Éditeur(s) : HAL CCSD
Résumé : 16 p.
National audience
The objective of this paper is to present an approach for experimenting territorial prospective analysis based on spatial modelling. This approach is carried out in the framework of the DESCARTES project which aims at developing a spatial simulation tool to support the design and analysis of different scenarios for land-use allocation in Reunion Island in terms of environmental services. The spatial modelling tool is composed of two complementary applications: (i) the Ocelet modelling language and its land dynamics simulation environment, and (ii) the Margouill@ platform. The first demonstrator, a model of farm land consumption by urbanization, was developed and presented during workshops in order to test the role of the spatial simulation tool in support of a collaborative innovation process among stakeholders, and to foster new research on social learning, spatial simulation of environmental services, and scale change issues.
L'objectif de cet article est de présenter une démarche de construction d'un exercice de prospective territoriale basé sur un outil de modélisation spatiale. Cette démarche est mise en œuvre dans le cadre du projet ANR DESCARTES dont l'objectif est de construire un outil de simulation cartographique pour analyser différents scénarios d'affectation de l'usage des sols à l'Ile de La Réunion, en termes de services environnementaux. La plateforme de simulation cartographique est composée de deux applications complémentaires (i) le langage de modélisation Ocelet et son environnement de simulation de paysages dynamiques, et (ii) la plateforme Margouill@. Le développement puis la présentation, en atelier, d'un premier démonstrateur sur la consommation des terres agricoles par l'urbanisation a permis de tester l'outil cartographique comme support d'un processus d'innovation collective entre les parties prenantes, et d'ouvrir de nouveaux champs de recherche sur l'analyse de la démarche par les apprentissages, la spatialisation et la simulation prospective des services écosystémiques, et la prise en compte du changement d'échelle.
Acte de la Conférence Internationale de Géomatique et d'Analyse Spatiale
Brest, France

cirad-00850243
http://hal.cirad.fr/cirad-00850243
http://hal.cirad.fr/cirad-00850243/document
http://hal.cirad.fr/cirad-00850243/file/SAGEO-Brest2013-version_finale.pdf

Éditeur(s) : HAL CCSD CRC Press
Résumé : Among the ecosystem services provided by forests, wood provisioning takes a central position. Wood and derived products have played a critical role in the evolution of human kind and demand for raw material is increasing in a foreseeable future. Wood is used for energy production, construction and a wide variety of products for which different properties are required. Anatomical, chemical and physical properties of wood are determined through a complex process called xylogenesis controlled by internal and external signals and occurring during the life of the tree. In this chapter we describe i/how wood is formed and ii/the different factors controlling this developmental process with emphasis on the molecular machinery involved, iii/the functions of wood and iv/the biotechnology approaches developed to improve wood biomass production and properties genetically.
Tree Biotechnology

ISBN : 9781466597143
hal-01204210
https://hal.archives-ouvertes.fr/hal-01204210
PRODINRA : 257126

Éditeur(s) : HAL CCSD Public Library of Science
Résumé : International audience
While the populations of large herbivores are being depleted in many tropical rainforests, the importance of their trophic role in the ecological functioning and biodiversity of these ecosystems is still not well evaluated. This is due to the outstanding plant diversity that they feed upon and the inherent difficulties involved in observing their elusive behaviour. Classically, the diet of elusive tropical herbivores is studied through the observation of browsing signs and macroscopic analysis of faeces or stomach contents. In this study, we illustrate that the original coupling of classic methods with genetic and ethnobotanical approaches yields information both about the diet diversity, the foraging modalities and the potential impact on vegetation of the largest terrestrial mammal of Amazonia, the lowland tapir. The study was conducted in the Guianan shield, where the ecology of tapirs has been less investigated. We identified 92 new species, 51 new genera and 13 new families of plants eaten by tapirs. We discuss the relative contribution of our different approaches, notably the contribution of genetic barcoding, used for the first time to investigate the diet of a large tropical mammal, and how local traditional ecological knowledge is accredited and valuable for research on the ecology of elusive animals.
ISSN: 1932-6203

halsde-00676374
https://hal.archives-ouvertes.fr/halsde-00676374
DOI : 10.1371/journal.pone.0025850
PUBMED : 21991372

