Éditeur(s) : HAL CCSD Ecological Society of America
Résumé : CABI:20153174020
Understanding how plants are constructed - i.e., how key size dimensions and the amount of mass invested in different tissues varies among individuals - is essential for modeling plant growth, carbon stocks, and energy fluxes in the terrestrial biosphere. Allocation patterns can differ through ontogeny, but also among coexisting species and among species adapted to different environments. While a variety of models dealing with biomass allocation exist, we lack a synthetic understanding of the underlying processes. This is partly due to the lack of suitable data sets for validating and parameterizing models. To that end, we present the Biomass And Allometry Database (BAAD) for woody plants. The BAAD contains 259634 measurements collected in 176 different studies, from 21084 individuals across 678 species. Most of these data come from existing publications. However, raw data were rarely made public at the time of publication. Thus, the BAAD contains data from different studies, transformed into standard units and variable names. The transformations were achieved using a common workflow for all raw data files. Other features that distinguish the BAAD are: (i) measurements were for individual plants rather than stand averages; (ii) individuals spanning a range of sizes were measured; (iii) plants from 0.01-100 m in height were included; and (iv) biomass was estimated directly, i.e., not indirectly via allometric equations (except in very large trees where biomass was estimated from detailed sub-sampling). We included both wild and artificially grown plants. The data set contains the following size metrics: total leaf area; area of stem cross-section including sapwood, heartwood, and bark; height of plant and crown base, crown area, and surface area; and the dry mass of leaf, stem, branches, sapwood, heartwood, bark, coarse roots, and fine root tissues. We also report other properties of individuals (age, leaf size, leaf mass per area, wood density, nitrogen content of leaves and wood), as well as information about the growing environment (location, light, experimental treatment, vegetation type) where available. It is our hope that making these data available will improve our ability to understand plant growth, ecosystem dynamics, and carbon cycling in the world's vegetation.
ISSN: 0012-9658

hal-01535227
https://hal.archives-ouvertes.fr/hal-01535227
DOI : 10.1890/14-1889.1
PRODINRA : 306122

Éditeur(s) : HAL CCSD Association Internationale de Climatologie
Résumé : 6 pages
International audience
This work presents an overview of spatio-temporal quality andspatial density of rainfall networks of Cameroon, Gabon, Congo, CAP and DRC, particularly in the recentperiod (1973-2014) through the GSOD international database. Faced with enormous gaps observed, theseresults will help to select metrological and analytical orientations in FORGREENE project (Tropical forestsgreeness and cloudiness in Central Africa: present conditions and future evolution). A comparison with rainfallsatellite estimates (RFE type) also indicates their great potential, provided they are based on in situ validations.
Ce travail fait un état des lieux de la qualité temporelle et de la densité spatiale des sériespluviométriques du Cameroun, Gabon, Congo, RCA et RDC, en particulier sur la période récente (1973-2014)grâce à la base de données internationale GSOD. Face aux énormes lacunes observées, ces résultats vontpermettre d’orienter les choix métrologiques et analytiques in situ du programme FORGREENE (Tropicalforests greeness and cloudiness in Central Africa: present conditions and future evolution). Une comparaisonavec des estimations satellitaires (de type RFE) indique aussi leur potentiel intéressant, à condition qu’elless’appuient sur des validations in situ.
Climat et pollution de l'air
Besançon, France

hal-01360178
https://hal.archives-ouvertes.fr/hal-01360178

Éditeur(s) : HAL CCSD Springer Verlag
Résumé : Some major challenges for geophysicists and structural geologists using three-dimensional boundary element method codes (3D-BEM) are: (1) reducing the amount of memory required to solve large and dense systems and (2) incorporation of inequality constraints such as traction inequality constraints (TIC) and displacement inequality constraints (DIC). The latter serves two purposes. First, for example, inequality constraints can be used to simulate frictional slip (using TIC). Second, these constraints can prevent element interpenetration while allowing opening mode (using DIC). We have developed a method that simultaneously incorporates both types of functionality of the inequality constraints. We show that the use of an appropriate iterative solver not only avoids the allocation of significant memory for solving the system (allowing very large model computation and simplifying parallelization on multi-core processors), but also admits interesting features such as natural incorporation of TICs and DICs. Compared to other techniques of contact management (e.g., Lagrange multipliers, penalty method, or complementarity problem), this new simple methodology, which does not use any incremental trial-and-error procedures, brings more flexibility, while making the system more stable and less subject to round-off errors without any computational overhead. We provide validations and comparisons of the inequality constraints implementation using 2D analytical and numerical solutions.
ISSN: 1420-0597

hal-00561035
https://hal.archives-ouvertes.fr/hal-00561035
DOI : 10.1007/s10596-009-9170-x

Éditeur(s) : HAL CCSD Wiley
Résumé : 1. Functional traits provide insight into a variety of ecological questions, yet the optimal sampling method to estimate the community-level distribution of plant functional trait values remains a subject of debate, especially in species-rich forests. 2. We present a simulation analysis of the trait distribution of a set of nine completely sampled permanent plots in the lowland rain forests of French Guiana. 3. Increased sampling intensity consistently improved accuracy in estimating community-weighted means and variances of functional trait values, whereas there was substantial variation among functional traits and minor differences among sampling strategies. 4. Thus, investment in intensified sampling yields a greater improvement in the accuracy of estimation than does an equivalent investment in sampling design complication. 5. Notably, 'taxon-free' strategies frequently had greater accuracy than did abundance-based strategies, which had the additional cost of requiring botanical surveys. 6. We conclude that there is no substitute for extensive field sampling to accurately characterize the distribution of functional trait values in species-rich forests.
ISSN: 0269-8463

hal-01536541
https://hal.archives-ouvertes.fr/hal-01536541
PRODINRA : 343202
DOI : 10.1111/1365-2435.12433

