Éditeur(s) : HAL CCSD
Résumé : Designing biodiversity conservation plans requires knowledge on the biogeographic distribution of taxabut also accurate estimates of species richness and diversification processes. However, measuring the phyleticrichness can be biased by the use of inappropriate taxonomical characters, leading to erroneous speciesdelimitation and diversity estimates.This work explores the phyletic richness at several taxonomic levels (generic, specific and intraspecific) ofthe hydrozoan family Aglaopheniidae (Marktanner-Turneretscher, 1890), with a particular focus on the South-Western Indian Ocean. Firstly, using several newly constructed phylogenies based on mitochondrial andnuclear markers, this study reveals that the phyletic diversity of this family is at underestimated by at least 50%:all studied genera are polyphyletic or with doubtful monophyletic status. Then, using several speciesdelimitation methods based on molecular markers, it sheds light on the richness of cryptic diversity of thisfamily, enlightening the potential of using an integrative taxonomic approach on these morphologically simpleorganisms. Finally, the population genetics of an Aglaopheniidae brooding species shows a high populationsstructuring with pervasive pattern of isolation by distance at several geographic scales (several to thousands ofkilometres), implying a potentially high cryptic diversity existing in this family.The results of this work provide new insights on Aglaopheniidae diversity, underlining the potentialinfluence of reproductive mode on the phyletic diversity and diversification processes of brooding hydrozoanbrooders. This thesis further highlights the relevance of using several complementary
La conservation et la gestion sur le long terme de la biodiversité nécessitent une connaissance de larépartition des taxons, mais également une estimation précise de leur diversité spécifique ainsi que desprocessus de spéciation ayant permis leur formation. Cependant, la mesure de la richesse phylétique peut êtrebiaisée par l’utilisation de caractères taxinomiques ne permettant pas de délimiter les espèces de manièreappropriée.Ce travail de thèse propose d’explorer la diversité phylétique à plusieurs niveaux taxinomiques(générique, spécifique et intra-spécifique) des Aglaopheniidae, une famille d’hydrozoaires, notamment présentedans le Sud-Ouest de l’océan Indien. Dans un premier temps, en utilisant des phylogénies basées sur plusieursmarqueurs (mitochondriaux et nucléaires), ce travail démontre que la diversité phylétique de cette famille est,au minimum, sous-estimée de moitié: tous les genres de la famille sont polyphyléthiques ou présentent un statutmonophylétique restant à confirmer. Dans un deuxième temps, l’utilisation de méthodes de délimitationd’espèces basées sur des données moléculaires met en évidence la diversité cryptique très élevée des morphoespècesétudiées, révélant l’intérêt potentiel des protocoles de taxinomie intégrative chez les organismesmorphologiquement simples. Enfin, l’étude de génétique des populations d’une espèce incubatriced’Aglaopheniidae révèle l’importance de la structuration des populations et de l’isolement par la distance chezcette espèce à plusieurs échelles géographiques (de quelques kilomètres à plusieurs milliers), impliquant unepotentielle diversité cryptique extrêmement élevée chez cette famille.L’ensemble des connaissances acquises lors de ce travail de thèse fournit un nouveau regard sur ladiversité de la famille des Aglaopheniidae, soulignant le potentiel impact du cycle de reproduction sur ladiversité phylétique et les processus de spéciation des hydrozoaires incubateurs. Cette thèse met en évidence lapertinence de l’utilisation de plusieurs procédures complémentaires de délimitation d’espèces pour étudier ladiversité des organismes morphologiquement simples.
https://hal.archives-ouvertes.fr/tel-01359424

tel-01359424
https://hal.archives-ouvertes.fr/tel-01359424
https://hal.archives-ouvertes.fr/tel-01359424/document
https://hal.archives-ouvertes.fr/tel-01359424/file/These%20manuscrit%20final.pdf