Éditeur(s) : Pergamon-elsevier Science Ltd
Résumé : Shrimp farming in New Caledonia typically uses a flow-through system with water exchange rates as a tool to maintain optimum hydrological and biological parameters for the crop. Moreover, the effluent shows hydrobiological characteristics (minerals, phytoplankton biomass and organic matter) significantly higher than that of the receiving environment. Separate surveys were carried out in a bay (CH Bay) with a medium-size intensive farm (30 ha) (PO) and in a mangrove-lined creek (TE Creek) near a larger semi-intensive farm (133 ha) (SO). Net loads of nitrogen exported from the semi-intensive farm and the intensive farm amounted to 0.68 and 1.36 kg ha(-1) day(-1), respectively. At CH Bay, discharge effects were spatially limited and clearly restricted to periods of effluent release. The high residence time at site TE favoured the installation of a feedback system in which organic matter was not exported. Mineralization of organic matter led to the release of nutrients, which in turn, caused in an increased eutrophication of this ecosystem. The study of the pico- and nanophytoplankton assemblages showed (i) a shift in composition from picophytoplankton to nanophytoplankton from offshore towards the coast and (ii) a shift within the picophytoplankton with the disappearance of Prochlorococcus and the increase of picoeucaryotes towards the shoreline. These community changes may partially be related to a nitrogen enrichment of the environment by shrimp farm discharges. Thus, in view of the recent addition of the New Caledonian lagoon to the UNESCO World Heritage list, the data presented here could be a first approach to quantify farm discharges and evaluate their impact on the lagoon. (C) 2010 Elsevier Ltd. All rights reserved.
Marine Pollution Bulletin (0025-326X) (Pergamon-elsevier Science Ltd), 2010 , Vol. 61 , N. 7-12 , P. 387-398

Droits : 2010 Elsevier Ltd All rights reserved.
http://archimer.ifremer.fr/doc/00014/12527/9882.pdf
DOI:10.1016/j.marpolbul.2010.07.005
http://archimer.ifremer.fr/doc/00014/12527/

Résumé : L’importance du rôle des petites agricultures dans les processus de sécurité alimentaire et de souveraineté alimentaire est de plus en plus reconnue. A Sainte-Lucie comme en Martinique, un certain nombre d’acteurs s’engagent officiellement pour une agriculture diversifiée s’appuyant sur les préceptes du développement durable. C’est en tenant compte de ce contexte qu’en partie l’idée de réaliser une étude sur la petite agriculture de Sainte-Lucie et de la Martinique a germé. Aussi, le présent travail se veut-il avant tout une contribution au diagnostic de la petite agriculture face à la modernisation des systèmes agricoles intensifs dans chacune de ces deux îles. Il s’agit de mettre à l’évidence les richesses et les insuffisances de cette petite agriculture, mais aussi les atouts et les contraintes de l’environnement. En grande partie elle prend appui sur le jardin créole, système agricole considéré par bien d’acteurs comme un fondement culturel et une base culturale. Dans chacune des deux îles, beaucoup de petits agriculteurs font de la biodiversité une composante primordiale de la gestion de leurs systèmes agricoles. Les enjeux visés ici portent sur la contribution d’une gestion optimale de cette biodiversité à la promotion des agrosystèmes paysans durables à différentes échelles spatio-temporelles. Dès lors, tout dépend des méthodes d’accompagnement des agriculteurs à mettre en œuvre. Va-t-on poursuivre avec des approches descendantes basées sur la logique de transfert ? Si non, le moment n’est-il pas venu de réunir les conditions pouvant permettre la mise en œuvre des véritables démarches de co-construction ?
The important role of small farmers in the process in food security and of food sovereignty is increasingly recognized. In St. Lucia as in Martinique, a number of actors officially committed to a diverse agriculture based on the precepts of sustainable development. It is in the light on this context that partially, the idea of a study on small holder St Lucia and Martinique germinated. Also, the present work is first and foremost a contribution to the diagnosis of small-scale agriculture to modernization of the intensive agricultural systems in each of these two islands. It is put clearly the richness and the inadequacies of this small scale-agriculture, but also the advantages and constraints of the environment. In large part it builds on the creole garden, agricultural system considered by many actors as a cultural foundation and a base of farming practices. In each of the two islands, many small farmers make biodiversity an essential component of management of their farm systems. The stakes referred here relate to the optimal management contribution of biodiversity to promote sustainable peasant agro-ecosystems at different spatial and temporal scales. Therefore, everything depends on farmer coaching methods to set up. Will we continue with down approaches based on logic of transfer ? Otherwise, isn’t time to create the conditions that could allow the development of real co-construction steps ?