Résumé : La banane plantain (Musa paradisiaca) est l’aliment de base de millions de personnes dans le monde et sa culture génère des revenus permanents pour un grand nombre d’agriculteurs, dans des plantations de taille petite ou moyenne. Comme dans d’autres régions tropicales, la culture du plantain en Guadeloupe et en Haïti est soumise à de fortes contraintes parasitaires aussi bien telluriques (i.e. du sol : nématodes phytoparasites et charançon du bananier) qu’aériennes (Cercosporiose noire notamment). Les moyens de lutte conventionnels reposent sur l’usage de produits de synthèse dont les effets néfastes sur l’environnement (sols, eaux, animaux) comme sur la santé humaine ne sont plus supportables. Il est donc urgent de réfléchir à des solutions agro-écologiques permettant de rétablir les équilibres biologiques, de maintenir une bonne qualité des sols et une production optimale dans les systèmes de culture plantains. C’est le but de ce travail de thèse qui couple la réalisation d’un diagnostic agro-écologique dans des parcelles paysannes, et le test d’alternatives agro-écologiques en milieu semi-contrôlé. Pour ce faire, une typologie des systèmes de culture plantains a été réalisée à l’issue d’une enquête agro-environnementale dans les deux zones d’étude. Elle a permis de sélectionner 23 parcelles en Guadeloupe et 12 en Haïti dans lesquelles un diagnostic agro-écologique a été conduit. Sur la base de ce diagnostic et de la recherche d’alternatives agro-écologiques à l’usage des produits chimiques, une expérimentation au champ a été mise en place en Guadeloupe en station de recherche, permettant le test de trois pratiques culturales innovantes pour le plantain (seules et combinées), à savoir : i) l’introduction d’une plante de service Paspalum notatum pour la gestion des adventices et la réduction de l’utilisation d’herbicides ; ii) l’apport de vermicompost pour le contrôle des nématodes phytoparasites inféodés au bananier plantain et la fertilisation de celui-ci ; iii) l’utilisation de plants sains PIF (Plants Issus de Fragments de tiges) indemnes de nématodes et de larves de charançon du bananier. La typologie des systèmes de culture plantains révèle que : i) en Guadeloupe les précédents : jachère, ananas et banane plantain sont prédominants avec un niveau d’intensification faible (apports d’intrants chimiques faibles et peu fréquents) ou élevé (apports d’intrants chimiques élevés et plus fréquents) ; ii) en Haïti, les précédents : jachère, banane plantain et manioc prédominent avec un niveau d’intensification faible ou nul (apport d’intrants inexistant). Les résultats du diagnostic agro-écologique montrent que, i) lorsque le niveau d’intensification est faible, les bananeraies plantains pérennes et le précédent-ananas permettent de maintenir une bonne qualité du sol et une bonne régulation des parasites telluriques ; ii) lorsque le niveau d’intensification est fort, les populations d’ingénieurs du sol diminuent drastiquement, alors que le cortège parasitaire tellurique augmente sans que cela n’affecte l’obtention de bons niveaux de rendement instantannés (parcelles précédées d’ananas ou d’une jachère principalement) ; iii) en absence totale de fertilisation, il résulte une diminution de l’activité biologique du sol mais aussi du rendement du plantain, exacerbé par le choix des précédents-culturaux (manioc ou banane plantain) en lien avec les contraintes pédoclimatiques et la maladie des raies noires (Cercosporiose noire) causée par Mycosphaerella fijiensis, notamment au sein des parcelles Haïtiennes ; iv) la succession plantain/plantain est la plus pénalisante vis-à-vis de la culture du plantain, car quelque soit le niveau d’intensification, le rendement reste relativement faible, en lien avec une dégradation de l’état sanitaire, comparativement aux autres précédents.
Plantain (Musa paradisiaca) is the staple food of millions of people worldwide and its cropping generates ongoing revenues for many farmers who are planting small or medium size areas. As in other tropical regions, plantain cultivation in Guadeloupe and Haiti is under heavy parasitic constraints terrestrial (plant-parasitic nematodes and banana weevil) as well as aerial (black Sigatoka in particular). Conventional means of control based on the use of synthetic products which adverse effects on the environment (soil, water, animals ...) as on human health are not bearable any more. It is thus urgent to think about agroecological solutions allowing to restore the biological balances, to maintain good soil quality and optimal plantain cropping systems.This is the ultimate goal of this thesis which couples the realization of an agroecological diagnosis in peasants’ plots, and the test of agroecological alternatives in semi-controlled conditions. To do this, a typology of plantain cropping systems was carried out from an agrienvironmental survey in the two study areas. It allowed to select 23 plots in Guadeloupe and 12 in Haiti in which an agroecological diagnosis was implemented. Based on this diagnosis and the research of agroecological alternatives to the use of chemicals, a field experiment was set up in Guadeloupe, in an experimental station allowing the test of three innovative practices for plantain cultivation (alone and combined), namely : i) the introduction of a cover-crop Paspalum notatum for weed control while reducing the use of herbicides ; ii) the input of worms’ compost to control plant-parasitic nematodes specific to plantain and to fertilize it ; iii) the use of healthy “PIF” plants (plants issued from stem fragments) free from telluric pests (nematodes and weevil’s larvaes).The typology of plantains cropping systems shows: i) in Guadeloupe the previous crops are: fallow pineapple and plantain predominate with a low level of intensification (low and infrequent chemical inputs) or high (high and frequent chemical inputs); ii) in Haiti, the previous crops are: fallow, plantain and cassava predominate with a low level or no intensification at all (no inputs). The results of the agroecological analysis show that : i) when the level of intensification is low, perennial plantain and pineapple as previous crops help maintaining a good soil quality and a good regulation of the telluric pests ; ii) when the level of intensification is strong, the soil engineers drastically reduce, while the density of telluric parasites increases without affecting good levels of instantaneous yields (plots where the previous crop is pineapple or mostly fallow) ; iii) when the fertilization is totally missing, it decreases the biological activity of the soil furthermore the plantain yields, exacerbated by the choice of the previous crop (cassava or plantain), in connection with soils and climate constraints and the black Sigatoka caused by Mycosphaerella fijiensis, especially in the Haitian plots ; iv) the crop succession plantain/plantain is the most critical regarding the plantain’s cropping, because whatever the level of intensification, the yields remain relatively low in connection with a degradation of the health state, compared to other previous crops.The driving of an experiment in a research station shows that on the scale of one year, the three tested innovative practices allow maintaining a good soils quality. Healthy plants "PIF" have a better health state (absence of plant parasitic nematodes in the roots) which helps a significant increase of the yields. Cover-crop P. notatum helps the weeds and the soil pests control and favors the improvement of soil biological activity and plantain yields. Worms’ compost contributes to the maintenance of a better soils quality while allowing the regulation of the populations of plant-parasitic nematodes of the plantains.

