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Marcon, E. |
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Entropy as a common measure of biodiversity and the spatial structure of economic activity |
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Journal Article |
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2019 |
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Revue Economique |
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Rev. Econ. |
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70 |
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3 |
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305-326 |
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Diversity; Economic geography; Spatial concentration; Specialization |
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Measures of spatial concentration and specialization in economics are similar to those of biodiversity and ubiquity of species in ecology. Entropy is the fundamental tool that originated in statistical physics and information theory. The definition of number equivalents or effective numbers, that is the number of types in an ideal, simplified distribution, is introduced along with the partitioning of the joint diversity of a bi-dimensional distribution into absolute and relative concentration or specialization and replication. The whole framework is theoretically robust and allows measuring the spatial structure of a discrete space. |
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AgroParisTech, UMR Écologie des forêts de Guyane, CNRS, Cirad, INRA, Université des Antilles, Université de Guyane, Campus Agronomique, BP 701, Kourou, 97310, French Guiana |
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Presses de Sciences Po |
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00352764 (Issn) |
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EcoFoG @ webmaster @ |
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912 |
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Mortier, F.; Rossi, V.; Guillot, G.; Gourlet-Fleury, S.; Picard, N. |
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Population dynamics of species-rich ecosystems: The mixture of matrix population models approach |
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Journal Article |
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2013 |
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Methods in Ecology and Evolution |
Abbreviated Journal |
Methods Ecol. Evol. |
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4 |
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4 |
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316-326 |
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Bayesian; Clustering; Mixture models; Population dynamics; Reversible jump Markov chain Monte Carlo; Species-rich ecosystems; Tropical rain forests |
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Matrix population models are widely used to predict population dynamics, but when applied to species-rich ecosystems with many rare species, the small population sample sizes hinder a good fit of species-specific models. This issue can be overcome by assigning species to groups to increase the size of the calibration data sets. However, the species classification is often disconnected from the matrix modelling and from the estimation of matrix parameters, thus bringing species groups that may not be optimal with respect to the predicted community dynamics. We proposed here a method that jointly classified species into groups and fit the matrix models in an integrated way. The model was a special case of mixture with unknown number of components and was cast in a Bayesian framework. An MCMC algorithm was developed to infer the unknown parameters: the number of groups, the group of each species and the dynamics parameters. We applied the method to simulated data and showed that the algorithm efficiently recovered the model parameters. We applied the method to a data set from a tropical rain forest in French Guiana. The mixture matrix model classified tree species into well-differentiated groups with clear ecological interpretations. It also accurately predicted the forest dynamics over the 16-year observation period. Our model and algorithm can straightforwardly be adapted to any type of matrix model, using the life cycle diagram. It can be used as an unsupervised classification technique to group species with similar population dynamics. © 2012 The Authors. Methods in Ecology and Evolution © 2012 British Ecological Society. |
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Statistics Section IMM, Technical University of Denmark, Copenhagen, Denmark |
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2041210x (Issn) |
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Export Date: 16 April 2013; Source: Scopus; :doi 10.1111/2041-210x.12019; Language of Original Document: English; Correspondence Address: Mortier, F.; CIRAD, UPR Bsef, Montpellier, 34398, France; email: frederic.mortier@cirad.fr |
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EcoFoG @ webmaster @ |
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480 |
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Fayad, I.; Baghdadi, N.; Guitet, S.; Bailly, J.-S.; Herault, B.; Gond, V.; El Hajj, M.; Tong Minh, D.H. |
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Aboveground biomass mapping in French Guiana by combining remote sensing, forest inventories and environmental data |
