Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
A series of two-stage torsion experiments on Carrara marble were conducted to constrain the influence of known prior deformation on rheological response and microstructural evolution. Comparison with previous experimental data on Carrara marble flow and fabric evolution during single-stage torsion deformation experiments provided direct insights into the significance of initial deformation at various conditions. Our experiments were conducted at 727 degrees C temperature and 300 MPa confining pressure, while maintaining a constant strain rate of 3 x 10(-4) s(-1) on the periphery of the cylindrical samples. Under these conditions, the marble is known to deform in power-law (n = 6-10) ductile flow. All torsion experiments were performed with a Paterson type gas-medium testing machine equipped with a torsion actuator module.;Prior (D1) and subsequent (D2) deformation are accomplished by two torsion experiments in sequence on same sample segments. The effect of D1 strain history is investigated during D2 by applying counter-clockwise torsion to a sandwich sample consisting of three segments with different D1 rotation sense. D2 samples experienced continued, first and reversed shearing deformation in top, centre and bottom segments, respectively. D2 bulk strain was chosen equal to D1 strain in top and bottom segments.;D1 experiments followed the typical single-stage deformation behaviour of Carrara marble under the applied experimental conditions. Yielding was followed by strain hardening until a peak stress was reached at a shear strain around 1, after which work softening occurred. Weakening gradually evolved into a constant stress regime. During hardening, a shear microstructure and crystallographic preferred orientation (CPO) developed. Afterwards the volume fraction of smaller dynamic recrystallised grains increased continuously, resulting in a recrystallisation microstructure and CPO at shear strains of 5 and higher. The new D2 experiments displayed a strain variation between homogeneously deformed sample segments that increased with increasing D1 strain. The stress-strain behaviour of the D2 bulk sandwich samples showed less pronounced work-hardening and -softening when compared with single-stage deformation experiments. Furthermore, constant flow stress was attained at increasingly lower strain with increasing D1 strain. In most D2 segments, fabric development is equivalent to single-stage experiments at corresponding absolute strain. The fabrics differed markedly from those in single-stage experiments in the case of reversed two-stage deformation at moderate strain (D1 shear strain 1 and 2.6). Experiments show that grain shape by shearing of relict grains is defined by finite strain and thus affected by strain reversal. Recrystallisation is controlled by absolute strain and not influenced by strain reversal.
ISSN: 0040-1951

hal-00617686
https://hal.archives-ouvertes.fr/hal-00617686
DOI : 10.1016/j.tecto.2010.09.029

Éditeur(s) : HAL CCSD
Résumé : In a perfect-deficit approach (Yi, 2012), the daily maximum carbon storage capacity (CPC) of a given ecosystem for each year defines the perfect annual CPC curve. Deficits are the differences in the daily observational data for a given year against a perfect curve. The area between this curve and instantaneous canopy photosynthetic rates represents the potential productivity. Using an 11-year (2004 – 2014) eddy covariance flux and meteorological data, this perfect-deficit approach was used to examine the relationship between potential productivity and droughts occurring in 2005 and 2010 in a tropical rainforest of French Guiana, South America. Surprisingly, CPC deficits were only reduced by 24% (2005) and 19% (2010) from their respective perfect CPCs, indicating a subtle effect of drought to ecosystem productivity. Highest precipitation occurred in 2010 but precipitation deficits dropped drastically during this year (71% reduction from its perfect value) which reflects a drought condition. However, its deficits showed no correlation annually and seasonally. Soil water content (SWC) appeared to be the single driver for CPC deficits during long dry periods but is weakly correlated (r = 0.30; P <0.01 and r = 0.31; P <0.01, in 2005 and 2010, respectively). These results indicate that soil water is not a major limiting factor for productivity of this ecosystem during drought periods. In contrast, global radiation (Rg) corresponds to the peak of CPC deficits in 2010, but only 19% had been reduced from its ideal value. Yet, highest gross primary production (GPP) of 4106±231 gCm−2yr−1 occurred this year (mean 3753±231 gCm−2yr−1). Therefore, smaller deficits in Rg coupled with sufficient water may have induced higher productivity in 2010. Nevertheless, weaker correlations between potential productivity and climatic drivers may imply that other controlling aspects such as biological constraints may also have an effect to the dynamics of potential productivity during drought events, hence, must also be considered.
AGU Fall Meeting 2015
San Francisco, United States

