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 Cold Spring Harbor Laboratory Press
Résumé : International audience
Meiotic recombination is required for the segregation of homologous chromosomes and is essential for fertility. In most mammals, the DNA double-strand breaks (DSBs) that initiate meiotic recombination are directed to a subset of genomic loci (hot spots) by sequence-specific binding of the PRDM9 protein. Rapid evolution of the DNA-binding specificity of PRDM9 and gradual erosion of PRDM9-binding sites by gene conversion will alter the recombination landscape over time. To better understand the evolutionary turnover of recombination hot spots and its consequences, we mapped DSB hot spots in four major subspecies of Mus musculus with different Prdm9 alleles and in their F1 hybrids. We found that hot spot erosion governs the preferential usage of some Prdm9 alleles over others in hybrid mice and increases sequence diversity specifically at hot spots that become active in the hybrids. As crossovers are disfavored at such hot spots, we propose that sequence divergence generated by hot spot turnover may create an impediment for recombination in hybrids, potentially leading to reduced fertility and, eventually, speciation
ISSN: 0890-9369

hal-01281480
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01281480
DOI : 10.1101/gad.270009.115
PUBMED : 26833728

Éditeur(s) : U. S. Government
Résumé : This report presents the preliminary results of the study of rocks and sediments obtained by dredging during four cruises of the R/V Jean Charcot and R/V Le Suroît during a cooperative program between CNEXO and CEPM (CH 58 : April 1975 ; SU 01 : December 1975 ; CH 66 : February 1976 ; and CH 67 : March 1976). A bathymetric map of the margins under study, as well as the location of the 27 dredges considered in this report, are presented in Figures 1 and 2, respectively. [NOT CONTROLLED OCR]
Initial Reports of the Deep Sea Drilling Project (U. S. Government), 1979 , Vol. 68 , P. 473-491

Droits : U. S. Government
http://archimer.ifremer.fr/doc/1979/publication-5255.pdf
http://archimer.ifremer.fr/doc/00000/5255/

Éditeur(s) : HAL CCSD
Résumé : CIRAD, Montpellier, Perspective
In the Brazilian Amazon, degraded forests dominate the landscapes on the agricultural frontiers. This region is now facing a major challenge: halting degradation and sustainably managing these forests. Today, degraded forests represent a class of forest in their own right. They can nevertheless play a key role in combating climate change, and can also help to improve the ecological functioning of the different territories. Implementing public policies with the twin objectives of reducing degradation and promoting these forests implies strong support from research. In this Perspective, we focus on four research priorities: developing methods to characterise and monitor degraded forests; drafting specific forest management plans; understanding the role played by all social actors; and supporting policies at the territorial level.
En Amazonie brésilienne, les forêts dégradées dominent les paysages des fronts pionniers. Un grand défi attend désormais cette région : stopper la dégradation et gérer durablement ces forêts. Les forêts dégradées représentent aujourd’hui une catégorie de forêt à part entière. Elles peuvent néanmoins jouer un rôle majeur pour lutter contre le changement climatique. Elles peuvent aussi contribuer à un meilleur fonctionnement écologique des territoires. Développer des politiques publiques visant le double objectif de réduire la dégradation et de valoriser ces forêts implique un appui fort de la recherche. Dans ce Perspective, nous mettons l’accent sur quatre priorités de recherche : développer des méthodes de caractérisation et de suivi des forêts dégradées, élaborer des plans d’aménagement spécifiques, comprendre le rôle joué par tous les acteurs sociaux et accompagner les politiques à l’échelle territoriale.
Na Amazônia brasileira, as florestas degradadas dominam as paisagens das frentes pioneiras. Atualmente, esta região enfrenta um grande desafio: parar a degradação e fazer a gestão sustentável dessas florestas. As florestas degradadas são atualmente parte integrante de uma categoria de florestas. No entanto, elas podem desempenhar um papel importante na luta contra as mudanças climáticas e podem contribuir para um melhor funcionamento ecológico dos territórios. Desenvolver políticas públicas com o duplo objetivo de reduzir a degradação e melhorar a condição dessas florestas implica um forte apoio da pesquisa. Neste Perspective, nós focalizamos em quatro prioridades de pesquisa: desenvolver os métodos de caracterização e monitoramento das florestas degradadas, elaborar planos específicos de ordenamento do território, compreender o papel desempenhado por todos os atores sociais e acompanhar as politicas em escala territorial.
https://hal.archives-ouvertes.fr/hal-01537653

