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Gloor, M., Phillips, O. L., Lloyd, J. J., Lewis, S. L., Malhi, Y., Baker, T. R., et al. (2009). Does the disturbance hypothesis explain the biomass increase in basin-wide Amazon forest plot data? Glob. Change Biol., 15(10), 2418–2430.
Abstract: Positive aboveground biomass trends have been reported from old-growth forests across the Amazon basin and hypothesized to reflect a large-scale response to exterior forcing. The result could, however, be an artefact due to a sampling bias induced by the nature of forest growth dynamics. Here, we characterize statistically the disturbance process in Amazon old-growth forests as recorded in 135 forest plots of the RAINFOR network up to 2006, and other independent research programmes, and explore the consequences of sampling artefacts using a data-based stochastic simulator. Over the observed range of annual aboveground biomass losses, standard statistical tests show that the distribution of biomass losses through mortality follow an exponential or near-identical Weibull probability distribution and not a power law as assumed by others. The simulator was parameterized using both an exponential disturbance probability distribution as well as a mixed exponential-power law distribution to account for potential large-scale blowdown events. In both cases, sampling biases turn out to be too small to explain the gains detected by the extended RAINFOR plot network. This result lends further support to the notion that currently observed biomass gains for intact forests across the Amazon are actually occurring over large scales at the current time, presumably as a response to climate change.
Keywords: Amazon rainforest; carbon sink; disturbance; mortality; power law
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Campillo, F., Rakotozafy, R., & Rossi, V. (2009). Parallel and interacting Markov chain Monte Carlo algorithm. Math. Comput. Simul., 79(12), 3424–3433.
Abstract: In many situations it is important to be able to propose N independent realizations of a given distribution law. We propose a strategy for making N parallel Monte Carlo Markov chains (MCMC) interact in order to get an approximation of an independent N-sample of a given target law. In this method each individual chain proposes candidates for all other chains. We prove that the set of interacting chains is itself a MCMC method for the product of N target measures. Compared to independent parallel chains this method is more time consuming. but we show through examples that it possesses many advantages. This approach is applied to a biomass evolution model. (C) 2009 IMACS. Published by Elsevier B.V. All rights reserved.
Keywords: Markov chain Monte Carlo method; Interacting chains; Hidden Markov model
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Seymour, R. S., White, C. R., & Gibernau, M. (2009). Endothermy of dynastine scarab beetles (Cyclocephala colasi) associated with pollination biology of a thermogenic arum lily (Philodendron solimoesense). J. Exp. Biol., 212(18), 2960–2968.
Abstract: Cyclocephala colasi beetles are facultative endotherms that spend most of their adult lives inside the inflorescences of Philodendron solimoesense, where ambient temperature (T-a) averages about 28 degrees C due to floral thermogenesis. Measurements of respiration within a range of T-a showed that active beetles became spontaneously endothermic at T-a below 28 degrees C but were rarely endothermic above it. There was no evidence of endothermy within the inflorescences, indicating that activities in the floral chamber can occur without the high energy expense of endothermy. Bouts of endothermy occurred at lower T-a in respirometer chambers mainly in the evening, when the insects normally fly from one inflorescence to another, and during the night, when they normally eat and mate within the inflorescence. Patterns of endothermy in individual episodes were studied in non-flying beetles with respirometry and infrared thermal imaging. Heat was generated in the thorax by oscillatory waves of respiration that were coupled with thoracic temperature (T-th) increases. Stationary beetles could regulate T-th at about 33 degrees C independently of T-a between 16 and 29 degrees C. At T-a=20 degrees C, this represents a 116-fold increase in metabolic rate over resting, ectothermic values. Endothermy was clearly a requirement for flight, and beetles departing inflorescences warmed to about 30 degrees C before take-off. During flight, T-th was dependent on T-a, decreasing from 37 to 28 degrees C at T-a of 37 to 20 degrees C, respectively. The lowest T-a at which flight could occur was about 20 degrees C. Thermal conductance of stationary, endothermic beetles increased at higher metabolic rates, probably because of increased ventilatory heat loss.
Keywords: beetle; endothermy; pollination biology; Cyclocephala; Philodendron
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Leroy, C., Sabatier, S., Wahyuni, N. S., Barczi, J. F., Dauzat, J., Laurans, M., et al. (2009). Virtual trees and light capture: a method for optimizing agroforestry stand design. Agrofor. Syst., 77(1), 37–47.