hal-01269439
https://hal.archives-ouvertes.fr/hal-01269439
PRODINRA : 338570

Éditeur(s) : HAL CCSD Oxford University Press (OUP): Policy B - Oxford Open Option A Oxford University Press (OUP)
Résumé : International audience
Peridotite xenoliths exhumed by Quaternary alkaline magmatism in the Tahalgha district, southern Hoggar, represent fragments of the subcontinental lithospheric mantle beneath the boundary between the two major structural domains of the Tuareg Shield: the ‘Polycyclic Central Hoggar’ to the east and the ‘Western Hoggar’, or ‘Pharusian Belt’, to the west. Samples were collected from volcanic centres located on both sides of a major lithospheric shear zone at 4°35' separating these two domains. Although showing substantial variations in their deformation microstructures, equilibrium temperatures and modal and chemical compositions, the studied samples do not display any systematic changes of these features across the 4°35' fault. The observed variations rather record small-scale heterogeneities distributed throughout the study area and reflecting the widespread occurrence of vein conduits and metasomatized wall-rocks related to trans-lithospheric melt circulation during the Cenozoic. These features include partial annealing of pre-existing deformation microstructures, post-deformation metasomatic reactions, and trace-element enrichment, coupled with heating from 750–900°C (low-temperature lherzolites) to 900–1150°C (intermediate-T lherzolites and high-T harzburgites and wehrlites). Trace-element modelling confirms that the range of rare earth element (REE) variations observed in the Tahalgha clinopyroxenes may be accounted for by reactive porous flow involving a single stage of basaltic melt infiltration into a light REE (LREE)-depleted protolith. Whole-rock compositions record the final entrapment of disequilibrium metasomatic melts upon thermal relaxation of the veins–wall-rock system. The striking correlations between equilibrium temperatures and trace-element enrichment favor a scenario in which the high-temperature peridotites record advective heat transport along melt conduits, whereas the intermediate- and low-temperature lherzolites reflect conductive heating of the host Mechanical Boundary Layer. This indicates that the lithosphere did not reach thermal equilibrium, suggesting that the inferred heating event was transient and was rapidly erased by thermal relaxation down to the relatively low-temperature present-day geotherm. The low-T (<900°C) deformed lherzolites (porphyroclastic to equigranular) are characterized by only incipient annealing and LREE-depleted clinopyroxene compositions. They were only weakly affected by the Cenozoic events and could represent relatively well-preserved samples from rejuvenated Pan-African lithosphere. Extensive lithospheric rejuvenation occurred either regionally during the Pan-African orogeny, as a result of lithospheric delamination or thermomechanical erosion after thickening, or more locally along the meridional shear zones. The low-T Tahalgha lherzolites are comparable with lherzolites from Etang de Lherz, southern France, interpreted as lithospheric mantle rejuvenated by melt-induced refertilization during a late stage of the Variscan orogeny.
ISSN: 0022-3530

hal-01107410
https://hal.archives-ouvertes.fr/hal-01107410
DOI : 10.1093/petrology/egu056

Éditeur(s) : Springer
Résumé : Batch culture experiments using viral enrichment were conducted to test the response of a coastal bacterial community to autochthonous (i.e., co-existing) or allochthonous riverine viruses. The effects of viral infections on bacterial dynamics and activity were assessed by epifluorescence microscopy and thymidine incorporation, respectively, whereas the effect of viral infection on bacterial community composition was examined by polymerase chain reaction-single strand conformation polymorphism 16S ribosomal RNA fingerprinting. The percentages of high nucleic acid-containing cells, evaluated by flow cytometry, were significantly correlated (r (2) = 0.91, n = 12, p < 0.0001) to bacterial production, making this value a good predictor of active cell dynamics along the study. While confinement and temperature were the two principal experimental factors affecting bacterial community composition and dynamics, respectively, additions of freshwater viruses had significant effects on coastal bacterial communities. Thus, foreign viruses significantly reduced net bacterial population increase as compared to the enrichment treated with inactivated virus. Moreover, freshwater viruses recurrently and specifically affected bacterial community composition, as compared to addition of autochthonous viruses. In most cases, the combined treatment viruses and freshwater dissolved organic matter helped to maintain or even enhance species richness in coastal bacterial communities in agreement to the 'killing the winner' hypothesis. Thus, riverine virus input could potentially influence bacterial community composition of the coastal bay albeit with modest modification of bulk bacterial growth.
Microbial Ecology (0095-3628) (Springer), 2009-02 , Vol. 57 , N. 2 , P. 295-306

Droits : 2009 Springer
http://archimer.ifremer.fr/doc/2009/publication-6636.pdf
DOI:10.1007/s00248-008-9428-1
http://archimer.ifremer.fr/doc/00000/6636/

