Éditeur(s) : HAL CCSD Springer Verlag
Résumé : The patterns of the distribution of fungal species and their potential interactions with trees remain understudied in Neotropical rainforests, which harbor more than 16,000 tree species, mostly dominated by endomycorrhizal trees. Our hypothesis was that tree species shape the non-mycorrhizal fungal assemblages in soil and litter and that the diversity of fungal communities in these two compartments is partly dependent on the coverage of trees in the Neotropical rainforest. In French Guiana, a long-term plantation and a natural forest were selected to test this hypothesis. Fungal ITS1 regions were sequenced from soil and litter samples from within the vicinity of tree species. A broad range of fungal taxa was found, with 42 orders and 14 classes.Significant spatial heterogeneity in the fungal communities was found without strong variation in the species richness and evenness among the tree plots. However, tree species shaped the fungal assemblages in the soil and litter, explaining up to 18 % of the variation among the communities in the natural forest.These results demonstrate that vegetation cover has an important effect on the structure of fungal assemblages inhabiting the soil and litter in Amazonian forests, illustrating the relative impact of deterministic processes on fungal community structures in these highly diverse ecosystems.
ISSN: 0095-3628

hal-01595373
https://hal.archives-ouvertes.fr/hal-01595373
DOI : 10.1007/s00248-016-0839-0
PRODINRA : 395655
PUBMED : 27645139

Éditeur(s) : HAL CCSD Wiley
Résumé : 1. Niche theory proposes that species differences underlie both coexistence within communities and the differentiation in species composition among communities via limiting similarity and environmental filtering. However, it has been difficult to extend niche theory to species-rich communities because of the empirical challenge of quantifying niches for many species. This has motivated the development of functional and phylogeny-based approaches in community ecology, which represent two different means of approximating niche attributes. 2. Here, we assess the utility of plant functional traits and phylogenetic relationships in predicting community assembly processes using the largest trait and phylogenetic data base to date for any set of species-rich communities. 3. We measured 17 functional traits for all 4672 individuals of 668 tree species co-occurring in nine tropical rain forest plots in French Guiana. Trait variation was summarized into two ordination axes that reflect species niche overlap. 4. We also generated a dated molecular phylogenetic tree based on DNA sequencing of two plastid loci (rbcL and matK) comprising 97% of the individuals and 91% of the species in the plots. 5. We found that, on average, co-occurring species had greater functional and, to a lesser extent, phylogenetic similarity than expected by chance. 6. We also found that functional traits and their ordination loadings showed significant, albeit weak, phylogenetic signal, suggesting that phylogenetic distance provides pertinent information on niche overlap in tropical tree communities. 7. Synthesis. We provide the most comprehensive examination to date of the relative importance of environmental filtering and limiting similarity in structuring tropical tree communities. Our results confirm that environmental filtering is the overriding influence on community assembly in these species-rich systems.
ISSN: 0141-6707

hal-01032423
https://hal.archives-ouvertes.fr/hal-01032423
DOI : 10.1111/j.1365-2745.2012.01966.x

Éditeur(s) : HAL CCSD Wiley
Résumé : The consequences of biodiversity loss for ecosystem services largely depend on the functional identities of extirpated species. However, poor descriptions of spatial patterns of community functional composition across landscapes hamper accurate predictions, particularly in highly diverse tropical regions. Therefore, understanding how community functional composition varies across environmental gradients remains an important challenge. We sampled 15 functional traits in 800 Neotropical tree species across 13 forest plots representative of the broad climatic and soil gradients encompassed by three widespread lowland forest habitats (terra firme forests on clay-rich soils, seasonally flooded forests and white-sand forests) at opposite ends of Amazonia (Peru and French Guiana). We combined univariate and multivariate approaches to test the magnitude and predictability of environmental filtering on community leaf and wood functional composition. Directional shifts in community functional composition correlated with environmental changes across the 13 plots, with denser leaves, stems and roots in forests occurring in environments with limited water and soil-nutrient availability. Critically, these relationships allowed us to accurately predict the functional composition of 61 additional forest plots from environmental data alone.Synthesis. Environmental filtering consistently shapes the functional composition of highly diverse tropical forests at large scales across the terra firme, seasonally flooded and white-sand forests of lowland Amazonia. Environmental factors drive and allow the prediction of variation in community functional composition among habitat types in Amazonian forests.
ISSN: 0022-0477

hal-01204211
https://hal.archives-ouvertes.fr/hal-01204211
DOI : 10.1111/1365-2745.12160
PRODINRA : 259900