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
Vertebrate genomes contain around 20,000 protein-encoding genes, of which a large fraction is still not associated with specific functions. A major task in future genomics will thus be to assign physiological roles to all open reading frames revealed by genome sequencing. Here we show that C2orf62, a highly conserved protein with little homology to characterized proteins, is strongly expressed in testis in zebrafish and mammals, and in various types of ciliated cells during zebrafish development. By yeast two hybrid and GST pull-down, C2orf62 was shown to interact with TTC17, another uncharacterized protein. Depletion of either C2orf62 or TTC17 in human ciliated cells interferes with actin polymerization and reduces the number of primary cilia without changing their length. Zebrafish embryos injected with morpholinos against C2orf62 or TTC17, or with mRNA coding for the C2orf62 C-terminal part containing a RII dimerization/docking (R2D2) - like domain show morphological defects consistent with imperfect ciliogenesis. We provide here the first evidence for a C2orf62-TTC17 axis that would regulate actin polymerization and ciliogenesis.
ISSN: 1932-6203

hal-00955242
https://hal-univ-rennes1.archives-ouvertes.fr/hal-00955242
https://hal-univ-rennes1.archives-ouvertes.fr/hal-00955242/document
https://hal-univ-rennes1.archives-ouvertes.fr/hal-00955242/file/C2orf62_and_TTC17-accepted.pdf
DOI : 10.1371/journal.pone.0086476

Éditeur(s) : HAL CCSD Cambridge University Press (CUP)
Résumé :  
Although the potential contribution to tropical tree species coexistence of niche differentiation along light gradients has receivedmuch attention, the degree to which species perform differentially along soil resource gradients remains unclear. To examine differential growth response to soil resources, we grew seedlings of nine tropical tree species at 6.0% of full sun for 12mo in a factorial design of two soil types (clay and white sand), two phosphate fertilization treatments (control and addition of 100mgP kg−1) and two watering treatments (field capacity and water limitation to one-third field capacity). Species differedmarkedly in biomass growth rate, but this hierarchy was almost completely conserved across all eight treatments. All species grew more slowly in sand than clay soils, and no species grew faster with phosphate additions. Only Eperua grandiflora and E. falcata showed significant growth increases in the absence of water limitation. Faster-growing species were characterized by high specific leaf area, high leaf allocation and high net assimilation rate but not lower root allocation. Slower-growing species exhibited greater plasticity in net assimilation rate, suggesting that tolerance of edaphic stress in these species is related more to stomatal control than to whole-plant carbon allocation. Although relative growth rate for biomass was correlatedwith both its physiological and morphological components, interspecific differences were best explained by differences in net assimilation rate across six of the eight treatments. A suite of traits including high assimilation and high specific leaf area maintains rapid growth rate of faster-growing species across awide gradient of soil resources, but the lack of plasticity they exhibit may compromise their survival in the poorest soil environments.
ISSN: 0266-4674

hal-01032086
https://hal.archives-ouvertes.fr/hal-01032086
DOI : 10.1017/S0266467406003439

Éditeur(s) : Springer
Résumé : Based on new multibeam bathymetric data, seismic-reflection profiles and side-scan sonar images, a great number of submarine failures of various types and sizes was identified along the northern margin of the Ligurian Basin and characterized with 3 distinct end-members concerning their location on the margin, sedimentary processes and possible triggering mechanisms. They include superficial landslides mainly located in the vicinity of the main mountain-supplied rivers and on the inner walls of canyons (typically smaller that 10(8) m(3) in volume: Type 1), deep scars 100-500 m high along the base of the continental slope (Type 2), and large-scale scars and Mass Transport Deposits (MTDs) affecting the upper part of the slope (Type 3 failures). The MTDs are located in different environmental contexts of the margin, including the deep Var Sedimentary Ridge (VSR) and the upper part of the continental slope in the Gulf of Genova (Finale Slide and Portofino Slide), with volumes of missing sediment reaching up to 1.5 x 10(9) m(3). High sedimentation rates related to hyperpycnal flows, faults and earthquake activity, together with sea-level fluctuations are the main factors invoked to explain the distribution and sizes of these different failure types.
Marine Geophysical Research (0025-3235) (Springer), 2011-03 , Vol. 32 , N. 1-2 , P. 225-243

Droits : Springer Science+Business Media B.V. 2011
http://archimer.ifremer.fr/doc/00043/15387/14028.pdf
DOI:10.1007/s11001-011-9123-3
http://archimer.ifremer.fr/doc/00043/15387/