Éditeur(s) : Edp Sciences S A
Résumé : This paper provides an overview of the progress Ifremer has made recently in fisheries acoustics and the study of small pelagic fish by: i) pushing observation frontiers using a range of platforms including an autonomous underwater vehicle, AUV, ii) developing measuring instruments and methods and iii) studying fish distributions. Presently, information from several frequencies of single-beam echosounders is routinely collected together with data from the ME70 multibeam echosounder. For onboard data acquisition control the HERMES software was developed. The new MOVIES 3D software includes modules for simultaneous realistic 3D visualisation and post-processing such as bottom detection, school extraction and calculation of descriptors and integration of all acoustic data. Several data analysis methods are being developed and some initial results are presented. Finally, results on the spatial distribution of small pelagic fish schools in the Bay of Biscay illustrate the role that acoustics can play, and are already playing, in the implementation of an ecosystem approach to fisheries.
Cet article présente une vue d’ensemble des avancées récentes de l’Ifremer en acoustique halieutique et une étude des petits poissons pélagiques tenant compte : i) de l’extension des limites de l’observation, en utilisant une gamme diverse de plates-formes dont un engin sous-marin autonome (AUV), ii) des développements méthodologiques et d’instruments de mesures, iii) de l’étude de la répartition des poissons. Désormais, les données de plusieurs fréquences des sondeurs mono-faisceaux sont collectées en routine en parallèle à celles du sondeur multifaisceau ME70. Le logiciel HERMES a été développé pour le contrôle de l’acquisition des données à bord. Le nouveau logiciel MOVIES 3D comprend des modules de visualisation réaliste en 3D et de post-traitement (dont la détection du fond, l’extraction de bancs et le calcul de leurs descripteurs ainsi que l’intégration de toutes les données acoustiques). Plusieurs méthodes d’analyse de données sont en cours de développement et quelques premiers résultats sont présentés. Enfin, les résultats relatifs à la répartition spatiale des bancs de petits poissons pélagiques dans le golfe de Gascogne illustrent le rôle actuel et potentiel de l’acoustique dans la mise en place d’une approche écosystémique des pêches.
Aquatic Living Resources (0990-7440) (Edp Sciences S A), 2009-10 , Vol. 22 , N. 4 , P. 433-445

Droits : EDP Sciences, IFREMER, IRD 2009
http://archimer.ifremer.fr/doc/00000/11165/7517.pdf
DOI:10.1051/alr/2009027
http://archimer.ifremer.fr/doc/00000/11165/

Éditeur(s) : HAL CCSD American Chemical Society
Résumé : Ants have evolved venoms rich in peptides and proteins used for predation, defense, and communication. However, they remain extremely understudied due to the minimal amount of venom secreted by each ant. The present study investigated the differences in the proteome and peptidome of the venom from the bullet ant, Paraponera clavata. Venom samples were collected from a single colony either by manual venom gland dissection or by electrical stimulation and were compared using proteomic methods. Venom proteins were separated by 2D-PAGE and identified by nanoLC-ESI-QTOF MS/MS. Venom peptides were initially separated using C18 reversed-phase high-performance liquid chromatography, then analyzed by MALDI-TOF MS. The proteomic analysis revealed numerous proteins that could be assigned a biological function (total 94), mainly as toxins, or roles in cell regulation and transport. This investigation found that ca. 73% of the proteins were common to venoms collected by the two methods. The peptidomic analysis revealed a large number of peptides (total 309) but with <20% shared by the two collection methods. There was also a marked difference between venoms obtained by venom gland dissection from different ant colonies. These findings demonstrate the rich composition and variability of P. clavata venom.
ISSN: 1535-3893

hal-01603415
https://hal.archives-ouvertes.fr/hal-01603415
DOI : 10.1021/acs.jproteome.6b00948
PRODINRA : 406775
PUBMED : 28118015

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Talc is a hydrous magnesium rich layered silicate that is widely disseminated in the Earth from the seafloor to over 100 km depth, in ultra-high pressure metamorphism of oceanic crust. In this paper we determine the single crystal elastic constants at pressures from 0 to 12 GPa of talc triclinic (C 1¯) and monoclinic (C2/c) polytypes using ab initio methods. We find that talc has an extraordinarily high elastic anisotropy at zero pressure that reduces with increasing pressure. The exceptional anisotropy is complemented by a negative Poisson's ratio for many directions in crystal space. Calculations show that talc is not only one of very few common minerals to exhibit auxetic behaviour, but the magnitude of this effect may be the largest reported so far for a mineral. The compression (Vp) and shear (Vs) wave velocity anisotropy is 80% and 85% for the triclinic polytype. At pressures where talc is known be stable in the Earth (up to 5 GPa) the Vp and Vs anisotropy is reduced to about 40% for both velocities, which is still a very high value. Vp is slow parallel to the c-axis and fast perpendicular to it. This remains unchanged with increasing pressure and is observed in both polytypes. The shear wave splitting (difference between fast and slow S-wave velocities) at low pressure has high values in the plane normal to the c-axis, with a maximum near the alow asterisk-axis in the triclinic and the b-axis in the monoclinic polytype. The c-axis is the direction of minimum splitting. The pattern of shear wave splitting does not change significantly with pressure. The volume fraction of talc varies between 11 and 41% for hydrated mantle rocks, but the lack of data on the crystallographic preferred orientation (CPO) precludes a detailed analysis of the impact of talc on seismic anisotropy in subduction zones. However, it is highly likely that CPO can easily develop in zones of deformation due to the platy habit of talc crystals. For random aggregates of talc, the isotropic Vp, Vs and Vp/Vs ratio have significantly lower values than those of antigorite and may explain low-velocity regions in the mantle wedge. Vp/Vs ratios are more complex in anisotropic media because there are fast and slow S-waves, resulting in Vp/Vs1 and Vp/Vs2 ratios for every propagation direction, making interpretation difficult in deformed polycrystalline talc with a CPO. Talc on the subduction plate boundary can strongly influence guided wave velocity as CPO would develop in this region of intense shearing. The very low coefficient of friction (< 0.1) of talc above 100 °C could also explain silent earthquakes at shallow depths (ca 30 km) along the subduction plate boundaries, frequently responsible for tsunami.
ISSN: 0012-821X

hal-00411481
https://hal.archives-ouvertes.fr/hal-00411481
DOI : 10.1016/j.epsl.2008.07.047