Droits : http://creativecommons.org/licenses/by-nc-sa/
hal-01537653
https://hal.archives-ouvertes.fr/hal-01537653
https://hal.archives-ouvertes.fr/hal-01537653/document
https://hal.archives-ouvertes.fr/hal-01537653/file/Persp40_LBLanc%20FR.pdf
https://hal.archives-ouvertes.fr/hal-01537653/file/Persp40_LBLanc%20PORT.pdf

Éditeur(s) : HAL CCSD Ecological Society of America
Résumé : Reliable assessment of fish origin is of critical importance for exploited species, since nursery areas must be identified and protected to maintain recruitment to the adult stock. During the last two decades, otolith chemical signatures (or "fingerprints") have been increasingly used as tools to discriminate between coastal habitats. However, correct assessment of fish origin from otolith fingerprints depends on various environmental and methodological parameters, including the choice of the statistical method used to assign fish to unknown origin. Among the available methods of classification, Linear Discriminant Analysis (LDA) is the most frequently used, although it assumes data are multivariate normal with homogeneous within-group dispersions, conditions that are not always met by otolith chemical data, even after transformation. Other less constrained classification methods are available, but there is a current lack of comparative analysis in applications to otolith microchemistry. Here, we assessed stock identification accuracy for four classification methods (LDA, Quadratic Discriminant Analysis [QDA], Random Forests [RF], and Artificial Neural Networks [ANN]), through the use of three distinct data sets. In each case, all possible combinations of chemical elements were examined to identify the elements to be used for optimal accuracy in fish assignment to their actual origin. Our study shows that accuracy differs according to the model and the number of elements considered. Best combinations did not include all the elements measured, and it was not possible to define an ad hoc multielement combination for accurate site discrimination. Among all the models tested, RF and ANN performed best, especially for complex data sets (e. g., with numerous fish species and/or chemical elements involved). However, for these data, RF was less time-consuming and more interpretable than ANN, and far more efficient and less demanding in terms of assumptions than LDA or QDA. Therefore, when LDA and QDA assumptions cannot be reached, the use of machine learning methods, such as RF, should be preferred for stock assessment and nursery identification based on otolith microchemistry, especially when data set include multispecific otolith signatures and/or many chemical elements.
ISSN: 1051-0761

hal-00644549
https://hal.archives-ouvertes.fr/hal-00644549
DOI : 10.1890/09-1887.1

Éditeur(s) : HAL CCSD Elsevier Masson
Résumé : In French Guiana, the population growth will result in an increase in demand for agricultural products and thus, will lead to an increase in the amount of tropical forests converted into cropland or pasture. Impacts of different agricultural systems on greenhouse gas (GHG) fluxes have not been studied in French Guiana. In this context, the fire-free chop-and-mulch method was used to convert a tropical forest site to agriculture. This study focused on soil nitrous oxide (N2O) emissions and we compared four land uses: (1) the undisturbed tropical forest, (2) recently converted grassland and recently converted croplands (fertilized soybean/maize rotation) with either (3) disk tillage or (4) no tillage.N2O measurements were obtained through the chamber technique and conducted over a 1-year period (measurements began 19 months after the forest was cleared). N2O fluxes were related to soil parameters measured at each sampling date: nitrate and ammonium contents, gravimetric water content (GWC) and temperature.Through the entire period, the mean (±standard error) and median N2O fluxes were 3.8 ± 0.5 and 2.7 g N ha−1 day−1, respectively for undisturbed tropical forest and 2.4 ± 0.9 and 0.8 g N ha−1 day−1, respectively for grassland (mowed Brachiaria ruziziensis). For croplands, no significant difference was found for N2O emissions between both agricultural practices. The mean (±standard error) and median N2O fluxes were 8.5 ± 1.2 and 4.0 g N ha−1 day−1, respectively for disk tillage plots and 8.5 ± 1.3 and 3.6 g N ha−1 day−1, respectively for no tillage plots. Nitrogen inputs (due to the application of fertilizer or due to the mineralization of crop residues) led to higher N2O fluxes, resulting in significantly higher mean N2O emissions from croplands compared to the forest, when only considering land use effect on N2O fluxes in a statistical model. The soil nitrate content, GWC and temperature had a significant positive effect on N2O fluxes. Taking into account these soil parameters in another statistical model, N2O emissions from croplands were not higher than the natural N2O emissions from tropical forest soils. Our results suggest that, if more forest will have to be converted in the course of the expected population growth in French Guiana, it could have low impact on the soil N2O fluxes (similar to natural fluxes from forest) with the improving of farming techniques (for example modification of the splitting of N-fertilizer) in the cropping plots.
ISSN: 0167-8809

hal-01204228
https://hal.archives-ouvertes.fr/hal-01204228
DOI : 10.1016/j.agee.2015.04.004
PRODINRA : 307607

