Showing papers by "University of Avignon published in 2015"

Uncertainties in predicting rice yield by current crop models under a wide range of climatic conditions

Abstract: Predicting rice (Oryza sativa) productivity under future climates is important for global food security. Ecophysiological crop models in combination with climate model outputs are commonly used in yield prediction, but uncertainties associated with crop models remain largely unquantified. We evaluated 13 rice models against multi-year experimental yield data at four sites with diverse climatic conditions in Asia and examined whether different modeling approaches on major physiological processes attribute to the uncertainties of prediction to field measured yields and to the uncertainties of sensitivity to changes in temperature and CO2 concentration [CO2]. We also examined whether a use of an ensemble of crop models can reduce the uncertainties. Individual models did not consistently reproduce both experimental and regional yields well, and uncertainty was larger at the warmest and coolest sites. The variation in yield projections was larger among crop models than variation resulting from 16 global climate model-based scenarios. However, the mean of predictions of all crop models reproduced experimental data, with an uncertainty of less than 10% of measured yields. Using an ensemble of eight models calibrated only for phenology or five models calibrated in detail resulted in the uncertainty equivalent to that of the measured yield in well-controlled agronomic field experiments. Sensitivity analysis indicates the necessity to improve the accuracy in predicting both biomass and harvest index in response to increasing [CO2] and temperature.

How is water-use efficiency of terrestrial ecosystems distributed and changing on Earth?

Abstract: A better understanding of ecosystem water-use efficiency (WUE) will help us improve ecosystem management for mitigation as well as adaption to global hydrological change. Here, long-term flux tower observations of productivity and evapotranspiration allow us to detect a consistent latitudinal trend in WUE, rising from the subtropics to the northern high-latitudes. The trend peaks at approximately 51°N, and then declines toward higher latitudes. These ground-based observations are consistent with global-scale estimates of WUE. Global analysis of WUE reveals existence of strong regional variations that correspond to global climate patterns. The latitudinal trends of global WUE for Earth's major plant functional types reveal two peaks in the Northern Hemisphere not detected by ground-based measurements. One peak is located at 20° ~ 30°N and the other extends a little farther north than 51°N. Finally, long-term spatiotemporal trend analysis using satellite-based remote sensing data reveals that land-cover and land-use change in recent years has led to a decline in global WUE. Our study provides a new framework for global research on the interactions between carbon and water cycles as well as responses to natural and human impacts.

Accuracy, robustness and behavior of the STICS soil-crop model for plant, water and nitrogen outputs

Abstract: Soil-crop models are increasingly used as predictive tools to assess yield and environmental impacts of agriculture in a growing diversity of contexts. They are however seldom evaluated at a given time over a wide domain of use. We tested here the performances of the STICS model (v8.2.2) with its standard set of parameters over a dataset covering 15 crops and a wide range of agropedoclimatic conditions in France. Model results showed a good overall accuracy, with little bias. Relative RMSE was larger for soil nitrate (49%) than for plant biomass (35%) and nitrogen (33%) and smallest for soil water (10%). Trends induced by contrasted environmental conditions and management practices were well reproduced. Finally, limited dependency of model errors on crops or environments indicated a satisfactory robustness. Such performances make STICS a valuable tool for studying the effects of changes in agro-ecosystems over the domain explored. STICS v8.2.2 soil-crop model was evaluated over a large and varied dataset using its standard set of parameters.Level of accuracy is 10-50% for plant, soil water and nitrate outputs.Model reproduces well trends arising from contrasted agro-environmental conditions.Errors are weakly dependent on the agro-environmental conditions tested.Model accuracy and robustness is considered good for scenario testing and large scale use within the conditions tested here.

Tyranny of trees in grassy biomes

Abstract: ![Figure][1] Highland grassland in Brazil is considered a forest landscape restoration opportunity PHOTO: G. W. FERNANDES Tree planting, fire suppression, and exclusion of megafaunal herbivores (native or domestic) are ecologically reasonable restoration strategies in deforested landscapes

Solvent-free extraction of food and natural products

Abstract: This review presents useful and green techniques of solvent-free extraction used in ancient times, such as extraction of olive oil and citrus essential oil, and innovative techniques, such as pulsed electric field, microwave, instantaneous controlled pressure drop, and extrusion. We discuss the devices, their applications, mechanisms, and parameters influencing sample preparation prior to analysis of natural products.

