Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
We review current knowledge of axial skeleton biology in Acipenseriformes with the aim to know whether available data can help in understanding axial anomalies (anomalies of the vertebral column) in reared sturgeons or if further investigations are needed prior to undertake such analysis. In particular, accurate data on axial skeleton development, structure and mineralization are required to understand these pathologies. We show that such knowledge is fragmented and incomplete when compared to the information available in teleost fish. In Acipenseriformes, we only know that (i) the axial skeleton morphology is highly distinctive, as mostly cartilaginous, (ii) the vertebrae are composed of several elements organized around a persistent and unconstricted notochord, and (iii) mineralization only concerns a few of these elements and occurs late in ontogeny, but virtually no descriptions demonstrating the presence of bone (perichondral, membranous...) or mineralized cartilage is available in the literature. In addition, few studies concern axial anomalies in the wild or in rearing conditions, and the determinism of these pathologies is largely unknown. This is in contrast with the numerous studies dealing with the axial skeleton and its anomalies in many farmed teleost species, in which axial anomalies can result from numerous factors, such as unfavourable abiotic conditions, inappropriate nutrition and genetic factors. However, even if some parallels can be established between teleosts and sturgeons, it appears that current knowledge of the axial skeleton in teleosts may not help much in the study of axial anomalies in sturgeons. Knowledge of axial skeleton biology in sturgeon has to be therefore deeply improved prior to undertake investigations focusing on these pathologies.
ISSN: 0175-8659

hal-01545478
https://hal.archives-ouvertes.fr/hal-01545478
DOI : 10.1111/jai.12525

Éditeur(s) : HAL CCSD Université des Antilles
Résumé : International audience
ISSN: 1779-0980

hal-01270581
https://hal.archives-ouvertes.fr/hal-01270581

Éditeur(s) : HAL CCSD Sociedade Entomológica do Brasil
Résumé : Variations in diel activity among hyperdiverse tropical communities of moths, despite representing a key component of niche partitioning between species, have barely been studied so far. Using light trapping from dawn to sunset over a 1-year period in French Guiana, we investigated these variations within and between two families of moths (Sphingidae and Saturniidae). Our results revealed contrasting patterns in flight activity at night between Sphingidae and Saturniidae. Sphingidae reached their peak in species richness and abundance between 7:00 and 8:00 p.m., followed by a decrease around 11:00 p.m. to midnight, whereas Saturniidae were continuously present throughout the night, with a peak around midnight. In addition, we found changes in diel activity among some of the most common genera in each family, highlighting distinct behavioral, physiological, and functional traits among taxa. Given differences in flight activity at different taxonomic levels, it is strongly recommended to monitor by light trapping throughout the night to effectively sample saturniid and sphingid assemblages, even though the activity of Sphingidae sharply declines after midnight. These results improve the general natural history information of tropical moths and reinforce the need of further research on the ecological and taxonomic consequences of differences in diel activity.
ISSN: 1519-566X

hal-01536447
https://hal.archives-ouvertes.fr/hal-01536447
DOI : 10.1007/s13744-014-0264-3
PRODINRA : 320714

