Éditeur(s) : HAL CCSD
Résumé : The Deep Basin of the Gulf of Mexico (DBGM) extends over eastern Mexico, the southeastern part of the United States, west of the Atlantic Ocean. This study, based on the interpretation and integration of seismic profiles, exploration wells and outcrop studies, focus on the deep part of the Gulf of Mexico, where bathymetry varies from 200 to 3750 m, thus comprising both the continental slope and the abyssal plain. The first part of this thesis focus on the description of the sedimentary infill of the western part of the Gulf of Mexico, in the Veracruz State, and to its geodynamic controls. The geodynamic evolution of the Deep Basin of the Gulf of Mexico (DBGM) begins during the Triassic-Jurassic with the break-up and the opening of a continental rift, in the southern part of the North American lithospheric plate. This opening induced a relative movement of the Yucatan Block towards the southeast. This intra-continental rifting episode was followed by a stage of post-rift thermal subsidence in the basins of the continental margin in the west, coeval with oceanic accretion in the DBGM. The thermal subsidence of the margin was subsequently modified by the Laramian orogeny, which impacted strongly the overall architecture of the margin as well as its litho-stratigraphic evolution, inducing the deposition of siliciclastic deposits in various morphotectonic provinces: i.e., near the tectonic front of the Sierra Madre Oriental (SMO), within the adjacent Chicontepec foreland basin, over the Tuxpan Platform (Golden Lane), across the continental slope and up to the deep abyssal plain, these two last morphotectonic provinces belonging to the DBGM. During the Early Paleogene, the effects of the thermal subsidence of the passive margin were stressed by the tectonic load of the Laramian orogen (i.e., the Sierra Madre Oriental, SMO), thus allowing the development of a foreland basin flexural. In this geodynamic framework, the main sedimentary transfers developed from the tectonic front "SMO" in the west, towards the DBGM in the east, the main source for clastic sediments being linked to the erosion of the "SMO" mountains. During the Paleocene and the Early Eocene, the architecture of the silici-clastic syn-tectonic sediments deposited in submarine fans was characterized by sliding, turbidites with A and B Bouma facies, as well as levees and channels. After the stop of the flexural subsidence, the thermal subsidence of the passive margin resumed during the Late Eocene, the Oligocene and the Neogene, allowing the development of a new sedimentary prism, prograding eastwards toward the DBGM. This sedimentary infill was again made up of levees-channels, sand bars and delta systems. During the Neogene, an extensional system with listric faults and roll-over features developed across the slope of the DBGM, due to an active detachment developing within overpressured Eocene-Oligocene clays. This gravitational gliding of Neogene series accounted also for the development of compressional features at the toe of the slope. Approximately 60% of the Miocene siliciclastic sediments have been trapped in growth strata and slope basins associated with this complex gravitational system, ranging from river-delta features towards gravity slides associated with slump facies. The second part of this thesis aims at a quantification of these various processes, including the construction of balanced cross sections, forward Thrustpack kinematic modelling coupling the development of a basal detachment, lithospheric flexure, erosion and sedimentation, as well as subsequent stratigraphic modelling with the Dionisos software, the later aiming at predicting the sand versus clay ratios in Neogene siliciclastic deposits of the DBGM and its surroundings.
Le bassin profond du Golfe du Mexique (BPMG) est localisé à l'est du Mexique, au sud-est des États-Unis et à l'ouest de l'Océan Atlantique. Cette étude de la partie profonde du Golfe du Mexique est basée sur l'intégration de données de sismique, de forages pétroliers et d'études de terrain; elle comprend toute la pente continentale et la plaine abyssale, avec une bathymétrie qui varie de 200 à 3750 m. La première partie de cette thèse est consacrée à la description du remplissage sédimentaire de la bordure occidentale du Golfe du Mexique, dans le secteur de Veracruz, en liaison avec son évolution géodynamique. L'évolution géodynamique du BPMG commence au Trias-Jurassique avec la rupture et la propagation d'un rift continental, dans le secteur sud de la plaque nord américaine. Cette ouverture et le déplacement relatif vers le sud-est du bloc crustal du Yucatan sont à l'origine du BPGM. Cette géodynamique de rift continental est suivie d'une étape post-rift accompagnée de l'océanisation du bassin. Les bassins de la marge passive ont poursuivi leur évolution sous l'effet de la subsidence thermique à l'ouest du Golfe du Mexique, tandis que de la croûte océanique se formait dans le BPGM. Cette subsidence thermique de la marge a ensuite été perturbée par l'orogénèse Laramienne, qui a remodelé l'architecture stratigraphique silico-clastique des dépôts du Tertiaire entre les éléments morphotectoniques suivants: lefront tectonique de la Sierra Madre Orientale (SMO), le bassin d'avant-pays Chicontepec, la Plateforme de Tuxpan-Faja de Oro, la pente continentale et la plaine abyssale, ces deux dernières provinces morphotectoniques appartenant au BPGM. Pendant le Paléogèneinférieur, les effets de la subsidence thermique de la marge passive ont été accentués par la charge tectonique de l'orogénèse laramienne (SMO), permettant ainsi le développement d'un bassin flexural d'avant-pays. Au cours de cette étape, les principaux transferts sédimentaires se sont effectués du front tectonique "SMO" vers le BPGM. La source principale de sédiments clastiques est liée à l'érosion de la chaîne de montagnes "SMO". Pendant le Paléocène et l'Éocène inférieur, l'architecture des premiers sédiments silico-clastiques syn-tectoniques déposés dans des éventails sous-marins sont caractérisés par des figures de glissement, des faciès turbiditiques A et B de Bouma, des chenaux-levées. Après l'arrêt de la subsidence flexurale, la subsidence thermique de la marge passive s'est poursuivie pendant l'Éocène supérieur, l'Oligocène et le Néogène, permettant le développement d'un nouveau prisme sédimentaire progradant. Les remplissages sédimentaires sont encore constitués de chenaux et de levées, avec des barres de sable associées à des systèmes deltaïques sur la plateforme. Pendant le Néogène, un système de failles listriques s'est développé sur la pente du BPGM, au-dessus d'une surface de décollement située, dans la région d'étude, dans les argiles de l'Éocène-Oligocène. Ce système de failles de croissance a piégé plus de 60% des sédiments silico-clastiques du Miocène. Ce remplissage sédimentaire évolue latéralement de faciès fluviaux deltaïques vers des faciès de pente affectés de glissements gravitaires et associés à des turbidites. La deuxième partie de cette thèse est consacrée à une approche quantitative basée sur des modélisations structurales (coupes équilibrées et modélisations cinématiques directes avec Thrustpack, couplant décollement gravitaire, flexure lithosphérique, érosion et sédimentation), puis sédimentaires (prise en compte des transferts de matériel clastique depuis la partie émergée de la chaîne jusqu'au bassin profond, à l'aide du logiciel Dionisos, afin de mieux comprendre les processus de piégeage des sédiments grossiers dans les structures de croissance et les bassins perchés de la marge.
https://tel.archives-ouvertes.fr/tel-00435120