http://www.theses.fr/2014AGUY0758/document

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
The embryonic development in Chione cancellata, from fertilization to straighthinge D-stage veliger larva, occurs in 24 h at 251C. Transmission (TEM) and scanning (SEM) electron microscopy show that morphogenetic processes result in a gastrula with two depressions, 4 h after fertilization (T014 h). Two hours later, one depression, located at the animal pole, develops into an open cave, the floor of which becomes the shell field, characterized by scarce microvilli, located below the lower face of the prototrochal pad. The invagination located at the vegetal pole is characterized by regular microvilli and constitutes the digestive tract. At T018 h, the late gastrula differentiates into a typical motile trochophore, possessing a well-developed prototroch delimiting anterior and posterior embryonic regions. At T019h, the shell field, located between the prototroch and the telotroch, appears as a saddle-shaped region with a wrinkled surface extending on both sides of the embryo, establishing bilateral symmetry. From TEM observations, the apical surface of the underlying cells possesses a modified glycocalyx featuring a dense pellicle overlapping the cells of the shell field. At T0112 h, the prototroch is displaced toward the anterior region by outgrowth of the shell material. TEM views show that the wrinkled surface observed with SEM corresponds to the periostracum, attached dorsally to the hinge and ventrally to the cells of the future mantle edge. At T0115 h, an alveolar matrix of proteinaceous material, which could contain calcite crystals, appears between the periostracum and the mantle. At T0124 h, prodissoconch I formation is completed and the D-stage larvae possess a calcified shell. At this stage of development, only one mantle fold is present, representing the outer fold. The periostracumsecreting cells are in contact with the marginal cells of the velum. This functional velum is composed of four bands of cilia. Our TEMobservations confirm previous descriptions of the velum ciliary bands obtained only from SEM analyses, such as described in other bivalves. The apical sense organ and the digestive tract are poorly developed. From observations at the ultrastructural level of shell differentiation in C. cancellata, we propose a new interpretation of shell differentiation, including hinge and ligament for bivalves as opposed to that described for gastropods.
ISSN: 1077-8306

hal-00755283
https://hal.univ-antilles.fr/hal-00755283
DOI : 10.1111/j.1744-7410.2006.00036.x

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 PeerJ
Résumé : International audience
Coral reefs are in decline across the globe as a result of overexploitation, pollution, disease and, more recently, climate change. The impacts of changes in coral cover on associated fish communities can be difficult to predict because of the uneven dependence of reef fish species on corals for food, shelter or the three-dimensional structure they provide. We compared live coral cover, reef fish community metrics, and their associations in two surveys of the lagoon of the remote atoll of Mataiva (French Polynesia) carried out 31 years apart. In contrast to the general pattern of decreasing coral cover reported for many parts of the Indo-Pacific region, live coral cover increased 6–7 fold at Mataiva between 1981 and 2012, and fish density nearly doubled. The stable overall reef fish species richness belied a significant shift in community structure. There was little overlap in community composition across years, and fish assemblages in 2012 were more homogeneous in composition than they were in 1981. Changes in species abundance were not clearly related to species-specific reliance on corals. The strong positive relationships between live coral cover and fish diversity and abundance noted in 1981, when coral cover rarely exceeded 10%, were no longer present in 2012, when coral cover rarely fell below this value. The most parsimonious explanation for these contrasting relationships is that, over the combined range of coral cover observed in the 1981 and 2012 snapshots, there is a rapidly asymptotic relationship between coral and fish. Our results, and other data from the south and west Pacific, suggest that fish diversity and abundance might accumulate rapidly up to a threshold of approximately 10% live coral cover. Such a relationship would have implications for our expectations of resistance and recovery of reef fish communities facing an increasingly severe regime of coral reef disturbances.
ISSN: 2167-8359

Droits : http://creativecommons.org/licenses/by/
hal-01135589
https://hal.archives-ouvertes.fr/hal-01135589
https://hal.archives-ouvertes.fr/hal-01135589/document
https://hal.archives-ouvertes.fr/hal-01135589/file/2015_02_26_more_coral_more_fish.pdf
DOI : 10.7717/peerj.745