Alternative bio-based solvents for extraction of fat and oils: Solubility prediction, global yield, extraction kinetics, chemical composition and cost of manufacturing

Abstract: The present study was designed to evaluate the performance of alternative bio-based solvents, more especially 2-methyltetrahydrofuran, obtained from crop’s byproducts for the substitution of petroleum solvents such as hexane in the extraction of fat and oils for food (edible oil) and non-food (bio fuel) applications. First a solvent selection as well as an evaluation of the performance was made with Hansen Solubility Parameters and the COnductor-like Screening MOdel for Realistic Solvation (COSMO-RS) simulations. Experiments were performed on rapeseed oil extraction at laboratory and pilot plant scale for the determination of lipid yields, extraction kinetics, diffusion modeling, and complete lipid composition in term of fatty acids and micronutrients (sterols, tocopherols and tocotrienols). Finally, economic and energetic evaluations of the process were conducted to estimate the cost of manufacturing using 2-methyltetrahydrofuran (MeTHF) as alternative solvent compared to hexane as petroleum solvent.

Quelle gouvernance pour les réseaux territorialisés d’organisations ?

Abstract: Pour de nombreux specialistes des reseaux territorialises, la question de leur gouvernance se pose de facon critique. Cependant, peu de travaux se sont focalises sur le sujet. Dans un contexte de multiplication de ce type de reseaux et devant les resultats mitiges des diverses experiences menees jusqu’a ce jour, cet article propose une synthese des connaissances et des pistes de formalisation d’une structure de gouvernance territoriale.

Evolutionary processes driving spatial patterns of intraspecific genetic diversity in river ecosystems

Abstract: Describing, understanding and predicting the spatial distribution of genetic diversity is a central issue in biological sciences. In river landscapes, it is generally predicted that neutral genetic diversity should increase downstream, but there have been few attempts to test and validate this assumption across taxonomic groups. Moreover, it is still unclear what are the evolutionary processes that may generate this apparent spatial pattern of diversity. Here, we quantitatively synthesized published results from diverse taxa living in river ecosystems, and we performed a meta-analysis to show that a downstream increase in intraspecific genetic diversity (DIGD) actually constitutes a general spatial pattern of biodiversity that is repeatable across taxa. We further demonstrated that DIGD was stronger for strictly waterborne dispersing than for overland dispersing species. However, for a restricted data set focusing on fishes, there was no evidence that DIGD was related to particular species traits. We then searched for general processes underlying DIGD by simulating genetic data in dendritic-like river systems. Simulations revealed that the three processes we considered (downstream-biased dispersal, increase in habitat availability downstream and upstream-directed colonization) might generate DIGD. Using random forest models, we identified from simulations a set of highly informative summary statistics allowing discriminating among the processes causing DIGD. Finally, combining these discriminant statistics and approximate Bayesian computations on a set of twelve empirical case studies, we hypothesized that DIGD were most likely due to the interaction of two of these three processes and that contrary to expectation, they were not solely caused by downstream-biased dispersal.

Diversity of germination strategies and seed dormancy in herbaceous species of campo rupestre grasslands

Abstract: The effects of fire on the vegetation vary across continents. However, in Neotropical fire-prone grasslands, the relationship between fire and seed germination is still poorly understood, while their regeneration, especially after strong anthropogenic disturbance, is challenging for their conservation. In the present study, we assessed diversity of germination strategies in 15 dominant herbaceous species from Neotropical altitudinal grasslands (locally known as campos rupestres). We exposed seeds to several fire-related treatments. We also compared germination between regularly and post-fire fruiting species. Finally, we investigated the diversity of dormancy classes aiming at better understanding the biogeography and phylogeny of seed dormancy. Germination strategies varied among families. Velloziaceae and Xyridaceae produced non-dormant, fast-germinating seeds. Cyperaceae and Poaceae showed an extremely low or null germination due to a high proportion of unviable or embryo-less seeds. The seeds of campo rupestre grasslands are fire resistant, but there is no evidence that fire triggers germination in this fire-prone ecosystem. Although heat and charred wood did not promote germination, smoke enhanced germination in one grass species and decreased the mean germination time and improved synchrony in Xyridaceae and Velloziaceae. Fire had a positive effect on post-fire regeneration by stimulating fruit set in some Cyperaceae and Poaceae species. These species produced faster germinating seeds with higher germination percentage and synchrony compared to regularly fruiting Cyperaceae and Poaceae species. This strategy of dispersion and regeneration seems to be an alternative to the production of seeds with germination triggered by fire. Physiological dormancy is reported for the first time in several clades of Neotropical plants. Our data help advance the knowledge on the role of fire in the regeneration of Neotropical grasslands.

