Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
A temporary network of 10 broad-band seismic stations has been installed in French Polynesia for the Polynesian Lithosphere and Upper Mantle Experiment (PLUME). All the seismic stations were installed either on volcanic islands or on atolls of the various archipelagos of French Polynesia in a manner which complements the geographic coverage provided by the regional permanent stations. The primary aim of PLUME is to image the upper mantle structures related to plate motion and hotspot activity. However, because of its proximity to all sites, the ocean is responsible for a high level of noise in the seismic data and we show that these data can also be used to analyse ocean wave activity. The power spectral density (PSD) analyses of the seismic data recorded in French Polynesia show clear peaks in the 0.05– 0.10 Hz band (periods between 10 and 20 s), which corresponds to swell frequencies. Clear peaks in this frequency band are also observed in infrasonic data recorded on Tahiti. Ground motion analysis shows that the swell-related seismic noise (SRSN) is linearly polarized in the horizontal plane and its amplitude decreases rapidly with the distance from the shore. The microseismic and the infrasonic 'noise' amplitudes show very similar variations from station to station and both are strongly correlated with the swell amplitudes predicted by the National Oceanic and Atmospheric Administration (NOAA), wind-forced, 'WaveWatch' models. The swell direction can be estimated from SRSN polarization analysis but this has to be done with care since, for some cases, the ground motions are strongly controlled by the islands' anisometric shapes and by swell refraction processes. We find cases, however, such as Tahiti or roughly circular Tuamotu atolls, where the azimuth of the swell is in good agreement with the seismic estimates. We, therefore, demonstrate that the SRSN and the infrasonic signal observed in French Polynesia can be used in such cases as a proxy for swell amplitude and azimuth. From the continuous analysis of the data recorded in 2003 at the permanent seismic station PPTL in Tahiti, transfer functions have been obtained. This could provide a way to quantify the swell activity during the last two decades and, therefore, assist in the investigation of climate changes.
ISSN: 0956-540X

hal-01388809
http://hal.univ-reunion.fr/hal-01388809
http://hal.univ-reunion.fr/hal-01388809/document
http://hal.univ-reunion.fr/hal-01388809/file/Barruol_swell_GJI2006.pdf
DOI : 10.1111/j.1365-246X.2006.02871.x

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
Clin Microbiol Infect 2012; 18 (Suppl. 4): 4043 Abstract In order to study complex microbial communities and their associated mobile genetic elements, such as the human gut microbiome, evolutionists could explore their genetic diversity with shared sequence networks. In particular, the detection of remarkable structures in gene networks of the gut microbiome could serve to identify important functions within the community, and would ease comparison of data sets from microbiomes of various sources (human, ape, mouse etc.) in a single analysis.
ISSN: 1198-743X

hal-01544804
https://hal.archives-ouvertes.fr/hal-01544804
DOI : 10.1111/j.1469-0691.2012.03856.x

Éditeur(s) : HAL CCSD
Résumé : International audience
The study of complex biological processes requires to forgo simplified models for extensive ones. Yet, these models' size and complexity place them beyond understanding. Their analysis requires new methods for identifying general patterns. The Transforming Growth Factor TGF-β is a multifunctional cytokine that regulates mammalian cell development , differentiation, and homeostasis. Depending on the context, it can play the antagonistic roles of growth inhibitor or of tumor promoter. Its context-dependent pleiotropic nature is associated with complex sig-naling pathways. The most comprehensive model of TGF-β-dependent signaling is composed of 15,934 chains of reactions (trajectories) linking TGF-β to at least one of its 159 target genes. Identifying functional patterns in such a network requires new automated methods. This article presents a framework for identifying groups of similar trajec-tories composed of the same molecules using an exhaustive and without prior assumptions approach. First, the trajectories were clustered using the Relevant Set Correlation model, a shared nearest-neighbors clustering method. Five groups of trajectories were identified. Second, for each cluster the over-represented molecules were determined by scoring the frequency of each molecule implicated in trajectories. Third, Gene set enrichment analysis on the clusters of trajectories revealed some specific TGF-β-dependent biological processes, with different clusters associated to the antagonists roles of TGF-β. This confirms that our approach yields biologically-relevant results. We developed a web interface that facilitates graph visualization and analysis. Our clustering-based method is suitable for identifying families of functionally-similar trajectories in the TGF-β signaling network. It can be generalized to explore any large-scale biological pathways.
CMSB 2017 - 15th International Conference on Computational Methods in Systems Biology
Darmstadt, France

hal-01559249
https://hal.archives-ouvertes.fr/hal-01559249
https://hal.archives-ouvertes.fr/hal-01559249/document
https://hal.archives-ouvertes.fr/hal-01559249/file/JeanCoquet_CMSB.pdf