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Journal Article |
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2016 |
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International Journal of Applied Earth Observation and Geoinformation |
Abbreviated Journal |
International Journal of Applied Earth Observation and Geoinformation |
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52 |
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502-514 |
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Aboveground biomass mapping; Forests; French Guiana; ICESat GLAS; LiDAR |
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Mapping forest aboveground biomass (AGB) has become an important task, particularly for the reporting of carbon stocks and changes. AGB can be mapped using synthetic aperture radar data (SAR) or passive optical data. However, these data are insensitive to high AGB levels (>150 Mg/ha, and >300 Mg/ha for P-band), which are commonly found in tropical forests. Studies have mapped the rough variations in AGB by combining optical and environmental data at regional and global scales. Nevertheless, these maps cannot represent local variations in AGB in tropical forests. In this paper, we hypothesize that the problem of misrepresenting local variations in AGB and AGB estimation with good precision occurs because of both methodological limits (signal saturation or dilution bias) and a lack of adequate calibration data in this range of AGB values. We test this hypothesis by developing a calibrated regression model to predict variations in high AGB values (mean >300 Mg/ha) in French Guiana by a methodological approach for spatial extrapolation with data from the optical geoscience laser altimeter system (GLAS), forest inventories, radar, optics, and environmental variables for spatial inter- and extrapolation. Given their higher point count, GLAS data allow a wider coverage of AGB values. We find that the metrics from GLAS footprints are correlated with field AGB estimations (R2 = 0.54, RMSE = 48.3 Mg/ha) with no bias for high values. First, predictive models, including remote-sensing, environmental variables and spatial correlation functions, allow us to obtain “wall-to-wall” AGB maps over French Guiana with an RMSE for the in situ AGB estimates of ∼50 Mg/ha and R2 = 0.66 at a 1-km grid size. We conclude that a calibrated regression model based on GLAS with dependent environmental data can produce good AGB predictions even for high AGB values if the calibration data fit the AGB range. We also demonstrate that small temporal and spatial mismatches between field data and GLAS footprints are not a problem for regional and global calibrated regression models because field data aim to predict large and deep tendencies in AGB variations from environmental gradients and do not aim to represent high but stochastic and temporally limited variations from forest dynamics. Thus, we advocate including a greater variety of data, even if less precise and shifted, to better represent high AGB values in global models and to improve the fitting of these models for high values. © 2016 Elsevier B.V. |
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NOVELTIS, 153 rue du Lac, Labège, France |
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Export Date: 9 December 2016 |
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EcoFoG @ webmaster @ |
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699 |
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Talaga, S.; Dezerald, O.; Carteron, A.; Petitclerc, F.; Leroy, C.; Céréghino, R.; Dejean, A. |
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Tank bromeliads as natural microcosms: A facultative association with ants influences the aquatic invertebrate community structure |
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Journal Article |
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2015 |
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Comptes Rendus – Biologies |
Abbreviated Journal |
Comptes Rendus – Biologies |
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338 |
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10 |
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696-700 |
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Aechmea; Ant-bromeliad associations; Aquatic communities; Odontomachus; Phytotelm |
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Many tank bromeliads have facultative relationships with ants as is the case in French Guiana between Aechmea aquilega (Salib.) Griseb. and the trap-jaw ant, Odontomachus haematodus Linnaeus. Using a redundancy analysis, we determined that the presence of O. haematodus colonies is accompanied by a greater quantity of fine particulate organic matter in the water likely due to their wastes. This increase in nutrient availability is significantly correlated with an increase in the abundance of some detritivorous taxa, suggesting a positive bottom-up influence on the aquatic macroinvertebrate communities living in the A. aquilega wells. On the other hand, the abundance of top predators is negatively affected by a lower number of available wells due to ant constructions for nesting, releasing a top-down pressure that could also favor lower trophic levels. © 2015 Académie des sciences. |
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CNRS, Ecolab (UMR-CNRS 5245), 118, route de Narbonne, Toulouse, France |
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Export Date: 2 October 2015 |
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EcoFoG @ webmaster @ |
