Éditeur(s) : HAL CCSD Ecological Society of America
Résumé : Although niche-based and stochastic processes, including dispersal limitation and demographic stochasticity, can each contribute to community assembly, it is difficult to quantify the relative importance of each process in natural vegetation. Here, we extend Shipley's maxent model (Community Assembly by Trait Selection, CATS) for the prediction of relative abundances to incorporate both trait-based filtering and dispersal limitation from the larger landscape and develop a statistical decomposition of the proportions of the total information content of relative abundances in local communities that are attributable to trait-based filtering, dispersal limitation, and demographic stochasticity. We apply the method to tree communities in a mature, species-rich, tropical forest in French Guiana at 1-, 0.25- and 0.04-ha scales. Trait data consisted of species' means of 17 functional traits measured over both the entire meta-community and separately in each of nine 1-ha plots. Trait means calculated separately for each site always gave better predictions. There was clear evidence of trait-based filtering at all spatial scales. Trait-based filtering was the most important process at the 1-ha scale (34%), whereas demographic stochasticity was the most important at smaller scales (37-53%). Dispersal limitation from the meta-community was less important and approximately constant across scales (similar to 9%), and there was also an unresolved association between site-specific traits and meta-community relative abundances. Our method allows one to quantify the relative importance of local niche-based and meta-community processes and demographic stochasticity during community assembly across spatial and temporal scales.
ISSN: 0012-9658

hal-01032424
https://hal.archives-ouvertes.fr/hal-01032424

Éditeur(s) : HAL CCSD Wiley
Résumé : The extent of gene dispersal is a fundamental factor of the population and evolutionary dynamics of tropical tree species, but directly monitoring seed and pollen movement is a difficult task. However, indirect estimates of historical gene dispersal can be obtained from the fine-scale spatial genetic structure of populations at drift-dispersal equilibrium. Using an approach that is based on the slope of the regression of pairwise kinship coefficients on spatial distance and estimates of the effective population density, we compare indirect gene dispersal estimates of sympatric populations of 10 tropical tree species. We re-analysed 26 data sets consisting of mapped allozyme, SSR (simple sequence repeat), RAPD (random amplified polymorphic DNA) or AFLP (amplified fragment length polymorphism) genotypes from two rainforest sites in French Guiana. Gene dispersal estimates were obtained for at least one marker in each species, although the estimation procedure failed under insufficient marker polymorphism, limited sample size, or inappropriate sampling area. Estimates generally suffered low precision and were affected by assumptions regarding the effective population density. Averaging estimates over data sets, the extent of gene dispersal ranged from 150 m to 1200 m according to species. Smaller gene dispersal estimates were obtained in species with heavy diaspores, which are presumably not well dispersed, and in populations with high local adult density. We suggest that limited seed dispersal could indirectly limit effective pollen dispersal by creating higher local tree densities, thereby increasing the positive correlation between pollen and seed dispersal distances. We discuss the potential and limitations of our indirect estimation procedure and suggest guidelines for future studies
ISSN: 0962-1083

hal-01031603
https://hal.archives-ouvertes.fr/hal-01031603
DOI : 10.1111/j.1365-294X.2005.02785.x

Éditeur(s) : HAL CCSD
Résumé : données, méthodes disponibles auprès de l'auteur
In tropical forest communities, interspecific competition and recruitment limitation by dispersal are two general mecanisms of tree species coexistence. Their role in regeneration remains poorly known, even though it is essential to understand them to better adress the gestion of exploited forests. In this work, environemental conditions and intraspecific relations were taken into account in the analysis of juvenile distribution. Fifteen species were retained according to a gradient of shade-tolerance and various seed dispersal modes. Statistical modelling of local density was used to link the success of installation with environnemental conditions and distances to adults simultaneously. Model prediction evidenced the gradient of shade-tolerance among studied species and revealed different installation curves related to dispersal modes.
Dans les communautés de forêt tropicale humide, la compétition interspécifique et la limitation du recrutement par la dispersion ont généralement invoquées pour expliquer la coexistence de nombreuses espèces d'arbres. Le rôle de ces mécanismes dans la régénération reste peu connu, bien que leur compréhension soit essentielle pour la gestion des forêts exploitées. Dans ce travail, les conditions du milieu et les relations intraspécifiques ont été prises en compte dans l'analyse des distributions de juvéniles. Quinze espèces non pionnières ont été sélectionnées selon un gradient de tolérance à l'ombre et des modes de dispersion variés. La modélisation statistique de la densité locale a permis de relier le succès d'installation des juvéniles aux conditions du milieu et aux distances aux arbres adultes simultanément. Les prédictions des
modèles confirment le gradient de tolérance parmi les espèces étudiées et révèlent des courbes d'installation différentes selon le mode de dispersion.
https://tel.archives-ouvertes.fr/tel-00297707

tel-00297707
https://tel.archives-ouvertes.fr/tel-00297707
https://tel.archives-ouvertes.fr/tel-00297707/document
https://tel.archives-ouvertes.fr/tel-00297707/file/PhD_regeneration_Olivier_Flores.pdf

Éditeur(s) : HAL CCSD Wiley-Blackwell Wiley
Résumé : The Late Early-to-Early Middle Eocene Zegdoumyidae are the oldest representatives of the order Rodentia to be known in Africa thus far. Despite the fragmentary nature of their fossil record, these early African rodents have been central in discussions surrounding the early evolutionary history of the Anomaluroidea clade (the living forms of which are the ‘scaly-tailed squirrels’, i.e. Anomaluridae). Here, we describe new dental remains attributable to Zegdoumys sbeitlai, a zegdoumyid from Tunisia (Djebel Chambi, CBI-1) dated at ca 50–45 Ma. The original material referred to this taxon was limited to four teeth documenting few dental loci. The new gathered material comprises practically all dental loci (except P4), thereby allowing a better description and characterization of this taxon. This Tunisian species is clearly distinct from its roughly coeval Algerian counterpart (Z. lavocati) or from the younger species recorded from Namibia (Z. namibiensis). We investigated the phylogenetic positions of Z. sbeitlai and the Zegdoumyidae in a high-level rodent phylogeny with a cladistic assessment of the dental evidence. Our results show that zegdoumyids represent the earliest offshoots (pectinately arranged) of a large clade that also encompasses the more advanced Eocene anomaluroids (here named Nementchamyidae), the Miocene Nonanomaluridae, and the stem and crown Anomaluridae. In this phylogenetic context, the species of Zegdoumys are the basalmost members of this large Anomaluroidea clade. Zegdoumyid taxa are therefore the oldest stem anomaluroid candidates, a statement which strengthens support for the hypothesis of the great antiquity of the Anomaluroidea clade in Africa. From a historical biogeography perspective, this assumption suggests that anomaluroids invaded Asia from Afro-Arabia sometime during the Middle Eocene, a dispersal event which was likely concomitant but opposite to the dispersals envisaged for the hystricognathous rodents and anthropoid primates from Asia to Afro-Arabia.
ISSN: 0300-3256