Leveraging Light Forest With Rateless Network Coding to Design Efficient All-Optical Multicast Schemes for Elastic Optical Networks

Abstract: In this paper, we study the multicast-capable routing, modulation, and spectrum assignment (MC-RMSA) schemes that consider the physical impairments from both the transmission and light splitting in elastic optical networks (EONs). Specifically, we propose to provision each multicast request with a light forest, which consists of one or more light trees to avoid the dilemma that because of the accumulated physical impairments, a relatively large light tree may have to use the lowest modulation level, and, hence, consume too many frequency slots (FS'). In order to further improve the spectral efficiency and compensate for the differential delays among the light trees, we incorporate the rateless network coding (R-NC) in the multicast system. We first formulate an integer linear programming (ILP) model to solve the problem for static network planning. Then, we propose three time-efficient heuristics that leverage the set-cover problem and utilize layered auxiliary graphs. The simulation results indicate that in both the ILP and heuristics, the MC-RMSA with R-NC can achieve better performance on the maximum index of used FS' than that without. After that we evaluate the heuristics in a dynamic network provisioning. The results show that the MC-RMSA with R-NC can effectively improve the performance of all-optical multicast in EONs to reduce the blocking probability.

Decentralized Protection Strategies Against SIS Epidemics in Networks

Abstract: Defining an optimal protection strategy against viruses, spam propagation, or any other kind of contamination process is an important feature for designing new networks and architectures. In this paper, we consider decentralized optimal protection strategies when a virus is propagating over a network through an SIS epidemic process. We assume that each node in the network can fully protect itself from infection at a constant cost, or the node can use recovery software, once it is infected. We model our system using a game-theoretic framework and find pure, mixed equilibria, and the Price of Anarchy in several network topologies. Further, we propose a decentralized algorithm and an iterative procedure to compute a pure equilibrium in the general case of a multiple communities network. Finally, we evaluate the algorithms and give numerical illustrations of all our results.

A Fluorinated Detergent for Membrane‐Protein Applications

Abstract: Surfactants carrying fluorocarbon chains hold great promise as gentle alternatives to conventional hydrocarbon-based detergents for the solubilization and handling of integral membrane proteins. However, their inertness towards lipid bilayer membranes has limited the usefulness of fluorinated surfactants in situations where detergent-like activity is required. We demonstrate that fluorination does not necessarily preclude detergency, as exemplified by a fluorinated octyl maltoside derivative termed F6 OM. This nonionic compound readily interacts with and completely solubilizes phospholipid vesicles in a manner reminiscent of conventional detergents without, however, compromising membrane order at subsolubilizing concentrations. Owing to this mild and unusual mode of detergency, F6 OM outperforms a lipophobic fluorinated surfactant in chaperoning the functional refolding of an integral membrane enzyme by promoting bilayer insertion in the absence of micelles.

Morphological and functional characterisation of the burrow systems of six earthworm species (Lumbricidae)

Abstract: Earthworm burrow systems are generally described based on postulated behaviours associated with the three eco- logical types. In this study, we used X-ray tomography to obtain 3D information on the burrowing behaviour of six very common anecic (Aporrectodea nocturna and Lumbricus terrestris) and endogeic (Aporrectodea rosea, Allolobophora chlorotica, Aporrectodea caliginosa, Aporrectodea icterica) earthworm species, introduced into repacked soil cores for 6 weeks. A simple water infiltration test, the Beerkan method, was also used to assess some functional properties of these burrow systems. Endogeic worms make larger burrow sys- tems, which are more highly branched, less continuous and of smaller diameter, than those of anecic worms. Among the anecic species, L. terrestris burrow systems are shorter (9.2 vs 21.2 m) with a higher number (14.5 vs 23.5) of less branched burrows (12.2 vs 20.2 branches m �1 ), which are also wider (7.78 vs 5.16 mm) than those of A. nocturna .I n comparison, the burrow systems made by endogeic species appeared sim- ilar to each other. However, A. rosea burrows were short and narrow, whereas A. icterica had a longer burrow system (15.7 m), more intense bioturbation intensity (refilled macropores or soil lateral compaction around them) and thus a greater number of burrows. Regarding water infiltration, anecic burrow systems were far more efficient due to open burrows linking the top and bottom of the cores. For endogeic species, we observed a linear relationship between burrow length and the water infiltration rate (R 2 =0.49, p<0.01). Overall, the three main characteristics significantly influenc- ing water infiltration were burrow length, burrow number and bioturbation volume. This last characteristic highlighted the effect of burrow refilling by casts.