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
Serpentinization of olivine-rich troctolite from core 227, Integrated Ocean Drilling Program (IODP) Hole U1309D ranges from 10 to 90. Two episodes of serpentinization are recognized. The first, dominant in weakly serpentinized samples, is an approximately isochemical (except for water) replacement of olivine (Fo(8485)) by a mixture of serpentine (antigorite, Mg-number 92) and brucite (amakinite-rich; Mg-number 65). The compositions of the minerals in type 1 veins are a reflection of FeMg exchange between olivine and the brucite serpentine formed during early serpentinization. The early serpentinite veins (type 1) are thin ( 005 mm), irregular, and exploit pre-existing cracks in olivine. The presence of antigorite suggests that early serpentinization occurred at T 300C. Type 1 veins reflect rock-dominated serpentinization, became isolated early in their history, and persist as relicts in all but the most altered samples. The main episode of serpentinization is manifested by through-going lizardite (average Mg-number 96)magnetite veins (type 2). Type 2 veins define an anastomosing foliation, may be several millimeters in width and appear to exploit pre-existing, favorably oriented type 1 veins. Type 2 veins reflect open-system serpentinization. Magnetite in these veins formed by oxidation of the Fe in brucite and serpentine, whereas addition of silica to the system converted the Mg-component of the brucite to serpentine. Magnetite forms one or more distinct bands in the interior of the vein and is never in direct contact with relict olivine. A bruciteserpentine mixture, similar to that found in type 1 veins, but with lizardite instead of antigorite, is commonly present at the margins of type 2 veins (i.e. where they are in reaction contact with relict olivine). We interpret type 2 veins as a steady-state system where brucite continually forms at the olivinevein contact and then reacts out in the interior of the vein. This continual formation and destruction of brucite imposes an exceptionally low a(SiO2) on the system. Magnetite and olivine are never in contact in type 2 veins (or anywhere else) because the olivine-out reaction yields ferroan brucite and not magnetite. The desilication of serpentine in the type 2 veins is a reflection of the inherent instability of Fe-rich serpentine with respect to magnetite at low silica activity. Thus, the composition of serpentine in equilibrium with magnetite in serpentinites is a function of serpentinemagnetite and not serpentineolivine equilbria.
ISSN: 0022-3530

hal-00420931
https://hal.archives-ouvertes.fr/hal-00420931
DOI : 10.1093/petrology/egp004

Éditeur(s) : HAL CCSD American Geophysical Union
Résumé : International audience
Torsion experiments (inline image =3 × 10−4 s−1) were performed to investigate the large strain (γmax = 15) rheology on quartz-muscovite aggregate as analogue to pelitic rocks undergoing melting and crystallization during deformation at 300 MPa confining pressure and 750°C temperature. Microstructures reveal four distinct but gradational stages of crystal-melt interactions during deformation--(a) solid state deformation, (b) initiation and domination of partial melting, (c) simultaneous partial melting and crystallization, and (d) domination of crystallization. The microstructural stages are linked to the rheology of the deforming samples. Partial melting starts at relatively low finite shear strains (γ = 1-3) showing approximately 60% strain softening. At γ = 4-10 the partially molten bulk material shows a steady state flow at low stress. Further crystallization of new crystals at the expense of melt between γ = 10 and 15 causes weak strain hardening until the material fails by developing brittle fractures. The stress exponent (n), calculated at γ = 1, 5, and 10, increases from ∼ 3 to ∼ 43, indicating a transition from power to power law breakdown or exponential flow of the bulk system. Hydrostatic experiments for equivalent times and conditions of the torsion experiments were also conducted to evaluate the reaction kinetics and microstructures under static conditions. The new experimental data establish that partially molten rock does not flow according to a constant strain rate-dependent power law (steady state) rheology. The rheological transition from strain rate sensitive to strain rate insensitive flow is interpreted as a function of melt-crystal ratio, their mutual interactions, and the evolution of microstructures in the partially molten rock.
ISSN: 0148-0227

hal-01053709
https://hal.archives-ouvertes.fr/hal-01053709
DOI : 10.1002/2013JB010777