Éditeur(s) : HAL CCSD Frontiers Media
Résumé : "Candidatus Liberibacter solanacearum" (Lso) has emerged as a serious threat world-wide. Five Lso haplotypes have been identified so far. Haplotypes A and B are present in the Americas and/or New Zealand, where they are vectored to solanaceous plants by the potato psyllid, Bactericera cockerelli (Sulc) (Hemiptera: Triozidae). The fastidious nature of these pathogens has hindered the study of the interactions with their eukaryotic hosts (vector and plant). To understand the strategies used by these pathogens to infect their vector, the effects of each Lso haplotype (A or B) on psyllid fitness was investigated, and genome-wide transcriptomic and RT-qPCR analyses were performed to evaluate Lso gene expression in association with its vector. Results showed that psyllids infected with haplotype B had significantly lower percentage of nymphal survival compared to psyllids infected with haplotype A. Although overall gene expression across Lso genome was similar between the two Lso haplotypes, differences in the expression of key candidate genes were found. Among the 16 putative type IV effector genes tested, four of them were differentially expressed between Lso haplotypes, while no differences in gene expression were measured by qPCR or transcriptomic analysis for the rest of the genes. This study provides new information regarding the pathogenesis of Lso haplotypes in their insect vector.
ISSN: 2235-2988

hal-01512244
https://hal.archives-ouvertes.fr/hal-01512244
https://hal.archives-ouvertes.fr/hal-01512244/document
https://hal.archives-ouvertes.fr/hal-01512244/file/Yao%202016%20Frontiers%20in%20Cellular%20and%20Infection%20Microbiology_%7BD6ACF6EB-9794-4F27-AB84-9EF4099B6D78%7D.pdf
DOI : 10.3389/fcimb.2016.00062

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
An active seismic experiment has been conducted across the southern Ryukyu margin east of Taiwan over the whole trench-arc-backarc system in May 2009. Twenty-four ocean bottom seismometers (OBS) were deployed from the Ryukyu trench to the southern Okinawa trough over the Ryukyu arc and forearc. Wide angle seismic data were recorded by the OBS array while coincident reflection seismic data were acquired using a 6 km long streamer and a 6600 cubic inch seismic airgun array. Results from tomographic inversion of 21091 travel time picks along this line allowed us to image crustal structures of the Ryukyu margin down to a depth of 25 km. The transect has been designed to provide a better seismic velocity structure of the subduction zone in a highly deformed area that has produced an M8 earthquake in 1920. The line crosses a seismic cluster of earthquakes which source mechanisms are still poorly understood. The subducting oceanic crust of the Huatung Basin is about 5-6 km thick. The underlying mantle exhibits low seismic velocities around 7.8 km/s suggesting some hydrothermal alterations or alteration of the upper mantle through faults generated by the flexure of the subducting plate as it enters the subduction. Low velocities, up to 4.5 km/s, associated with the accretionary wedge are well imaged from the trench back to the Nanao forearc. A major result concerns the abrupt termination of the buttress at the rear of the accretionary wedge. Despite the low resolution of the tomographic inversion near the subduction interface, several lines of evidence supporting the presence of a low velocity zone beneath the toe of the forearc buttress could be established. The Moho beneath the Ryukyu non-volcanic arc is located at a depth around 25 km depth.
ISSN: 0040-1951

hal-00795573
https://hal.archives-ouvertes.fr/hal-00795573
DOI : 10.1016/j.tecto.2011.10.010