tel-00435120
https://tel.archives-ouvertes.fr/tel-00435120
https://tel.archives-ouvertes.fr/tel-00435120/document
https://tel.archives-ouvertes.fr/tel-00435120/file/thesealzaga.pdf

Éditeur(s) : HAL CCSD American Geophysical Union
Résumé : International audience
Large-scale periodic undulations within the oceanic and continental lithospheres revealed by a number of observations, are often treated as compressive instabilities, i.e. lithospheric buckling or folding. These undulations are normally associated with intensive faulting, which raises questions on the role of faulting in the folding process, and even on the possibility of folding in highly faulted media. In this study, we demonstrate that folding can "survive" faulting and that both processes may develop concurrently, so that faulting may serve as a mechanism of folding in the brittle domain. We support this hypothesis by direct numerical modeling. The results are compared with the data on three most prominent and well-known cases of the oceanic and continental folding-like deformation ("Indian Ocean" type, "Western Gobi (central Asia)" type and "Central Australian" type). We demonstrate that under reasonable tectonic stresses, folds can develop from faults cutting through the brittle parts of the lithosphere. The predicted wavelengths and nite growth rates are in agreement with the observations. We also show that within a continental lithosphere with thermotectonic age greater than 400 My, either a bi-harmonic mode (two superimposed wavelengths, crustal and mantle one) or a coupled mode (mono-layer deformation) of inelastic folding can develop, depending on the strength and thickness of the lower crust.
ISSN: 0094-8276