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : International audience
Standard microbial evolutionary ontology is organized according to a nested hierarchy of entities at various levels of biological organization. It typically detects and defines these entities in relation to the most stable aspects of evolutionary processes, by identifying lineages evolving by a process of vertical inheritance from an ancestral entity. However, recent advances in microbiology indicate that such an ontology has important limitations. The various dynamics detected within microbiological systems reveal that a focus on the most stable entities (or features of entities) over time inevitably underestimates the extent and nature of microbial diversity. These dynamics are not the outcome of the process of vertical descent alone. Other processes, often involving causal interactions between entities from distinct levels of biological organisation, or operating at different time scales, are responsible not only for the destabilisation of pre-existing entities, but also for the emergence and stabilisation of novel entities in the microbial world. In this article we consider microbial entities as more or less stabilised functional wholes, and sketch a network-based ontology that can represent a diverse set of processes including, for example, as well as phylogenetic relations, interactions that stabilise or destabilise the interacting entities, spatial relations, ecological connections, and genetic exchanges. We use this pluralistic framework for evaluating (i) the existing ontological assumptions in evolution (e.g. whether currently recognized entities are adequate for understanding the causes of change and stabilisation in the microbial world), and (ii) for identifying hidden ontological kinds, essentially invisible from within a more limited perspective. We propose to recognize additional classes of entities that provide new insights into the structure of the microbial world, namely ``processually equivalent'' entities, ``processually versatile'' entities, and ``stabilized'' entities.
ISSN: 0169-3867

hal-01544796
https://hal.archives-ouvertes.fr/hal-01544796
DOI : 10.1007/s10539-012-9350-2

Éditeur(s) : HAL CCSD Wiley
Résumé : 1. Arthropods represent most of global biodiversity, with the highest diversity found in tropical rain forests. Nevertheless, we have a very incomplete understanding of how tropical arthropod communities are assembled. 2. We conducted a comprehensive mass sampling of arthropod communities within three major habitat types of lowland Amazonian rain forest, including terra firme clay, white-sand and seasonally flooded forests in Peru and French Guiana. We examined how taxonomic and functional composition (at the family level) differed across these habitat types in the two regions. 3. The overall arthropod community composition exhibited strong turnover among habitats and between regions. In particular, seasonally flooded forest habitats of both regions comprised unique assemblages. Overall, 17.7% (26 of 147) of arthropod families showed significant preferences for a particular habitat type. 4. We present a first reproducible arthropod functional classification among the 147 taxa based on similarity among 21 functional traits describing feeding source, major mouthparts and microhabitats inhabited by each taxon. We identified seven distinct functional groups whose relative abundance contrasted strongly across the three habitats, with sap and leaf feeders showing higher abundances in terra firme clay forest. 5. Our novel arthropod functional classification provides an important complement to link these contrasting patterns of composition to differences in forest functioning across geographical and environmental gradients. This study underlines that both environment and biogeographical processes are responsible for driving arthropod taxonomic composition while environmental filtering is the main driver of the variance in functional composition.
ISSN: 0021-8790

hal-01531619
https://hal.archives-ouvertes.fr/hal-01531619
PRODINRA : 349695
PUBMED : 26346553
DOI : 10.1111/1365-2656.12445

Éditeur(s) : American Geophysical Union
Résumé : Thick forced regressive units on the wide continental shelf of the Gulf of Lions (western Mediterranean) recorded the composite effect of sea level changes during the Quaternary. They are mostly composed of coastal siliciclastic and bioclastic wedges showing clinoform geometry. These deposits have been intensively explored through high-resolution seismic investigations, but only recently it was possible to ground truth seismic interpretations, based on a long (100 m) borehole that crossed the succession and recovered a large part of the mainly sandy deposits (similar to 84% recovery). A multiproxy analysis of the sedimentary succession shows that (1) the stratal architecture of the shelf margin is defined by major bounding surfaces that are polygenic erosion surfaces associated with coarse-grained material incorporating abundant and diverse shells, including cold-water fauna (presently absent from the Mediterranean Sea). Between each surface, coarsening upward units with steep (up to 5 degrees) foresets are made of massive (more than 20 m thick) sands with possible swaley and hummocky cross-stratification, passing seaward to sands with muddy intervals and, further offshore, alternating highly boiturbated sands and silts. Each prograding wedge corresponds to a forced-regressive shoreface (or delta front/prodelta), deposited during the overall sea level falls occurring at (relatively slow) interglacial/glacial transition and therefore represents the record of 100 ka cyclicity. Higher-frequency Milankovitch cyclicities are also probably represented by distinct shoreface/delta front wedges; (2) detailed examination of the architecture and chronostratigraphy of the most recent sequence shows that minor bounding surfaces, corresponding to abrupt shallowing of sedimentary facies, separate downward stepping parasequences within the last 100 ka sequence. These events are in phase with millennial-scale glacial climatic and sea level variability, the downward shift surfaces corresponding to the falls during the coldest stadials. These deposits provide a comprehensive and well-constrained Pleistocene analog to the numerous shoreface deposits attributed to falling-stage systems tracts recognized in ancient stratigraphic records, studied at the outcrop scale.
Geochemistry Geophysics Geosystems - G3 (1525-2027) (American Geophysical Union), 2008-11 , Vol. 9 , N. Q11R05 , P. NIL_40-NIL_66