Éditeur(s) : HAL CCSD John Libbey Eurotext
Résumé : International audience
Environmental health risk assessment is commonly used in France for risk management purposes. The Methodology section of the "Société française de santé environnement" (French Society for Environmental Health) seeks to improve the utility and implementation of risk assessment in France. An initial operational objective is to make a list of short-, intermediate- and long-term improvements. This inventory is based in part on the experience and expertise of society members in this area and in part on their analysis of "Science and Decisions: Advancing Risk Assessment" (National Research Council 2009). In this paper, the Society recommends modifications in the indications for and use of risk assessments, during each of the four stages of the process: hazard identification and dose-response assessment, exposure assessment, risk characterization, and results interpretation. Some may be implemented now, while others need consensus building or research because of gaps in knowledge. Environmental health risk assessment must be understood as a decision tool for risk management in situations of uncertainly. Thus, appropriate linkage is required between decision making and assessment, and between the methods and the expected results.
L'évaluation des risques sanitaires est fréquemment utilisée en France dans les processus de décision en santé environnementale. La section " Méthodologie d'évaluation des risques sanitaires " de la Société française de santé environnement (SFSE) s'est donnée pour objectif de proposer des éléments de réflexion et des outils méthodologiques en vue d'améliorer l'utilité et les pratiques de l'évaluation des risques sanitaires. Un premier objectif opérationnel est l'inventaire des améliorations possibles à court, moyen et long termes à apporter à la démarche et à son utilisation. Ce travail s'est fondé, d'une part, sur la pratique et l'expertise des membres de la section, et, d'autre part, sur une lecture critique du rapport " Science and Decisions : Advancing Risk Assessment " publié en 2009 par le National Research Council et portant également sur les évolutions de la démarche. Dans cet article, la section restitue les conclusions de cet inventaire critique et propose un certain nombre d'améliorations en termes d'indications et d'utilisations de l'évaluation des risques sanitaires pour chacune des quatre étapes : identification des dangers et relation dose-réponse ; évaluation de l'exposition ; caractérisation des risques ; et interprétation des résultats. Certaines recommandations peuvent être mises en oeuvre immédiatement ; d'autres, en préalable à leur mise en oeuvre, nécessitent un consensus ou encore de la recherche car les connaissances manquent. En conclusion, la section insiste sur le fait que l'évaluation des risques sanitaires doit être comprise comme une aide à la décision en situation d'incertitude ; l'articulation entre le contexte décisionnel et l'évaluation, sa méthodologie et les résultats attendus est donc primordiale.
ISSN: 1635-0421

ineris-00963325
https://hal-ineris.archives-ouvertes.fr/ineris-00963325
DOI : 10.1684/ers.2011.0435
INERIS : EN-2012-016

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Recent sedimentary facies and processes along the offshore slope of east Taiwan are investigated using a large set of geophysical and sedimentological data. The Taiwan orogen is often considered as one of the most tectonically active regions in the world and also suffers important climatic activity with an average of four typhoons per year. We have mapped in details the morphosedimentary features and characterized the sedimentary facies along offshore eastern Taiwan. There, we show that the slope is driven by a variety of erosional processes from mass wasting to turbidity current. Mass movements such as slides or mass transport deposits (MTDs) are ubiquitous and affect the whole east coast off Taiwan. Detailed core investigations, such as grain size analysis, chemical and mineralogical composition, revealed that turbidite facies range from thin fine-grained turbidites to thick massive turbidite facies. The detailed analysis of turbidite beds allow us to discuss the controlling factors of turbidity current generation. Turbidity currents represent an important sedimentary process that governs the slope morphology off east Taiwan. Triggering mechanisms likely range from slope instabilities related to earthquakes shaking to failure relative to climatic-controlled pulses of sediment supply. We propose that at least two end-members are characteristics in our turbidite records in term of controlling factor:1) Turbidity currents likely generated by tectonic activity and earthquakes shaking in particular; and2) Turbidity currents likely generated by climatic activity such as typhoon-induced floods.
ISSN: 0025-3227

hal-01277768
https://hal.archives-ouvertes.fr/hal-01277768
DOI : 10.1016/j.margeo.2015.05.013

Résumé : The "ORAMA NUI" programme has been developed by the Territory of French Polynesia and IFREMER, both partners in SPT since 1988. It first aims at alleviating some bottlenecks, mainly in the coastal and lagoon economic development process, by use of satellite and computer technologies; then after four years of activities, it seeks to create opportunities for cooperative development projects involving one or several French territory and/or one or several island country in the Pacific region. After presenting the background, objectives, and bases of the programme, the paper comments on the rules set by EC for co-financing cooperative development projects involving at least one French overseas territory.
Le programme "ORAMA NUI" a été développé par le Territoire de Polynésie Française et l'IFREMER, tous deux partenaires dans la SPT depuis 1988. Son but premier est de desserrer quelques goulots d'étranglement fréquents dans le processus de développement économique des lagons et des zones côtières; puis, après quatre années d'activité, il cherche à créer des opportunités de projets de développement en coopération mettant en jeu un ou plusieurs autre territoire français d'outremer et/ou un ou plusieurs pays insulaire de la région Pacifique. Après la présentation du contexte, des objectifs, et des bases du programme, l'auteur commente les règles établies par la CEE pour le cofinancement de projets de développement en coopération mettant en jeu au moins un territoire français d'outremer.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/00191/30212/28610.pdf
http://archimer.ifremer.fr/doc/00191/30212/