hal-01172007
https://hal.archives-ouvertes.fr/hal-01172007
DOI : 10.1111/zsc.12095

Éditeur(s) : Natl Acad Sciences
Résumé : Most marine organisms disperse via ocean currents as larvae, so it is often assumed that larval-stage duration is the primary determinant of geographic range size. However, empirical tests of this relationship have yielded mixed results, and alternative hypotheses have rarely been considered. Here we assess the relative influence of adult and larval-traits on geographic range size using a global dataset encompassing 590 species of tropical reef fishes in 47 families, the largest compilation of such data to date for any marine group. We analyze this database using linear mixed-effect models to control for phylogeny and geographical limits on range size. Our analysis indicates that three adult traits likely to affect the capacity of new colonizers to survive and establish reproductive populations (body size, schooling behavior, and nocturnal activity) are equal or better predictors of geographic range size than pelagic larval duration. We conclude that adult life-history traits that affect the postdispersal persistence of new populations are primary determinants of successful range extension and, consequently, of geographic range size among tropical reef fishes.
Proceedings Of The National Academy Of Sciences Of The United States Of America (0027-8424) (Natl Acad Sciences), 2013-10 , Vol. 110 , N. 41 , P. 16498-16502

Droits : Freely available online through the PNAS open access option.
http://archimer.ifremer.fr/doc/00161/27240/25457.pdf
DOI:10.1073/pnas.1304074110
http://archimer.ifremer.fr/doc/00161/27240/

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
This study presents microstructural evidence for deformation-controlled melt organization and for changes in olivine deformation associated with the presence of melt in an 80 m vertical section of the crust-mantle transition zone in the Oman ophiolite. This zone represents an 'end member' case for analyzing feedbacks between deformation and melt distribution in the upper mantle, since it experienced strong shear strains in presence of large melt fractions. It is characterized by a subhorizontal compositional layering at the mm to meter scale, from weakly impregnated dunites to olivine-rich gabbros, which parallels a pervasive foliation containing a strong stretching lineation. The parallelism between the compositional layering and the foliation, the diffuse limits of the layers, the alignment of elongated plagioclase-rich aggregates devoid of internal deformation structures with the elongation of olivine crystals in the dunitic layers, and the sharp compositional changes across some, but not all layer limits suggest deformation plays an essential role on the development of the layering. The variation on a mm-scale of the olivine crystal preferred orientation (CPO) symmetry as a function of the modal content: from axial-[100] symmetry in layers with <70% modal olivine to axial-[010] in more gabbroic levels (<40% olivine), which is repeated over the entire section, implies deformation in presence of variable melt fractions. Axial-[100] olivine CPO in olivine-rich layers is consistent with deformation by dislocation creep under high temperature, low pressure, dry conditions. Axial-[010] olivine CPO patterns imply additional sliding along preferentially wetted (010) grain boundaries, increase in the activity of [001] glide, or transpression localized in the melt-rich layers. Since the change in CPO symmetry is not accompanied by dispersion, instantaneous melt fractions must have remained <30-40% in all layers. The continuous variation in olivine CPO symmetry with decreasing olivine content implies therefore that the former depends on the cumulated strain in presence of melt rather than on the instantaneous melt fraction.
ISSN: 0012-821X

hal-00795508
https://hal.archives-ouvertes.fr/hal-00795508
DOI : 10.1016/j.epsl.2012.10.003