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : We examined tree-soil habitat associations in lowland forest communities at Paracou, French Guiana. We analyzed a large dataset assembling six permanent plots totaling 37.5 ha, in which extensive LIDAR-derived topographical data and soil chemical and physical data have been integrated with precise botanical determinations. Map of relative elevation from the nearest stream summarized both soil fertility and hydromorphic characteristics, with seasonally inundated bottomlands having higher soil phosphate content and base saturation, and plateaus having higher soil carbon, nitrogen and aluminum contents. We employed a statistical test of correlations between tree species density and environmental maps, by generating Monte Carlo simulations of random raster images that preserve autocorrelation of the original maps. Nearly three fourths of the 94 taxa with at least one stem per ha showed a significant correlation between tree density and relative elevation, revealing contrasted species-habitat associations in term of abundance, with seasonally inundated bottomlands (24.5% of species) and well-drained plateaus (48.9% of species). We also observed species preferences for environments with or without steep slopes (13.8% and 10.6%, respectively). We observed that closely-related species were frequently associated with different soil habitats in this region (70% of the 14 genera with congeneric species that have a significant association test) suggesting species-habitat associations have arisen multiple times in this tree community. We also tested if species with similar habitat preferences shared functional strategies. We found that seasonally inundated forest specialists tended to have smaller stature (maximum diameter) than species found on plateaus. Our results underline the importance of tree-soil habitat associations in structuring diverse communities at fine spatial scales and suggest that additional studies are needed to disentangle community assembly mechanisms related to dispersal limitation, biotic interactions and environmental filtering from species-habitat associations. Moreover, they provide a framework to generalize across tropical forest sites.
ISSN: 1932-6203

hal-01260289
https://hal.archives-ouvertes.fr/hal-01260289
PRODINRA : 342930
DOI : 10.1371/journal.pone.0141488

Éditeur(s) : HAL CCSD
Résumé : Neotropical forests shelter an astonishing and underrated biodiversity. The integrity and stability of these natural ecosystems are threatened by human-induced environmental changes. Therefore, highlighting the determinants of ecosystem functioning, be they natural or anthropogenic, is a daunting but paramount scientific challenge. The intrinsic complexity of highly diversified ecosystems arouses both conceptual and logistical difficulties, which we handle, by manipulating tiny ecosystems, the tank bromeliads. The leaves of tank bromeliads form wells that hold rainwater and intercept leaf litter, allowing for a simple invertebrate aquatic community to thrive. These plants can be exhaustively sampled, are naturally replicated, and widely distributed.From local to biogeographic scales, this thesis aims at understanding how these communities respond to the natural heterogeneity of Amazonian forests, and at predicting the impacts of human-induced disturbances on the structure and functioning of these communities, using in situ and lab experiments. Particular focus is attributed to the influence of some aspects of climate changes (e.g., warming, and various precipitations scenarios) on individual physiology, behavior, and trophic interactions.
Les forêts néotropicales accueillent une importante biodiversité encore méconnue. L’intégrité des écosystèmes naturels est menacée par les changements environnementaux (e.g., réchauffement climatique, destruction des habitats), par conséquent, identifier les facteurs structurants, naturels et anthropiques, du fonctionnement des écosystèmes, représente un défi scientifique crucial. L’inhérente complexité de ces milieux diversifiés pose de nombreux problèmes conceptuels et logistiques comme un échantillonnage exhaustif et/ou l’identification des espèces. Les broméliacées à réservoirs sont des écosystèmes miniatures adéquats pour pallier ces difficultés, car elles retiennent de l’eau de pluie et accumulent de la matière organique au creux de leurs feuilles, permettant ainsi de supporter des réseaux trophiques simples d’invertébrés aquatiques. Elles peuvent être échantillonnées exhaustivement, ont une forte abondance locale, et une large aire de répartition. De l’échelle locale à biogéographique, les travaux de cette thèse visent d’abord à comprendre comment ces communautés se structurent en réponse à l’hétérogénéité naturelle des forêts amazoniennes (e.g., ouverture de la canopée, fluctuations climatiques saisonnières), puis tente de prédire, par le biais d’expérimentations in situ et au laboratoire les réponses structurelles et fonctionnelles de ces communautés à divers scénarios de changement climatique. Une attention particulière a été portée sur l’impact de la température et des précipitations sur la physiologie et le comportement d’espèces clefs, et sur les interactions trophiques au sein des communautés.
https://tel.archives-ouvertes.fr/tel-01405025