Éditeur(s) : HAL CCSD Wiley
Résumé : Clay shale landscapes are sensitive to landslide, erosion, and re-sedimentation processes. In this context, tectonized clay shales have peculiar hydrological and mechanical behaviours. In order to improve our understanding of the processes involved in such systems, an experimental site has been settled in the Draix Observatory (ORE DRAIX) on a black marl hill slope of the Southern Alps (France) in the framework of the ECOU-PREF project. The site is a natural laboratory to study the evolution of clay shale landscapes at several scales (regional to µm). In this study, we aim to characterize the internal structure and fissure patterns of a stable interfluve, in order to locate preferential water flows within the system, and anticipate its evolution. This work is based on a series of mutli-disciplinary approaches including petrophysical analyses, well pulse injection tests and downhole geophysical measurements. Borehole geophysical results were combined with laboratory measurements on core plugs (permeability, density, porosity, and acoustic velocity). Optical and acoustical images have been used as an original tool for internal discontinuities characterisation and potential active flow path detection. They allowed the identification of three main lithological units interpreted as several stages of shale alteration. In addition, several main structural plane discontinuities (open fractures, schistosity planes, and fractures infilled with calcite or clays) were identified from the images and their potential transmissivity discussed with regard to piezometric and tracer measurements. In all, the integration of measurements leads to propose a simple scenario of fluid circulation and chemical alteration of the interfluve.
ISSN: 0885-6087

hal-00757581
https://hal.archives-ouvertes.fr/hal-00757581
DOI : 10.1002/hyp.7997

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
The stratigraphy of the last deglaciation sequence is investigated in Lake Saint-Jean (Québec Province, Canada) based on 300 km of echo-sounder two dimensional seismic profiles. The sedimentary archive of this basin is documented from the Late Pleistocene Laurentidian ice-front recession to the present-day situation. Ten seismic units have been identified that reflect spatio-temporal variations in depositional processes characterizing different periods of the Saint-Jean basin evolution. During the postglacial marine flooding, a high deposition rate of mud settling, from proglacial glacimarine and then prodeltaic plumes in the Laflamme Gulf, produced an extensive, up to 50 m thick mud sheet draping the isostatically depressed marine basin floor. Subsequently, a closing of the water body due to glacio-isostatic rebound occurred at 8.5 cal. ka BP, drastically modifying the hydrodynamics. Hyperpycnal flows appeared because fresh lake water replaced dense marine water. River sediments were transferred towards the deeper part of the lake into river-related sediment drifts and confined lobes. The closing of the water body is also marked by the onset of a wind-driven internal circulation associating coastal hydrodynamics and bottom currents with sedimentary features including shoreface deposits, sediment drifts and a prograding shelf-type body. The fingerprints of a forced regression are well expressed by mouth-bar systems and by the shoreface-shelf system, the latter unexpected in such a lacustrine setting. In both cases, a regressive surface of lacustrine erosion (RSLE) has been identified, separating sandy mouth-bar from glaciomarine to prodeltaic muds, and sandy shoreface wedges from the heterolithic shelf-type body, respectively. The Lake Saint-Jean record is an example of a regressive succession driven by a glacio-isostatic rebound and showing the transition from late-glacial to post-glacial depositional systems.
ISSN: 0300-9483

hal-00984683
https://hal.archives-ouvertes.fr/hal-00984683
DOI : 10.1111/bor.12039

Éditeur(s) : HAL CCSD Royal Society, The
Résumé : International audience
Although many coral reefs have shifted from coral-to-algal dominance, the consequence of such a transition for coral–algal interactions and their underlying mechanisms remain poorly understood. At the microscale, it is unclear how diffusive boundary layers (DBLs) and surface oxygen concentrations at the coral–algal interface vary with algal competitors and competitiveness. Using field observations and microsensor measurements in a flow chamber, we show that coral (massive Porites) interfaces with thick turf algae, macroalgae, and cyanobacteria, which are successful competitors against coral in the field, are characterized by a thick DBL and hypoxia at night. In contrast, coral interfaces with crustose coralline algae, conspecifics, and thin turf algae, which are poorer competitors, have a thin DBL and low hypoxia at night. Furthermore, DBL thickness and hypoxia at the interface with turf decreased with increasing flow speed, but not when thick turf was upstream. Our results support the importance of water-mediated transport mechanisms in coral–algal interactions. Shifts towards algal dominance, particularly dense assemblages, may lead to thicker DBLs, higher hypoxia, and higher concentrations of harmful metabolites and pathogens along coral borders, which in turn may facilitate algal overgrowth of live corals. These effects may be mediated by flow speed and orientation.
ISSN: 0962-8452

hal-01359387
https://hal-univ-perp.archives-ouvertes.fr/hal-01359387
DOI : 10.1098/rspb.2016.1137