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627 |
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Pavoine, S.; Marcon, E.; Ricotta, C. |
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‘Equivalent numbers’ for species, phylogenetic or functional diversity in a nested hierarchy of multiple scales |
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Journal Article |
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2016 |
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Methods in Ecology and Evolution |
Abbreviated Journal |
Methods in Ecology and Evolution |
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7 |
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10 |
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1152-1163 |
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alpha diversity; beta diversity; biodiversity; community ecology; community phylogenetics; diversity apportionment; gamma diversity; quadratic entropy |
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Many recent studies have searched to integrate species’ functions and phylogenies in the measurement of biodiversity. To obtain easily interpretable measures, some researchers recommended diversity indices expressed in terms of equivalent numbers of species: the number of equally likely and maximally dissimilar species needed to produce the given value of diversity. Then, biodiversity is often calculated at three scales: within communities (α diversity), among communities (β diversity) and in a region (γ diversity). These three scales are, however, insufficient to tackle the organization of biodiversity in space because, for most organisms, there is a nested hierarchy of multiple scales characterized by different patterns and processes, from the small neighbourhood to the biosphere. We developed methodologies for analysing species, functional, taxonomic or phylogenetic diversity in a hierarchy of multiple scales using equivalent numbers of species. As an example, we analysed the taxonomic and functional diversity of macroinvertebrate assemblages in the Loire River, France, at four levels: within sites (α diversity), among sites within geological regions (β1 diversity), among geological regions (β2 diversity) and at the river scale (γ diversity). The new hierarchical approaches of biodiversity revealed very low differences among sites within regions and among regions in terms of taxonomy and functional traits (size and diet), despite moderate, significant species turnover among geological regions. We compare our framework with those other authors have developed. We argue that different definitions of α, β, γ diversities are used in the literature reflecting different points of view on biodiversity. We make recommendations on how to normalize functional (or phylogenetic) dissimilarities among species to render sites and regions comparable, and discuss the pros and cons of our approach. The hierarchical approaches of biodiversity in terms of ‘equivalent numbers’ respond to current demands to obtain intuitive, easily interpretable components of biodiversity. The approaches we propose go beyond current developments by considering a hierarchy of spatial scales and unbalanced sampling design. They will provide powerful tools to detect the ecological and evolutionary processes that act differently at different scales. © 2016 The Authors. Methods in Ecology and Evolution © 2016 British Ecological Society |
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Department of Environmental Biology, University of Rome ‘La Sapienza’, Piazzale Aldo Moro 5, Rome, Italy |
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Export Date: 20 October 2016 |
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EcoFoG @ webmaster @ |
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697 |
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Rodrigues, A.M.S.; Eparvier, V.; Odonne, G.; Amusant, N.; Stien, D.; Houël, E. |
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The antifungal potential of (Z)-ligustilide and the protective effect of eugenol demonstrated by a chemometric approach |
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Journal Article |
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2019 |
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Scientific Reports |
Abbreviated Journal |
Sci. Rep. |
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9 |
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8729 |
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Mankind is on the verge of a postantibiotic era. New concepts are needed in our battle to attenuate infectious diseases around the world and broad spectrum plant-inspired synergistic pharmaceutical preparations should find their place in the global fight against pathogenic microorganisms. To progress towards the discovery of potent antifungal agents against human pathologies, we embarked upon developing chemometric approach coupled with statistical design to unravel the origin of the anticandidal potential of a set of 66 essential oils (EOs). EOs were analyzed by GC-MS and tested against Candida albicans and C. parapsilosis (Minimal Inhibitory Concentration, MIC). An Orthogonal Partial Least Square (OPLS) analysis allowed us to identify six molecules presumably responsible for the anticandidal activity of the oils: (Z)-ligustilide, eugenol, eugenyl acetate, citral, thymol, and β-citronellol. These compounds were combined following a full factorial experimental design approach in order to optimize the anticandidal activity and selectivity index (SI = IC50(MRC5 cells)/MIC) through reconstituted mixtures. (Z)-Ligustilide and citral were the most active compounds, while (Z)-ligustilide and eugenol were the two main factors that most contributed to the increase of the SI. These two terpenes can, therefore, be used to construct bioinspired synergistic anticandidal mixtures. © 2019, The Author(s). |