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
Gravitropism is necessary for plants to control the orientation of their axes while they grow in height. In woody plants, stem re-orientations are costly because they are achieved through diameter growth. The functional diversity of gravitropism was studied to check if the mechanisms involved and their efficiency may contribute to the differentiation of height growth strategies between forest tree species at the seedling stage. Seedlings of eight tropical species were grown tilted in a greenhouse, and their up-righting movement and diameter growth were measured during three months. Morphological, anatomical and biomechanical traits were measured at the end of the survey. Curvature analysis was used to analyse the up-righting response along the stems. Variations in stem curvature depend on diameter growth, size effects, the increase in self-weight, and the efficiency of the gravitropic reaction. A biomechanical model was used to separate these contributions. Results showed that (1) gravitropic movements were based on a common mechanism associated to similar dynamic patterns, (2) clear differences in efficiency (defined as the change in curvature achieved during an elementary diameter increment for a given stem diameter) existed between species, (3) the equilibrium angle of the stem and the anatomical characters associated to the efficiency of the reaction also differed between species, (4) the differences in gravitropic reaction were related to the light requirements: heliophilic species, compared to more shade-tolerant species, had a larger efficiency and an equilibrium angle closer to vertical. This suggests that traits determining the gravitropic reaction are related to the strategy of light interception and may contribute to the differentiation of ecological strategies promoting the maintenance of biodiversity in tropical rain forests.
ISSN: 0022-0957

hal-00797023
https://hal.archives-ouvertes.fr/hal-00797023
https://hal.archives-ouvertes.fr/hal-00797023/document
https://hal.archives-ouvertes.fr/hal-00797023/file/Functional_diversity_gravitropic_Almeras_al.pdf

Éditeur(s) : Academic Press Ltd- Elsevier Science Ltd
Résumé : Extracellular products (ECPs) of the pathogenic Vibrio aestuarianus 01/32 were previously reported to display lethality in Crassostrea gigas oysters and to cause morphological changes and immunosuppression in oyster hemocytes. To identify the source of this toxicity, biochemical and genetic approaches were developed. ECP protease activity and lethality were shown to be significantly reduced following incubation with metal chelators, suggesting the involvement of a zinc metalloprotease. An open reading frame of 1836 bp encoding a 611-aa metalloprotease (designated yam) was identified. The deduced protein sequence showed high homology to other Vibrio metalloproteases reported to be involved in pathogenicity. To further confirm the role of this enzyme in ECP toxicity, a plasmid carrying the yarn gene under the control of an araC-P-BAD expression cassette was transferred to a Vibrio splendidus related strain, LMC20012(T), previously characterized as non-pathogenic to oysters. Expression of Vam conferred a toxic phenotype to LMG20012(T) ECPs in vivo and cytotoxicity to oyster hemocytes in vitro. Collectively, these data suggest that the Vam metalloprotease is a major contributor to the toxicity induced by V aestuarianus ECPs and is involved in the impairment of oyster hemocyte functions. (C) 2010 Elsevier Ltd. All rights reserved.
Fish & Shellfish Immunology (1050-4648) (Academic Press Ltd- Elsevier Science Ltd), 2010-11 , Vol. 29 , N. 5 , P. 753-758

Droits : 2010 Elsevier Ltd All rights reserved.
http://archimer.ifremer.fr/doc/00015/12649/9588.pdf
DOI:10.1016/j.fsi.2010.07.007
http://archimer.ifremer.fr/doc/00015/12649/

Éditeur(s) : Springer
Résumé : The Håkon Mosby mud volcano is a 1.5-km-diameter geological structure located on the Southwest Barents Sea slope at a water depth of 1,270 m. High-definition seabed mapping of the mud volcano has been carried out in 2003 and 2006. A comparative analysis of the bathymetry and backscatter maps produced from the two surveys shows subtle morphological changes over the entire crater of the mud volcano, interpreted to be the consequence of mud eruption events. Mud temperature measurements point to a persistently warm mud at shallow depth in the crater. This is explained by upward fluid advection, rather than conductive cooling of mud flows. The small-scale spatial variability in the temperature distribution may be related to mud outflows or changes in the fluid flow regime. Furthermore, the locations of free gas venting observed in 2006 were found to differ from those of 2003. Our observations of overall similar topographic profiles across the mud volcano in 2003 and 2006 suggest that eruption events would have been modest. Nevertheless, the data bring evidence of significant change in activity even over short time intervals of only 3 years. This may be a characteristic shared by other submarine mud volcanoes, notably those considered to be in a quiescent stage.
Geo-marine Letters (0276-0460) (Springer), 2010-06 , Vol. 30 , N. 3-4 , P. 157-167