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The Cycladic Blueschist Unit (CBU) represents the northern passive margin of the Adria continental block and ophiolites that are the remnants of the Pindos Ocean, which were affected by high pressure-low temperature metamorphism in the blueschist and eclogite facies during the Eocene. Prior to the Lutetian, the ophiolitic and margin units were thrust towards the SW inside a NE-dipping subduction zone. Two subsequent exhumation stages are characterized by top-to-the-NE senses of shear: i) from mantle depths to lower crustal levels, before 37 Ma, which was accommodated by an extensional inversion of the Vardar suture zone, and ii) from deep crustal levels to the near-surface, between 30 and 20 Ma, which was accommodated by the North Cycladic Detachment. It is during this late stage of ductile exhumation that the central Cyclades Core Complex was exhumed. Segmentation of the CBU by normal faults started at 12 Ma, as recorded by the low temperature thermochronometers, and was coeval with block rotation and folding with NS-trending axes, which were predominantly controlled by the Myrthes-Ikaria strike-slip fault in the centre of the Cyclades. A map restoration of the CBU geometry, prior to segmentation, has been carried out using available structural and paleomagnetic data. The restoration shows that, following the CBU exhumation from mantle depths to crustal levels, a single core complex was exhumed along a single NE dipping detachment.
ISSN: 0040-1951

insu-00672320
https://hal-insu.archives-ouvertes.fr/insu-00672320
DOI : 10.1016/j.tecto.2011.12.025

Éditeur(s) : Inter-research
Résumé : Ecosystem-based management (EBM) requires more extensive information than single-species management. Active underwater acoustic methods provide a means of collecting a wealth of ecosystem information with high space-time resolution. Worldwide fisheries institutes and agencies are carrying out regular acoustic surveys covering many marine shelf ecosystems, but these data are underutilized. In addition, more and more acoustic data collected by vessels of opportunity are becoming available. To encourage their use for EBM, we provide a brief introduction to acoustic and complementary data collection methods in the water column, and review current and potential contributions to monitoring population abundance and biomass, spatial distributions, and predator-prey relationships. Further development of acoustics-derived indicators is needed. We review and propose indicators for assessing and monitoring zooplankton, population dynamics of fish and other nekton, and changes in diversity and food-web functioning. Acoustic methods have the potential to make a strong contribution to EBM. Evaluation of new indicators and suitable reference points in different ecosystems are the current challenges.
Marine Ecology-progress Series (0171-8630) (Inter-research), 2011 , Vol. 442 , P. 285-301

Droits : 2011 Inter-research
http://archimer.ifremer.fr/doc/00073/18445/15972.pdf
DOI:10.3354/meps09425
http://archimer.ifremer.fr/doc/00073/18445/

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
The cyp19a1 gene that encodes aromatase, the only enzyme permitting conversion of C19 aromatizable androgens into estrogens, is present as a single copy in the genome of most vertebrate species, except in teleosts in which it has been duplicated. This study aimed at investigating the brain expression of a cyp19a1 gene expressed in both gonad and brain of Japanese eel, a basal teleost. By means of immunohistochemistry and in situ hybridization, we show that cyp19a1 is expressed only in radial glial cells of the brain and in pituitary cells. Treatments with salmon pituitary homogenates (female) or human chorionic gonadotrophin (male), known to turn on steroid production in immature eels, strongly stimulated cyp19a1 messenger and protein expression in radial glial cells and pituitary cells. Using double staining studies, we also showed that aromatase-expressing radial glial cells exhibit proliferative activity in both the brain and the pituitary. Altogether, these data indicate that brain and pituitary expression of Japanese eel cyp19a1 exhibits characteristics similar to those reported for the brain specific cyp19a1b gene in teleosts having duplicated cyp19a1 genes. This supports the hypothesis that, despite the fact that eels also underwent the teleost specific genome duplication, they have a single cyp19a1 expressed in both brain and gonad. Such data also suggest that the intriguing features of brain aromatase expression in teleost fishes were not gained after the whole genome duplication and may reflect properties of the cyp19a1 gene of ancestral Actinopterygians.
ISSN: 1932-6203

hal-00877375
https://hal.archives-ouvertes.fr/hal-00877375
https://hal.archives-ouvertes.fr/hal-00877375/document
https://hal.archives-ouvertes.fr/hal-00877375/file/Expressionsur Aromatase-accepted.pdf
DOI : 10.1371/journal.pone.0044750