Éditeur(s) : Academic Press Ltd- Elsevier Science Ltd
Résumé : The understanding of reciprocal interactions between Crassostrea gigas and Vibrio sp., whether these be virulent or avirulent, is vital for the development of methods to improve the health status of cultured oysters. We describe an original non-invasive experimental infection technique using cohabitation, designed to explore these interactions. Using real-time PCR techniques we examined the dynamics of virulent and avirulent Vibrio sp. in oyster hemolymph and tank seawater, and made a parallel study of the expression of four genes involved in oyster immune defense: Cg-BPI, Cg-EcSOD, Cg-IκB, Cg-TIMP. No mortality occurred in control animals, but oysters put in cohabitation for 2–48 h with animals previously infected by two Vibrio pathogens suffered mortalities from 2 to 16 days post-cohabitation. Our results show that virulent Vibrio infect healthy individuals after only 2 h of cohabitation, with values ranging from 4.5×102 to 2×104 cells ml−1 hemolymph. Simultaneously, an approximate ten-fold increase of the total Vibrio population was observed in control animals, with a 6.6–78.5-fold up-expression of targeted genes. In contrast, oysters exposed to harmful bacteria had mean expression levels strongly down-regulated by a factor of 9.2–29 (depending on the gene) compared with control animals. Although oysters were still found to be infected by virulent Vibrio after 6–48 h of cohabitation, no significant differences were noted when comparing levels of each transcript in control and infected oysters at the same sampling times during this period: the important differences were noted before 6 h cohabitation. Taken together, our data support (1) the hypothesis that virulent Vibrio disturbs the immune response of this invertebrate host both rapidly and significantly, although this occurs specifically during an early and transient period during the first 6 h of cohabitation challenge, and that (2) expression of targeted genes is not correlated with vibriosis resistance.
Fish & Shellfish Immunology (1050-4648) (Academic Press Ltd- Elsevier Science Ltd), 2011-02 , Vol. 30 , N. 2 , P. 691-699

Droits : 2011 Elsevier Ltd All rights reserved.
http://archimer.ifremer.fr/doc/00025/13604/10681.pdf
DOI:10.1016/j.fsi.2010.12.017
http://archimer.ifremer.fr/doc/00025/13604/

Éditeur(s) : HAL CCSD BioMed Central
Résumé : International audience
Background : In a recent study, we have demonstrated that amelotin (AMTN) gene structure and its expression during amelogenesis have changed during tetrapod evolution. Indeed, this gene is expressed throughout enamel matrix deposition and maturation in non-mammalian tetrapods, while in mammals its expression is restricted to the transition and maturation stages of amelogenesis. Previous studies of amelogenin (AMEL) gene expression in a lizard and a salamander have shown similar expression pattern to that in mammals, but to our knowledge there are no data regarding ameloblastin (AMBN) and enamelin (ENAM) expression in non-mammalian tetrapods. The present study aims to look at, and compare, the structure and expression of four enamel matrix protein genes, AMEL, AMBN, ENAM and AMTN during amelogenesis in the lizard Anolis carolinensis.Results : We provide the full-length cDNA sequence of A. carolinensis AMEL and AMBN, and show for the first time the expression of ENAM and AMBN in a non-mammalian species. During amelogenesis in A. carolinensis, AMEL, AMBN and ENAM expression in ameloblasts is similar to that described in mammals. It is noteworthy that AMEL and AMBN expression is also found in odontoblasts. Conclusions : Our findings indicate that AMTN is the only enamel matrix protein gene that is differentially expressed in ameloblasts between mammals and sauropsids. Changes in AMTN structure and expression could be the key to explain the structural differences between mammalian and reptilian enamel, i.e. prismatic versus non-prismatic.
ISSN: 2041-9139

Droits : http://creativecommons.org/licenses/by/
hal-01206550
http://hal.upmc.fr/hal-01206550
http://hal.upmc.fr/hal-01206550/document
http://hal.upmc.fr/hal-01206550/file/Gasse_2015_Comparative.pdf
DOI : 10.1186/s13227-015-0024-4