Droits : Springer-Verlag 2010
http://archimer.ifremer.fr/doc/00004/11527/10261.pdf
DOI:10.1007/s00367-010-0193-z
http://archimer.ifremer.fr/doc/00004/11527/

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We sought transversotrematid trematodes from French Polynesian fishes by examining 304 individual scaled fishes of 53 species from seven families known to harbour the family elsewhere. A single species was found at two locations in the Tuamotus Archipelago on two species of Chaetodontidae (Chaetodon auriga and Chaetodon ephippium) and one species of Lutjanidae (Lutjanus gibbus). The species closely resembles Transversotrema borboleta Hunter & Cribb, 2012 from chaetodontids and lutjanids of the northern Great Barrier Reef (GBR) but differs from it consistently in 8 base positions of ITS2 rDNA. This level of variation exceeds that between some clearly morphologically distinct pairs of species of Transversotrema and the form from French Polynesia is thus interpreted as a distinct, though cryptic, species and named Transversotrema polynesiae n. sp. The new species forms part of a complex of species, here characterised as the T. borboleta complex, associated with chaetodontids and lutjanids in the tropical Indo-West Pacific. Most of the putative species within this complex are yet to be described. Comparison of identical numbers of matched samples of fishes from French Polynesia, Heron Island (southern GBR) and Lizard Island (northern GBR) revealed 1, 4 and 10 species of Transversotrema respectively suggesting that the French Polynesian fauna is depauperate for this family. In addition to those species apparently missing from suitable hosts in French Polynesia, several species from further west infect fishes (especially Nemipteridae) that are themselves absent from French Polynesia. This dramatic east–west decline in richness contrasts strongly with what is known for monogeneans, which appear to maintain their richness over the same scale, and is more precipitate than is known for other groups of trematodes. The decline might be explained in part by the absence of the as yet unknown first intermediate hosts in French Polynesia. However, we predict that it is explained by other life cycle traits. We hypothesise that the characters of large short-lived cercariae, short-lived miracidia, the absence in the life-cycle of second intermediate hosts that are capable of transporting the species, and definitive and first intermediate hosts that have limited vagility combine to give marine Transversotrematidae limited dispersal capacity and a propensity for localised speciation.
ISSN: 1383-5769

hal-01333467
https://hal-univ-perp.archives-ouvertes.fr/hal-01333467
DOI : 10.1016/j.parint.2013.11.009

Éditeur(s) : HAL CCSD Wiley-Blackwell
Résumé : International audience
Archaea may be involved in global energy cycles, and are known for their ability to interact with eukaryotic species (sponges, corals and ascidians) or as archaeal-bacterial consortia. The recently proposed phylum Thaumarchaeota may represent the deepest branching lineage in the archaeal phylogeny emerging before the divergence between Euryarchaeota and Crenarchaeota. Here we report the first characterization of two marine thaumarchaeal species from shallow waters that consist of multiple giant cells. One species is coated with sulfur-oxidizing g-Proteobacteria. These new uncultured thaumarchaeal species are able to live in the sulfide-rich environments of a tropical mangrove swamp, either on living tissues such as roots or on various kinds of materials such as stones, sunken woods, etc. These archaea and archaea/bacteria associations have been studied using light microscopy, transmission electron microscopy and scanning electron microscopy. Species identification of archaeons and the putative bacterial symbiont have been assessed by 16S small subunit ribosomal RNA analysis. The sulfur-oxidizing ability of the bacteria has been assessed by genetic investigation on alpha-subunit of the adenosine-5_- phosphosulfate reductase/oxidase's (AprA). Species identifications have been confirmed by fluorescence in situ hybridization using specific probes designed in this study. In this article, we describe two new giant archaeal species that form the biggest archaeal filaments ever observed. One of these species is covered by a specific biofilm of sulfur-oxidizing g-Proteobacteria. This study highlights an unexpected morphological and genetic diversity of the phylum Thaumarchaeota.
ISSN: 1462-2912

hal-00715219
https://hal.univ-antilles.fr/hal-00715219
DOI : 10.1111/j.1462-2920.2010.02309.x