Éditeur(s) : HAL CCSD Elsevier
Résumé : The dense hydrous magnesium silicate called the D phase is the most likely candidate to recycle hydrogen into the lower mantle in subduction zones. As seismology represents the preferred method to detect this mineral in subduction zones, the single crystal elastic tensor has been calculated using first principle methods. A triple cell (View the MathML source) was used to account for an ordered ideal composition of the D phase to lower mantle pressures. The elastic tensor of the mineral at ambient conditions is predicted to be C11 = 387.7, C33 = 287.7, C44 = 100.4, C12 = 108.0, C13 = 51.1, C14 = − 14.6 in GPa with bulk modulus at zero pressure Ko = 163 GPa and a statistical error of about 4.0 GPa for all constants. The pressure derivatives of the elastic constants have been determined to pressure of 80 GPa. Our tensor correctly predicts the published experimental measurements of linear compressibility along the a- and c-axes, the logarithmic pressure derivative of the c/a axial ratio and bulk modulus at zero pressure. It contradicts the experimentally measured elastic tensor reported by (Liu, L.-G., Okamoto, K., Yang, Y.-J., Chen, C.-C., Lin, C.-C., 2004. Elasticity of single-crystal phase D (a dense hydrous magnesium silicate) by Brillouin spectroscopy. Solid State Commun. 132, 517–520), which fails to reproduce the experimental compressibility data. Using the elastic constants and density predicted to 85 GPa, the seismic anisotropy of P- and S-waves has been calculated as a function of pressure. The single crystal has high P-wave velocities and shear wave splitting in the basal plane below 20 GPa. At high pressures, the maximum P-wave velocities have threefold symmetry normal to a-axes in the basal plane, whereas the maximum shear wave splitting is parallel to a-axes with twofold symmetry. The D phase has high Vp and Vs anisotropy at ambient pressure, 17.6% for Vp and 19.9% for Vs. The Vp anisotropy decreases with increasing pressure to about 30 GPa, while it remains constant at 8% from 30 to 85 GPa. The Vs anisotropy decreases to 17% at 20 GPa and then increases to 22% at 85 GPa. The isotropic velocity ratios of S to P (Rs/p), bulk sound to S (Rphi/s) and density to S (Rρ/s) are calculated as a function of pressure. The Rs/p shows very little variation with pressure with low value of 0.6, whereas both Rphi/s and Rρ/s increase with pressure to peak values of 2.8 and 2.0 respectively at about 60 GPa. The presence of the D phase in subducted horizontal ‘stagnant' plates in the circum Pacific could contribute to a number of seismic observations, such as the observed velocity heterogeneity at depths between 500 and 1000 km and the fast S-waves travelling horizontally with horizontal polarization in this depth range. Further the lower density of the D phase compared with anhydrous minerals could influence buoyancy of the hydrated ‘stagnant' slabs. The transformation of the D phase to perovskite plus ferripericlase during thermal annealing may be responsible for horizontal slab seismogenesis.
ISSN: 0012-821X

hal-00406379
https://hal.archives-ouvertes.fr/hal-00406379
DOI : 10.1016/j.epsl.2007.04.053

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
A retrospective cohort study was conducted on 1541 HIV-infected patients to determine variables associated with the incidence of herpes zoster. A single failure Cox model showed that herpes zoster incidence increased following the first 6 months of antiretroviral treatment adjusted hazard ratio (AHR)=5 (95%CI=2.6-9.2), P<0.001; in the >60 years age group AHR=2 (95%CI=1-4), P=0.04; in patients in the top CD8 quartile AHR=2.1 (95%CI=1.3-3.6), P<0.001; and in patients previously reported to use crack cocaine AHR=5.9, (95%CI=1.4-25), P=0.02. Herpes zoster incidence increased in patients with CD4 counts<500 per mm(3) and gradually declined since 1992-1996, with AHR=0.3 (95%CI=0.2-0.5), P<0.001 for the 1997-2002 period and AHR=0.24 (95%CI=0.14-0.4), P<0.001 for the 2002-2008 period. Contrary to what has been described elsewhere, there was no specific effect of protease inhibitors on herpes zoster incidence. The present study is the first to suggest that crack cocaine is associated with an increased incidence of herpes zoster. The neurological or immunological effects of crack are discussed.
ISSN: 1932-6203

inserm-00921158
http://www.hal.inserm.fr/inserm-00921158
http://www.hal.inserm.fr/inserm-00921158/document
http://www.hal.inserm.fr/inserm-00921158/file/2013_Nacher_-_Predictive_factorssur herpes_zoster.pdf
DOI : 10.1371/journal.pone.0080187