Résumé : Ce travail est l'expression d'une volonté de chercheurs, de la Carabe d'améliorer les connaissances scientifiques méso- et micro-météorologiques appliquées aux milieux insulaires sous influence des alizés et de développer la recherche dans ces domaines.On sait que le phénomène météorologique le plus remarquable impactant les îles de la Caraïbe reste le cyclone tropical. Mais d'autres phénomènes, a des échelles inferieures, telles que les pluies intenses, les houles, la dégradation de la qualité de l'air ont une importance aigüe en termes de risques naturels ou de risques sur la sante. Ces exemples attestent la nécessité d'utiliser des méthodes de descente d'échelle pour exploiter l'information météorologique et/ou climatique de grande échelle et dériver des scenarios locaux et régionaux appliques aux territoires insulaires. Ce défi est important car l'attente d'analyses scientifiques pertinentes dans ces domaines est grande.Les travaux présentés dans ce mémoire ont pour principaux objectifs la simulation numérique puis l'analyse des mécanismes méso- et micro-échelles qui induisent des circulations locales diurnes et nocturnes sur l'archipel de la Guadeloupe à l'aide de codes numériques météorologiques éprouves car largement utilises en recherche et en prévision opérationnelle.Ils constituent donc la première étude de modélisation numérique à haute résolution en basse atmosphère, par descente d'échelle dynamique, pour des intervalles d'espace compris entre 1 km et 111 m sur cet archipel.Le modelé atmosphérique Weather Research and Forecasting ARW V3.4 (WRF ARW), non-hydrostatique, a été utilise pour l'ensemble des simulations pour modéliser la troposphère depuis l'échelle globale à l'échelle de la turbulence.Trois situations météorologiques classiques réelles d'une durée de 48 heures, correspondant à 80 % des situations météorologiques observées dans la zone, alizes soutenus (AS), alizes moyens (AM), alizes faibles (AF) ont été examinées. Ces situations sont caractérisées par les valeurs du nombre de Froude local suivantes : 0,82 (AS), 0,41 (AM) et 0,21 (AF). Six domaines de modélisation ont été sélectionnés pour effectuer les descentes d'échelle dynamiques : D01 (maille de 27 km), D02 (maille de 9 km), D03 (maille de 3 km), D04 (maille de 1 km), D05 (maille de 333 m) et D06 (maille de 111 m) avec soixante-dix niveaux verticaux. Les quatre premiers domaines (D01 à D04) couvrent l'archipel de la Guadeloupe et sont utilisés en mode méso-échelle à l'aide d'un schéma d'ensemble de couche limite planétaire YSU. Les domaines D05 (couvrant l'île de la Basse-Terre et le centre de l'archipel) et D06 (couvrant la zone littorale et rurale du Petit Cul-de-Sac Marin et la zone urbaine de l'agglomération pointoise) sont utilisés en mode Large Eddy Simulation avec une fermeture de la turbulence 1,5 TKE 3D. Le modèle WRF a été forcé toutes les six heures par l'assimilation des champs d'analyses globales du modèle NCEP FNL (1° de résolution). Les simulations effectuées ont permis d'obtenir des champs de variables météorologiques 10-minutes à très hautes résolutions spatiales.Les résultats des simulations méso- et micro-échelles ont été confrontés aux valeurs expérimentales obtenues à l'aide de capteurs places sur des mâts météorologiques (campagne Atmo-Mangrov et réseau de mesure Météo-France). Il s'agissait d'optimiser l'utilisation des couplages de codes numériques tout en conservant la possibilité de les confronter aux observations expérimentales.Les résultats des simulations numériques micro-échelles, des différents cas (AS, AM, AF) sont utilisées pour forcer (c'est-à-dire définir les conditions limites) un modèle lagrangien de dispersion de particules : FLEXPART. Le système couple FLEXPART-WRF a été employé dans le domaine D06 pour étudier la dispersion du panache d'oxydes d'azote émis par la principale usine de production d'électricité de l'île.
The present work expresses the will of Caribbean researchers to improve the meso- and micro-meteorological scientific knowledge of the trade winds influenced island areas, and to develop research in these domains.It is well known that tropical hurricanes remain the most remarkable meteorological phenomena that affect the Caribbean islands. But some other phenomena, of smaller scale, such as intense rainfall events, swells, or air quality degradation, are of extreme importance for natural or health hazards. These examples show the need to use downscaling methods to exploit large scale meteorological or climatic information, and to obtain local and regional scenarios for the island areas. This is an important challenge, as sound scientific studies in these matters are eagerly expected. The aim of the research works exposed in the present dissertation is numerical simulation and analysis of the meso- and microscale mechanisms that induce diurnal and nocturnal local circulations in the Guadeloupe archipelago, using numerical meteorological models that are widely used in research and in operational forecasting.These works represent the first high-resolution (1 km to 111 m) numerical study of the lower atmosphere over the Guadeloupe archipelago. The Weather Research and Forecasting ARW 3.4 (WRF-ARW) model is used to simulate the troposphere from global scale to turbulence scale. Real cases of three typical weather types (80% of cases during a year) are examined during 48 hours : strong trade winds (STW), medium trade winds (MTW) and weak trade winds (WTW). These weather types are characterized by values of the local Froude number : 0.82 (STW), 0.41 (MTW) and 0.21 (WTW). Six domains have been selected for the dynamical downscaling : D01 (grid spacing of 27 km), D02 (grid spacing of 9 km), D03 (grid spacing of 3 km), D04 (grid spacing of 1 km), D05 (grid spacing of 333 m) and D06 (grid spacing of 111 m), including 70 vertical levels. The first four domains (D01 to D04) cover the Guadeloupe archipelago and are used in the meso-scale simulations with the planetary boundary layer scheme YSU (ensemble mean). Domain D05 (covering the Basse-Terre island and the middle of the archipelago) and domain D06 (covering the coastal and rural area of Le Petit Cul-de-Sac Marin and the urban area of Pointe-à-Pitre), are employed in the micro-scale simulation (LES) with the 3D TKE 1.5 order closure scheme. WRF has been 6 hourly reinitialized with the NCEP FNL global analyses (resolution of 1°). These simulations permitted to obtain 10-minutes meteorological variable fields with a very high resolution (111 m).Meso-scale and micro-scale model results have been evaluated with observational data from meteorological stations (field campaign Atmo-Mangrov, French Met Office).Once validated, the micro-scale model outputs have been used for the assimilation of the lagrangian particle dispersion model : FLEXPART. The coupling FLEXPART-WRF has been employed in domain D06, in order to analyze the dispersion of the nitrogen oxide plume emitted by the main power plant of the archipelago.