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 Public Library of Science
Résumé : International audience
Among persisting questions on bone calcification, a major one is the link between protein expression and mineral deposition. A cell culture system is here proposed opening new integrative studies on biomineralization, improving our knowledge on the role played by non-collagenous proteins in bone. This experimental in vitro model consisted in human primary osteoblasts cultured for 60 days at the surface of a 3D collagen scaffold mimicking an osteoid matrix. Various techniques were used to analyze the results at the cellular and molecular level (adhesion and viability tests, histology and electron microscopy, RT-and qPCR) and to characterize the mineral phase (histological staining, EDX, ATG, SAED and RMN). On long term cultures human bone cells seeded on the osteoid-like matrix displayed a clear osteoblast phenotype as revealed by the osteoblast-like morphology, expression of specific protein such as alkaline phosphatase and expression of eight genes classically considered as osteoblast markers, including BGLAP, COL1A1, and BMP2. Von Kossa and alizarine red allowed us to identify divalent calcium ions at the surface of the matrix, EDX revealed the correct Ca/P ratio, and SAED showed the apatite crystal diffraction pattern. In addition RMN led to the conclusion that contaminant phases were absent and that the hydration state of the mineral was similar to fresh bone. A temporal correlation was established between quantified gene expression of DMP1 and IBSP, and the presence of hydroxyapatite, confirming the contribution of these proteins to the mineralization process. In parallel a difference was observed in the expression pattern of SPP1 and BGLAP, which questioned their attributed role in the literature. The present model opens new experimental possibilities to study spatio-temporal relations between bone cells, dense collagen scaffolds, NCPs and hydroxyapatite mineral deposition. It also emphasizes the importance of high collagen density environment in bone cell physiology.
ISSN: 1932-6203

hal-01142641
http://hal.upmc.fr/hal-01142641
http://hal.upmc.fr/hal-01142641/document
http://hal.upmc.fr/hal-01142641/file/Silvent_2013_Collagen.pdf
DOI : 10.1371/journal.pone.0057344

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
The Taleghan fault (TF) is a major active fault of the Central Alborz mountain range in Iran. Located 50 km northwestwards of Tehran, this 80-km-long fault represents one of the major structures threatening 15 million people living in the capital of Iran and the surrounding cities (e.g. Karaj). The TF could be the source of some of the strongest historical earthquakes recorded in the Tehran region, notably the 958 AD event (estimated magnitude M 7.7). To characterize the kinematics and activity of the fault, we carried out a detailed morphological and palaeoseismological study combining aerial photographs, digital elevation models and fieldwork. We show that, unliked described so far, the TF is not a reverse fault but a left-lateral strike-slip fault with a normal component. Its strike, dip and rake within its eastern part are 105, 60 and -20/-40, respectively. Our palaeoseismological analysis shows that a sequence of 2-3 events with magnitudes M-w >= 7 occurred during the past 5300 years. If we consider a three-event scenario, the average recurrence interval is similar to 2000 years, and the most recent event is younger than 80 AD. If we consider a two-event scenario, the time interval between the second and the first events ranges between 3760 and 830 years, and the elapsed time since the last event ranges between 3529 and 1599 years. Combined with morphotectonics data, our palaeoseismological analysis allows estimating a minimum horizontal slip rate of 0.6-1.6 mm yr(-1) and a minimum vertical slip rate of similar to 0.5 mm yr(-1). Taking the similar to 450-m total vertical displacement observed across the fault, we conclude that the kinematical change along the TF (from reverse to left-lateral + normal) occurred similar to 1 Ma.
ISSN: 0956-540X

hal-00420896
https://hal.archives-ouvertes.fr/hal-00420896
https://hal.archives-ouvertes.fr/hal-00420896v2/document
https://hal.archives-ouvertes.fr/hal-00420896/file/narariGJI2009.pdf
DOI : 10.1111/j.1365-246X.2009.04173.x