Droits : 2008 American Geophysical Union
http://archimer.ifremer.fr/doc/2008/publication-4929.pdf
DOI:10.1029/2007GC001854
http://archimer.ifremer.fr/doc/00000/4929/

Éditeur(s) : HAL CCSD American Society for Investigative Pathology (ASIP)
Résumé : International audience
Semen represents the main vector of HIV dissemination worldwide, yet the origin of HIV in semen remains unclear. Viral populations distinct from those found in blood have been observed in semen, indicating local viral replication within the male genital tract. The seminal vesicles, the secretions of which constitute more than 60% of the seminal fluid, could represent a major source of virus in semen. This study is the first to investigate the susceptibility of human seminal vesicles to HIV infection both in vitro and in vivo. We developed and characterized an organotypic culture of human seminal vesicles to test for target cells and HIV infection, and, in parallel, analyzed the seminal vesicle tissues from HIV-infected donors. In vitro, in contrast to HIV-1 X4, HIV-1 R5 exposure induced productive infection. Infected cells consisted primarily of resident CD163(+) macrophages, often located close to the lumen. In vivo, HIV protein and RNA were also detected primarily in seminal vesicle macrophages in seven of nine HIV-infected donors, some of whom were receiving prolonged suppressive highly active antiretroviral therapy. These results demonstrate that human seminal vesicles support HIV infection in vitro and in vivo and, therefore, have the potential to contribute virus to semen. The presence of infected cells in the seminal vesicles of treated men with undetectable viremia suggests that this organ could constitute a reservoir for HIV.
American Journal of Pathology

inserm-00626549
http://www.hal.inserm.fr/inserm-00626549
DOI : 10.1016/j.ajpath.2011.08.005
PUBMED : 21925468

Éditeur(s) : HAL CCSD Coastal Education and Research Foundation
Résumé : Nearshore bars are generally present on sandy coasts and play a significant role in wave breaking and sediment exchange between beach and shoreface. The study area is located on the Languedoc-Roussillon coast in the Gulf of Lions (southern part of the French Mediterranean coast). This microtidal environment is classified as a wave-dominated coast. The sand coast displays different bar systems (single or multiple; straight or crescentic). The alongshore variability of bar morphology in the nearshore zone was investigated in August 2009 during one week, using a topo-bathymetric LIDAR data set (300 km(2)). LIDAR makes it possible to cover a large area in a very short time with a high resolution. The topo-bathymetric LIDAR offers the added benefit of morphological information about the beach-sea transition in very shallow water (below I in), data often difficult if not impossible to obtain with traditional techniques. The purpose of this paper is 1) to depict the distribution of bars and their characteristics along the 180 km coast of the Gulf of Lions; 2) to update the classifications of sand bars typologies in Languedoc-Roussillon; 3) to pay particular attention to the description of the intricate inner system. Globally, cross-shore distribution of subtidal morphologies is characterized by both an outer and an inner system. The outer system is crescent-shaped in the south and straight in the northern part with a distinctive regional delimitation. The inner system comprises an inner bar and, near the coast, a complex fluctuating bar called Low Bar Beach (LBB). Several intermediate states were identified and added to the new classification proposed in this paper. These results clearly emphasize the importance of LIDAR technology for a better understanding of bar behaviour and single and/or multi-bar beach organisation.
ISSN: 0749-0208