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
BACKGROUND: African Americans with head and neck squamous cell carcinoma (HNSCC) have a lower survival rate than whites. This study investigated the functional importance of ancestry-informative single-nucleotide polymorphisms (SNPs) in HNSCC and also examined the effect of functionally important genetic elements on racial disparities in HNSCC survival. METHODS: Ancestry-informative SNPs, RNA sequencing, methylation, and copy number variation data for 316 oral cavity and laryngeal cancer patients were analyzed across 178 DNA repair genes. The results of expression quantitative trait locus (eQTL) analyses were also replicated with a Gene Expression Omnibus (GEO) data set. The effects of eQTLs on overall survival (OS) and disease-free survival (DFS) were evaluated. RESULTS: Five ancestry-related SNPs were identified as cis-eQTLs in the DNA polymerase beta (POLB) gene (false discovery rate [FDR]<0.01). The homozygous/heterozygous genotypes containing the African allele showed higher POLB expression than the homozygous white allele genotype (P<.001). A replication study using a GEO data set validated all 5 eQTLs and also showed a statistically significant difference in POLB expression based on genetic ancestry (P=.002). An association was observed between these eQTLs and OS (P<.037; FDR<0.0363) as well as DFS (P=.018 to.0629; FDR<0.079) for oral cavity and laryngeal cancer patients treated with platinum-based chemotherapy and/or radiotherapy. Genotypes containing the African allele were associated with poor OS/DFS in comparison with homozygous genotypes harboring the white allele. CONCLUSIONS: Analyses show that ancestry-related alleles could act as eQTLs in HNSCC and support the association of ancestry-related genetic factors with survival disparities in patients diagnosed with oral cavity and laryngeal cancer. (C) 2016 American Cancer Society.
ISSN: 0008-543X

hal-01519253
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01519253
DOI : 10.1002/cncr.30457
PUBMED : 27906459

Éditeur(s) : IEEE
Résumé : It is now well understood that data on soil moisture and sea surface salinity (SSS) are required to improve meteorological and climate predictions. These two quantities are not yet available globally or with adequate temporal or spatial sampling. It is recognized that a spaceborne L-band radiometer with a suitable antenna is the most promising way of fulfilling this gap. With these scientific objectives and technical solution at the heart of a proposed mission concept the European Space Agency (ESA) selected the Soil Moisture and Ocean Salinity (SMOS) mission as its second Earth Explorer Opportunity Mission. The development of the SMOS mission was led by ESA in collaboration with the Centre National d'Etudes Spatiales (CNES) in France and the Centro para el Desarrollo Tecnologico Industrial (CDTI) in Spain. SMOS carries a single payload, an L-Band 2-D interferometric radiometer operating in the 1400-1427-MHz protected band [1]. The instrument receives the radiation emitted from Earth's surface, which can then be related to the moisture content in the first few centimeters of soil over land, and to salinity in the surface waters of the oceans. SMOS will achieve an unprecedented maximum spatial resolution of 50 km at L-band over land (43 km on average over the field of view), providing multiangular dual polarized (or fully polarized) brightness temperatures over the globe. SMOS has a revisit time of less than 3 days so as to retrieve soil moisture and ocean salinity data, meeting the mission's science objectives. The caveat in relation to its sampling requirements is that SMOS will have a somewhat reduced sensitivity when compared to conventional radiometers. The SMOS satellite was launched successfully on November 2, 2009.
Proceedings of the IEEE (0018-9219) (IEEE), 2010-05 , Vol. 98 , N. 5 , P. 666-687

Droits : 2010 IEEE – All Rights Reserved
http://archimer.ifremer.fr/doc/00004/11483/8065.pdf
DOI:10.1109/JPROC.2010.2043032
http://archimer.ifremer.fr/doc/00004/11483/

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : Plant litter diversity effects on decomposition rates are frequently reported, but with a strong bias towards temperate ecosystems. Altered decomposition and nutrient recycling with changing litter diversity may be particularly important in tree species-rich tropical rainforests on nutrient-poor soils. Using 28 different mixtures of leaf litter from 16 Amazonian rainforest tree species, we tested the hypothesis that litter mixture effects on decomposition increase with increasing functional litter diversity. Litter mixtures and all single litter species were exposed in the field for 9 months using custom-made microcosms with soil fauna access. In order to test the hypothesis that the long-term presence of tree species contributing to the litter mixtures increases mixture effects on decomposition, microcosms were installed in a plantation at sites including the respective tree species composition and in a nearby natural forest where these tree species are absent. We found that mixture decomposition deviated from predictions based on single species, with predominantly synergistic effects. Functional litter diversity, defined as either richness, evenness, or divergence based on a wide range of chemical traits, did not explain the observed litter mixture effects. However, synergistic effects in litter mixtures increased with the long-term presence of tree species contributing to these mixtures as the home field advantage hypothesis assumes. Our data suggest that complementarity effects on mixed litter decomposition may emerge through long-term interactions between aboveground and belowground biota.
ISSN: 0029-8549

hal-01032393
https://hal.archives-ouvertes.fr/hal-01032393
DOI : 10.1007/s00442-011-1966-4

