history of the still-outcropping Mount Etna volcanics is now available for the last 2,400 years. KEY WORDS: Etna volcano, archeomagnetic dating, 226Ra- 230Th dating, stratigraphy, historical account.
Italian Journal of Geosciences

hal-00758077
https://hal.archives-ouvertes.fr/hal-00758077
DOI : 10.3301/IJG.2012.01

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
BACKGROUND AND AIMS: Determining the sources of variation in floral morphology is crucial to understanding the mechanisms underlying Angiosperm evolution. The selection of floral and reproductive traits is influenced by the plant's abiotic environment, florivores and pollinators. However, evidence that variations in floral traits result from mutualistic interactions with insects other than pollinators is lacking in the published literature and has rarely been investigated. We aimed to determine whether the association with either Camponotus femoratus or Pachycondyla goeldii (both involved in seed dispersal and plant protection) mediates the reproductive traits and allocation of Aechmea mertensii, an obligatory ant-garden tank-bromeliad, differently. METHODS: Floral and reproductive traits were compared between the two A. mertensii ant-gardens. The nitrogen flux from the ants to the bromeliads was investigated through experimental enrichments with stable isotopes ((15)N). KEY RESULTS: Camponotus femoratus-associated bromeliads produced inflorescences up to four times longer than did P. goeldii-associated bromeliads. Also, the numbers of flowers and fruits were close to four times higher, and the number of seeds and their mass per fruit were close to 1*5 times higher in C. femoratus than in P. goeldii-associated bromeliads. Furthermore, the (15)N-enrichment experiment showed that C. femoratus-associated bromeliads received more nitrogen from ants than did P. goeldii-associated bromeliads, with subsequent positive repercussions on floral development. Greater benefits were conferred to A. mertensii by the association with C. femoratus compared with P. goeldii ants. CONCLUSIONS: We show for the first time that mutualistic associations with ants can result in an enhanced reproductive allocation for the bromeliad A. mertensii. Nevertheless, the strength and direction of the selection of floral and fruit traits change based on the ant species and were not related to light exposure. The different activities and ecological preferences of the ants may play a contrasting role in shaping plant evolution and speciation.
ISSN: 0305-7364

hal-00819112
https://hal.archives-ouvertes.fr/hal-00819112
DOI : 10.1093/aob/mcr253
PUBMED : 21984729

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The contourite depositional system (CDS) along the southwestern Iberian Margin (SIM), within the Gulf of Cadiz and offshore areas of western Portugal bear the unmistakable signal of Mediterranean Outflow Water (MOW) exiting the Strait of Gibraltar. This locality records key information concerning the effects of tectonic activity on margin sedimentation, the effects of MOW dynamics on Atlantic circulation, and how these factors may have influenced global climate. Over the last four decades, numerous studies have been conducted on the late Miocene, Pliocene and Quaternary sedimentary stacking pattern of Neogene basins along the SIM for both academic and resources exploration purposes. However, understanding of the region rests primarily on basic seismic stratigraphy calibrated with limited data from only a few exploration wells. The Integrated Ocean Drilling Program (IODP) Expedition 339 recently drilled five sites in the Gulf of Cadiz and two sites on the western Iberian margin. The integration of core and borehole data with other geophysical databases leads us to propose a new stratigraphic framework. Interpretation of IODP Exp. 339 data along with that from industry sources and onshore outcrop analysis helps refine our understanding of the SIM's sedimentary evolution.We identify significant changes in sedimentation style and dominant sedimentary processes, coupled with widespread depositional hiatuses along the SIM within the Cadiz, Sanlucar, Doñana, Algarve and Alentejo basins. Following the 4.5 Ma cessation of a previous phase of tectonic activity related to the Miocene–Pliocene boundary, tectonics continued to influence margin development, downslope sediment transport and CDS evolution. Sedimentary features indicate tectonic pulses of about 0.8–0.9 Ma duration with a pronounced overprint of ~ 2–2.5 Ma cycles. These more protracted cycles relate to the westward rollback of subducted lithosphere at the convergent Africa-Eurasia plate boundary as its previous NW–SE compressional regime shifted to a WNW–ESE direction. Two major compressional events affecting to the Neogene basins at 3.2–3 Ma and 2–2.3 Ma help constrain the three main stages of CDS evolution. The stages include: 1) the initial-drift stage (5.33–3.2 Ma) with a weak MOW, 2) a transitional-drift stage (3.2–2 Ma) and 3) a growth-drift stage (2 Ma-present time) with enhanced MOW circulation into the Atlantic and associated contourite development due to greater bottom-current velocity. Two minor Pleistocene discontinuities at 0.7–0.9 Ma and 0.3–0.6 Ma record the effects of renewed tectonic activity on basin evolution, appearing most prominently in the Doñana basin. Several discontinuities bounding major and minor units appear on seismic profiles. Quaternary records offer the clearest example of this, with major units of about 0.8–0.9 Ma and sub-units of 0.4–0.5 Ma. Sedimentation is controlled by a combination of tectonics, sediment supply, sea-level and climate. This research identifies time scales of tectonic controls on deep-marine sedimentation, specifically over periods of 2.5–> 0.4 Ma. Shorter-term climatic (orbital) mechanisms control sedimentation at time scales of ≤ 0.4 Ma. The role of bottom water circulation and associated processes in shaping the seafloor and controlling the sedimentary stacking pattern on continental margins has to be seriously reconsidered in future multidisciplinary studies. This is not only because of the common occurrence of sandy contourite deposits in deep water setting and their economic interest for hydrocarbon exploration, but principally because they archive the heartbeat of the interior Earth and therefore have important sedimentary and paleoceanographic implications.
ISSN: 0025-3227

hal-01356166
https://hal.archives-ouvertes.fr/hal-01356166
DOI : 10.1016/j.margeo.2015.09.013