Vegetation composition and structure of some Neotropical mountain grasslands in Brazil

Abstract: The description and understanding of plant communities is fundamental for the implementation of conservation or restoration programs, especially when these communities are highly threatened and need to be restored. Campos rupestres, some Neotropical mountain grasslands located in central Brazil and part of the Cerrado biome (covering 2 million km²) host unique plant communities, currently threatened by quarrying and mining. The grassy matrix of campos rupestres, has long been considered a rich mosaic under the control of local topography and the nature of substrate, but this affirmation has not been well studied. We analyzed whether plant communities varied in relation to edaphic factors within the stony substrate and the sandy substrate of this grassy matrix. We selected 5 sites where occur both grasslands on stony substrate and on sandy substrate, and we carried out vegetation surveys and soil analyses. We counted 222 plant species within our communities, among which 38.6% are exclusively found on campos rupestres. Our results show that both soil-types are strongly acidic, nutrient poor and exhibit a seasonal variation. Phosphorus increases and pH and organic carbon decrease during the dry season. Stony soils are slightlyricher in nutrients than sandy soils and differences in soil granulometry and composition have led to the formation of distinct plant communities. Some species are confined to either one or the other grassland-type, which makes the plant composition of each community unique.Variations in edaphic factors generate heterogeneous grasslands favorable to a high plant diversity. Conservation programs and restoration actions have to maintain or recreate this heterogeneity. The presence of distinct plant communities implies that different strategies might be adopted to improve the restoration of these ecosystems.

Alfalfa Leaf Curl Virus: an Aphid-Transmitted Geminivirus

Abstract: The family Geminiviridae comprises seven genera differentiated by genome organization, sequence similarity, and insect vector. Capulavirus, an eighth genus, has been proposed to accommodate two newly discovered highly divergent geminiviruses that presently have no known vector. Alfalfa leaf curl virus, identified here as a third capulavirus, is shown to be transmitted by Aphis craccivora. This is the first report of an aphid-transmitted geminivirus.

The SPARSE model for the prediction of water stress and evapotranspiration components from thermal infra-red data and its evaluation over irrigated and rainfed wheat

Abstract: . Evapotranspiration is an important component of the water cycle, especially in semi-arid lands. A way to quantify the spatial distribution of evapotranspiration and water stress from remote-sensing data is to exploit the available surface temperature as a signature of the surface energy balance. Remotely sensed energy balance models enable one to estimate stress levels and, in turn, the water status of continental surfaces. Dual-source models are particularly useful since they allow derivation of a rough estimate of the water stress of the vegetation instead of that of a soil–vegetation composite. They either assume that the soil and the vegetation interact almost independently with the atmosphere (patch approach corresponding to a parallel resistance scheme) or are tightly coupled (layer approach corresponding to a series resistance scheme). The water status of both sources is solved simultaneously from a single surface temperature observation based on a realistic underlying assumption which states that, in most cases, the vegetation is unstressed, and that if the vegetation is stressed, evaporation is negligible. In the latter case, if the vegetation stress is not properly accounted for, the resulting evaporation will decrease to unrealistic levels (negative fluxes) in order to maintain the same total surface temperature. This work assesses the retrieval performances of total and component evapotranspiration as well as surface and plant water stress levels by (1) proposing a new dual-source model named Soil Plant Atmosphere and Remote Sensing Evapotranspiration (SPARSE) in two versions (parallel and series resistance networks) based on the TSEB (Two-Source Energy Balance model, Norman et al., 1995) model rationale as well as state-of-the-art formulations of turbulent and radiative exchange, (2) challenging the limits of the underlying hypothesis for those two versions through a synthetic retrieval test and (3) testing the water stress retrievals (vegetation water stress and moisture-limited soil evaporation) against in situ data over contrasted test sites (irrigated and rainfed wheat). We demonstrated with those two data sets that the SPARSE series model is more robust to component stress retrieval for this cover type, that its performance increases by using bounding relationships based on potential conditions (root mean square error lowered by up to 11 W m−2 from values of the order of 50–80 W m−2), and that soil evaporation retrieval is generally consistent with an independent estimate from observed soil moisture evolution.