Résumé : Les biofilms électroactifs (EA) sont des consortia bactériens mono ou pluri-espèces, qui ont la faculté d’échanger des électrons provenant de leur métabolisme avec les surfaces solides conductrices des électrodes. Cette découverte est à l’origine d’un nouveau dispositif énergétique : la pile à combustible microbienne (PACM). Depuis les années 2000, la littérature scientifique sur les biofilms EA et sur les PACM explose, notamment grâce à la découverte de bactéries capables de transférer par voie directe – par des pili ou protéines transmembranaires – des électrons vers les électrodes. Plusieurs sources de bactéries EA ont été à ce jour découvertes, allant de cultures pures à des communautés bactériennes plus complexes. Ces dernières sont issues de milieux aqueux naturels (milieux marins ou d’eau douce), industriels ou urbains (effluents d’industrie, eaux usées domestiques). La plupart de ces sources bactériennes proviennent d’environnements de climat tempéré. Dans ce travail de thèse, plusieurs sols de milieux humides de la Guyane ont été identifiés comme étant de sources de bactéries EA. Les expériences menées sous potentiel d’électrode imposé et constant ont permis d’étudier l’adhésion à la surface d’électrode des biofilms EA issus de la flore endogène des milieux sélectionnés. La formation de bioanodes et de biocathodes a été possible en présence respectivement d’acétate et d’oxygène dans les milieux. Une étude par voltammétrie cyclique a mis en évidence les pics d’oxydo-réduction en lien avec les échanges électroniques du biofilm EA et de l’électrode. En optimisant la procédure de formation des biofilms EA par chronoampérométrie (surface d’électrode plus importante, apport en continu et progressif du substrat), une densité de courant maximale de 12 A/m2 et un rendement faradique de 24 % ont été obtenus. Une autre méthode pour former des biofilms EA à partir d’un milieu choisi, la mangrove, a consisté à utiliser deux prototypes de PACM : une pile à compartiment unique et à cathode à air, et une pile benthique. Dans les deux cas, les biofilms EA ont pu être formés et étudiés, complétant certaines observations faites sous potentiel imposé. La PACM benthique s’est avérée être la plus proche d’une application à grande échelle puisqu’elle a été complètement autonome : anode et cathode utilisant uniquement le milieu pour fonctionner. Elle a pu être étudiée en laboratoire comme sur le terrain.
Electroactive biofilms (EA) are mono or multi-species bacterial consortia, which have the ability to exchange electrons from their metabolism with solid surfaces of conductive electrodes. This discovery is the basis for a device of energy production: microbial fuel cell (MFC). Since the 2000s, the scientific literature on EA biofilms and MFC explodes, thanks to the discovery of bacteria that are able to transfer directly – by pili or trans-membrane proteins – electrons to electrodes. Several sources of EA bacteria were discovered to date, ranging from pure cultures to more complex bacterial communities. Those last are from natural (marine and freshwater), industrial or urban (industrial effluents, domestic wastewater) aqueous environments. However, the vast majority of these are from temperate environments.In this thesis, several wetland soils of French Guiana have been identified as sources of EA bacteria. Experiments under poised and constant electrode potential were used to examine adherence to the electrode surface of EA biofilms from the endogenous flora of selected environments. Formation of bioanodes and biocathodes was possible in the presence respectively of acetate and oxygen in the media. A study by cyclic voltammetry showed the redox peaks related to electronic exchanges between EA biofilm and electrode. By optimizing the process of EA biofilm formation by chronoamperometry (larger electrode surface, providing continuous and progressive substrate), a maximum current density of 12 A/m2 and a coulombic efficiency of 24% were obtained.Another method to form EA biofilms from a chosen medium (mangrove) was to use two MFC prototypes: a single compartment and air cathode one, and a benthic one. In both cases, the EA biofilms have been trained and studied supplementing certain observations made under poised polarization. MFC benthic proved to be the closest to a wide application since it was completely autonomous, anode and cathode only using the medium to function. It has been studied in the laboratory and in the field.

http://www.theses.fr/2012AGUY0560/document

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
The Eastern Rift System (ERS) of northern Tanzania and southern Kenya, where a cratonic lithosphere is in the early stages of rifting, offers an ideal venue for investigating the roles of magma and other fluids in such an environment. To illuminate these roles, we jointly invert arrival times of locally recorded P and S body waves, phase delays of ambient noise generated Rayleigh waves and Bouguer anomalies from gravity observations to generate a 3-D image of P and S wave speeds in the upper 25 km of the crust. While joint inversion of gravity and arrival times requires a relationship between density and wave speeds, the improvement in resolution obtained by the combination of these disparate data sets serves to further constrain models, and reduce uncertainties. The most significant features in the 3-D model are (1) P and S wave speeds that are 10–15 per cent lower beneath the rift zone than in the surrounding regions, (2) a relatively high wave speed tabular feature located along the western edge of the Natron and Manyara rifts, and (3) low (∼1.71) values of Vp/Vs throughout the upper crust, with the lowest ratios along the boundaries of the rift zones. The low P and S wave speeds at mid-crustal levels beneath the rift valley are an expected consequence of active volcanism, and the tabular, high-wave speed feature is interpreted to be an uplifted footwall at the western edge of the rift. Given the high levels of CO2 outgassing observed at the surface along border fault zones, and the sensitivity of Vp/Vs to pore-fluid compressibility, we infer that the low Vp/Vs values in and around the rift zone are caused by the volcanic plumbing in the upper crust being suffused by a gaseous CO2 froth on top of a deeper, crystalline mush. The repository for molten rock is likely located in the lower crust and upper mantle, where the Vp/Vs ratios are significantly higher.
ISSN: 0956-540X

hal-01622055
https://hal.archives-ouvertes.fr/hal-01622055
https://hal.archives-ouvertes.fr/hal-01622055/document
https://hal.archives-ouvertes.fr/hal-01622055/file/roeckerGJI2017.pdf
DOI : 10.1093/gji/ggx220