Éditeur(s) : ICES 2008 Annual Science Conference, 22-26 september 2008, HALIFAX, CANADA
Résumé : Since 2000, Ifremer has been implemented a Fisheries Information System (FIS), in strong collaboration with the DPMA (Direction of fisheries and aquaculture of the French Ministry of Agriculture and Fisheries). The FIS aims at building an operational and multidisciplinary monitoring network for scientific purposes, allowing a comprehensive view of fishery systems including their biological, technical, environmental and economical components. The objectives of the FIS are (i) to provide the specifications and methodologies for the collection, storage and processing of fisheries data, with the constant concern to harmonise all these procedures on a national scale, (ii) to improve data management system and access to data for a wide-spread public, and (iii) to produce and distribute relevant datasets, indicators and synthesis, for understanding and evaluation, including bio-economic diagnostics of the fisheries, and assessment of the short and long-term impacts of fisheries management scenario and measures. The FIS covers all the French fisheries, including overseas territories and small-scale fisheries, for which data are often hardly available or missing, whereas two thirds of the French vessels are less than 12 meters long. The challenge was to establish a statistical and an integrated approach supporting bio-ecological and economic issues. To further an integrated analysis of the fishery systems, the wide range kinds of data - including acoustic surveys, biological in-situ observations, environmental observations, as well as fishing statistics (landings and efforts) or economic data - are managed in a single data management system, based on an integrated relational data base with geographical facilities.

Droits : 2008 ICES
http://archimer.ifremer.fr/doc/00059/17002/14504.pdf
http://archimer.ifremer.fr/doc/00059/17002/

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We studied the deformation in a partially molten mantle through detailed petrostructural analysis of plagioclase lherzolites from the northwestern part of the central Lanzo massif. These peridotites display a pervasive anastomosed network of millimetre to centimetre-scale plagioclase-rich bands, which grades locally into a planar layering marked by an intercalation of plagioclase-rich and olivine-rich layers up to tens of centimetres wide. Both the anastomosed and the planar layering are subparallel to the deformation fabric, characterized by a foliation defined by the shape-preferred orientation of olivine and by crystal preferred orientation (CPO) of olivine, orthopyroxene, and clinopyroxene. This parallelism, the coexistence of microstructural evidence for melt-rock reactions and for deformation by dislocation creep, and the predominance of axial-[010] olivine CPO patterns, characterized by [010] axes clustered normal to the layering, indicate that deformation and the reactive melt percolation that formed the layering were coeval. Strong heterogeneity in mineral composition in the planar layering domains, with Fe-enrichment in olivine and spinel and highly variable Ti content in spinel in cm-scale plagioclase-rich bands, implies that the latter interacted with higher melt volumes. High Ti contents in pyroxenes and spinel in the anastomosed layering domains point to changes in melt composition, hinting to less effective melt transport. We propose therefore that the planar layering records melt segregation in layers parallel to the shear plane, whereas the anastomosed layering results from melt alignment along grain boundaries subparallel to the shear plane, without segregation. Finite strain in the different layers cannot be quantified, but comparison of the present observations with data from experiments and from other mantle outcrops displaying shear-controlled melt organization suggests that the transition from the anastomosed to the planar layering might record an increase in finite strain, that is, strain localization associated with variations in the instantaneous melt fraction.
ISSN: 0040-1951

hal-01053509
https://hal.archives-ouvertes.fr/hal-01053509
DOI : 10.1016/j.tecto.2014.01.007