hal-00783187
https://hal.archives-ouvertes.fr/hal-00783187

Éditeur(s) : HAL CCSD
Résumé : Anopheles darlingi, one of the main malaria vectors in the Neotropics, is widely distributed in French Guiana, where malaria remains a major public-health problem. Elucidation of the relationships between the population dynamics of An. darlingi and local environmental factors would appear to be an essential factor in the epidemiology of human malaria in French Guiana and the design of effective vector-control strategies. In a recent investigation, longitudinal entomological surveys were carried out for 2-4 years in one village in each of three distinct endemic areas of French Guiana. Anopheles darlingi was always the anopheline mosquito that was most frequently caught on human bait, although its relative abundance (as a proportion of all the anophelines collected) and human biting rate (in bites/person-year) differed with the study site. Seasonality in the abundance of human-landing An. darlingi (with peaks at the end of the rainy season) was observed in only two of the three study sites. Just three An. darlingi were found positive for Plasmodium (either P. falciparum or P. vivax) circumsporozoite protein, giving entomological inoculation rates of 0*0-8*7 infectious bites/person-year. Curiously, no infected An. darlingi were collected in the village with the highest incidence of human malaria. Relationships between malaria incidence, An. darlingi densities, rainfall and water levels in the nearest rivers were found to be variable and apparently dependent on land-cover specificities that reflected the diversity and availability of habitats suitable for the development and reproduction of An. darlingi.
Annals of Tropical Medicine and Parasitology / Annals of Tropical Medicine & Parasitology

pasteur-00583507
https://hal-riip.archives-ouvertes.fr/pasteur-00583507
DOI : 10.1179/136485911X12899838683322
PUBMED : 21396247

Éditeur(s) : Elsevier
Résumé : The combined use of Lu-Hf and Sm-Nd isotope systems potentially offers a unique perspective for investigating continental erosion, but little is known about whether, and to what extent, the Hf-Nd isotope composition of sediments is related to silicate weathering intensity. In this study, Hf and Nd elemental and isotope data are reported for marine muds, leached Fe-oxide fractions and zircon-rich turbidite sands collected off the Congo River mouth, and from other parts of the SE Atlantic Ocean. All studied samples from the Congo fan (muds, Fe-hydroxides, sands) exhibit indistinguishable Nd isotopic composition (epsilon(Nd)similar to - 16), indicating that Fe-hydroxides leached from these sediments correspond to continental oxides precipitated within the Congo basin. In marked contrast, Hf isotope compositions for the same samples exhibit significant variations. Leached Fe-hydroxide fractions are characterized by epsilon(Hf) values (from -1.1 to +13) far more radiogenic than associated sediments (from -7.1 to -12.0) and turbidite sands (from -27.2 to -31.6). epsilon(Hf) values for Congo fan sediments correlate very well with Al/K (i.e. a well-known index for the intensity of chemical weathering in Central Africa). Taken together, these results indicate that (1) silicate weathering on continents leads to erosion products having very distinctive Hf isotope signatures, and (2) a direct relationship exists between epsilon(Hf) of secondary clay minerals and chemical weathering intensity. These results combined with data from the literature have global implications for understanding the Hf-Nd isotope variability in marine precipitates and sediments. Leached Fe-hydroxides from Congo fan sediments plot remarkably well on an extension of the 'seawater array' (i.e. the correlation defined by deep-sea Fe-Mn precipitates), providing additional support to the suggestion that the ocean Hf budget is dominated by continental inputs. Fine-grained sediments define a diffuse trend, between that for igneous rocks and the,seawater array', which we refer to as the 'zircon-free sediment array' (epsilon(Hf)=0-91 epsilon(Nd)+3.10). Finally, we show that the Hf-Nd arrays for seawater, unweathered igneous rocks, zircon-free and zircon-bearing sediments (epsilon(Hf)= 1.80 epsilon(Nd)+2.35) can all be reconciled, using Monte Carlo simulations, with a simple weathering model of the continental crust. (C) 2008 Elsevier B.V. All rights reserved.
Earth and Planetary Science Letters (0012-821X) (Elsevier), 2009 , Vol. 277 , N. 3-4 , P. 318-326