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
The diffusion of titanium along with Ni, Co and Mn in pure synthetic forsterite has been studied as a function of temperature, oxygen fugacity, crystallographic orientation and chemical potentials in the four-component system MgO–SiO2–TiO2–TiO1·5. In over 100 different experimental conditions, no Ti diffusion profiles with the classical shape of the error function were observed. Instead, the profiles vary between ‘stepped’ at high fO2 (probably owing to diffusion on octahedral sites and trapping in tetrahedral sites), to hockey-stick shapes at low fO2 owing to concentration-dependent diffusion. The profile shapes vary systematically between these end-members according to oxygen fugacity. These profile shapes are also reproduced in experiments using natural San Carlos olivine. The change in profile shape is interpreted to be a function of valence-state change from Ti4+ to Ti3+, shown by a sigmoidal log fO2–diffusivity relationship. To distinguish between Ti4+ and Ti3+ in forsterite, a diffusion profile was also investigated using ‘hydroxylation spectroscopy’ whereby a crystal from a diffusion experiment was hydroxylated by annealing in an H2O-rich fluid at moderate pressure and temperature. The point defects associated with the added structural OH were then determined by infrared spectroscopy, providing evidence for the presence of Ti4+ and Ti3+ at intermediate oxygen fugacity. The transition from Ti4+ to Ti3+ occurs at considerably higher fO2 in these diffusion experiments than in equilibrium experiments in similar systems. Titanium diffusion, qualified using a mobility parameter (M), is fastest along the c-axis, at high activity of silica, low oxygen fugacity and high temperature. The rate of Ti diffusion is broadly similar to those of Mn, Ni and Co, and closer to published rates of Mg self-diffusion in olivine than Si self-diffusion. The observed Ti3+ and Ti4+ diffusion occurs on the M-sites. From statistical examination of the large Mn, Ni and Co diffusivity dataset, we determine that there is a 102/3 dependence of diffusion on aSiO2; the cations diffuse more rapidly at high aSiO2. In addition, diffusivity has a 10–1/8 dependence on fO2, suggested to be the result of increased concentration of loosely bound Ti3+–vacancy pairs, which enhance the mobility of other cations. This behaviour is likely to be present in natural systems where trivalent (e.g. Fe3+, Al3+, Cr3+) and divalent cations diffuse together. Consideration should be given to diffusive interference by highly charged, fast-moving cations when extracting time scales from frozen diffusion profiles.
ISSN: 0022-3530

hal-01531344
https://hal.archives-ouvertes.fr/hal-01531344
DOI : 10.1093/petrology/egw067

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We present new shear-wave splitting measurements performed at 16 stations on the East European Craton, and discuss their implications in terms of upper-mantle anisotropy for this geophysically poorly-known region. Previous investigations of mantle anisotropy in Central Europe have shown fast directions aligning smoothly with the craton's margin and various suggestions have been proposed to explain their origin such as asthenospheric flow or lithospheric frozen-in deformation.;Here, we aim at investigating the continuation of this shear-wave splitting pattern further to the East, into the East European Craton For the craton, the interpretation appears to be less ambiguous than for central Europe since several arguments support lithospheric anisotropy in this region 1) The large-scale coherence within either of the four constituting blocks and the significant variations between the blocks on a small-scale, 2) the weak correlation with absolute plate motion vectors, and 3) the good correlation between anisotropy and crustal features, for which we use magnetic field alignments as a proxy. Rattler good correlation of these magnetic features with seismic fast orientations strongly supports the idea of vertically coherent deformation throughout upper mantle and crust. The observed splitting orientations thus reflect the last tectonic events of each block. frozen-in into the lithosphere for hundreds of millions of years
ISSN: 0040-1951

hal-00475647
https://hal.archives-ouvertes.fr/hal-00475647
https://hal.archives-ouvertes.fr/hal-00475647/document
https://hal.archives-ouvertes.fr/hal-00475647/file/Wuestefeld_EEC_craton_SKS_Tphy2010_hal.pdf
DOI : 10.1016/j.tecto.2009.01.010

Éditeur(s) : HAL CCSD American Geophysical Union (AGU)
Résumé : International audience
Microstructures and crystallographic preferred orientation (CPO) of anorthosite samples interlayered in the upper and lower gabbro sections in the Oman ophiolite were analyzed in this paper. In the anorthosites registering the dynamics of the melt lenses, foliation is flat lying and starts to develop a few meters below the root zone of the sheeted dike complex (RZSDC). Microstructures and CPO of these rocks were developed in response to four different mechanisms: (1) density-controlled settling of plagioclase on the lens floor, (2) deposition of anorthosites related to convection currents, (3) melt compaction, and (4) uncompacted melt accumulation. In these anorthosites, the poles to (010) of plagioclase are parallel to the flow plane of convection, whereas the [100] axes and poles to (001) express the convection flow direction and the axis of convection rolls, respectively. The effect of subsidence of melt lens floor is recorded immediately below the RZSDC and is characterized by the rapid (but progressive) development of dipping foliation and lineation, reflecting the increase of deformation downsection. The degree of foliation and CPO development in the anorthosites is directly related to the distance of the center of the melt lenses before the subsidence starts. Despite the uncertain origin of the anorthosites from the lower gabbro section, all the samples lost the magmatic microstructural characteristics and presently are reequilibrated aggregates. However, they still preserve plagioclase CPO, where some of these patterns present similarities with the anorthosites from the upper gabbro section, but no evidence of intracrystalline deformation under high temperatures.
ISSN: 0278-7407

hal-00617446
https://hal.archives-ouvertes.fr/hal-00617446
DOI : 10.1029/2010TC002697