http://www.theses.fr/2014AGUY0735/document

Éditeur(s) : HAL CCSD
Résumé : The presence of obstacles met in natural environment by the flow, influences the dispersion of air pollutants which it carries. This thesis, based on spatiotemporal micro-meteorological measurements in tropical region, aims at studying the dispersion of compounds emitted by the ecosystem mangrove according to the weather conditions. At a daily scale, the meteorological analysis reveals, besides the presence of Trade Winds, the existence of thermal flows of which nocturnal thermodynamic parameters have been defined. The field observation has shown that the weak intensity of the wind disadvantages the dispersion of compounds emitted during the night. At a finer scale, the existence of a spectral gap separating large scale phenomena of those related to turbulence has been demonstrated. These last ones were treated by spectral and statistical approaches to quantify the turbulent fluxes of momentum and sensible heat during the night, for an averaged duration of 13 minutes. The stratification of the surface layer has been considered and determined by Monin-Obukhov similarity theory. The measurements acquired at night and the application of Kolmogorov theory allowed us to deduct the dissipation rate of energy and the size of the vortices at 5.5 meters in height. This work has also led us, by gas chromatography coupled to mass spectrometry, to identify, in mangrove, sulphurated volatil organic compounds, organohalogen, BTEX, ... All these results will later serve to feed dispersion models related to the studied ecosystem.
La présence d'obstacles rencontrés en milieu naturel par l'écoulement, influence la dispersion des polluants qu'il transporte. Cette thèse, fondée sur des mesures micro-météorologiques spatio-temporelles en région tropicale, vise à étudier la dispersion de composés émis par l'écosystème mangrove en fonction des conditions météorologiques. A l'échelle journalière, l'analyse météorologique révèle, outre la présence des Alizés, l'existence d'écoulements thermiques dont des paramètres thermodynamiques nocturnes ont été définis. L'observation terrain nous a montré que la faible intensité du vent défavorise la dispersion des composés émis durant la nuit. A une échelle plus fine, l'existence d'un trou spectral séparant les phénomènes de grande échelle de ceux liés à la turbulence a été mise en évidence. Ces derniers ont été traités par des approches spectrale et statistique pour quantifier les flux turbulents de quantité de mouvement et de chaleur sensible, pendant la nuit, pour une durée de moyenne de l'ordre de 13 minutes. L'état de stratification de la couche de surface a été pris en compte et déterminé par la théorie de similitude de Monin-Obukhov. Les mesures nocturnes effectuées et l'application de la théorie de Kolmogorov ont permis de déduire les taux de dissipation de l'énergie et la taille des tourbillons à 5,5 m d'altitude. Ce travail a également conduit, par l'analyse chromatographique en phase gazeuse couplée à la spectrométrie de masse, à l'identification, en mangrove, de composés organiques volatils soufrés, des organohalogénés, des BTEX, ... L'ensemble de ces résultats servira ultérieurement à alimenter les modèles de dispersion spécifiques liés aux écosystèmes étudiés.
https://tel.archives-ouvertes.fr/tel-00665882

Droits : info:eu-repo/semantics/OpenAccess
NNT : 11AGUY0438
tel-00665882
https://tel.archives-ouvertes.fr/tel-00665882
https://tel.archives-ouvertes.fr/tel-00665882/document
https://tel.archives-ouvertes.fr/tel-00665882/file/ThA_seCdAlexis.pdf

Éditeur(s) : HAL CCSD Nature Publishing Group
Résumé : Isozyme markers were used to characterize levels of diversity, genotypic structure and spatial genetic structure for the low-density tree species, Carapa procera (five adults per ha), within 300 ha of a continuous tropical rain forest stand. Both seed and adult stages were investigated, a high level of genetic diversity being found in both. Fixation indices showed excess homozygosity in seeds, and excess heterozygosity in adults, which might be caused by selection in favour of heterozygotes. Autocorrelation analysis of the spatial distribution of genotypes revealed no significant pattern in adults or in seeds before dispersal, and there was a high variability in correlogram shapes among alleles. This suggests that gene flow is extensive in C. procera, probably mainly through long-distance pollen dispersal, as seed dispersal is expected to be rather limited in this species (maximum distances of about 50 m). No clear-cut spatial pattern was observed in pollen allele frequencies, which supports the hypothesis of extensive pollen flow. This overall lack of structure is consistent with the data already available on the mating system of this predominantly outcroissing species.
ISSN: 0018-067X

hal-01032057
https://hal.archives-ouvertes.fr/hal-01032057
DOI : 10.1038/hdy.1997.124

Éditeur(s) : HAL CCSD Wiley
Résumé : International audience
Genetic diversity is crucial for species' maintenance and persistence, yet is often overlooked in conservation studies. Species diversity is more often reported due to practical constraints, but it is unknown if these measures of diversity are correlated. In marine invertebrates, adults are often sessile or sedentary and populations exchange genes via dispersal of gametes and larvae. Species with a larval period are expected to have more connected populations than those without larval dispersal. We assessed the relationship between measures of species and genetic diversity, and between dispersal ability and connectivity. We compiled data on genetic patterns and life history traits in nine species across five phyla. Sampling sites spanned 600km in the northwest Mediterranean Sea and focused on a 50-km area near Marseilles, France. Comparative population genetic approaches yielded three main results. (i) Species without larvae showed higher levels of genetic structure than species with free-living larvae, but the role of larval type (lecithotrophic or planktotrophic) was negligible. (ii) A narrow area around Marseilles, subject to offshore advection, limited genetic connectivity in most species. (iii) We identified sites with significant positive contributions to overall genetic diversity across all species, corresponding with areas near low human population densities. In contrast, high levels of human activity corresponded with a negative contribution to overall genetic diversity. Genetic diversity within species was positively and significantly linearly related to local species diversity. Our study suggests that local contribution to overall genetic diversity should be taken into account for future conservation strategies.
ISSN: 0962-1083

hal-01681650
https://hal.archives-ouvertes.fr/hal-01681650
DOI : 10.1111/mec.14389

Éditeur(s) : Elsevier Science Bv
Résumé : A Lagrangian approach based on a physical-biogeochemical modeling was used to compare the potential transfer of cadmium (Cd) from natural and anthropogenic sources to plankton communities (Cd-uptake) in the NorthWest African upwelling. In this region, coastal upwelling was estimated to be the main natural source of Cd while the most significant anthropogenic source for marine ecosystem is provided by phosphate industry. In our model experiment, Cd-uptake (natural or anthropogenic) in the North-West African upwelling is the result of an interplay between the Cd dispersion (by advection processes) and the simulated biological productivity. In the Moroccan waters, advection processes limit the residence time of water masses resulting in a low natural Cd-uptake by plankton communities while anthropogenic Cd-uptake is high. As expected, the situation is reversed in the Senegalo-Mauritanian upwelling where natural Cd-uptake is higher than anthropogenic Cd-uptake. Based upon an estimate of Cd sources, our modeling study shows, unexpectedly, that the anthropogenic signal of potential Cd-bioaccumulation in the Moroccan upwelling is of the same order of magnitude as the natural signal mainly present in the Senegalo-Mauritanian upwelling region. A comparison with observed Cd levels in mollusk and fishes, which shows overall agreement with our simulations, is confirming our estimates.
Science Of The Total Environment (0048-9697) (Elsevier Science Bv), 2015-02 , Vol. 505 , P. 870-888