http://www.theses.fr/2015AGUY0866/document

Éditeur(s) : HAL CCSD Wiley-Blackwell Wiley
Résumé : A new record from the heart of the Moroccan Middle Atlas cedar forests spans the last 18 000 years and provides valuable insight into our understanding of the natural vegetation and environmental changes. The approach is based on the study of pollen content, geochemical elements and grain size analysis. The pollen data indicate that the vegetation was dominated by herbaceous plants until 9000 BP. Such open landscape allowed greater soil erosion and an input of chemical elements from the watershed. After 9000 BP, tree cover, mainly oak, increased slightly and was accompanied by a higher taxonomic diversity. However, several steppe elements remain well represented in the area until 5000 BP, which suggests that the climate was rather dry during the first part of the Holocene. After 6000 BP, the climate became more favourable to expansion of the forest ecosystems, including Cedrus atlantica, thereby reducing erosion. A strong reduction of the tree pollen percentages is recorded after 2000 BP, which may be related to increasing human activities during the Roman period. These forest changes are concomitant with an increase of lead and copper concentrations in the record, probably related to Roman metalworking activities.
ISSN: 0267-8179

hal-01122848
https://hal.archives-ouvertes.fr/hal-01122848
DOI : 10.1002/jqs.2708

Éditeur(s) : HAL CCSD HUMANA PRESS INC
Résumé : International audience
Ever since Darwin, the familiar genealogical pattern known as the Tree of Life (TOL) has been prominent in evolutionary thinking and has dominated not only systematics, but also the analysis of the units of evolution. However, recent findings indicate that the evolution of DNA, especially in prokaryotes and such DNA vehicles as viruses and plasmids, does not follow a unique tree-like pattern. Because evolutionary patterns track a greater range of processes than those captured in genealogies, genealogical patterns are in fact only a subset of a broader set of evolutionary patterns. This fact suggests that evolutionists who focus exclusively on genealogical patterns are blocked from providing a significant range of genuine evolutionary explanations. Consequently, we highlight challenges to tree-based approaches, and point the way toward more appropriate methods to study evolution (although we do not present them in technical detail). We argue that there is significant benefit in adopting wider range of models, evolutionary representations, and evolutionary explanations, based on an analysis of the full range of evolutionary processes. We introduce an ecosystem orientation into evolutionary thinking that highlights the importance of ``type 1 coalitions'' (functionally related units with genetic exchanges, aka ``friends with genetic benefits''), ``type 2 coalitions'' (functionally related units without genetic exchanges), ``communal interactions,'' and ``emergent evolutionary properties.'' On this basis, we seek to promote the study of (especially prokaryotic) evolution with dynamic evolutionary networks, which are less constrained than the TOL, and to provide new ways to analyze an expanded range of evolutionary units (genetic modules, recombined genes, plasmids, phages and prokaryotic genomes, pangenomes, microbial communities) and evolutionary processes. Finally, we discuss some of the conceptual and practical questions raised by such network-based representation.
EVOLUTIONARY GENOMICS: STATISTICAL AND COMPUTATIONAL METHODS, VOL 2