ird-00388016
http://hal.ird.fr/ird-00388016
http://hal.ird.fr/ird-00388016/document
http://hal.ird.fr/ird-00388016/file/fig3.pdf
http://hal.ird.fr/ird-00388016/file/fig1.pdf

Éditeur(s) : HAL CCSD Elsevier
Résumé : Spinel peridotite xenoliths from Persani Mountains, Southeastern Carpathians, Romania, were submitted to deformation by dislocation creep accompanied by dynamic recrystallization under variable stress and temperature conditions. Predominance of low-angle boundaries parallel to (100) with well-defined [Ovw] rotation axes in olivine indicates that subgrain rotation is the main recrystallization mechanism and that dislocation glide occurs mainly in [100]{0k1} systems. Analysis of olivine crystal preferred orientations highlights that recrystallization results in dispersion of the orientations of recrystallized grains relatively to the parent grains. This dispersion may be quantified by a dimension-less dispersion factor defined as the ratio of the random component of the [100] axis distributions between the recrystallized grains and porphyroclasts. This factor is largely independent from the overall fabric strength, the number of grains analyzed, and the recrystallized grain size. The olivine CPO strength and anisotropy at the rock scale, quantified by J-index, are largely controlled by the volume of recrystallized grains, which depends on finite strain. Comparison of olivine CPO in coarse- and fine-grained porphyroclastic peridotites shows that deviatoric stress and temperature conditions play nevertheless a role on the CPO evolution during recrystallization; selective grain growth, which is favored at high temperature and low stresses, does counteract the dispersion produced by the nucleation processes.
ISSN: 0191-8141

hal-00669963
https://hal.archives-ouvertes.fr/hal-00669963
DOI : 10.1016/j.jsg.2011.09.010

Éditeur(s) : Public Library Science
Résumé : Global change and its associated temperature increase has directly or indirectly changed the distributions of hosts and pathogens, and has affected host immunity, pathogen virulence and growth rates. This has resulted in increased disease in natural plant and animal populations worldwide, including scleractinian corals. While the effects of temperature increase on immunity and pathogen virulence have been clearly identified, their interaction, synergy and relative weight during pathogenesis remain poorly documented. We investigated these phenomena in the interaction between the coral Pocillopora damicornis and the bacterium Vibrio coralliilyticus, for which the infection process is temperature-dependent. We developed an experimental model that enabled unraveling the effects of thermal stress, and virulence vs. non-virulence of the bacterium. The physiological impacts of various treatments were quantified at the transcriptome level using a combination of RNA sequencing and targeted approaches. The results showed that thermal stress triggered a general weakening of the coral, making it more prone to infection, non-virulent bacterium induced an 'efficient' immune response, whereas virulent bacterium caused immuno-suppression in its host.
Plos One (1932-6203) (Public Library Science), 2014-09 , Vol. 9 , N. 9 , P. 1-15

Droits : This is an open-access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication.
http://archimer.ifremer.fr/doc/00221/33265/31738.pdf
DOI:10.1371/journal.pone.0107672
http://archimer.ifremer.fr/doc/00221/33265/