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The nucleation and growth processes of spherulitic alkali feldspar have been investigated in this study through X-ray microtomography and electron backscatter diffraction (EBSD) data. Here we present the first data on Shape Preferred Orientation (SPO) and Crystal Preferred Orientation (CPO) of alkali feldspar within spherulites. The analysis of synchrotron X-ray microtomography and EBSD datasets allowed us to study the morphometric characteristics of spherulites in trachytic melts in quantitative fashion, highlighting the three-dimensional shape, preferred orientation, branching of lamellae and crystal twinning, providing insights about the nucleation mechanism involved in the crystallization of the spherulites. The nucleation starts with a heterogeneous nucleus (pre-existing crystal or bubble) and subsequently it evolves forming “bow tie” morphologies, reaching radially spherulitic shapes in few hours. Since each lamella within spherulite is also twinned, these synthetic spherulites cannot be considered as single nuclei but crystal aggregates originated by heterogeneous nucleation. A twin boundary may have a lower energy than general crystal–crystal boundaries and many of the twinned grains show evidence of strong local bending which, combined with twin plane, creates local sites for heterogeneous nucleation.This study shows that the growth rates of the lamellae (10− 6–10− 7 cm/s) in spherulites are either similar or slightly higher than that for single crystals by up to one order of magnitude. Furthermore, the highest volumetric growth rates (10− 11–10− 12 cm3/s) show that the alkali feldspar within spherulites can grow fast reaching a volumetric size of ~ 10 μm3 in 1 s.
ISSN: 0024-4937

hal-01172356
https://hal.archives-ouvertes.fr/hal-01172356
DOI : 10.1016/j.lithos.2014.12.003

Éditeur(s) : HAL CCSD American Geophysical Union
Résumé : International audience
Rheological properties of mantle minerals and rocks at temperatures (T) appropriate to much of Earth's lithosphere have remained poorly constrained, even though past experimental studies on olivine single crystals and polycrystalline aggregates have quantified the high-temperature creep mechanisms (T > 1200 degrees C). Consequently, we have performed deformation experiments on crystals of San Carlos olivine at lower temperatures, from 900 degrees to 1200 degrees C, in triaxial compression along the [101](c) direction. The experiments were carried out at a confining pressure of 300 MPa in a high-resolution gas-medium mechanical testing apparatus at differential stresses of 100 to 500 MPa. Several samples were deformed at constant displacement rate and others at constant load, in order to provide insight into possible effects of work-hardening. Under the deformation conditions investigated, little evidence of work-hardening was observed. The data follow a power-law dependence on stress, as in previous high-temperature deformation studies. The samples were, however, considerably weaker than predicted by the experimentally determined high-temperature constitutive equation for olivine crystals of this orientation from the study of Bai et al. (1991). The mechanical behavior correlates instead with the weaker of the two mechanisms (flow laws) that contribute to the high-temperature constitutive equation. Thus, our experiments demonstrate that published high-temperature constitutive equations overestimate the strength of lithospheric mantle and that the transition to low-temperature creep occurs at lower temperatures than previously inferred. Citation: Demouchy, S., S. E. Schneider, S. J. Mackwell, M. E. Zimmerman, and D. L. Kohlstedt (2009), Experimental deformation of olivine single crystals at lithospheric temperatures, Geophys. Res. Lett., 36, L04304, doi: 10.1029/2008GL036611.
ISSN: 0094-8276

hal-00420070
https://hal.archives-ouvertes.fr/hal-00420070
DOI : 10.1029/2008GL036611

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
Two genome-wide association studies (GWASs) recently highlighted the HLA-DRA and HLA-DRB5 genes as associated with Parkinson disease (PD). However, because HLA-DRA displays a low level of polymorphisms and HLA-DRB5 is only present in approximately 20% of the population, these findings are difficult to interpret. Our aims were: (1) to replicate and investigate in greater detail the association between PD and the HLA-DR region; (2) to identify PD-associated HLA alleles; and (3) to perform a meta-analysis of our top finding. As part of 2 French population-based case-control studies of PD including highly ethnically homogeneous participants, we investigated the association between PD and 51 Single-nucleotide polymorphisms (SNPs) in the HLA-DR region. HLA-DRB1 alleles were imputed using the HLA(*) IMP software. HLA typing was performed in a subsample of the participants. We performed a meta-analysis of our top finding based on 4 GWAS data sets. Among 499 cases and 1123 controls, after correction for multiple testing, we found an association with rs660895 (OR/minor allele, 0.70; 95% CI, 0.57-0.87) within the HLA-DRB1 gene, which encodes the most polymorphic HLA-DR chain (DRβ). A meta-analysis (7996 cases, 36455 controls) confirmed this association (OR, 0.86; 95% CI, 0.82-0.91; P < .0001). SNP-based imputation of HLA alleles showed an inverse association between PD and the HLA-DRB1(*) 04 allele. We replicated an association between PD and the HLA-DR region and provided further insight into the loci and alleles involved. The highly polymorphic HLA-DRB1 locus contains rs660895, which represents a more legitimate candidate than previous ones. Our finding is in agreement with the hypothesis of an immune component in PD pathophysiology. © 2012 Movement Disorder Society.
ISSN: 0885-3185

inserm-00721562
http://www.hal.inserm.fr/inserm-00721562
http://www.hal.inserm.fr/inserm-00721562/document
http://www.hal.inserm.fr/inserm-00721562/file/Table1.pdf
http://www.hal.inserm.fr/inserm-00721562/file/Table2.pdf