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We present results of a geomorphological and morphotectonic analysis of the northeastern part of the Rif. We show that the present day kinematics of the Rif is characterized by active deformation along the Trougout and Nekor faults in the North-East. Digital Elevation Models of offset drainage features (streams, fluvial terraces) allow determining a normal-left-lateral motion along the Trougout fault and a left-lateral strike-slip motion along the Nekor fault. Preliminary 3He cosmogenic dates of tectonic markers yield vertical and horizontal slip rates of ∼0.9 mm/yr and ∼0.5 mm/yr, respectively along the Trougout fault. The present-day localized transtension seen in the north-eastern Rif morphology (Ras Tarf) is coeval with uplifted marine terraces near the Al Hoceima Bay. U/Th dating of shells yield an average uplift rate of ∼0.2 mm/yr during the past 500 ka. These data show that active transtension in the northeastern Rif is also associated with uplift. These new morphotectonic constraints are consistent with the GPS measurements showing southwestward overall motion of most of the Rif belt with respect to stable Africa.
ISSN: 0264-3707

hal-01053492
https://hal.archives-ouvertes.fr/hal-01053492
DOI : 10.1016/j.jog.2014.01.004

Éditeur(s) : HAL CCSD Société géologique de France
Résumé : The Maguelone shore extends along the northern coast of the Gulf of Lions margin, West of the Rhone delta and East of some high gradient coastal streams that have been providing most of the elastic sediments to the Gulf of Lions margin since the early Miocene. This 10 km wide area comprises an onshore small coastal watershed (15 km long) in low-lying carbonate hills, kilometer wide marshes, sandy beach and shoreface featuring local low sedimentation. Deposit architecture in such a coastal zone records dynamics of incised valley fill under the influence of rivers and wave/current hydrodynamics in a microtidal environment during an eustatic cycle.;A detailed analysis of about 250 km of very high resolution seismic profiles, tens of cores and outcrops data revealed the evolution of the Maguelone coastal system from Late-Quaternary to present-day. It highlighted also dominant denudation processes in the upstream catchments associated to the formation of incised valley seaward during Quaternary. Combination of this inherited morphology together with hydrodynamics controlled the lagoonal environment evolution since the last transgression. In particular, the Maguelone shore is characterized by the formation of built-over-rias lagoonal systems and records an evolution from partially protected lagoon to isolated lagoon environment. These two stages of lagoon evolution correspond to distinct deposit environments. Correlation of fauna contents with deposit geometry improves lagoonal environment models.
EISSN: 1777-5817

hal-00486370
https://hal.archives-ouvertes.fr/hal-00486370
DOI : 10.2113/gssgfbull.181.2.211

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : Geophysical Journal International, v. 173, n. 2, p. 473-482, 2008. http://dx.doi.org/10.1111/j.1365-246X.2008.03718.x
International audience
The western Provence in southern France is an intraplate low deforming region, cut by large sinistral strike-slip faults as the Nîmes Fault. The deformation rate of this fault was estimated at 0.1 mm yr−1 from geological and morphological observations. Nevertheless, some large earthquakes occurred in this area in historical times inducing well-documented partial destructions on the roman monument 'Pont-du-Gard'. In order to investigate if this area is seismically active, we installed a temporary seismological network of 14 stations between the cities of Nîmes and Avignon for a 1-yr period (2002 July–2003 June). We recorded and located a total amount of 80 earthquakes of magnitude Ml smaller than 2.8, and of 153 quarry blasts. The seismic event locations are interpreted in terms of regional tectonics as well as of geometry at depth of the Nîmes Fault and of possible seismic activity of the Roquemaure Fault. At the beginning of 2002 September, a catastrophic storm occurred in the same area with cumulated precipitations at 600 mm in 28 hr, causing casualties and major inundations and damages. We identified a clear and sudden increase of the seismic activity as an immediate consequence of this exceptional meteorological phenomenon. We interpret this rainfall triggering of earthquakes as the response of the crust to an abrupt vertical loading. The geological context of this zone is characterized by the presence of sedimentary basins and of an important karstic network in a calcareous environment allowing the retention of a third of the total rainwater volume during few weeks after the catastrophic storm. Month by month inversion of the seismic wave velocities for only the first 1-km thick layer of the crust allows investigating the influence of the stored water. A clear decrease of both P- and S-velocities, and an increase of the Vp/Vs ratio are evidenced. The variations obtained are at 2, 6 and 4.5 per cent for P-, S-velocities and Vp/Vs ratio, respectively. These variations are discussed in confront of previous studies and can be directly related to the known water volume.
ISSN: 0956-540X

hal-00407884
https://hal.archives-ouvertes.fr/hal-00407884
https://hal.archives-ouvertes.fr/hal-00407884v2/document
https://hal.archives-ouvertes.fr/hal-00407884/file/rigoGJI2008.pdf
DOI : 10.1111/j.1365-246X.2008.03718.x