Résumé : Les forêts tropicales contiennent dans leur biomasse aérienne un stock de carbone important à l’échelle de la planète. Mesurer ce stock et comprendre son fonctionnement permet de mieux saisir les enjeux liés à sa protection, sa destruction ou sa modification, ainsi que son rôle dans le cycle du carbone et les mécanismes climatiques globaux. Dans le cadre des problématiques économiques et écologiques liés au climat, les forêts sont progressivement prises en compte dans les programmes internationaux de mesures visant à réduire l’impact anthropique sur le climat (Protocole de Kyoto, 1998 ; Accord de Copenhague, 2009). L’intégration des forêts dans les mécanismes financiers liés au marché du carbone est clairement envisagée dans les années à venir (marché de carbone « d’origine forestière »).L’estimation de la biomasse aérienne d’une parcelle de forêt inventoriée nécessite l’utilisation successive de plusieurs modèles. Dans ces parcelles, le diamètre et l’espèce de chaque arbre sont renseignés. Ensuite, ces parcelles sont utilisées comme références pour l’extrapolation spatiale des valeurs de biomasse. Cette extrapolation repose souvent sur le traitement de signaux aériens (avions, satellites). Il est aussi possible d’utiliser covariables environnementales (climat, géologie, …).L’incertitude associée à l’estimation de la biomasse d’une région est le résultat de toutes les incertitudes associées à ces différents processus. Les connaissances actuelles ne nous permettent pas de quantifier cette incertitude. L’objectif de la thèse est de développer une méthodologie d’estimation de la biomasse qui permette la propagation des incertitudes ainsi que l’identification des sources de cette incertitude.Modèle de hauteur : Nous proposons un nouveau modèle de hauteur pour les forêts tropicales. Les paramètres de ce modèle ont un sens écologique et peuvent être prédits par des variables décrivant le peuplement sur lequel il est appliqué. Nous avons utilisé les données des projets Amalin et Bridge et sélectionné 42 parcelles réparties en Guyane dans lesquelles le diamètre et la hauteur de chaque arbre ont été mesurés.Modèle de densité de bois : Un modèle à été conçu pour associer à chaque espèce une distribution de densité de bois et non une valeur fixe. Nous avons utilisé les données du projet Bridge dans lequel la densité de bois a été mesurée sur 2504 arbres représentant 466 espèces.Modèle de biomasse: Nous avons montré par une analyse de sensibilité que les incertitudes des prédictions de hauteur et de densité de bois n’avaient qu’une part négligeable dans l’incertitude des prédictions de biomasse. L’amélioration de la précision de ces modèles n’est donc pas une priorité. En revanche, le modèle de hauteur peut être une source de biais.Modélisation spatiale : Les modèles développés ont été appliqués à différents réseaux de parcelles couvrant bien la zone littorale guyanaise : inventaires papetiers de l’ONF, réseau Guyafor, projet Amalin… Les prédictions de biomasse de ces parcelles sont utilisées dans un modèle spatiale. Nous produisons ainsi une carte de biomasse guyanaise associée à une carte de l’incertitude de cette estimation.
Tropical forest yield and important part of the aerial vegetation carbon stock on earth. Measuring and understanding this stock distribution is crucial for the management of the tropical forests facing the actual environmental challenges (REDD+, carbon market).Aerial Biomass estimation of forest census plots requires few models depending on the precision of the inventory: diameter models, height models, wood density models. Spatial extrapolation between census plots relies on aerial data (satellite measurements, images) or ground-based data (geology, altitude).The uncertainty of the estimation of a region’s biomass is the result of the uncertainty brought by all these models. The aim of the thesis is to develop models and methods to estimate the biomass of a region while propagating the uncertainties. This is applied to the neo-tropical forest of French Guiana (South America, Guianas Plateau).

http://www.theses.fr/2012AGUY0567/document

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
Recent research has demonstrated the importance of dermal exposure for some semivolatile organic compounds (SVOCs) present in the gas phase of indoor air. Though models for estimating dermal intake from gaseous SVOCs exist, their predictions can be subject to variations in input parameters, which can lead to large variation in exposure estimations. In this sensitivity analysis for a steady state model, we aimed to assess these variations and their determinants using probabilistic Monte Carlo sampling for 8 SVOCs from different chemical families: phthalates, bisphenols, polycyclic aromatic hydrocarbons (PAHs), organophosphorus (OPs), organochlorines (OCs), synthetic musks, polychlorinated biphenyls (PCBs) and polybromodiphenylethers (PBDEs). Indoor SVOC concentrations were found to be the most influential parameters. Both Henry's law constant (H) and octanol/water partition coefficient (Kow) uncertainty also had significant influence. While exposure media properties such as volume fraction of organic matter in the particle phase (fom-part), particle density (ρpart), concentration ([TSP]) and transport coefficient (ɣd) had a slight influence for some compounds, human parameters such as body weight (W), body surface area (A) and daily exposure (t) make a marginal or null contribution to the variance of dermal intake for a given age group. Inclusion of a parameter sensitivity analysis appears essential to reporting uncertainties in dermal exposure assessment.
ISSN: 0160-4120

hal-01526430
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01526430
https://hal-univ-rennes1.archives-ouvertes.fr/hal-01526430/file/Dermal%20absorption%20of%20semivolatile%20organic%20compounds_accepted.pdf
DOI : 10.1016/j.envint.2017.02.005
PUBMED : 28249739

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
Emerging high data rate wireless communication systems, currently under development, will operate at millimeter waves (MMW) and specifically in the 60 GHz band for broadband short-range communications. The aim of this study was to investigate potential effects of MMW radiation on the cellular endoplasmic reticulum (ER) stress. Human skin cell lines were exposed at 60.4 GHz, with incident power densities (IPD) ranging between 1 and 20 mW/cm(2) . The upper IPD limits correspond to the ICNIRP local exposure limit for the general public. The expression of ER-stress sensors, namely BIP and ORP150, was then examined by real-time RT-PCR. Our experimental data demonstrated that MMW radiations do not change BIP or ORP150 mRNA basal levels, whatever the cell line, the exposure duration or the IPD level. Co-exposure to the well-known ER-stress inducer thapsigargin (TG) and MMW were then assessed. Our results show that MMW exposure at 20 mW/cm(2) inhibits TG-induced BIP and ORP150 over expression. Experimental controls showed that this inhibition is linked to the thermal effect resulting from the MMW exposure. Bioelectromagnetics. 35:444-451, 2014. © 2014 Wiley Periodicals, Inc.
ISSN: 0197-8462

hal-01063910
https://hal.archives-ouvertes.fr/hal-01063910
DOI : 10.1002/bem.21864
PUBMED : 25099539