Éditeur(s) : HAL CCSD Elsevier
Résumé : Nominally anhydrous minerals (NAMs) of Earth's mantle can contain hydrogen as atomic impurity in their crystal structures. This hydrogen substantially modifies many physical properties of Earth's mantle rocks. Also, the Earth's deep interior is made of rocks where minerals are separated by nanometer-scale interfaces call grain boundaries and interphase boundaries. These grain boundaries should carefully be considered as a potential hydrogen reservoir as well. I report here an experimental investigation of hydrogen diffusion through grain boundaries in olivine polycrystalline aggregates. Hot-press and diffusion experiments were performed using a gas-medium high-pressure vessel at a confining pressure of 300 MPa, over a temperature range of 1000-1200 degrees C. The diffusion assembly consisted of a dense polycrystalline cylinder of natural olivine from San Carlos (Arizona) mixed with olivine singles crystals of millimeter size. This mixture was couple with a talc cylinder. Ni capsule were used to buffer the oxygen fugacity at Ni-NiO level. Experiment durations varied from 3 min to 4 h. The presence of hydrogen in the sample was quantified using Fourier transform infrared spectroscopy. The calculation of the diffusion coefficients was based on the estimation of the length of polycrystalline solid affected by the diffusion of hydrogen. The absence or presence of hydrogen was recorded by the large olivines behaving here as "hydrogen sensor", which are implanted in the aggregate. The results indicate that effective hydrogen diffusivity which includes grain boundaries effect in olivine aggregate is barely one order of magnitude faster than hydrogen diffusion in an olivine single crystal with a diffusivity similar to 8.5x 10(-10) m(2) s(-1) 1000 degrees C and only twice faster similar to 2.1 x10(-9) m(2) s(-1) 1200 degrees C. Calculations of the diffusion data in relation to the Arrhenius Law, yield an activation energy of similar to 70 +/- 10 kJ mol(-l) . From these effective diffusivities and combined with published diffusion data for olivine single crystals, hydrogen diffusion in grain boundaries is extracted and yield diffusivities almost three order of magnitude faster (similar to 5 x 10(-6) m(2) s(-1) at 1200 degrees C) than in an olivine single crystal at the equivalent high temperature. On geological scales and for coarse-grain rocks, hydrogen diffusivity in grain boundaries is not fast enough to compete with lattice diffusion. The relative large grain size of mantle rocks will ensure a very limited hydrogen transport by effective diffusion, and a good conservation of water-rich zones in the Earth's mantle.
ISSN: 0012-821X

hal-00512821
https://hal.archives-ouvertes.fr/hal-00512821
DOI : 10.1016/j.epsl.2010.04.019

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
Upper-mantle flow beneath the South Pacific is investigated by analysing shear wave splitting parameters at eight permanent long-period and broad-band seismic stations and 10 broad-band stations deployed in French Polynesia from 2001 to 2005 in the framework of the Polynesian Lithosphere and Upper Mantle Experiment (PLUME). Despite the small number of eventsand the rather poor backazimuthal coverage due to the geographical distribution of the natural seismicity, upper-mantle seismic anisotropy has been detected at all stations except at Tahiti where two permanent stations with 15 yr of data show an apparent isotropy. The median value of fast polarization azimuths (N67.5°W) is parallel to the present Pacific absolute platemotion direction in French Polynesia (APM: N67°W). This suggests that the observed SKS fast polarization directions result mainly from olivine crystal preferred orientations produced by deformation in the sublithospheric mantle due to viscous entrainment by the moving Pacific Plate and preserved in the lithosphere as the plate cools. However, analysis of individualmeasurements highlights variations of splitting parameters with event backazimuth that imply an actual upper-mantle structure more complex than a single anisotropic layer with horizontal fast axis. A forward approach shows that a two-layer structure of anisotropy beneath French Polynesia better explains the splitting observations than a single anisotropic layer. Second ordervariations in the measurements may also indicate the presence of small-scale lateral heterogeneities. The influence of plumes or fracture zones within the studied area does not appear to dominate the large-scale anisotropy pattern but may explain these second-order splitting variations across the network.
ISSN: 0956-540X

hal-01249275
https://hal.archives-ouvertes.fr/hal-01249275
https://hal.archives-ouvertes.fr/hal-01249275/document
https://hal.archives-ouvertes.fr/hal-01249275/file/GJI2007SKS.pdf
DOI : 10.1111/j.1365-246X.2007.03475.x