Droits : 2014 Elsevier B.V. All rights reserved.
http://archimer.ifremer.fr/doc/00252/36310/35200.pdf
DOI:10.1016/j.scitotenv.2014.10.045
http://archimer.ifremer.fr/doc/00252/36310/

Éditeur(s) : Pergamon-elsevier Science Ltd
Résumé : Climate may act on the dispersal and connectivity of marine populations through changes in the oceanic circulation and temperature, and by modifying species' prey and predator distributions. As dispersal and connectivity remain difficult to assess in situ, a first step in studying the effects of climate change can be achieved using biophysical models. To date, only a few biophysical models have been used for this purpose. Here we review these studies and also include results from other recent modelling efforts. We show that increased sea temperature, a major change expected under climate warming, may impact dispersal and connectivity patterns via changes in reproductive phenology (e.g., shift in the spawning season), transport (e.g., reduced pelagic larval duration under faster development rates), mortality (e.g., changes in the exposure to lethal temperatures), and behaviour (e.g.. increased larval swimming speed). Projected changes in circulation are also shown to have large effects on the simulated dispersal and connectivity patterns. Although these biophysical modelling studies are useful preliminary approaches to project the potential effects of climate change, we highlight their current limitations and discuss the way forward, in particular the need for adequate coupled hydrodynamic-biogeochemical simulations using atmospheric forcing from realistic climate change scenarios. (C) 2010 Elsevier Ltd. All rights reserved.
Progress In Oceanography (0079-6611) (Pergamon-elsevier Science Ltd), 2010-10 , Vol. 87 , N. 1-4 , P. 106-113

Droits : 2010 Elsevier Ltd All rights reserved.
http://archimer.ifremer.fr/doc/00031/14176/11522.pdf
DOI:10.1016/j.pocean.2010.09.005
http://archimer.ifremer.fr/doc/00031/14176/

Éditeur(s) : Springer
Résumé : The light response curve methodology for microphytobenthic biofilms was studied by comparing the two most usual approaches used in pulse amplitude modulated (PAM) fluorometry. The non-sequential light curve (N-SLC) method is characterized by independent measures of the photosynthetic activity across a light gradient whereas the rapid light curve (RLC) method consists of successive measures on the same sample exposed to a stepwise increase of light intensities. Experiments were carried out on experimental microphytobenthic biofilms prepared from natural assemblages and acclimated to dark conditions. In preliminary experiments, N-SLCs were constructed from fluorescence induction curves performed at 12 different photon flux densities (PFDs). A minimum of 50 s of illumination was necessary to reach a stable light response curve; shorter illumination times resulted in underestimating the physiological parameters (alpha the light utilization coefficient in light-limited conditions and rETR(max) the maximum rate of photosynthesis efficiency) of the light response curve. For the comparison between N-SLCs and RLCs, the same time of illumination (50 s) was used for each light step of RLCs so that N-SLCs differed from RLCs only by the way the amount of light was delivered, i.e., a light dose accumulation for RLC. The experimental results showed the difference between the two photobiological response curves. In the lower range of PFDs, RLCs exhibited a larger value of alpha; in this light-limited part of the response curve the incremental increase of PFDs limited the development of NPQ and resulted in a better optimization of electron transport rate for RLC. In the higher range of PFDs, the trend was reversed and the RLC showed a lower value of rETR(max) than the N-SLC did; this is attributed to the light dose accumulation which likely led to a more efficient dispersion of energy, as illustrated by a higher non-photochemical quenching (NPQ). In conclusion, these results confirm that parameters derived from both methods differ in their value and do not bear the same physiological information.
Marine Biology (0025-3162) (Springer), 2007-11 , Vol. 153 , N. 1 , P. 91-101

Droits : 2007 Springer
http://archimer.ifremer.fr/doc/2007/publication-3331.pdf
DOI:10.1007/s00227-007-0787-9
http://archimer.ifremer.fr/doc/00000/3331/

Éditeur(s) : HAL CCSD
Résumé : Tropical forests are a biodiversity hotspot, with the coexistence of numerous species until a fine spatial scale. Particularly, 16.000 tree species coexist in Amazonia, 1.800 in Frenche Guiana and between 120 and more than 200 tree species per hectare. However, there are some uncertainties in maintaining diversity in regard to global changes. Hence before predicting the diversity evolution face of global changes, fundamental studies are needed to understand which assembly processes are involved in the maintenance of diversity. These fundamental studies still relevant given the lack of consensus on the relative importance of assembly processes. This thesis is a continuation of these fundamental studies, using innovative integrative approach, at multi-scale, to address three types of diversity: taxonomic diversity, functional and phylogenetic. Our results challenge the importance of environmental filtering for hydrological and chemical properties of soils, versus the importance of biotic interactions on community assembly. Furthermore, our results suggest that species distributions could be affected by forest dynamics related to falling trees and therefore by light availability. Finally, we have highlighted the importance of dispersal limitation on community assembly.
Les forêts tropicales représentent un ‘hotspot’ de diversité avec un nombre considérable d’espèces qui coexistent jusqu’à une échelle locale fine. Plus particulièrement, 16 000 espèces d’arbres coexistent en Amazonie, 1 800 en Guyane française et entre 120 et plus de 200 espèces d’arbres par hectare. Cependant, le maintien de cette diversité face aux changements globaux actuels et à venir (qu’ils soient anthropiques ou climatiques…) est incertain. Avant de pouvoir prédire l’évolution de la diversité face aux changements globaux, un travail fondamental est nécessaire afin de comprendre les processus d’assemblage des communautés, processus qui maintiennent cette diversité. Ce travail est réalisé depuis de nombreuses années en écologie et reste d’actualité vu l’absence de consensus quant à l’importance relative des processus d’assemblage. Cette thèse s’inscrit dans la continuité de ce travail fondamental en utilisant une approche intégrative innovante, qui aborde de manière multi-échelle trois types de diversité : diversité taxonomique, fonctionnelle et phylogénétique. Nos résultats questionnent sur l'importance du filtrage environnemental quant aux propriétés hydrologiques et chimiques des sols, et sur celle des interactions biotiques dans l’assemblage de la communauté étudiée. Par ailleurs, nos résultats suggèrent que les distributions d’espèces puissent être influencées par la dynamique forestière en lien avec les chutes d’arbres et donc avec la disponibilité en lumière. Enfin, nous avons mis en évidence l’importance de la limitation de dispersion.
https://tel.archives-ouvertes.fr/tel-01418447