Éditeur(s) : Public Library Science
Résumé : Where conservation resources are limited and conservation targets are diverse, robust yet flexible priority-setting frameworks are vital. Priority-setting is especially important for geographically widespread species with distinct populations subject to multiple threats that operate on different spatial and temporal scales. Marine turtles are widely distributed and exhibit intra-specific variations in population sizes and trends, as well as reproduction and morphology. However, current global extinction risk assessment frameworks do not assess conservation status of spatially and biologically distinct marine turtle Regional Management Units (RMUs), and thus do not capture variations in population trends, impacts of threats, or necessary conservation actions across individual populations. To address this issue, we developed a new assessment framework that allowed us to evaluate, compare and organize marine turtle RMUs according to status and threats criteria. Because conservation priorities can vary widely (i.e. from avoiding imminent extinction to maintaining long-term monitoring efforts) we developed a "conservation priorities portfolio" system using categories of paired risk and threats scores for all RMUs (n = 58). We performed these assessments and rankings globally, by species, by ocean basin, and by recognized geopolitical bodies to identify patterns in risk, threats, and data gaps at different scales. This process resulted in characterization of risk and threats to all marine turtle RMUs, including identification of the world's 11 most endangered marine turtle RMUs based on highest risk and threats scores. This system also highlighted important gaps in available information that is crucial for accurate conservation assessments. Overall, this priority-setting framework can provide guidance for research and conservation priorities at multiple relevant scales, and should serve as a model for conservation status assessments and priority-setting for widespread, long-lived taxa.
Plos One (1932-6203) (Public Library Science), 2011-09 , Vol. 6 , N. 9 , P. 1-14

Droits : 2011 Wallace et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License
http://archimer.ifremer.fr/doc/00050/16097/13573.pdf
DOI:10.1371/journal.pone.0024510
http://archimer.ifremer.fr/doc/00050/16097/

Éditeur(s) : HAL CCSD Wiley/Blackwell
Résumé : International audience
Photosynthetic eukaryotes have a critical role as the main producers in most ecosystems of the biosphere. The ongoing environmental metabarcoding revolution opens the perspective for holistic ecosystems biological studies of these organisms, in particular the unicellular microalgae that often lack distinctive morphological characters and have complex life cycles. To interpret environmental sequences, metabarcoding necessarily relies on taxonomically curated databases containing reference sequences of the targeted gene (or barcode) from identified organisms. To date, no such reference framework exists for photosynthetic eukaryotes. In this study, we built the PhytoREF database that contains 6490 plastidial 16S rDNA reference sequences that originate from a large diversity of eukaryotes representing all known major photosynthetic lineages. We compiled 3333 amplicon sequences available from public databases and 879 sequences extracted from plastidial genomes, and generated 411 novel sequences from cultured marine microalgal strains belonging to different eukaryotic lineages. A total of 1867 environmental Sanger 16S rDNA sequences were also included in the database. Stringent quality filtering and a phylogeny-based taxonomic classification were applied for each 16S rDNA sequence. The database mainly focuses on marine microalgae, but sequences from land plants (representing half of the PhytoREF sequences) and freshwater taxa were also included to broaden the applicability of PhytoREF to different aquatic and terrestrial habitats. PhytoREF, accessible via a web interface (http://phytoref.fr), is a new resource in molecular ecology to foster the discovery, assessment and monitoring of the diversity of photosynthetic eukaryotes using high-throughput sequencing.
ISSN: 1755-098X

hal-01149047
http://hal.upmc.fr/hal-01149047
http://hal.upmc.fr/hal-01149047/document
http://hal.upmc.fr/hal-01149047/file/Decelle_2015_PhytoREF.pdf
DOI : 10.1111/1755-0998.12401