Abstract: In agroforestry systems, the distribution of light transmitted under tree canopies can be a limiting factor for the development of intercrops. The light available for intercrops depends on the quantity of light intercepted by tree canopies and, consequently, on the architecture of the tree species present. The influence of tree architecture on light transmission was analysed using dynamic 3D architectural models. The architectural analysis of Acacia mangium and Tectona grandis was performed in Indonesian agroforestry systems with trees aged from 1 to 3 years. 3D virtual trees were then generated with the AmapSim simulation software and 3D virtual experiments in which tree age, planting density, planting pattern and pruning intensity varied were reconstructed in order to simulate light available for the crop. Canopy closure of trees was more rapid in A. mangium than in T. grandis agroforestry systems; after 3 years the quantity of light available for A. mangium intercrops was three times lower than under T. grandis. Simulations with A. mangium showed that practices such as pruning and widening tree spacing enable to increase the total transmitted light within the stand. On T. grandis, modification of the tree row azimuth resulted in changes in the spatial and seasonal distribution of light available for the intercrops. These results are discussed in terms of agroforestry system management.
Keywords: Acacia mangium; Tectona grandis; Agroforestry; Light interception; Plant architecture; Simulation; 3D virtual plant
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Vedel, V., Brena, C., & Arthur, W. (2009). Demonstration of a heritable component of the variation in segment number in the centipede Strigamia maritima. Evol. Dev., 11(4), 434–440.
Abstract: Here we address the question of how arthropod segment number may evolve by reporting the results of further work on the model system Strigamia maritima. Recently, we showed that there was a plastic component of the variation in segment number within this species; now we demonstrate that there is also a heritable component. This is important because it enables a connection to be made between the known latitudinal trend among species of geophilomorph centipedes ( more segments at lower latitudes) and the parallel trend within them. This latter trend is best documented in S. maritima but is also known in several other species. However, while a general connection between the inter- and intraspecific trends can now be made, deciding upon a specific hypothesis of the nature of the selection involved is still problematic. We provide two alternative hypotheses, one based on the temperature-related plasticity in segment number being adaptive, the other based on it being nonadaptive.
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Flores, O., Rossi, V., & Mortier, F. (2009). Autocorrelation offsets zero-inflation in models of tropical saplings density. Ecol. Model., 220(15), 1797–1809.
Abstract: Modelling the local density of tropical saplings can provide insights into the ecological processes that drive species regeneration and thereby help predict population recovery after disturbance. Yet, few studies have addressed the challenging issues in autocorrelation and zero-inflation of local density. This paper presents Hierarchical Bayesian Modelling (HBM) of sapling density that includes these two features. Special attention is devoted to variable selection, model estimation and comparison. We developed a Zero-Inflated Poisson (ZIP) model with a latent correlated spatial structure and compared it with non-spatial ZIP and Poisson models that were either autocorrelated (Spatial Generalized Linear Mixed, SGLM) or not (generalized linear models, GLM). In our spatial models, local density autocorrelation was modeled by a Conditional Auto-Regressive (CAR) process. 13 explicative variables described ecological conditions with respect to topography, disturbance, stand structure and intraspecific processes. Models were applied to six tropical tree species with differing biological attributes: Oxandra asbeckii, Eperua falcata, Eperua grandiflora, Dicorynia guianensis, Qualea rosea, and Tachigali melinonii. We built species-specific models using a simple method of variable selection based on a latent binary indicator. Our spatial models showed a close correlation between observed and estimated densities with site spatial structure being correctly reproduced. By contrast, the non-spatial models showed poor fits. Variable selection highlighted species-specific requirements and susceptibility to local conditions. Model comparison overall showed that the SGLM was the most accurate explanatory and predictive model. Surprisingly, zero-inflated models performed less well. Although the SZIP model was relevant with respect to data distribution, and more flexible with respect to response curves, its model complexity caused marked variability in parameter estimates. In the SUM, the spatial process alone accounted for zero-inflation in the data. A refinement of the hypotheses employed at the process level could compensate for distribution flaws at the data level. This study emphasized the importance of the HBM framework in improving the modelling of density-environment relationships. (C) 2008 Elsevier B.V. All rights reserved.
Keywords: Hierarchical Bayesian Modelling; Conditional Auto-Regressive model; Variable selection; Zero-Inflated Poisson; Posterior predictive; Paracou; French Guiana
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Orivel, J., Grangier, J., Foucaud, J., Le Breton, J., Andres, F. X., Jourdan, H., et al. (2009). Ecologically heterogeneous populations of the invasive ant Wasmannia auropunctata within its native and introduced ranges. Ecol. Entomol., 34(4), 504–512.
Abstract: 1. The biology of most invasive species in their native geographical areas remains largely unknown. Such studies are, however, crucial in shedding light on the ecological and evolutionary processes underlying biological invasions. 2. The present study focuses on the little fire ant Wasmannia auropunctata, a species native to Central and South America that has been widely introduced and which has become invasive throughout the tropics. We characterise and compare several ecological traits of native populations in French Guiana with those in one of its introduced ranges, New Caledonia. 3. We found ecologically heterogeneous populations of W. auropunctata coexisting in the species' native geographical area. First, we found populations restricted to naturally perturbed areas (particularly floodplains) within the primary forest, and absent from the surrounding forest areas. These populations were characterised by low nest and worker densities. Second, we found dominant populations in recent anthropogenic areas (e.g. secondary forest or forest edge along road) characterised by high nest and worker densities, and associated with low ant species richness. The local dominance of W. auropunctata in such areas can be due to the displacement of other species (cause) or the filling-up of empty habitats unsuitable to other ants (effect). With respect to their demographic features and ant species richness, the populations of native anthropogenic habitats were to a large extent similar to the invasive populations introduced into remote areas. 4. The results point to the need for greater research efforts to better understand the ecological and demographic features of invasive species within their native ranges.