NNT : 2016YANE0003
tel-01418447
https://tel.archives-ouvertes.fr/tel-01418447
https://tel.archives-ouvertes.fr/tel-01418447/document
https://tel.archives-ouvertes.fr/tel-01418447/file/these.pdf

Éditeur(s) : HAL CCSD Wiley
Résumé : Question: To establish a habitat classification based on functional group co-occurrence that may help the drawing up of conservation plans. Location: Riverine forest fragments in the Grand-duché de Luxembourg, Europe. Methods: Forest fragments were surveyed for their abundance of vascular plants. These were clustered into emergent groups according to 14 life-traits related 10 plant dispersal, establishment and persistence. Forest fragments were classified according to similar distribution of the identified emergent groups. Environmental factors were related to the emergent group richness in each forest type using generalized linear models. Results: Contrary to former species centred classification, only two groups of forests, each with clearly different emergent group composition and conservation requirements. Were detected: (1) swamp forests characterized by anemogamous perennials, annuals and hydrochorous perennials and (2) moist forests characterized by barochorous perennials, small geophytes and zoochorous phanerophytes. From a conservation point of view, priority should he given to large swamp forest with intact flooding regimes his is in accordance with the high wind and water dispersal capacities of their typical emergent groups. For the moist forests. conservation priorities should he high forest connectivity and historical continuity since dispersal and establishment of their characteristic emergent groups arc highly limited. Conclusions: The described methodology, situated at an intermediate integration level between the individual species and whole community descriptors. takes advantage of both conservation plans built for single species and the synthetic power of bread ecological measures.
ISSN: 1402-2001

hal-01031884
https://hal.archives-ouvertes.fr/hal-01031884

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
We sought transversotrematid trematodes from French Polynesian fishes by examining 304 individual scaled fishes of 53 species from seven families known to harbour the family elsewhere. A single species was found at two locations in the Tuamotus Archipelago on two species of Chaetodontidae (Chaetodon auriga and Chaetodon ephippium) and one species of Lutjanidae (Lutjanus gibbus). The species closely resembles Transversotrema borboleta Hunter & Cribb, 2012 from chaetodontids and lutjanids of the northern Great Barrier Reef (GBR) but differs from it consistently in 8 base positions of ITS2 rDNA. This level of variation exceeds that between some clearly morphologically distinct pairs of species of Transversotrema and the form from French Polynesia is thus interpreted as a distinct, though cryptic, species and named Transversotrema polynesiae n. sp. The new species forms part of a complex of species, here characterised as the T. borboleta complex, associated with chaetodontids and lutjanids in the tropical Indo-West Pacific. Most of the putative species within this complex are yet to be described. Comparison of identical numbers of matched samples of fishes from French Polynesia, Heron Island (southern GBR) and Lizard Island (northern GBR) revealed 1, 4 and 10 species of Transversotrema respectively suggesting that the French Polynesian fauna is depauperate for this family. In addition to those species apparently missing from suitable hosts in French Polynesia, several species from further west infect fishes (especially Nemipteridae) that are themselves absent from French Polynesia. This dramatic east–west decline in richness contrasts strongly with what is known for monogeneans, which appear to maintain their richness over the same scale, and is more precipitate than is known for other groups of trematodes. The decline might be explained in part by the absence of the as yet unknown first intermediate hosts in French Polynesia. However, we predict that it is explained by other life cycle traits. We hypothesise that the characters of large short-lived cercariae, short-lived miracidia, the absence in the life-cycle of second intermediate hosts that are capable of transporting the species, and definitive and first intermediate hosts that have limited vagility combine to give marine Transversotrematidae limited dispersal capacity and a propensity for localised speciation.
ISSN: 1383-5769

hal-01333467
https://hal-univ-perp.archives-ouvertes.fr/hal-01333467
DOI : 10.1016/j.parint.2013.11.009

Éditeur(s) : HAL CCSD Elsevier
Résumé : International audience
The aim of this study is to assess the availability and quality of data from the International GNSS Service (IGS) Global Positioning System (GPS) network in Africa, especially for retrieving zenith tropospheric delay (ZTD), from which precipitable water vapour (PWV) can be derived, in view of application to the African Monsoon Multidisciplinary Analysis (AMMA) project. Three major error sources for the GPS data analysis evaluating PWV in Africa are the accuracy of the satellite orbits, the correction for the radio delay induced by the ionosphere and the vertical site displacements due to ocean loading. The first part of this study examines these error sources and the validity of GPS data for meteorological applications in Africa in dedicated analyses spanning the year 2001. These analyses were performed using the IGS precise orbits. Weak degradation of baseline precision with increasing baseline lengths suggests that the average orbital error is not limiting the GPS analysis in Africa. The impact of the ionosphere has been evaluated during a maximum of solar activity in 2001. The loss of L2 data has actually been observed. It amounts to 2% on average for 2001, with maxima of 8% during magnetic storm events. A slight decrease in formal accuracy of ZTD seems to be related to the loss of L2 data at the end of the day. This indicates that scintillation effects are present in the GPS observations but however are not a major limitation. The impact of ocean loading is found to be significant on ZTD estimates (up to ±2 mm in equivalent PWV). The use of a proper ocean loading model eliminates this effect. The second aspect of this study concerns the IGS analysis quality for the African stations. The accuracy has been assessed through position dispersion between individual solutions and the most recent version of the IGS combined solution IGb00, and residuals from the transformation of the IGS combined solution into the International Terrestrial Reference Frame 2005. The positioning performance of the IGS analysis is consistent with an accuracy in ZTD of ±6 mm (±1 mm in PWV), as requested for meteorological applications such as planned in AMMA.
ISSN: 1364-6826

insu-00347961
https://hal-insu.archives-ouvertes.fr/insu-00347961
DOI : 10.1016/j.jastp.2007.04.008