Éditeur(s) : HAL CCSD
Résumé :  
The anatomy of tension wood and opposite wood was compared in 21 tropical rain forest trees from 21 species belonging to 18 families from French Guyana. Wood secimens were taken from the upper and lower sides of naturally titled trees. Measurement of the growth stress level ensured that the two samples were taken from wood tissues in a different mechanical state: highly tensile-stressed wood on the upper side, called tension wood and normally tensile-stressed wood on the lower side, called opposite wood. Quantitative parameters relating to fibres and vessels were measured on transverse sections of both tension and opposite wood to check if certain criteria can easily discriminate the two kinds of wood. We observed a decrease in the frequency of vessels in the tension wood in all the trees studied. Other criteria concerning shape and surface area of the vessels, fibre diameter or cell wall thickness did not reveal any general trend.At the ultrastructural level, we observed that the microfibril angle in the tension wood sample was lower than in opposite wood in all the trees except one (Licania membranacea).
IAWA Journal

hal-01032149
https://hal.archives-ouvertes.fr/hal-01032149

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : International audience
Activation of cell signaling by reactive chemicals and pollutants is an important issue for human health. It has been shown that lipophilic nitro-benzoxadiazole (NBD) compounds rapidly move across the plasma membrane and enhance Epidermal Growth Factor Receptor (EGFR) tyrosine phosphorylation in cancer cells. Unlike ligand-dependent activation, the mechanism of this induction relies on the generation of hydrogen peroxide, which is involved in the activation of the catalytic site of the receptor and the inactivation of protein tyrosine phosphatase PTP-1B. Production of H2O2 during redox transformation of NBD compounds is associated with the transition of a monomeric form of Cu/Zn superoxide dismutase 1 (SOD1) to stable dimers. The highly stable and functionally active SOD1 dimer, in the absence of adequate activities in downstream reactions, promotes the disproportionate production and accumulation of intracellular hydrogen peroxide shortly after exposure to NBD compounds. The intrinsic fluorescence of small compounds was used to demonstrate their binding to SOD1. Our data indicate that H2O2 and concomitantly generated electrophilic intermediates behave as independent entities, but all contribute to the biological reactivity of NBD compounds. This study opens a promising path to identify new biomarkers of oxidative/electrophilic stress in the progression of cancer and other diseases
ISSN: 2045-2322

hal-01279094
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01279094
DOI : 10.1038/srep21088
PUBMED : 26883293

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
In the Tahalgha district (southwestern Hoggar, Algeria), the Cenozoic volcanism has sampled subcontinental mantle beneath two crustal terranes that collided during the Pan-African orogeny: the “Polycyclic Central Hoggar” to the east and the “Western Hoggar” to the west. Two major lithospheric shear zones separate these terranes: the “4°35” and the “4°50” faults. Mantle xenoliths were collected between the two faults and across the 4°35 fault. In addition to a range in equilibrium temperatures and chemical compositions reported elsewhere, the samples show variations in their microstructures and crystallographic preferred orientations. Equilibrium temperatures and geochemical characteristics allow dividing them into low — (LT; 700–900 °C), intermediate — (IT; 900–1000 °C), and high-temperature (HT; 1000–1100 °C) xenoliths. The LT and IT peridotites occur on both sides of the 4°35 fault; they are usually coarse-grained. HT xenoliths are present only east of the 4°35 fault, in the narrow domain stuck between the two faults; they are fine-grained and extensively affected by annealing and melt–rock reactions. Microstructures and crystallographic textures indicate that deformation in the LT- and IT-xenoliths occurred through dislocation creep under relatively high-temperature, low-pressure conditions, followed by post-kinematic cooling. The fine-grained HT-xenoliths were deformed under relatively high-stress conditions before being annealed.Combining microstructural and CPO data with petrological and geochemical informations suggests that: (1) the LT xenoliths are remnants of the Neoproterozoic lithospheric mantle that preserved microstructural and chemical characteristics inherited from the Pan-African orogeny, and (2) the HT xenoliths record localized Cenozoic deformation associated with melt channeling through feed-back processes that culminated in the formation of high-permeability porous-flow conduits. Limited grain-growth in HT xenoliths suggests that advective heating of melt conduits was transient and rapidly followed by thermal relaxation due to conductive heat loss into wall-rock peridotites represented by the IT xenoliths, then by exhumation due to volcanic activity.
ISSN: 0040-1951

hal-01171761
https://hal.archives-ouvertes.fr/hal-01171761
DOI : 10.1016/j.tecto.2014.11.012