Éditeur(s) : Cambridge Univ Press
Résumé : This paper offers a theoritical and empirical model of ecosystem-based fishery management. A multi-species and multi-fleet integrating Lotka-Volterra trophic dynamics as well as production and profit assessments is developed and applied to the coastal fishery of French Guiana. This small-scale fishery constitutes a challenging example with high fish biodiversity, several non-selective fleets and a potentially increasing local food demand due to demographic growth. The dynamic model is calibrated with 13 species and four fleets using monthly catch and effort data from 2006 to 2009. Several contrasted fishing scenarios including status quo, total closure, economic and viable strategies are then simulated. They are compared from the viewpoints of both biodiversity preservation and socioeconomic performance, assuming fixed landing prices and fixed costs. We show that fishing outputs, including food supply and fleet profitability, can be sustained on average but a loss of species cannot be avoided.
Environment And Development Economics (1355-770X) (Cambridge Univ Press), 2013-06 , Vol. 18 , P. 245-269

Droits : Cambridge University Press 2013
http://archimer.ifremer.fr/doc/00124/23483/21311.pdf
http://archimer.ifremer.fr/doc/00124/23483/21375.pdf
DOI:10.1017/S1355770X13000065
http://archimer.ifremer.fr/doc/00124/23483/

Éditeur(s) : Institut national agronomique Paris Grignon
Résumé : The flat oyster Ostrea edulis L. is the indigenous oyster of the Atlantic as well as the Mediterranean coasts of Europe. Its commercial exploitation dates back to Antiquity but its breeding is now threatened by two parasitic protozoa, among which Bonamia ostreae. Various aspects of the genetics of this species' natural and farmed populations have been studied with the aid of microsatellite markers. At first, the implementation and the screening of two partial genomic libraries made it possible to identify 28 new microsatellite loci. Analysis of the segregation of 12 of these loci and of two enzymatic loci shows that most microsatellite loci are transmitted in a Mendelian way, but some loci have significant segregation distortions. Moreover, seven linkage groups, of which four contain at least two markers, were identified in Ostrea edulis. The genetic variability of three populations selected for one or two generations for resistance to Bonamia ostreae was analysed with the aid of 5 microsatellite loci. In spite of the absence of genealogical data, we have shown that these selected populations were descended from a very low number of founding genitors (from 3 to 15 depending on the population) and for two populations, we were able to reconstruct the genealogy and the relationships between the individuals were identified. These selected populations have, in addition to a very low genetic variability, real and at times high levels of consanguinity. These results have a significant implication for the continuation of the selection programme (consanguinity management, augmentation of genetic variability by introducing wild genitors). The geographical structuring of the genetic variability of natural populations of Ostrea edulis has been analysed with the aid of 5 microsatellite loci on a sampling covering almost the entire distribution area of the species (from Norway to the Adriatic Sea). The results are consistent with those published in the literature and using enzymatic markers. The populations show a low level of differentiation that could correspond to a model of isolation by distance. The Atlantic populations, which have a reduced polymorphism, could be descended from post-glacial recolonisation from Mediterranean populations that had survived the glaciations of the Quaternary Period. The current distribution of flat oyster populations is surely also subject to anthropogenic activities. Finally, the genetic bases of the heterozygosis-growth correlation were studied in a natural population with the aid of enzymatic and microsatellite markers. Although leads favouring the direct contribution of enzymatic loci have been found, biases in the sampling design make it impossible to come to a formal conclusion. However, this study has made it possible to show that the capture of individuals over a short period (around ten days) leads to a sampling of a population descended from a very low number of founding genitors, in contradiction with the generally accepted idea that marine bivalve populations are large panmictic populations with significant, efficient numbers. These results confirm in a natural population the observations of a significant reduction of efficient sizes in hatchery populations.
L'huître plate Ostrea edulis L. est l'huître indigène des côtes européennes aussi bien atlantiques que méditerranéennes. Son exploitation commerciale remonte à l'Antiquité mais son élevage est aujourd'hui menacé par deux protozoaires parasites dont Bonamia ostreae. Différents aspects de la génétique des populations naturelles et cultivées de cette espèce ont été étudiés à l'aide de marqueurs microsatellites. Dans un premier temps, la réalisation et le criblage de deux banques génomiques partielles ont permis l'identification de 28 nouveaux locus microsatellites. L'analyse de la ségrégation de 12 de ces locus et de deux locus enzymatiques montre que la plupart des locus microsatellites sont transmis de façon mendélienne, mais certains locus présentent des distorsions de ségrégation importantes. Par ailleurs, sept groupes de liaison dont quatre contiennent au moins deux marqueurs ont été identifiés chez Ostrea edulis. La variabilité génétique de trois populations sélectionnées depuis une ou deux générations pour une résistance à Bonamia ostreae a été analysée à l'aide de 5 locus microsatellites. Malgré l'absence de données généalogiques, nous avons montré que ces populations sélectionnées étaient issues d'un très faible nombre de géniteurs fondateurs (de 3 à 15 selon les populations) et pour deux populations, la généalogie a pu être reconstituée et les liens de parenté entre les individus ont été identifiés. Ces populations sélectionnées présentent, outre une très faible variabilité génétique, des niveaux de consanguinité réels et parfois élevés. Ces résultats ont une implication importante pour la continuation du programme de sélection (gestion de la consanguinité, augmentation de la variabilité génétique par introduction de géniteurs sauvages). La structuration géographique de la variabilité génétique des populations naturelles d'Ostrea edulis a été analysée à l'aide de 5 locus microsatellites sur un échantillonnage couvrant presque toute l'aire de répartition de l'espèce (de la Norvège à la Mer Adriatique). Les résultats sont cohérents avec ceux publiés dans la littérature et utilisant des marqueurs enzymatiques. Les populations montrent un niveau de différenciation faible qui pourrait correspondre à un modèle d'isolement par la distance. Les populations atlantiques, qui présentent un polymorphisme réduit, pourraient être issues de recolonisation post-glaciaire à partir de populations méditerranéennes ayant survécu aux glaciations du Quaternaire. La répartition actuelle des populations d'huître plate est certainement aussi soumise aux actions anthropiques. Enfin, les bases génétiques de la corrélation hétérozygotie-croissance ont été étudiées dans une population naturelle à l'aide de marqueurs enzymatiques et microsatellites. Bien que des pistes en faveur de la contribution directe des locus enzymatiques aient été trouvées, des biais dans le dispositif expérimental ne permettent pas de conclure de façon formelle. Cependant, cette étude a permis de montrer que le captage d'individus sur une faible période (une dizaine de jours) conduit à l'échantillonnage d'une population issue d'un nombre très réduit de géniteurs fondateurs, en contradiction avec l'idée reçue que les populations de bivalves marins sont de larges populations panmictiques à effectif efficace important. Ces résultats confirment dans une population naturelle les observations de réduction importante des tailles efficaces dans des populations d'écloserie.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/1998/these-1919.pdf
http://archimer.ifremer.fr/doc/00000/1919/