Éditeur(s) : HAL CCSD
Résumé : The evolution of mountain belt piedmont is controlled by interactions between tectonics, erosion and sedimentation. To study coupling between these processes, we analyze morphometric data collected in the eastern Tian Shan piedmont (NW China) and develop a new analogue modelling technique. The modeling approach uses an experimental set-up and analog material specifically designed to study simultaneously tectonic structures (faults, folds), detailed morphology (drainage basins, channels, alluvial fans, etc.) and stratified sedimentation. Measurement techniques based on laser interferometry and image correlation are also developed to quantify the topographic and kinematic evolution of models.
Our experiments allow a new approach for the study of piedmont morphotectonic evolution. Our results indicate that tectonics mainly controls this evolution. The propagation of deformation and the formation of relief both significantly influence the development of drainage networks, the evolution of drainage basins and the formation of morphotectonic markers. Particularly, a study of alluvial fans and watershed metrics suggests that there is a dynamical equilibrium between uplift, erosion and morphology. In addition, our results show that terrace nucleation is controlled by thrust activity and hydrography adjustments. Folding of terraces responds to a homothetic deformation pattern.
This new methodology brings promising perspectives in the fields of geomorphology, seismotectonics and sedimentology.
L'évolution d'un piémont de chaîne de montagnes est contrôlée par les interactions entre la tectonique, l'érosion et la sédimentation. Pour étudier ces processus, nous avons analysé des données morphométriques issues des piémonts orientaux du Tian Shan (NW Chine) et développé un nouveau type de modélisation analogique. Cette approche utilise un dispositif et un matériau expérimental spécialement conçus pour modéliser simultanément des structures tectoniques (failles, plis), une morphologie détaillée (bassins versants, rivières, cônes alluviaux, etc.) et une sédimentation stratifiée. Des techniques de mesure optique ont été également mises en oeuvre afin de quantifier l'évolution topographique et cinématique des modèles.
Les expériences réalisées offrent une opportunité inédite d'étudier l'évolution morphotectonique d'un piémont. Nos résultats montrent que la tectonique exerce un contrôle de premier ordre sur cette évolution. La propagation de la déformation et la formation des reliefs influencent en effet significativement le développement du réseau de drainage, l'évolution des bassins versants et la formation des marqueurs morphotectoniques. En particulier, l'analyse de la morphométrie des cônes alluviaux et de leurs bassins versants suggère qu'un équilibre dynamique s'installe entre la surrection, l'érosion et la morphologie. Nos résultats montrent également que l'apparition des terrasses est guidée par l'activité des chevauchements et les adaptations de l'hydrographie. Leur modèle de plissement répond à une déformation homothétique.
Cette nouvelle approche ouvre des perspectives d'étude prometteuses en géomorphologie, sismotectonique et stratigraphie.
https://tel.archives-ouvertes.fr/tel-00339145

tel-00339145
https://tel.archives-ouvertes.fr/tel-00339145
https://tel.archives-ouvertes.fr/tel-00339145v2/document
https://tel.archives-ouvertes.fr/tel-00339145/file/These_Graveleau08.pdf

Éditeur(s) : Amer Geophysical Union
Résumé : We quantify, analyze, and characterize the frequency-dependent microseismic noise recorded by worldwide distributed seismic stations. Microseismic noise is generated through the interaction of ocean waves. It is the strongest ambient noise, and it is observed everywhere on Earth. We introduce a new approach which permits us to detect polarized signals in the time-frequency domain and which we use to characterize the microseismic noise. We analyze 7 years of continuous seismograms from the global GEOSCOPE network. Microseisms are dominated by Rayleigh waves, and we therefore focus on elliptically polarized signals. The polarized signals are detected in the time-frequency domain through a degree of polarization measure. We design polarization spectra and show that microseismic noise is more strongly polarized than noise in other frequency bands. This property is used to measure the directions of the polarized noise at individual stations as a function of time and frequency. Seasonal variations are found for the back azimuths and for the number of polarized signals at many stations. We show that the back azimuth directions are robust measurements that point toward the source areas computed from ocean wave models.
Geochemistry Geophysics Geosystems (1525-2027) (Amer Geophysical Union), 2011-07 , Vol. 12 , N. Q07014 , P. 14 p.

Droits : 2011. American Geophysical Union. All Rights Reserved.
http://archimer.ifremer.fr/doc/00041/15219/12713.pdf
DOI:10.1029/2011GC003661
http://archimer.ifremer.fr/doc/00041/15219/

Éditeur(s) : HAL CCSD
Résumé : International audience
This paper investigates an application of wireless sensor networks to highlight existing communities within bird populations by collecting and analyzing behavioral and social data. We propose a solution based on fixed sensors fitted with microphone, a method more suited to the context of birds. This kind of sensor provides a good mean to enable the automatic detection of bird songs and thus to elicit social interactions between individuals by analyzing the occurrence and location of songs into given regions. The underlying sensor network architecture we propose allows each item to capture individual and collective patterns, by measuring the frequency of interactions among birds and between birds and regions. In this paper, we discuss our motivation to design a new architecture, and advantages and limitations of the proposed method. We demonstrate the efficiency of our solution by experimentations conducted by our simulation tool called Lypus.
IEEE 36th Conference on Local Computer Networks (LCN)
Bonn, Germany

hal-00656113
https://hal.archives-ouvertes.fr/hal-00656113
DOI : 10.1109/LCN.2011.6115565