Éditeur(s) : HAL CCSD
Résumé : International audience
The main biological function of reaction wood is to act as “muscle” for trees, enabling them to control their posture and right stems when they are permanently disturbed from their set-point inclination by gravity or winds. The key property to achieve this function is the development of high mechanical stress during the formation of reaction wood cells, called “maturation strains”. Moreover, this function is basically performed through the asymmetric formation of wood (in quantity or quality) around the tree circumference. This asymmetry enables stems to bend upward or to compensate for the downward bending induced by gravity, as an asymmetric force associated to maturation strains creates a bending moment (i.e. one side of the stem “pulls” the other one). We will discuss the traits (cross sectional size and shape, wood features as G fibers or microfibril angle, eccentric growth even in usual or extreme cases as buttresses, total biomass growth and height of center of mass, stem lean and set-point angle) involved to understand how the posture control works. We will give simple formulas to estimate a “muscle efficiency” from biomechanical modeling. We will give practical methods to estimate all the involved traits, especially maturation strains from direct and indirect measurements, in peripheral functional wood or by retrospective dendrochronological analysis. Then, we will illustrate how tree stem tropisms and especially gravitropism, widely studied by physiologists, are key processes in natural ecosystems, through practical examples from tropical rainforest tree communities and regeneration of European mixed beech forests. Using the previous definition of postural control efficiency, we will show that the cross section size is rapidly a limiting factor, opposing the extreme strategies of flexible small stems, which bend easily but also right themselves quickly, to stiff big stems. Lastly, as wood in living trees ensures general storage, defence, vascular and skeletal functions, we will ask general questions about synergies and trade-offs between posture control and other functions.
Botany 2014 : new frontiers in botany
Boise, United States

hal-01627031
https://hal.archives-ouvertes.fr/hal-01627031

Éditeur(s) : HAL CCSD Vsevolod Gurevich
Résumé : International audience
Chemotherapy is frequently used to treat primary or metastatic cancers, but intrinsic or acquired drug resistance limits its efficiency. Sphingolipids are important regulators of various cellular processes including proliferation, apoptosis, differentiation, angiogenesis, stress, and inflammatory responses which are linked to various aspects of cancer, like tumor growth, neoangiogenesis, and response to chemotherapy. Ceramide, the central molecule of sphingolipid metabolism, generally mediates antiproliferative and proapoptotic functions, whereas sphingosine-1-phosphate and other derivatives have opposing effects. Among the variety of enzymes that control ceramide generation, acid or neutral sphingomyelinases and ceramide synthases are important targets to allow killing of cancer cells by chemotherapeutic drugs. On the contrary, glucosylceramide synthase, ceramidase, and sphingosine kinase are other targets driving cancer cell resistance to chemotherapy. This chapter focuses on ceramide-based mechanisms leading to cancer therapy sensitization or resistance which could have some impacts on the development of novel cancer therapeutic strategies.
Handb Exp Pharmacol

inserm-00871347
http://www.hal.inserm.fr/inserm-00871347
PUBMED : 23563652
DOI : 10.1007/978-3-7091-1511-4_4

Éditeur(s) : HAL CCSD Walter de Gruyter
Résumé : absent
Holzforschung

hal-01031939
https://hal.archives-ouvertes.fr/hal-01031939
DOI : 10.1515/HF.2005.057

Éditeur(s) : HAL CCSD Elsevier Science
Résumé : International audience
Some anthropogenic noise is now considered pollution, with evidence building that noise from human activities such as transportation, construction and exploration can impact behaviour and physiology in a broad range of taxa. However, relatively little research has considered the effects of repeated or chronic noise; extended exposures may result in habituation or sensitisation, and thus changes in response. We conducted a field-based experiment at Moorea Island to investigate how repeated exposure to playback of motorboat noise affected a coral reef fish (Dascyllus trimaculatus). We found that juvenile D. trimaculatus increased hiding behaviour during motorboat noise after two days of repeated exposure, but no longer did so after one and two weeks of exposure. We also found that naïve individuals responded to playback of motorboat noise with elevated ventilation rates, but that this response was diminished after one and two weeks of repeated exposure. We found no strong evidence that baseline blood cortisol levels, growth or body condition were affected by three weeks of repeated motorboat-noise playback. Our study reveals the importance of considering how tolerance levels may change over time, rather than simply extrapolating from results of short-term studies, if we are to make decisions about regulation and mitigation.
ISSN: 0013-9327