Éditeur(s) : Elsevier Science Bv
Résumé : Volcaniclastic successions are well-described in volcanic arc setting but rare in hotspot environments. The present work proposes a facies model of volcaniclastic sedimentation related to basaltic hotspot volcanoes as exemplified by the Piton de la Fournaise volcano (La Réunion Island). The facies model is based on a multi-scale approach combining high-resolution multibeam and backscatter data, deep-water photographs, side scan imagery and Kullenberg piston cores. Data show that a wide range of gravity flows and erosional features develop in the active volcaniclastic sedimentary system. Coastal and submarine instabilities are the main processes shaping the volcano's submarine morphology. Meanwhile, the evolution and dynamics of the sedimentary system are strongly linked with the morpho-structural evolution of the subaerial part of the volcano. The proposed model is characterized by a cyclic succession of stages: (1) a growing stage during which sedimentary activity is mainly restricted to proximal and mid-slope areas; (2) a collapse stage that entirely reshapes the morphology of the submarine slopes; and (3) an erosional stage related to a slow down of volcanic activity, enabling the development of large deep-sea fans.
Marine Geology (0025-3227) (Elsevier Science Bv), 2013-03 , Vol. 337 , P. 35-52

Droits : 2013 Published by Elsevier B.V. All rights reserved
http://archimer.ifremer.fr/doc/00137/24798/22939.pdf
DOI:10.1016/j.margeo.2013.01.004
http://archimer.ifremer.fr/doc/00137/24798/

Éditeur(s) : HAL CCSD Magnolia Press
Résumé : International audience
The species belonging to the trechine genus Adriaphaenops Noesske, 1928 are studied. As a result, seven currently known and five newly described species are recognized. Morphological characters of the habitus (especially the shape of head and pronotum) as well as male genitalia are widely used to delimit the species. The following new species are described: A. albanicus sp. nov. (Albania, Shkoder, Boga, Thate Mts.), A. jasminkoi sp. nov. (Bosnia & Hercegovina, Nevesinje, Novakova pecina cave), A. mlejneki sp. nov. (Montenegro, Gornje Stravce, Kucke planine Mts.), A. njegosiensis sp. nov. (Montenegro, Cetinje, Cetinjska pecina cave) and A. rumijaensis sp. nov. (Montenegro, Virpazar, Rumija Mts.). Lectotype for A. stirni (Pretner, 1959) is designated. Data on the distribution and ecology of new taxa, complemented with descriptions of the type localities are provided. Key to the identification of all twelve Adriaphaenops species, as well as a key of all hitherto known aphaenopsoid Trechini genera from Dinarides are also given.
ISSN: 1175-5326

hal-01544473
https://hal.archives-ouvertes.fr/hal-01544473
DOI : 10.11646/zootaxa.4205.6.1

Éditeur(s) : HAL CCSD Wiley-Blackwell
Résumé : International audience
Six morphotypes of small mussels (Bivalvia: Mytilidae) were found attached to naturally sunken wood collected in the Bohol Sea (Philippines). These specimens are related to the large Bathymodiolus mussels that are found worldwide at cold seeps and hydrothermal vents. In these habitats, the mytilids harbour sulphur- and methane-oxidizing endosymbionts in their gills and depend on the energy and carbon provided by the symbionts. In this study, bacteria associated with the gills of wood-associated mussels are characterized using molecular and microscopic techniques. The existence of bacteria in the lateral zone of gill filaments in all specimens is demonstrated. Comparative analyses of 16S rRNA gene and adenosine 5′-phosphosulphate (APS) reductase gene sequences indicate that the bacteria are closely related to sulphur-oxidizing endosymbionts of Bathymodiolus. FISHs using specific probes confirm that sulphur oxidizers are by far the most abundant, if not the only bacteria present. Electron micrographs displayed mostly extracellular bacteria located between microvilli at the apical surface of host gill epithelial cells all along the lateral zone of each gill filament. In some specimens, occasional occurrence of intracellular bacteria with similar morphology was noted. This study provides the first molecular evidence for the presence of possible thiotrophic symbiosis in sunken wood ecosystems. With their epibiotic bacteria, wood-associated mussels display a less integrated type of interaction than described in their seep, vent and whale fall relatives.
ISSN: 0168-6496

hal-00715244
https://hal.univ-antilles.fr/hal-00715244
DOI : 10.1111/j.1574-6941.2008.00438.x