Keywords: Biological invasion; disturbance; ecological traits; native; Wasmannia auropunctata
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Prevost-Boure, N. C., Ngao, J., Berveiller, D., Bonal, D., Damesin, C., Dufrene, E., et al. (2009). Root exclusion through trenching does not affect the isotopic composition of soil CO2 efflux. Plant Soil, 319(1-2), 1–13.
Abstract: Disentangling the autotrophic and heterotrophic components of soil CO2 efflux is critical to understanding the role of soil system in terrestrial carbon (C) cycling. In this study, we combined a stable C-isotope natural abundance approach with the trenched plot method to determine if root exclusion significantly affected the isotopic composition (delta C-13) of soil CO2 efflux (R-S). This study was performed in different forest ecosystems: a tropical rainforest and two temperate broadleaved forests, where trenched plots had previously been installed. At each site, R-S and its delta C-13 (delta C-13(Rs)) tended to be lower in trenched plots than in control plots. Contrary to R-S, delta C-13(Rs) differences were not significant. This observation is consistent with the small differences in delta C-13 measured on organic matter from root, litter and soil. The lack of an effect on delta C-13(Rs) by root exclusion could be from the small difference in delta C-13 between autotrophic and heterotrophic soil respirations, but further investigations are needed because of potential artefacts associated with the root exclusion technique.
Keywords: Stable carbon isotopes; Natural abundance; Soil respiration; Trenched plot; Rainforest; Temperate forest
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Kiaer, L. P., Felber, F., Flavell, A., Guadagnuolo, R., Guiatti, D., Hauser, T. P., et al. (2009). Spontaneous gene flow and population structure in wild and cultivated chicory, Cichorium intybus L. Genet. Resour. Crop Evol., 56(3), 405–419.
Abstract: Spontaneous gene flow between wild and cultivated chicory, Cichorium intybus L., may have implications for the genetic structure and evolution of populations and varieties. One aspect of this crop-wild gene flow is the dispersal of transgenes from genetically modified varieties, e.g. gene flow from GM chicory to natural chicory could have unwanted consequences. With the purpose to identify and quantify crop-wild gene flow in chicory, we analysed introgression in 19 wild chicory populations and 16 accessions of chicory varieties and landraces distributed across Northern, Central and Mediterranean Europe. The analysis used 281 AFLP markers and 75 SSAP markers giving a total of 356 polymorphic markers. Results from model based assignments with the program STRUCTURE indicated many incidents of recent gene flow. Gene flow was observed both between cultivars and wild populations, between landraces and wild populations, between different wild populations as well as between cultivars. Population structure visualized by distance-based clustering showed a North-South geographical structuring of the wild populations, and a general grouping of the cultivars corresponding to known origin. The results indicated, however, that the structuring between the two groups of wild and cultivated types was weak. As crop and wild recipients are genetically close and genes are transferred between the two types rather frequently, focus on mitigating crop-wild gene flow should be increased, before transgenic varieties are cultivated openly.
Keywords: AFLP; GM co-existence; Gene dispersal; Introgression; Risk assessment; SSAP
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Marchal, R., Mothe, F., Denaud, L. E., Thibaut, B., & Bleron, L. (2009). Cutting forces in wood machining – Basics and applications in industrial processes. A review COST Action E35 2004-2008: Wood machining – micromechanics and fracture. Holzforschung, 63(2), 157–167.
Abstract: The data available in the literature concerning wood cutting forces permits to build models or to simulate the main wood machining processes ( milling, sawing, peeling, etc.). This approach contributes to a better understanding of formation of wood surfaces and chips and the data may be helpful to optimise cutting geometry, reduce tool wear, improve tool material, and to size tool-machines. The models may also be useful for industrial application in two ways: ( 1) providing data to optimise the settings for a given operation ( batch approach), and ( 2) building predictive models that could be the basis of an online control system for the machining processes ( interactive approach). A prerequisite for this is that numerous machining tests on different wood materials are performed based on experiences with different kind of tools and experimental devices. With a focus on potential industrial applications, the emphasis of this review was on the wood peeling process, which is a very demanding special case of wood cutting. Although not so many industrial machines are equipped with expensive force sensors, there is a lot of high quality information available about cutting forces which may be useful to improve the scientific or technological knowledge in wood machining. Alternative parameters, such as vibration or sound measurements, appear to be promising substitutes in the praxis, particularly to feed online control systems of any wood cutting process.
Keywords: cutting forces; online control; peeling process; physico-mechanical model; sound; vibrations; wood industry; wood machining
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