Éditeur(s) : HAL CCSD Oxford University Press (OUP)
Résumé : International audience
Ash flow tuffs, or ignimbrites have been recently proposed to be a good material for palaeointensity determination. In this paper, we present a multidisciplinary study, combining geochronology, petrology, rock magnetism and palaeomagnetism, carried out on Oligocene to Early Miocene ignimbrites and related flows from the southern part of the Sierra Madre Occidental. Two new 40Ar/39Ar ages were determined for ignimbrites; 20.4 ± 0.2 Ma (the youngest age obtained so far in this area) and 29.2 ± 0.5 Ma. Density measurements, as a proxy for welding, proved to be extremely useful to estimate the emplacement temperature and the origin of the magnetizations carried by the ignimbrites. After alternating field and thermal demagnetizations, the mean palaeomagnetic pole (Lat = 66.8°N; Long = 180.5°E; Kappa = 142; A95 = 6.3°), calculated for the period 28-31 Ma, is in close agreement with our only Miocene determination. Comparison with the North America Synthetic Apparent Polar Path indicates a net counter-clockwise vertical axis rotation of about 10 ± 4° compared to stable North America, which occurred likely during the last extensional episode in the Late Miocene (ca. 12-9 Ma). Palaeointensity estimates, obtained with the Thellier-Coe method, are mainly questionable and should not be used for global interpretation. Therefore, these ignimbrites are not a viable material for reliable palaeointensity determinations.
ISSN: 0956-540X

hal-00854457
https://hal.archives-ouvertes.fr/hal-00854457
DOI : 10.1093/gji/ggt079

Résumé : Une étude des facteurs influençant la composition et la répartition spatiale des abondances algales dans les communautés récifales des Antilles françaises et plus spécifiquement de Guadeloupe a été réalisée. Le rôle joué par les oursins diadème est plus particulièrement étudié. Les principaux compartiments des communautés récifales et les facteurs d'influence susceptibles de jouer un rôle dans la régulation du compartiment algal ont été dimensionnés sur 22 stations des Antilles françaises. Pour cela plusieurs indicateurs ont été testés. Après une description de chaque compartiment biotique (algues, herbivores, prédateurs), une recherche des facteurs influençant les caractéristiques du compartiment algal a été menée à trois échelles spatiales, à l'aide d'analyses statistiques non paramétriques, notamment des analyses canoniques des redondances et des correspondances. Puis, une recherche des facteurs influençant la répartition des oursins diadème a été également menée. Si les deux guildes d'herbivores étudiées (poissons et oursins diadème) ont un impact significatif sur l'abondance de gazon algal, seuls les poissons herbivores ont la capacité d'exercer cette influence à l'échelle des récifs de Guadeloupe et cette influence ne s'étend pas aux autres catégories algales. Notamment les phéophycées. A l'échelle de l'ensemble des îles étudiées, les analyses effectuées n'ont pas permis de mettre en évidence l'influence des herbivores sur la régulation des abondances algales. Les oursins diadèmes sont en faible densité dans les iles antillaises étudiées. Plusieurs facteurs susceptibles de participer à leur répartition en taille et en abondance sont identifiés.
A study of factors influencing the composition and spatial distribution of algal abundance in the French Caribbean reef communities and more specifically in Guadeloupe was conducted. The role of diadema sea urchins was particularly studied. For that, 22 stations in the French Antilles were selected and several indicators tested. After a description of each biotic compartment (algae, herbivore, predators), a search for factors influencing the characteristics of the algal compartment was conducted at three spatial scale, using non-parametric statistical analyses, including canonical correspondence analyses (cca) and redundancy analyses (rda). Then a search for the factors influencing the distribution of diadema sea urchins was also conducted. If the two guilds of herbivores (diadema sea urchin and fish) have a significant impact on the abundance of algal turf, only herbivorous fish was found to have an influence in the reefs of Guadeloupe and that influence was not observed on other algal groups, including phaeophyceae. At the scale of all the islands, the analyses did not enable to show the influence of herbivores in the regulation of algal abundance. The density of sea urchins was found to be low in the studied sites. Several factors likely to influence their distribution in size and their abundance were identified.