Éditeur(s) : HAL CCSD BioMed Central
Résumé : International audience
BACKGROUND: The TGF-β transforming growth factor is the most pleiotropic cytokine controlling a broad range of cellular responses that include proliferation, differentiation and apoptosis. The context-dependent multifunctional nature of TGF-β is associated with complex signaling pathways. Differential models describe the dynamics of the TGF-β canonical pathway, but modeling the non-canonical networks constitutes a major challenge. Here, we propose a qualitative approach to explore all TGF-β-dependent signaling pathways. RESULTS: Using a new formalism, CADBIOM, which is based on guarded transitions and includes temporal parameters, we have built the first discrete model of TGF-β signaling networks by automatically integrating the 137 human signaling maps from the Pathway Interaction Database into a single unified dynamic model. Temporal property-checking analyses of 15934 trajectories that regulate 145 TGF-β target genes reveal the association of specific pathways with distinct biological processes. We identify 31 different combinations of TGF-β with other extracellular stimuli involved in non-canonical TGF-β pathways that regulate specific gene networks. Extensive analysis of gene expression data further demonstrates that genes sharing CADBIOM trajectories tend to be co-regulated. CONCLUSIONS: As applied here to TGF-β signaling, CADBIOM allows, for the first time, a full integration of highly complex signaling pathways into dynamic models that permit to explore cell responses to complex microenvironment stimuli.
ISSN: 1752-0509

inserm-00978313
http://www.hal.inserm.fr/inserm-00978313
http://www.hal.inserm.fr/inserm-00978313/document
http://www.hal.inserm.fr/inserm-00978313/file/1752-0509-8-30.pdf
DOI : 10.1186/1752-0509-8-30

Éditeur(s) : HAL CCSD Wiley-Blackwell
Résumé : International audience
1. Our understanding of the contribution of interspecific interactions to functional diversity in nature lags behind our knowledge of spatial and temporal patterns. Although two-species mutualisms are found in all types of ecosystems, the study of their ecological influences on other community members has mostly been limited to third species, while their influence on entire communities remains largely unexplored. 2. We hypothesized that mutualistic interactions between two respective ant species and an epiphyte mediate the biological traits composition of entire invertebrate communities that use the same host plant, thereby affecting food webs and functional diversity at the community level. 3. Aechmea mertensii (Bromeliaceae) is both a phytotelm ('plant-held water') and an ant-garden epiphyte. We sampled 111 bromeliads (111 aquatic invertebrate communities) associated with either the ant Pachycondyla goeldii or Camponotus femoratus. The relationships between ants, bromeliads and invertebrate abundance data were examined using a redundancy analysis. Biological traits information for invertebrates was structured using a fuzzy-coding technique, and a co-inertia analysis between traits and abundance data was used to interpret functional differences in bromeliad ecosystems. 4. The vegetative traits of A. mertensii depended on seed dispersion by C. femoratus and P. goeldii along a gradient of local conditions. The ant partner selected sets of invertebrates with traits that were best adapted to the bromeliads' morphology, and so the composition of the biological traits of invertebrate phytotelm communities depends on the identity of the ant partner. Biological traits suggest a bottom-up control of community structure in C. fenaoratus-associated phytotelmata and a greater structuring role for predatory invertebrates in P. goeldii-associated plants. 5. This study presents new information showing that two-species mutualisms affect the functional diversity of a much wider range of organisms. Most biological systems form complex networks where nodes (e.g. species) are more or less closely linked to each other, either directly or indirectly, through intermediate nodes. Our observations provide community-level information about biological interactions and functional diversity, and perspectives for further observations intended to examine whether large-scale changes in interacting species/community structure over broad geographical and anthropogenic gradients affect ecosystem functions.
Functional Ecology

hal-01096909
https://hal-agroparistech.archives-ouvertes.fr/hal-01096909
DOI : 10.1111/j.1365-2435-2011.01863.x

Éditeur(s) : HAL CCSD
Résumé : International audience
This paper describes a blood alcohol content estimation method for car driver, based on a comportment analysis performed within a realistic simulation. An artificial neural network learns how to estimate subject's blood alcohol content. Low-level recording of user actions on the steering wheel and pedals are used to feed a multilayer perceptron, and a breathalyzer is used to build the learning examples set (desired output). Results are compared with a successful previous work based on a simple video game and demonstrate the ''complexity scalability'' of the approach.
The 20 th European Symposium on Artificial Neural Networks, Computational Intelligence and Machine Learning - Proceedings - Bruges, Belgium from 25 to 27 April 2012 .
Bruges, Belgium