ISBN : 978-1-61779-584-8
hal-01544801
https://hal.archives-ouvertes.fr/hal-01544801
DOI : 10.1007/978-1-61779-585-5_4

Résumé : Le maintien de ressources génétiques suffisamment larges est nécessaire pour assurer la viabilité et le potentiel évolutif des populations naturelles. Cette thèse a le principal objectif de caractériser la diversité et la variabilité génétique chez le genre Virola (Myristicaceae) pour décrire les processus évolutifs qui en sont à l'origine. Premièrement,une étude de la régénération d'un échantillonnage exhaustif de V. michelii a été menée dans une parcelle du dispositif expérimental de Paracou ayant subi une exploitation forestière de faible intensité et comparée à une parcelle témoin. La diversité génétique mesurée à partir de marqueurs AFLP (Amplified Fragment-Length Polymorphism, N=229) en zones perturbées s'est révélée être plis grande qu'en zone non-perturbées. Puis, l'adaptation locale a été étudiée à travers ces mêmes individus et certains loci (AFLP) montrent une sélection divergente pour des environnements contrastés, indiquant un signe d'adaptation. Enfin, l'étude des niveaux de divergence génétique chez trois espèces de Virola du bouclier guyanais (V. michelii, V. surinamensis et V. kwatae) montrent que deux d'entre elles (V. surinamensis et V. kwatae) montrent de fortes similarités génétiques malgré leur distribution sur des environnements contrastés. des Flux de gènes intersécifiques ont été mis en évidence chez ces deux espèces-soeurs et l'hypothèse d'une spéciation écologique est avancée. Ce travail a permis d'aborder différents processus évolutifs à l'origine de la diversité génétique actuelle chez ces espèces forestières tropicales et peut fournir une contribution pour appréhender le devenir des populations.
Genetic diversity is an essential component of biodiversity. The maintenance of sufficient genetic resources is needed to ensure the adaptive potential and the viability of natural populations. In the current context of global changes, the study of adaptation in living organisms is a key task, particularly for tropical forest trees that are dominant components (in terms of biomass and as ecological drivers) of some of the most diverse ecosystems on Earth. The main objective of this thesis is to characterize genetic diversity and genetic variability to understand the evolutionary processes that act on them. This ecological-genetic study was carried out at the interspecific and intraspecific level in the Virola genus.If overall high levels of genetic diversity are a guarantee of prosperity for the future of the species, it seems essential to perform studies on the impact of environmental disturbance on genetic diversity. In the first section, the genetic consequences of regeneration dynamics were studied in an exhaustive sample of V. michelii in a low-intensity logging plot and in a control plot at the Paracou experimental site. A greater genetic diversity, measured from AFLP markers (Amplified Fragment Length Polymorphism, N = 229), was found in perturbed areas. Because studying genetic diversity within species may be useful for understanding species adaptation to environmental changes, in the second section. I studied local adaptation in a population of V. michelii on the Paracou experimental site. A genome scan approach with AFLPs (N = 229) was conducted on 77 adult individuals and 401 juveniles to identify genetic differences between populations associated to contrasting conditions for an array of environmental variables. Some loci (N = 2) were found to be subject to divergent selection, indicating adaptation to contrasting habitats.In the third section, the study of levels of genetic divergence in three Virola species of the Guiana Shield (V. michelii, V. surinamensis and V. kwatae) was investigated for nuclear and chloroplast molecular markers. V. surinamensis and V. kwatae showed strong genetic similarities despite their contrasting habitats preferences. Coalescent analyses have revealed, on one hand, a recent divergence between these two species suggesting an ecological speciation, and one the other hand that interspecific gene flow occurs between these sister-species.This work focuses on understanding evolutionary processes shaping genetic diversity and provides a useful contribution for biodiversity conservation programs.

http://www.theses.fr/2011AGUY0480/document