Éditeur(s) : HAL CCSD
Résumé :   Diffusion du document : INRA Antilles-Guyane, SDAR/ERIST, Domaine Duclos, F97170 Petitt-Bourg (Guadeloupe) Diplôme : DEA
il s'agit d'un type de produit dont les métadonnées ne correspondent pas aux métadonnées attendues dans les autres types de produit : DISSERTATION
ln French Guiana, the mangrove covers almost ail the coastline. It results original because of a dynamic influenced by the system of the amazon muds' dispersion. The coastline's variations are important and the mangrove growing there constitutes various facies. To understand the structure and dynamic of this forest, a test-site has been selected at the Kaw river's estuary. Field measurements of structure parameters permited to identify 3 major types of mangrove forests with different developement stages. Relations between the measured parameters show the facies'dynamic with a self-thinning phnomenon then a gap regeneration. Correlations between structure parameters and corresponding spectral parameters extracted from an IKONOS image have been tested. The use of texture indexes are discussed. Then, a classification of the image reveals the spatial distribution of the facies Parallely, the constitution of a temporal series from 1950 to 2001, base on various remote sensed datas, shows the evolution of the coastline and the associated mangrove. During this period, succeed accretion phases (1950-1981; 1991-2001) and erosion phase (1981-1991). A theorical ages map of the forest stands are also established. Relating with the facies map, it explains the complex evolution of limited Rhizophora zones. A comparison with Sinnamary test-site is made and futurs researches considered.
En Guyane française, la mangrove couvre l'essentiel du littoral. Elle tire son originalité d'une dynamique influencée par le système de dispersion des boues amazoniennes. Les variations de la ligne de côte sont alors importantes et les mangroves s'y développant constituent des faciès variés. Pour mieux comprendre la structure et la dynamique de ces mangroves, un site atelier a été choisi au niveau de l'estuaire de la rivière de Kaw. Les mesures sur le terrain de paramètres de structure des peuplements permettent d'identifier 3 grands types de forêt avec différents stades de développement. Des relations entre les différents paramètres mesurés mettent en évidence la dynamique de ces faciès, basée sur un phénomène d'auto-éclaircie puis une régénération par chablis. Un essai de corrélation entre paramètres de structure et paramètres spectraux correspondant sur une image IKONOS a été faite. L'apport des indices de texture est discuté. Une classification de l'image montre la distribution spatiale des faciès. Parallèlement, la reconstitution d'une série temporelle de 1950 à 2001 à partir de données de télédétection variées permet de suivre l'évolution de la côte et de la mangrove associée. Pendant cette période se succèdent phases d'accrétion (1950-1981 ; 1991-2001) et phase d'érosion (1981-1991). Une carte des âges théoriques des peuplements est également établie. Mise en relation avec la carte des faciès, elle explique notamment l'évolution complexe des zones limitées de mangrove à Rhizophora. Une comparaison avec le site de Sinnamary est faite et de futures recherches envisagées.
https://hal.archives-ouvertes.fr/hal-01189238

hal-01189238
https://hal.archives-ouvertes.fr/hal-01189238
PRODINRA : 18075

Éditeur(s) : HAL CCSD
Résumé : In the tropical rainforest of Amazonia, the factors driving the evolution of tree species remain poorly understood, and the relative influence of neutral and adaptive processes is continuously debated. In particular, local habitat patchiness draws much attention, as profound changes in the structure and composition of forest communities occur among micro-habitats. Thus, micro-environmental variations related to topography have frequently been invoked as drivers of adaptive radiation leading to sympatric speciation in Neotropical trees. On one hand, the hypothesis of local adaptation has never been investigated at the intra-specific level, i.e. within species currently undergoing population differentiation; on the other hand, many tree species are genetically structured over local scales due to neutral processes, mainly limited gene flow (caused by restricted pollen and seed dispersal). In this study, I used populations of a common tree species of the Guiana Shield - Eperua falcata (Fabaceae) - to study how neutral and adaptive processes shape the distribution of genetic diversity across forest landscapes characterized by local micro-habitat patchiness. I asked three main questions by combining both phenotypic (quantitative genetics) and molecular (population genetics) approaches: 1) How is the genetic diversity structured in forest landscapes of French Guiana? 2) Which evolutionary drivers are relevant to explain the structure of genetic diversity at local scale? 3) Does local adaptation contribute to structure genetic diversity within continuous populations?
En forêt tropicale humide Amazonienne, les facteurs gouvernant l'évolution des espèces d'arbres restent peu connus et continuellement débattus. En particulier, les micro-variations environnementales attirent beaucoup d'attention car elles induisent de profondes modifications de structure et composition des communautés. Les variations micro-environnementales associées à la topographie ont couramment été évoquées comme facteur de radiations adaptatives chez les espèces d'arbres. Cependant, l'hypothèse de l'adaptation locale n'a jamais été testée au niveau intra-spécifique chez les arbres de forêt amazonienne alors que l'on sait que la diversité génétique des arbres tropicaux est couramment structurée à faibles échelles spatiales par des processus neutres (en particulier du fait de restrictions de flux de gènes). Dans cette étude, j'ai étudié le processus de différentiation génétique d'une espèce d'arbre (Eperua falcata, Fabaceae) dans les paysages forestiers de Guyane française grâce à la combinaison d'une approche phénotypique (génétique quantitative) et d'une approche moléculaire (génétique des populations). Je me suis attachée à répondre à trois questions principales : 1) Comment se distribue la diversité génétique dans les paysages forestiers de Guyane française ? 2) Quelles forces évolutives sont impliquées dans le processus de différentiation génétique à faible échelle spatiale ? 3) Est-ce que le processus d'adaptation locale contribue à structurer la diversité génétique à faible échelle spatiale ?
https://tel.archives-ouvertes.fr/tel-00967318