http://www.theses.fr/2012AGUY0522/document

Résumé : Pour beaucoup de cultures, un sol non travaillé est une alternative de plus en plus crédible au travail intensif du sol, en particulier pour des raisons environnementales. Mais l’ananas (ananas comosus) présente un enracinement fragile très sensible à la structure, ce qui motive souvent un travail important du sol avant plantation. L’alternative d’une plantation sans travail du sol ne va donc pas de soi. L’objet de cette thèse est de répondre à la question de la faisabilité d’une culture d’ananas sans travail du sol, en remplaçant ce dernier par une plante de service « décompactante » dont les traits racinaires seraient favorables à la (re)structuration d’un sol compact. Le travail de cette thèse a donc porté sur l’évaluation de plusieurs espèces candidates, puis sur l’étude, au champ, des effets sur le sol de la plus prometteuse (Stylosanthes guianensis ). Enfin, dans le cadre d’un essai au champ comparant un système de culture innovant ananas sans travail du sol, on a étudié l’effet de la plante de service sur le fonctionnement de la culture de l’ananas. Dans un premier essai, c’est le Stylosanthes guianensis qui, comparé à huit autres espèces (Arachis pintoï, Brachiaria decumbens, Cajanus cajan, Crotalaria juncea, Cynodon dactylon, Eleusine coracana, Pueraria phaseoloides, et le maïs), a montré les traits racinaires les plus favorables à la structuration d’un sol compact. Les valeurs supérieures du diamètre racinaire moyen et de la densité de longueur racinaire (DRL) caractérisent les principaux traits impliqués. Dans un deuxième essai, les mesures de conductivité hydraulique, d’indice des vides du sol et d’analyse d’images de blocs de sol imprégné sur la répartition surfacique des différents types de porosité ont montré que la culture du Stylosanthes guianensis avait augmenté l’indice des vides du sol et provoqué l’apparition d’une porosité fissurale de grande taille, contribuant ainsi à l’amélioration de la structure du sol. Enfin, un troisième essai mettant en comparaison (i) un système de culture innovant où la culture d’ananas est implantée sans travail du sol après une culture de S. guianensis restructurante et (ii) un système conventionnel comportant un travail profond du sol (et pas de plante de service) a montré que le rendement en fruit est similaire dans les deux systèmes. Cet essai a permis de vérifier que l’enracinement de l’ananas en condition de sol non travaillé bénéficiait du précédent S. guianensis.
For many crops, direct drilling is a well-tried alternative facing the damaging effects of intensive tillage, mainly for environmental causes. But, pineapple (ananas comosus), presents a fragile rooting system which is very sensitive to soil structure. This leads frequently to intensive soil tillage before planting. Direct drilling is not so evident. The aim of this thesis is to give an answer to the feasibility of a no till system for pineapple cultivation, by using a plant with favorable roots traits for compacted soil (re)structuration. This work consisted in evaluating several candidate species, followed by the study, on the field, of the effects the most promising on soil (Stylosanthes guianensis). Finally, through a field experiment, comparing an innovating no till pineapple cultivation system we studied the use effects of Stylosanthes guianensis on the pineapple crop functioning. In a first experiment, Stylosanthes guianensis compared with eight other species (Arachis pintoï, Brachiaria decumbens, Cajanus cajan, Crotalaria juncea, Cynodon dactylon, Eleusine coracana, Pueraria phaseoloides and corn) showed better roots traits for structuring a compacted soil. Measures of average root diameter and root length density are the main implicated roots traits. In a second experiment, the measures of hydraulic conductivity, of the soil void ratio and the analysis of blocks of resin-impregnated soil on the surface distribution of the different type of porosity, all of this showed that Stylosanthes guianensis had increased the soil void ratio and had caused the creation of large-sized cracked porosity, thus contributing to the improvement of the soil structure. Finally, a third experiment involving a comparison between (i) an innovating cultivation system where pineapple is growing in a no till soil after a structuring crop of S. guianensis and (ii) a conventional system with deep tillage (without structuring crop), showed similar fruit yield. This experiment showed evidence that the rooting of pineapple in no till soil benefited from the previous Stylosanthes.

http://www.theses.fr/2014AGUY0725/document

Résumé : Cette these etudie les effets de la conversion de la foret tropicale en parcelles agricoles, sur les emissions de n2o par les sols. Ce travail est realise a l’echelle du cycle cultural sur le dispositif experimental de combi (littoral guyanais), a l’aide de mesures in situ et de simulations (modele noe) des flux de n2o. La foret tropicale a ete comparee a des parcelles de foret converties en terres agricoles par la methode ‘chop-and-mulch’. La methode de deforestation ‘chop-and-mulch’ associe coupe mecanique de la vegetation, broyage puis enfouissement des residus forestiers dans le sol. Les terres agricoles etaient soient des parcelles de prairie non paturee soient des parcelles cultivees (maïs fertilise/soja) conduites en semis conventionnel (semis apres travail du sol, sans plante de couverture) ou en semis direct (sans travail du sol, avec plantes de couverture).Les principaux resultats de cette etude sont : le sol de la foret tropicale de combi est un faible emetteur de n2o ; la conversion par la methode ‘chop-and-mulch’ de cette foret en prairie ne conduit pas a une augmentation significative des emissions de n2o entre le 19eme et le 31eme mois suivant la conversion ; la conversion de la foret en parcelles cultivees induit une augmentation significative des emissions de n2o due a la fertilisation et a la modification des parametres edaphiques (densite apparente, temperature, humidite volumique) ; la technique sans travail du sol n’engendre pas de flux de n2o significativement plus eleves que la technique avec travail du sol ; l’introduction du phenomene d’hysterese hydrique dans le modele noe presente un reel potentiel pour l’estimation des emissions de n2o in situ.
This study investigates the effects of the conversion of tropical forest to cultivation on soil n2o emissions. The study was carried out over a complete crop cycle at the experimental site combi (french guianese coast). Nitrous oxide fluxes were obtained in the field and by conducting simulations with the noe model. Undisturbed tropical rainforest was compared to rainforest that had been converted to agricultural land using the ‘chop-and-mulch’ method. The ‘chop-and-mulch’ method is a fire-free method used for vegetation clearing combining the mechanical felling of trees with the mulching of small vegetation. Agricultural land included either mowed grassland or soybean/fertilised maize crop rotation. For croplands the two cultivation practices employed were: conventional seeding (using an offset disc harrow, without cover plants) or direct seeding (no till, with cover plants).The main results of this study are: rainforest soil at combi produced low n2o emissions; rainforest converted to mowed grassland using the 'chop-and-mulch’ method did not lead to a significant increase in n2o emissions between the 19th and 31st months after conversion; the conversion of rainforest to croplands induced a significant increase in soil n2o emissions due to the application of fertiliser and the modification of soil parameters (bulk density, temperature, volumetric moisture); n2o emissions from agricultural practices with no-till were no higher than those produced by conventional agricultural practices using an offset disc harrow; and, the introduction of an hydric hysteresis into the noe model constitutes a promising improvement to estimate in situ n2o emissions.

http://www.theses.fr/2013AGUY0610/document