hal-00850136
https://hal.archives-ouvertes.fr/hal-00850136

Éditeur(s) : HAL CCSD Society for Molecular Biology and Evolution
Résumé : International audience
Although heterokaryons have been reported in nature, multicellular organisms are generally assumed genetically homogeneous. Here, we investigate the case of arbuscular mycorrhizal fungi (AMF) that form symbiosis with plant roots. The growth advantages they confer to their hosts are of great potential benefit to sustainable agricultural practices. However, measuring genetic diversity for these coenocytes is a major challenge: Within the same cytoplasm, AMF contain thousands of nuclei and show extremely high levels of genetic variation for some loci. The extent and physical location of polymorphism within and between AMF genomes is unclear. We used two complementary strategies to estimate genetic diversity in AMF, investigating polymorphism both on a genome scale and in putative single copy loci. First, we used data from whole-genome pyrosequencing of four AMF isolates to describe genetic diversity, based on a conservative network-based clustering approach. AMF isolates showed marked differences in genome-wide diversity patterns in comparison to a panel of control fungal genomes. This clustering approach further allowed us to provide conservative estimates of Rhizophagus spp. genomes sizes. Second, we designed new putative single copy genomic markers, which we investigated by massive parallel amplicon sequencing for two Rhizophagus irregularis and one Rhizophagus sp. isolates. Most loci showed high polymorphism, with up to 103 alleles per marker. This polymorphism could be distributed within or between nuclei. However, we argue that the Rhizophagus isolates under study might be heterokaryotic, at least for the putative single copy markers we studied. Considering that genetic information is the main resource for identification of AMF, we suggest that special attention is warranted for the study of these ecologically important organisms.
ISSN: 1759-6653

Droits : http://creativecommons.org/licenses/by/
hal-01224215
http://hal.upmc.fr/hal-01224215
http://hal.upmc.fr/hal-01224215/document
http://hal.upmc.fr/hal-01224215/file/Genome%20Biol%20Evol-2015-Boon-505-21.pdf
DOI : 10.1093/gbe/evv002

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
In places where sedimentation and erosion compete at fast rates, part of the record of past earthquakes on faults may be buried, hence hidden, in the first few metres below the surface. We developed a novel form of palaeoseismology, of geophysical type, based on the use of a dense pseudo-3-D Ground Penetrating Radar (GPR) survey to investigate such possible buried earthquake traces, on a long, fast-slipping strike-slip fault (Hope fault, New Zealand), at a site (Terako) where marked alluvial conditions prevail. We first used LiDAR data to analyse the ground surface morphology of the 2 km2 site at the greatest resolution. Nineteen morphological markers were observed, mainly alluvial terrace risers and small stream channels that are all dextrally offset by the fault by amounts ranging between 3 and 200 m. The measurements document about 10 past earthquake slip events with a mean coseismic slip of 3.3 +/- 1 m, with the most recent earthquake event having a slip of 3 +/- 0.5 m. We then investigated a detailed area of the site (400 x 600 m2) with pseudo-3-D GPR. We measured 56, similar to 400 m long, 510 m spaced GPR profiles (250 MHz), parallel to the fault and evenly distributed on either side. The analysis revealed the existence of a palaeosurface buried at about 3 m depth, corresponding to the top of alluvial terraces of different ages. That buried surface is incised by a dense network of stream channels that are all dextrally offset by the fault. We measured 48 lateral offsets in the buried channel network, more than twice than at the surface. These offsets range between 6 and 108 m, as observed at the surface, yet provide a more continuous record of the fault slip. The similarity of the successive slip increments suggests a slip per event averaging 4.4 +/- 1 m, fairly similar to that estimated from surface data. From the total surface and buried 67 offset collection, we infer that a minimum of 30 large earthquakes have broken the Hope fault at the Terako site in the last about 67 kyr, with an average coseismic slip of 3.2 +/- 1 m, a minimum average recurrence time of about 200 yr, and a magnitude of at least Mw 7.07.4. Our study therefore confirms that part of the record of past earthquakes may indeed reside in the first few metres below the surface, where it may be explored with geophysical, GPR-based palaeoseismology. Developing such a new palaeoseismological tool should provide rich information that may complement surface observations and help to document the past earthquakes on faults.
ISSN: 0956-540X

hal-00704560
https://hal.archives-ouvertes.fr/hal-00704560
DOI : 10.1111/j.1365-246X.2012.05366.x

Éditeur(s) : HAL CCSD American Chemical Society
Résumé : Three new monoterpene indole alkaloids (13) have been isolated from the bark of Geissospermum laeve-, together with the known alkaloids (-)-leuconolam (4), geissolosimine (5), and geissospermine (6). The structures of 1-3 were elucidated by analysis of their HRMS and NMR spectroscopic data. The absolute configuration of geissolaevine (I). was deduced from the comparison of experimental and theoretically calculated ECD spectra. The isolation workflow was guided by a molecular networking-based dereplication strategy using an in-house database of monoterpene indole alkaloids. In addition, five known compounds previously undescribed in the Geissospermum genus were dereplicated from the G. laeve alkaloid extract network and were assigned with various levels of identification confidence. The antiparasitic activities against Plasmodium falciparum and Leishmania donovani as well as the Ortotoxic activity against the MRC-5 cell line were determined for compounds 1-5.
ISSN: 0163-3864

hal-01605065
https://hal.archives-ouvertes.fr/hal-01605065
DOI : 10.1021/acs.jnatprod.6b01013
PRODINRA : 402605
PUBMED : 28282127