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CNRS, UMR EcoFoG, AgroParisTech, Cirad, INRA, Université des Antilles, Université de Guyane, Cayenne, 97300, France |
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Nature Publishing Group |
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20452322 (Issn) |
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EcoFoG @ webmaster @ |
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876 |
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Tysklind, N.; Blanc-Jolivet, C.; Mader, M.; Meyer-Sand, B.R.V.; Paredes-Villanueva, K.; Honorio Coronado, E.N.; García-Dávila, C.R.; Sebbenn, A.M.; Caron, H.; Troispoux, V.; Guichoux, E.; Degen, B. |
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Development of nuclear and plastid SNP and INDEL markers for population genetic studies and timber traceability of Carapa species |
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2019 |
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Conservation Genetics Resources |
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Conserv. Gen. Res. |
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11 |
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3 |
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337-339 |
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Carapa guianensis; Carapa surinamensis; DNA-fingerprints; Geographical origin; MassARRAY; MiSeq; RADSeq; Tropical timber |
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Low coverage MiSeq genome sequencing and restriction associated DNA sequencing (RADseq) were used to identify nuclear and plastid SNP and INDEL genetic markers in Carapa guianensis. 261 genetic markers including 237 nuclear SNPs, 22 plastid SNPs, and 2 plastid INDELs are described based on 96 genotyped individuals from French Guiana, Brazil, Peru, and Bolivia. The best 117 SNPs for identifying population structure and performing individual assignment are assembled into four multiplexes for MassARRAY genotyping. |
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BIOGECO, INRA, University Bordeaux, Cestas, 33610, France |
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Springer Netherlands |
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18777252 (Issn) |
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EcoFoG @ webmaster @ |
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909 |
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Hiltner, Ulrike ; Huth, Andreas ; Hérault, Bruno ; Holtmann, Anne ; Brauning, Achim ; Fischer, Rico |
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Climate change alters the ability of neotropical forests to provide timber and sequester carbon |
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2021 |
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Forest Ecology and Management |
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492 |
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119166 |
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Exploitation forestière ; Changement climatique ; séquestration du carbone ; Production du bois ; Atténuation des effets du changement climatique ; gestion forestière durable ; forêt tropicale ; Région néotropicale ; Biomasse ; biomasse aérienne des arbres ; gestion de la santé des forêts ; modèle de croissance forestière ; biodiversité forestière |
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Logging is widespread in tropical regions, with approximately 50% of all humid tropical forests (1.73 × 109 ha) regarded as production forests. To maintain the ecosystem functions of carbon sequestration and timber supply in tropical production forests over a long term, forest management must be sustainable under changing climate conditions. Individual-based forest models are useful tools to enhance our understanding about the long-term effects of harvest and climate change on forest dynamics because they link empirical field data with simulations of ecological processes. The objective of this study is to analyze the combined effects of selective logging and climate change on biomass stocks and timber harvest in a tropical forest in French Guiana. By applying a forest model, we simulated natural forest dynamics under the baseline scenario of current climate conditions and compared the results with scenarios of selective logging under climate change. The analyses revealed how substantially forest dynamics are altered
under different scenarios of climate change. (1) Repeated logging within recovery times decreased biomass and timber harvest, irrespective of the intensity of climate change. (2) With moderate climate change as envisaged by the 5th IPCC Assessment Report (representative concentration pathway 2.6), the average biomass remained the same as in the baseline scenario (−1%), but with intensive climate change (RCP 8.5), the average biomass decreased by 12%. (3) The combination of selective logging and climate change increased the likelihood of changes in forest dynamics, driven mainly by rising temperatures. Under RCP 8.5, the average timber harvest was almost halved, regardless of the logging cycle applied. An application-oriented use of forest models will help to identify opportunities to reduce the effects of unwanted ecosystem changes in a changing environment. To ensure that ecosystem functions in production forests are maintained under climate change conditions, appropriate management strategies will help to maintain biomass and harvest in production forests. |