Éditeur(s) : HAL CCSD Botanical Society of America
Résumé :  
To investigate the existence of coordinated sets of seedling traits adapted to contrasting establishment conditions, we examined evolutionary convergence in seedling traits for 299 French Guianan woody plant species and the stress response in a shadehouse of species representing seed size gradients within five major cotyledon morphology types. The French Guianan woody plant community has larger seeds than other tropical forest communities and the largest proportion of hypogeal cotyledon type (59.2%) reported for tropical forests. Yet the community includes many species with intermediate size seeds that produce seedlings with different cotyledonal morphologies. A split-plot factorial design with two light levels (0.8% and 16.1% PAR) and four damage treatments (control, seed damage, leaf damage, stem damage) was used in the shadehouse experiment. Although larger-seeded species had higher survival and slower growth, these patterns were better explained by cotyledon type than by seed mass. Even larger-seeded species with foliar cotyledons grew faster than species with reserve-type cotyledons, and survival after stem grazing was five times higher in seedlings with hypogeal cotyledons than with epigeal cotyledons. Thus, to predict seedling performance using seed size, seedling morphology must also be considered.
ISSN: 0002-9122

hal-01032177
https://hal.archives-ouvertes.fr/hal-01032177
DOI : 10.3732/ajb.94.6.901

Éditeur(s) : HAL CCSD European Geosciences Union (EGU)
Résumé : International audience
We consider here wind speed time series and the aggregate output wind power from a wind farm. We study their scaling statistics in the framework of fully developed turbulence and Kolmogorov's theory. We estimate their Fourier power spectra and consider their scaling properties in the physical space. We show that the atmospheric wind speed and the aggregate power output from a wind farm are intermittent and multifractal over a wide range of scales. The coupling between simultaneous data of the wind speed and aggregate power output is investigated through a joint multifractal description using the generalized correlation functions (GCFs). This multiscaling test is compatible with a linear relation between the wind speed and the aggregate power output fluctuations for timescales T ⩾ 103 s ≃ 15 min
ISSN: 1023-5809

hal-01527893
https://hal.archives-ouvertes.fr/hal-01527893
DOI : 10.5194/npg-21-379-2014