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : International audience
The regulatory mechanisms involved in the acquisition of thermal tolerance are unknown in insects. Reversible phosphorylation is a widespread post-translational modification that can rapidly alter proteins function(s). Here, we conducted a large-scale comparative screening of phosphorylation networks in adult Drosophila flies that were cold-acclimated versus control. Using a modified SIMAC method followed by a multiple MS analysis strategy, we identified a large collection of phosphopeptides (about 1600) and phosphoproteins (about 500) in both groups, with good enrichment efficacy (80%). The saturation curves from the four biological replicates revealed that the phosphoproteome was rather well covered under our experimental conditions. Acclimation evoked a strong phosphoproteomic signal characterized by large sets of unique and differential phosphoproteins. These were involved in several major GO superclusters of which cytoskeleton organization, positive regulation of transport, cell cycle, and RNA processing were particularly enriched. Data suggest that phosphoproteomic changes in response to acclimation were mainly localized within cytoskeletal network, and particularly within microtubule associated complexes. This study opens up novel research avenues for exploring the complex regulatory networks that lead to acquired thermal tolerance.
ISSN: 2045-2322

hal-01532256
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01532256
DOI : 10.1038/s41598-017-01974-z
PUBMED : 28490779

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
A temporary network of 10 broad-band seismic stations has been installed in French Polynesia for the Polynesian Lithosphere and Upper Mantle Experiment (PLUME). All the seismic stations were installed either on volcanic islands or on atolls of the various archipelagos of French Polynesia in a manner which complements the geographic coverage provided by the regional permanent stations. The primary aim of PLUME is to image the upper mantle structures related to plate motion and hotspot activity. However, because of its proximity to all sites, the ocean is responsible for a high level of noise in the seismic data and we show that these data can also be used to analyse ocean wave activity. The power spectral density (PSD) analyses of the seismic data recorded in French Polynesia show clear peaks in the 0.05– 0.10 Hz band (periods between 10 and 20 s), which corresponds to swell frequencies. Clear peaks in this frequency band are also observed in infrasonic data recorded on Tahiti. Ground motion analysis shows that the swell-related seismic noise (SRSN) is linearly polarized in the horizontal plane and its amplitude decreases rapidly with the distance from the shore. The microseismic and the infrasonic 'noise' amplitudes show very similar variations from station to station and both are strongly correlated with the swell amplitudes predicted by the National Oceanic and Atmospheric Administration (NOAA), wind-forced, 'WaveWatch' models. The swell direction can be estimated from SRSN polarization analysis but this has to be done with care since, for some cases, the ground motions are strongly controlled by the islands' anisometric shapes and by swell refraction processes. We find cases, however, such as Tahiti or roughly circular Tuamotu atolls, where the azimuth of the swell is in good agreement with the seismic estimates. We, therefore, demonstrate that the SRSN and the infrasonic signal observed in French Polynesia can be used in such cases as a proxy for swell amplitude and azimuth. From the continuous analysis of the data recorded in 2003 at the permanent seismic station PPTL in Tahiti, transfer functions have been obtained. This could provide a way to quantify the swell activity during the last two decades and, therefore, assist in the investigation of climate changes.
ISSN: 0956-540X

hal-01323691
http://hal.univ-reunion.fr/hal-01323691
http://hal.univ-reunion.fr/hal-01323691/document
http://hal.univ-reunion.fr/hal-01323691/file/Barruol_et_al_2006.pdf
DOI : 10.1111/j.1365-246X.2006.02871.x