NNT : 2013LORR0188
tel-00967318
https://tel.archives-ouvertes.fr/tel-00967318
https://tel.archives-ouvertes.fr/tel-00967318/document
https://tel.archives-ouvertes.fr/tel-00967318/file/THESE_Louise_Brousseau.pdf

Éditeur(s) : Universite Montpellier II
Résumé : Since 1980, the expansion of a green macro-alga: Valonia aegagropila (C Agardh) is observed in Salses-Leucate lagoon (France). It is currently distributed in the north of the lagoon with important biomasses (40 gDW/m²) eroding the cover of Zostera noltii. The free form of the alga can be transported with the surface or bottom currents depending on seasons. It multiplies mainly by vegetative reproduction. There are few studies on the ecophysiological capacities of V. aegagropila. This work tries to answer why (physiological adaptation) and how (mechanical process of transport) the alga invaded the lagoon, with an approach including observations, experiments in controlled environment and biological and hydrodynamic models. The growth capacities depend on temperature and light intensities, the nutrients absorption rates and internal nitrogen and phosphorus internal quotas were measured and modelled using a Droop model based on internal quota. Vertically transport was studied with laboratory experiments and measurements of biomass transport were made into the lagoon. The biological model (growth, vertical transport, mortality) was coupled to the MARS 3D hydrodynamic model with a meshgrid of 160m. The results show an adaptation of the alga to low availability of phosphorus and an annual growth of biomass controlled by the availability of nutrient during winter. The alga seems to occupy the whole zones where growth is optimal and the risk of invasion of the southern part of the lagoon is limited. This work opens on research prospects on an ecological model (confronting physiological capacities and competition of V. aegagropila, Zostera noltii, green algae and primary production), new physiological experiments, ecological observations and potential valorisation of V. aegagropila.
Depuis 1980, est observée dans l'étang de Salses-Leucate l'expansion d'une macro-algue verte : Valonia aegagropila (C. Agardh). En 2004, elle était présente sur la presque totalité de la moitié nord de la lagune avec des biomasses importantes (jusqu'à 600 gPS/m²). L'algue envahit et érode également la couverture d'herbiers garant de la biodiversité, de la productivité et de la stabilité de l'écosystème. V. aegagropila se reproduit essentiellement de manière végétative (fragmentation des thalles) et possède la particularité de retenir de l'oxygène de la photosynthèse dans sa structure sphérique. Cet oxygène piégé lui donne la possibilité de mouvement sur la verticale et d'être transportée dans le domaine par les courants. Les conditions physico-chimiques de l'étang présentent de fortes variations saisonnières en salinité, en température et en turbidité, ainsi que des apports nutritifs faibles : la production primaire est principalement limitée par le phosphore. Il existe malheureusement peu d'informations sur V. aegagropila ainsi que trop peu de connaissances sur son écophysiologie. Elle semble vivre dans des milieux plutôt oligotrophe dans des régions tropicales à sub-tropicales. Ce travail basé sur une approche d'observations de terrain, d'expérimentations en milieu contrôlé (en laboratoire) et de modélisation des processus, a permis d'une part d'explorer les capacités adaptatives physiologiques de V. aegagropila aux conditions environnementales de l'étang et d'autre part de mettre à jour les modes de fonctionnement de la dynamique spatio-temporelle de la population. Les capacités de croissance ont été mesurées sur un large spectre de température et de lumière. Les capacités d'absorption des sels nutritifs dans l'eau et les facultés de l'algue à stocker l'azote et le phosphore dans ses tissus ont également été étudiées. D'autre part, un modèle de dynamique des populations a été conceptualisé puis développé. Les processus pris en compte dans ce modèle sont la croissance de l'algue (modèle à quota interne), la flottabilité de l'algue et la mortalité par surdensité. Ces processus ont été paramétrés en majeure partie par des expérimentations réalisées en laboratoire. Ce modèle 0D a par la suite était couplé au modèle hydrodynamique MARS3D (modèle Ifremer) mis en place sur la lagune de Salses-Leucate, utilisant deux grilles de calcul (160m ou de 80m de résolution). Les simulations réalisées permettent d'appréhender les capacités spatio-temporelles de la croissance de l'algue dans l'étang, le turnover annuel de la biomasse totale et les attracteurs de biomasse du système sous différents évènements météorologiques. Ces résultats sont comparés avec les répartitions cartographiques de la population observées in situ en 1999 et 2004 et des flux de biomasses mesurés au cours d'observations de terrain entre juin 2003 et septembre 2004. L'ensemble des résultats montre d'une part une adaptation de l'algue à évoluer dans un milieu pauvre en phosphore et d'autre part une croissance annuelle de la biomasse totale qui est principalement contrôlée par les apports hivernaux en sels nutritifs dans la lagune. Les résultats des simulations montrent également que V. aegagropila semble occuper à présent la majeure partie des zones favorables à sa croissance. Il est également montré que si sa capacité de mouvement peut favoriser la dispersion d'individus dans la lagune et accélérer la croissance de la population pour de faibles biomasses initiales, cette même capacité de mouvement joue plutôt un rôle de régulation de la population lorsque la biomasse totale devient importante. On peut penser que le risque de colonisation de l'herbier à zostère de la partie sud de la lagune (bassin de Salses) est limité. Ce travail ouvre enfin des perspectives de recherche sur l'amélioration du modèle de dynamique des populations de l'espèce, sur de nouvelles expérimentations à réaliser ou encore sur la surveillance écologique du milieu. Des propositions sont faites pour concevoir un modèle écologique confrontant les capacités physiologiques des macrophytes (algues vertes, Valonia et zostères) afin d'apréhender les phénomènes de compétitions et les modes de fonctionnement du réseau trophique de la lagune de Salses- Leucate. Des pistes sur la valorisation de la matière algale de V. aegagropila sont enfin proposées.

Droits : info:eu-repo/semantics/openAccess
http://archimer.ifremer.fr/doc/2006/these-2453.pdf
http://archimer.ifremer.fr/doc/00000/2453/