Droits : http://creativecommons.org/licenses/by/
hal-01357915
https://hal-univ-perp.archives-ouvertes.fr/hal-01357915
https://hal-univ-perp.archives-ouvertes.fr/hal-01357915/document
https://hal-univ-perp.archives-ouvertes.fr/hal-01357915/file/1-s2.0-S0269749116304468-main.pdf
DOI : 10.1016/j.envpol.2016.05.058

Éditeur(s) : Wiley-blackwell Publishing, Inc
Résumé : Red shrimp, Farfantepenaeus brasiliensis, larvae's response to different concentrations of live foods (diatoms Chaetoceros gracilis: 20-100 x 103 cells/mL; flagellate Tetraselmis chuii: 2-10 x 103 cells/mL and Artemia nauplii [NA]: 1-5 NA/mL) was investigated in three experiments. Experimental assessments were based on four variables: survival rate, weight gain, development index (DI), and resistance to salinity stress. A combination of C. gracilis 80 x 103 cells/mL, T. chuii 2 x 103 cells/mL, and Artemia 4 NA/mL provided the best experimental response. Specifically, F. brasiliensis larvae fed with the above-mentioned optimal concentrations of microalgae and Artemia grew faster and reached the postlarval stage in less time (168 h) than larvae in other feeding regimes evaluated. The effect of C. gracilis concentration on larval growth, survival, and the DI demonstrated that microalgae-based foods could be a highly productive alternative to more traditional aquaculture feeding regimes.
Journal Of The World Aquaculture Society (0893-8849) (Wiley-blackwell Publishing, Inc), 2010-06 , Vol. 41 , N. 3 , P. 402-410

Droits : Copyright by the World Aquaculture Society 2010
http://archimer.ifremer.fr/doc/00028/13928/11639.pdf
DOI:10.1111/j.1749-7345.2010.00381.x
http://archimer.ifremer.fr/doc/00028/13928/

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 eLife Sciences Publication
Résumé : When 2 Mha of Amazonian forests are disturbed by selective logging each year, more than 90 Tg of carbon (C) is emitted to the atmosphere. Emissions are then counterbalanced by forest regrowth. With an original modelling approach, calibrated on a network of 133 permanent forest plots (175 ha total) across Amazonia, we link regional differences in climate, soil and initial biomass with survivors' and recruits' C fluxes to provide Amazon-wide predictions of post-logging C recovery. We show that net aboveground C recovery over 10 years is higher in the Guiana Shield and in the west (21 +/- 3 Mg C ha(-1)) than in the south (12 +/- 3 Mg C ha(-1)) where environmental stress is high (low rainfall, high seasonality). We highlight the key role of survivors in the forest regrowth and elaborate a comprehensive map of post-disturbance C recovery potential in Amazonia.
ISSN: 2050-084X

hal-01606806
https://hal.archives-ouvertes.fr/hal-01606806
DOI : 10.7554/eLife.21394
PRODINRA : 389858

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Diploid budding yeast undergoes rapid mitosis when it ferments glucose, and in the presence of a non-fermentable carbon source and the absence of a nitrogen source it triggers sporulation. Rich medium with acetate is a commonly used pre-sporulation medium, but our understanding of the molecular events underlying the acetate-driven transition from mitosis to meiosis is still incomplete. We identified 263 proteins for which mRNA and protein synthesis are linked or uncoupled in fermenting and respiring cells. Using motif predictions, interaction data and RNA profiling we find among them 28 likely targets for Ume6, a subunit of the conserved Rpd3/Sin3 histone deacetylase-complex regulating genes involved in metabolism, stress response and meiosis. Finally, we identify 14 genes for which both RNA and proteins are detected exclusively in respiring cells but not in fermenting cells in our sample set, including CSM4, SPR1, SPS4 and RIM4, which were thought to be meiosis-specific. Our work reveals intertwined transcriptional and post-transcriptional control mechanisms acting when a MATa/α strain responds to nutritional signals, and provides molecular clues how the carbon source primes yeast cells for entering meiosis. Our integrated genomics study provides insight into the interplay between the transcriptome and the proteome in diploid yeast cells undergoing vegetative growth in the presence of glucose (fermentation) or acetate (respiration). Furthermore, it reveals novel target genes involved in these processes for Ume6, the DNA binding subunit of the conserved histone deacetylase Rpd3 and the co-repressor Sin3. We have combined data from an RNA profiling experiment using tiling arrays that cover the entire yeast genome, and a large-scale protein detection analysis based on mass spectrometry in diploid MATa/α cells. This distinguishes our study from most others in the field-which investigate haploid yeast strains-because only diploid cells can undergo meiotic development in the simultaneous absence of a non-fermentable carbon source and nitrogen. Indeed, we report molecular clues how respiration of acetate might prime diploid cells for efficient spore formation, a phenomenon that is well known but poorly understood.
ISSN: 1874-3919