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Elsevier B.V. |
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1016 |
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Vleminckx, J.; Schimann, H.; Decaëns, T.; Fichaux, M.; Vedel, V.; Jaouen, G.; Roy, M.; Lapied, E.; Engel, J.; Dourdain, A.; Petronelli, P.; Orivel, J.; Baraloto, C. |
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Coordinated community structure among trees, fungi and invertebrate groups in Amazonian rainforests |
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2019 |
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Scientific Reports |
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Sci. Rep. |
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9 |
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11337 |
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Little is known regarding how trophic interactions shape community assembly in tropical forests. Here we assess multi-taxonomic community assembly rules using a rare standardized coordinated inventory comprising exhaustive surveys of five highly-diverse taxonomic groups exerting key ecological functions: trees, fungi, earthworms, ants and spiders. We sampled 36 1.9-ha plots from four remote locations in French Guiana including precise soil measurements, and we tested whether species turnover was coordinated among groups across geographic and edaphic gradients. All species group pairs exhibited significant compositional associations that were independent from soil conditions. For some of the pairs, associations were also partly explained by soil properties, especially soil phosphorus availability. Our study provides evidence for coordinated turnover among taxonomic groups beyond simple relationships with environmental factors, thereby refining our understanding regarding the nature of interactions occurring among these ecologically important groups. © 2019, The Author(s). |
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CIRAD, UMR Ecologie des Forêts de Guyane, Campus agronomique, BP 316, Kourou Cedex, 97379, France |
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Nature Publishing Group |
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EcoFoG @ webmaster @ |
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879 |
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Dezerald, O.; Leroy, C.; Corbara, B.; Carrias, J.-F.; Pélozuelo, L.; Dejean, A.; Céréghino, R. |
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Food-Web Structure in Relation to Environmental Gradients and Predator-Prey Ratios in Tank-Bromeliad Ecosystems |
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2013 |
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PLoS ONE |
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PLoS ONE |
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8 |
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8 |
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e71735 |
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Little is known of how linkage patterns between species change along environmental gradients. The small, spatially discrete food webs inhabiting tank-bromeliads provide an excellent opportunity to analyse patterns of community diversity and food-web topology (connectance, linkage density, nestedness) in relation to key environmental variables (habitat size, detrital resource, incident radiation) and predators:prey ratios. We sampled 365 bromeliads in a wide range of understorey environments in French Guiana and used gut contents of invertebrates to draw the corresponding 365 connectance webs. At the bromeliad scale, habitat size (water volume) determined the number of species that constitute food-web nodes, the proportion of predators, and food-web topology. The number of species as well as the proportion of predators within bromeliads declined from open to forested habitats, where the volume of water collected by bromeliads was generally lower because of rainfall interception by the canopy. A core group of microorganisms and generalist detritivores remained relatively constant across environments. This suggests that (i) a highly-connected core ensures food-web stability and key ecosystem functions across environments, and (ii) larger deviations in food-web structures can be expected following disturbance if detritivores share traits that determine responses to environmental changes. While linkage density and nestedness were lower in bromeliads in the forest than in open areas, experiments are needed to confirm a trend for lower food-web stability in the understorey of primary forests. © 2013 Dézerald et al. |
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EcoLab, Laboratoire Ecologie Fonctionnelle et Environnement, CNRS UMR 5245, Toulouse, France |
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Export Date: 30 August 2013; Source: Scopus; Art. No.: e71735; Coden: Polnc; doi: 10.1371/journal.pone.0071735; Language of Original Document: English; Correspondence Address: Dézerald, O.; EcoFoG, Ecologie des Forêts de Guyane, CNRS UMR 8172, Kourou, France; email: olivier.dezerald@gmail.com |
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