NNT : 2015YANE0003
tel-01405025
https://tel.archives-ouvertes.fr/tel-01405025
https://tel.archives-ouvertes.fr/tel-01405025/document
https://tel.archives-ouvertes.fr/tel-01405025/file/These-DEZERALD-Diffusion.pdf

Éditeur(s) : HAL CCSD
Résumé :   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
As part of a programme of degraded soils rehabilitation, and in order to follow the biological processes connected with the soils reconstitution, it is a requisite to determine indicators able to account for the evolution of the soil. These indicators can he found on structural and/or functional characteristics of the bacterial communities, such as soil respiration, denitrification or genetic diversity. Theses descriptors are able to characterize the global community or targeted communities chosen for their importance in the ecosystem functioning. In this work, we tried to know whether soil bacteria genetic diversity was able to be a relevant indicator of the soil evolution in a rehabilitated sequence. This diversity is apprehended via a molecular technique: ARISA. A chronosequence situated on a gold mine, already experimented as part of a programme of degraded zones rehabilitation, was at our disposal. Results show that ARISA is a very sensitive technique, able to account for the bacterial community heterogeneity in a soil but unable, at the parcel scale, to discriminate the treatments nor to account for the evolution in lime of planted treatments. Lastly, the advantage of this indicator of genetic diversity may arise from its confrontation to other indicators (functional, for example).
Dans le cadre de la revégétalisation d'un sol dégradé et afin de pouvoir suivre les processus biologiques liés à la reconstitution des sols, il est nécessaire de déterminer des indicateurs pouvant rendre compte de l'évolution de l'état du sol. Ces indicateurs peuvent être fondés sur des caractéristiques fonctionnelles et/ou structurales des communautés bactériennes telles que la respiration, la dénitrification ou la diversité génétique. Ces descripteurs peuvent analyser la communauté globale ou des communautés cibles choisies pour leur importance dans le fonctionnement de l'écosystème. L'objectif de ce stage était de savoir si la diversité génétique des bactéries du sol pouvait être un indicateur de l'évolution des sols au sein d'une séquence de revégétalisation. Cette diversité est appréhendée par une technique de biologie moléculaire : l'ARISA. On dispose d'une chronoséquence située sur une mine d'or étudiée dans le cadre d'un programme de réhabilitation des zones dégradées. Les résultats montrent que l'ARISA est une technique très sensible, qui rend bien compte de l’hétérogénéité des communautés bactériennes présentes dans un sol mais est incapable, à l’échelle de la parcelle, de discriminer ni les traitements ni de rendre compte de l'évolution dans le temps de ces parcelles. Enfin, l'intérêt de cet indicateur de diversité génétique pourra résulter de sa confrontation avec d'autres indicateurs (fonctionnels par exemple).
https://hal.archives-ouvertes.fr/hal-01189155

hal-01189155
https://hal.archives-ouvertes.fr/hal-01189155
PRODINRA : 9464