hal-01122122
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01122122
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01122122/document
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01122122/file/Integrated%20RNA-%20and%20protein%20profiling%20of%20fermentation.pdf
DOI : 10.1016/j.jprot.2015.01.015

Éditeur(s) : HAL CCSD Springer-Verlag Berlin Heidelberg
Résumé : International audience
The main biological function of reaction wood is to act as " muscle " for trees, enabling them to control their posture. The key property to achieve this function is the development of high mechanical stress during the formation of reaction wood cells, called " maturation strains ". Actually, reaction wood formation is basically the asymmetric formation of wood around the tree circumference, with higher maturation strains on the side where reaction wood is formed than on the opposite side. This asymmetry enables stems to bend upward or to compensate for the downward bending induced by gravity. At the cross section level, the performance in this biological function is linked not only to the magnitude of this asymmetry but also to an effect of the cross-sectional size (diameter) of the stem. Eccentric growth and variations in wood mechanical stiffness are second order effects that can modify this performance. Differences in maturation strains between reaction and non-reaction woods are related to their specific cell wall structure and composition. The swelling of the cell wall matrix during maturation and the effect of microfibril angle explain the differences in maturation strains between normal and compression wood. However, this mechanism fails in explaining the high maturation shrinkage of tension wood, and several hypotheses at the molecular levels are still under debate. How trees perceive their gravitational disequilibrium is also an open question for physiologists. Integrative biomechanical modelling (from the polymer level to the cell wall, cross section and whole tree levels) enables defining key variables that explain the performance of reaction wood as a system that insures the stem motricity. Maturation strains can be precisely measured only in recently formed wood at the tree surface, but their changes during the whole tree life can also be estimated by retrospective dendrochronological analysis through structural markers of reaction wood. Lastly, wood in living trees ensures general storage, defence, vascular and skeletal functions, that ask general questions about synergies and trade-offs as the structural characteristics of reaction wood can affect all these functions.
The Biology of Reaction Wood

ISBN : 978-3-642-10813-6
hal-01452085
https://hal.archives-ouvertes.fr/hal-01452085
https://hal.archives-ouvertes.fr/hal-01452085/document
https://hal.archives-ouvertes.fr/hal-01452085/file/Chap_Gril_al_Biomechanical_action_biological_functions_2014.pdf

Éditeur(s) : HAL CCSD Elsevier
Résumé : Water molecules play a fundamental role in the physics of slow crack propagation in glasses. It is commonly understood that, during stress-corrosion, water molecules that move in the crack cavity effectively reduce the bond strength at the strained crack tip and, thus, support crack propagation. Yet the details of the environmental condition at the crack tip in moist air are not well determined. In a previous work, we reported direct evidence of the presence of a 100 nm long liquid condensate at the crack tip in fused silica glass during very slow crack propagation (10(-9)-10(-10) m/s). These observations are based on in situ AFM phase imaging techniques applied on DCDC glass specimens in controlled atmosphere. Here, we discuss the physical origin of the AFM phase contrast between the liquid condensate and the glass surface in relation to tip-sample adhesion induced by capillary bridges. We then report new experimental data on the water condensation length increase with relative humidity in the atmosphere. The measured condensation lengths were much larger than what predicted using the Kelvin equation and expected geometry of the crack tip.
ISSN: 0022-3093

hal-00412153
https://hal.archives-ouvertes.fr/hal-00412153
DOI : 10.1016/j.jnoncrysol.2007.06.090