Éditeur(s) : HAL CCSD Society for the Study of Reproduction
Résumé : International audience
Spermmotility notably depends on the structural integrity of the flagellum and the regulation ofmicrotubule dynamics. Although researchers have started to use " omics" techniques to characterize the human sperm's molecular landscape, the constituents responsible for the assembly, organization, and dynamics of the flagellum microtubule have yet to be fully defined. In this study, we defined a core set of 116 gene products associated with the human sperm microtubulome (including products potentially involved in abnormal ciliary phenotypes and male infertility disorders). To this end, we designed and applied an integrated genomics workflow and combined relevant proteomics, transcriptomics, and interactomics datasets to reconstruct a dynamic interactome map. By further integrating phenotypic information, we defined a disease-interaction network; this enabled us to highlight a number of novel factors potentially associated with altered sperm motility and male fertility. Lastly, we experimentally validated the expression pattern of two candidate genes (CUL3 and DCDC2C) that had never previously been associated with male germline differentiation. Our analysis suggested that CUL3 and DCDC2C's products have important roles in the sperm flagellum. Taken as a whole, our results demonstrate that an integrated genomics strategy can highlight relevant molecular factors in specific sperm components. This approach could be easily extended by including other " omics" data (from asthenozoospermic men, for example) and identifying other critical proteins from the human sperm microtubulome. Summary Sentence Although researchers have started to use "omics" techniques to characterize the human sperm's molecular landscape, the constituents responsible for the assembly, organization, and dynamics of the flagellum microtubule have yet to be fully defined.
ISSN: 0006-3363

hal-01515563
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01515563
DOI : 10.1095/biolreprod.116.143479
PUBMED : 28395323

Éditeur(s) : HAL CCSD D-side publications, Evere, Belgium
Résumé : International audience
This article underlines the learning and discrimination capabilities of a model of associative memory based on artificial networks of spiking neurons. Inspired from neuropsychology and neurobiology, the model implements top-down modulations, as in neocortical layer V pyramidal neurons, with a learning rule based on synaptic plasticity (STDP), for performing a multimodal association learning task. A temporal correlation method of analysis proves the ability of the model to associate specific activity patterns to different samples of stimulation. Even in the absence of initial learning and with continuously varying weights, the activity patterns become stable enough for discrimination.
Proceedings of 14 European Symposium on Artificial Neural Networks (ESANN 2006)

hal-00115420
https://hal.archives-ouvertes.fr/hal-00115420
https://hal.archives-ouvertes.fr/hal-00115420/document
https://hal.archives-ouvertes.fr/hal-00115420/file/esann06_HAL.pdf
ARXIV : cs.NE/0611104