Droits : 2009 Elsevier B.V. All rights reserved.
http://archimer.ifremer.fr/doc/2009/publication-6451.pdf
DOI:10.1016/j.epsl.2008.10.028
http://archimer.ifremer.fr/doc/00000/6451/

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
We report trace element analyses from mineral phases in chondrules from carbonaceous chondrites (Vigarano, Renazzo, and Acfer 187), carried out by laser ablation inductively coupled plasma-mass spectrometry. Results are similar in all three meteorites. Mesostasis has rare earth element (REE) concentrations of 10-20 × CI. Low-Ca pyroxene has light REE (LREE) concentrations near 0.1 × CI and heavy REE (HREE) near 1 × CI, respectively. Olivine has HREE concentrations at 0.1-1 × CI and LREE around 10−2 × CI. The coarsest olivine crystals tend to have the most fractionated REE patterns, indicative of equilibrium partitioning. Low-Ca pyroxene in the most pyroxene-rich chondrules tends to have the lowest REE concentrations. Type I chondrules seem to have undergone a significant degree of batch crystallization (as opposed to fractional crystallization), which requires cooling rates slower than 1-100 K h−1. This would fill the gap between igneous calcium-aluminum-rich inclusions (CAIs) and type II chondrules. The anticorrelation between REE abundances and pyroxene mode may be understood as due to dilution by addition of silica to the chondrule melt, as in the gas-melt interaction scenario of Libourel et al. (2006). The rapid cooling rate (of the order of 1000 K h−1) which seems recorded by low-Ca pyroxene, contrasted with the more diverse record of olivine, may point to a nonlinear cooling history or suggest that formation of pyroxene-rich chondrule margins was an event distinct from the crystallization of the interior.
ISSN: 1086-9379

hal-00795434
https://hal.archives-ouvertes.fr/hal-00795434
DOI : 10.1111/maps.12005

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Numerical programs for simulating flow and reactive transport in porous media are essential tools for predicting reservoir properties changes triggered by CO2 underground injection. At reservoir scale, meshed models in which equations are solved assuming that constant macroscopic properties can be defined in each cells, are widely used. However, the parameterization of the dissolution-precipitation problem and of the feedback effects of these processes on the flow field is still challenging. The problem arises from the mismatch between the scales at which averaged parameters are defined in the meshed model and the scale at which chemical reactions occur and modify the pore network geometry. In this paper we investigate the links between the dissolution mechanisms that control the porosity changes and the related changes of the reactive surface area and of the permeability. First, the reactive surface area is computed from X-ray microtomography data obtained before and after a set of dissolution experiments of pure calcite rock samples using distinctly different brine-CO2 mixtures characterizing homogeneous to heterogeneous dissolution regimes. The results are used to validate the power law empirical model relating the reactive surface area to porosity proposed by Luquot and Gauze (2009). Second, we investigate the spatial distribution of the effective hydraulic radius and of the tortuosity, two structural parameters that control permeability, in order to explain the different porosity-permeability relationships observed for heterogeneous and homogeneous dissolution regimes. It is shown that the increase of permeability is due to the decrease of the tortuosity for homogeneous dissolution, whereas it is due to the combination of tortuosity decrease and hydraulic radius increase for heterogeneous dissolution. For the intermediate dissolution regime, identified to be the optimal regime for increasing permeability with small changes in porosity, the increase of permeability results from a large increase in the mean effective hydraulic radius of the sample.
ISSN: 0169-7722

hal-00617671
https://hal.archives-ouvertes.fr/hal-00617671
DOI : 10.1016/j.jconhyd.2010.07.004