Éditeur(s) : Elsevier
Résumé : The "Summer Syndrome", a septicemic vibriosis caused by Vibrio nigripulchritudo, is responsible for one of the two main seasonal mortalities which affect shrimp aquaculture in New Caledonia. It was identified for the first time in December 1997 in an intensive shrimp farm (called farm DF) and has been enzootic ever since. The "Summer syndrome" affects shrimp during warm-season growout. Although the geographic area concerned is limited, it is a potential threat for the industry in that the disease could spread. Analysis of grow out data from 1991 to 2002 in this farm was carried out in order to characterize the disease and the environmental conditions in relation to mortality. Results of farm DF were compared to data from farms not affected by the disease (called farms HC). The "Summer syndrome" occurs during the warm season which is characterized by an increase in water temperature and sunny duration. This disease is characterized by simultaneously highest densities and weakest drying duration between crops in the farms studied. Between 1991 and 2002, the increase of feed input and nitrogen rate in feed has led to a significant increase of the growth rate over the years in farm DF. At the same time, water management has not changed and has induced an increase in environmental waste production. In consequence, an early eutrophication of water is observed, which is concomitant with the beginning of the mortality outbreaks. This could play a role by inducing directly or indirectly a stress for shrimp and/or a growth and/or virulence factors of the pathogen.
Aquaculture (0044-8486) (Elsevier), 2006-08 , Vol. 261 , N. 3 , P. 1039-1047

Droits : 2006 Elsevier
http://archimer.ifremer.fr/doc/2006/publication-1868.pdf
DOI:10.1016/j.aquaculture.2006.08.036
http://archimer.ifremer.fr/doc/00000/1868/

Éditeur(s) : HAL CCSD
Résumé : To study the dynamics of an orogen-foreland system and more particularly the impact of surface processes on its development, we base our work on two main axes. In a first part, using analogue tapered wedge models, we investigate the interplay between tectonics, erosion and sedimentation during the orogenic growth. The basis model mimics the evolution of a wedge section extending from the orogen to its foreland basin, with both the structural and the lithological heritages simulated. In a second part, the focus is on the recent tectonic and geomorphologic processes affecting the Swiss Prealpes klippen belt and surrounding structural units (Molasse basin and Jura fold-and-thrust belt). Remote sensing analyses allow to evaluate the impact of tectonics on the drainage pattern and landscape morphology. In addition, local field investigations in the Prealpes provide information on the nature and kinematic of brittle fractures and the paleostress fields.
Afin d'étudier la dynamique d'un système orogène/avant-pays et plus particulièrement l'impact des processus de surface sur son développement, notre travail se base sur deux axes principaux. Dans une première partie, à l'aide de modèles analogiques de prisme d'accrétion, nous analysons les interactions entre la tectonique, l'érosion et la sédimentation au cours de la croissance de l'orogène. Le modèle de base reproduit l'évolution d'une section de prisme, qui s'étend de l'orogène au bassin d'avant-pays, et où les héritages à la fois structural et lithologique sont simulés. Dans une seconde partie, l'accent est mis sur la tectonique récente et les processus géomorphologiques qui affectent la klippe des Préalpes suisses et les unités structurales environnantes (le bassin molassique et le Jura). Des analyses de télédétection permettent d'évaluer l'influence de la tectonique sur le réseau de drainage et la morphologie du paysage. De plus, des analyses de terrain menées localement dans les Préalpes fournissent des informations sur la nature et la cinématique des fractures cassantes et des champs de paléocontraintes.
https://tel.archives-ouvertes.fr/tel-00138836

tel-00138836
https://tel.archives-ouvertes.fr/tel-00138836
https://tel.archives-ouvertes.fr/tel-00138836/document
https://tel.archives-ouvertes.fr/tel-00138836/file/These_Bonnet_2007.pdf