Éditeur(s) : Université de Bretagne Occidentale
Résumé : The negative impact of the man on the environment unquestionably increases. The coastal environment as a whole is the maritime environment which is the most exposed to man-made eutrophication. For instance, nitrate loads to coastal waters off Brittany (France) have increased 10 times (from 3 to s 30mg L-1NO3) during the four last decades. Eutrophication of this coastal zone is now a recurrent problem, more and more worrying. This eutrophication exhibits two main forms : " green tides ", which are caused by local proliferations and stranding of green macro-algae (particularly the Ulva species) in nitrogen-enriched areas ; phytoplanktonic blooms, which are responsible for coloured water events, toxic species can be present (Pseudo-Nitzschia, Alexandrium, Dinophysis), and induce banning of shellfish consumption. The objectives of this study are to assess the respective role of various rivers (especially the Loire and the Vilaine) in the eutrophication of the Brittany shelf ecosystem and test the impact of nitrogen enrichment in the triggering of Pseudo-Nitzchia toxicity. For these purposes, a coupled hydrodynamical/ biogeochemical 3D model has been developed and validated against past measured time-series and satellite images. After a brief analysis of primary production over the Brittany shelf under different conditions, we show a description of the real time adaptation of this model. Daily results are currently presented in real time on www.previmer.org web site. The inability of the model to correctly simulate near shore phytoplankton is worsened in this model by the fact that the turbidity field used is a climatological one, made by satellite images averaged on a decadal basis. First, near shore pixels of satellite images are scarcely reliable, secondly a climatological mean cannot represent the sudden bursts or drops of the real turbidity, highly dependent on the actual sea-state : this can explain also why the model at this moment fails to reproduce a sudden bloom occurring in a short period of sunny and calm weather. The simulated Pseudo-Nitzschia biomass and induced risk of toxicity in the water column cannot really be validated offshore, because monitoring measurements are available only near the coast, and deal only with toxicity in benthic filter feeders. To get temporarily rid of that problem, an interesting improvement would be to add to the operational model the bio-accumulation of toxin in the shellfishes : simulated concentrations in shellfish fresh would become directly comparable with usual measurements of the monitoring networks. Our model points out the important impact of Loire river loads on the primary production on the western and southern Brittany. This result is crucial for administrations in charge of reducing the terrestrial loadings responsible for eutrophication, because it can delay reduction programs on small tributaries until the main input from the Loire has been significantly reduced. A question arises, about the reliability of the haline stratification in the model, because the horizontal extent of the Loire plume will be enhanced by a stronger stratification.
L'eutrophisation des milieux marins côtiers, de plus en plus importante, représente un des impacts majeurs des activités humaines sur l'environnement. Les phénomènes d'eutrophisation sont en constante augmentation ; ces dernières décennies ont vu le nombre de sites touchés augmenter de par le monde. La bande côtière bretonne est particulièrement concernée par ce phénomène. L'eutrophisation s'y manifeste de deux façons : "Des phénomènes de marée vertes, très localisées, qui sont provoqués par la croissance excessive et l'échouage de macro-algues du genre Ulva dans ces zones riches en azote ; Des blooms de phytoplancton à l'origine des phénomènes d'eaux colorées, qui peuvent aussi provoquer des interdictions de consommation de coquillages lorsque les espèces mises en jeu sont toxiques (Pseudo-Nitzschia, Alexandrium, Dinophysis). L'objectif de ce travail est multiple : il vise à mettre en évidence et à comprendre l'impact et le rôle des apports en nutriments sur la production primaire et l'eutrophisation des milieux côtiers. Ce travail a aussi pour ambition l'identification et la compréhension des causes des phénomènes d'eutrophisation et permettre ainsi d'apporter des solutions ou des pistes d'amélioration. En n, il a aussi un objectif de prévision à court terme de l'état biologique sur la zone. Pour atteindre ces objectifs, un modèle en temps réel a été mis en oeuvre. Les résultats de simulations numériques et de mesures satellitaires sont présentés sur internet : www.previmer.org. L'outil principal de ce travail est un modèle couplé physique/biogéochimie. La partie hydrodynamique est fournie par le code Mars3D (3D hydrodynamical Model for Application at Regional Scale) développé à IFREMER. Au code hydrodynamique Mars3D est couplé le modèle des cycles de l'azote, du phosphore et du silicium d'IFREMER. Le modèle couplé permet de simuler en 3 dimensions et de manière dynamique les courants, le brassage horizontal et vertical, les champs de température et de salinité, mais aussi les principaux cycles de nutriments, reproduisant ainsi les conditions déterminantes de la production primaire. La croissance des algues est modélisée, et nous permet de voir l'influence des panaches de dilution des principales rivières bretonnes sur leur croissance. Les diffcultés du modèle à correctement simuler les concentrations en phytoplancton près des zones côtières, sont probablement dues à l'utilisation d'une climatologie de concentration en matière en suspension fondée sur des données satellitaires. Tout d'abord, les pixels côtiers des images satellitaires sont entachés d'erreurs, ensuite une climatologie n'est pas capable de représenter les apports soudains des fleuves lors des crues. Cela peut expliquer l'incapacité du modèle a représenter certains blooms liés à des périodes ensoleilées et calmes. A ce modèle de base nous avons ajouté un genre spécifique de phytoplancton : le genre Pseudo-Nitzschia. Certaines espèces de Pseudo-Nitzschia sont réputées toxiques. En effet, ce phytoplancton a la capacité de synthétiser une toxine : l'acide domoïque. Cette toxine est responsable du syndrome ASP (Amnesic Shellfish Poisoning). Le modèle reproduit globalement les mêmes zones de toxicité que les mesures du REPHY, et donne des résultats encourageants. L'étude montre que la Loire influence une large partie de la bande côtière bretonne ; son panache remonte jusqu'au nord de la mer d'Iroise, et contribue pour une grande part à l'enrichissement du sud et de l'ouest de la Bretagne. Le traçage de l'azote en provenance de la Loire au sein des cycles biogéochimiques nous a permis de quantifier cet enrichissement.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/00015/12603/9481.pdf
http://archimer.ifremer.fr/doc/00015/12603/

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The analysis of three cataclastic band sets from Provence (France) reveals that the band density, their conjugate angles, their ratio of shear displacement to compaction, and the amount of cataclasis within the bands differ and can be expressed as functions of tectonic setting and petrophysical properties. We identify (1) a dense and closely spaced network of shear-enhanced (reverse) compaction bands; (2) a regularly spaced less dense network of reverse compactional shear bands; and (3) a localized network of normal shear bands. The field data show that strain localization is favored in an extensional regime and is characterized by shear bands with a large shear to compaction ratio and a small conjugate band angle. In contrast, distributed strain is favored in a contractional regime and is characterized by compactional bands with a low ratio of shear to compaction and a large conjugate band angle. To explain the mechanical origin of this strain localization, we quantify the yield strength and the stress evolution in extensional and contractional regimes in a frictional porous granular material. We propose a model of strain localization in porous sands as a function of tectonic stresses, burial depth, material properties, strain hardening and fluid pressure. Our model suggests that stress reduction, inherent to extensional regime, favors strain localization as shear bands, whereas stress increase during contraction favors development of compactional bands.
ISSN: 0191-8141

hal-00856921
https://hal.archives-ouvertes.fr/hal-00856921
DOI : 10.1016/j.jsg.2012.11.011