Identifying the Functional Macropore Network Related to Preferential Flow in Structured Soils

Abstract: Understanding the processes and mechanisms that control preferential flow in soils in relation to the properties of their structures is still challenging since fast flow and transport occur in a small fraction of the porosity, that is, the functional macropore network, making it difficult to image and characterize these processes at decimeter scales. The aim of the paper was therefore to propose a new image acquisition and analysis methodology to characterize preferential flow at the core scale and identify the resulting active macropore network. Water infiltration was monitored by a sequence of three-dimensional images (taken at 5-, 10-, or 15-min intervals) with an X-ray scanner that allows very fast acquisitions (10 s for a 135-mm diameter). A simultaneous dye tracer experiment was also conducted. Water infiltration was then imaged at each acquisition time by the voxels impacted by water during infiltration, named the water voxels. The number of times a voxel was impacted by water during the experiment was converted into data reflecting the water detection frequency at the given position in the soil column, named the local detection frequency. Compared with dye staining, the active macropore network was defined by macropores in which water voxels were the most frequently detected during the experiment (local detection frequency above 65%). The geometric properties of this active network, such as the connectivity, were significantly different from those of the total structure. This image processing methodology coupled to dynamic acquisitions can be used to improve the analysis of preferential flow processes related to soil structures at the core scale.

Are folates, carotenoids and vitamin C affected by cooking? Four domestic procedures are compared on a large diversity of frozen vegetables

Abstract: Four home procedures such as boiling in water, steaming, pressure steaming and microwave cooking were tested on 13 frozen vegetables. Folates, carotenoids and vitamin C were characterized on uncooked and cooked vegetables and illustrated a very large variability among the studied vegetables. The effect of cooking was significant but it varied according to vegetables and phytochemicals. The best method to preserve the nutritional quality could be alternatively steaming, microwaving or pressure cooking, whereas boiling was generally the less suitable method. On the fresh weight basis, boiling involved a high loss of total vitamin C (average of −51% on fresh matter) and folates (−68%) and a slight loss of lutein (−15%) and β-carotene (−9%). On the dry weight basis, it remained the less suitable for vitamin C (−44%) and folates (−65%) but not for carotenoids, as it allowed a better extractability of lutein (+9%) and β-carotene (+20%).

Changes in Agricultural Land Use Affecting Future Soil Redistribution Patterns: A Case Study in Southern Tuscany (Italy)

Abstract: Land-use changes (LUCs) can be defined as the result of the direct action of the stakeholders in a particular area and natural or human driving forces. LUCs can influence various processes within the landscape and can have an impact on landscape functions. An analysis of the impact of LUCs on landscape processes can help to focus future rural policies. LUCs in Mediterranean areas particularly affect landscape functions because of their agro-pedoclimatical characteristics. The aims of this work are as follows: (i) to characterise LUCs in the last 11?years in a typical Mediterranean area, the Trasubbie river basin (southern Tuscany, Italy); (ii) to extrapolate these changes and create spatially explicit LUC scenarios for the near future; and (iii) to simulate how and where the predicted LUCs may affect soil redistribution. We carried out an analysis of LUCs within the study area and used the trends to propose alternative scenarios for 2013. For these years, we spatially allocated land use (using the Conversions of Land Use and its Effects model) and used a landscape process model (landscape process modelling at multi-dimensions and scales) to assess soil redistribution patterns. Land use in the study area changed almost linearly between 1996 and 2007, with cereals and annual fodder crops decreasing, and vineyards, perennial pastures and land abandonment increasing. Our LUC scenario extrapolates these dynamics to make predictions for 2013. A comparison of LAPSUS results between LUC and baseline scenarios for 2013 showed an increase in terms of net soil loss and total erosion, and a decrease in terms of sediment delivery ratio.

OPEN ALL NIGHT LONG : the dark side of stomatal control

Abstract: Isolation of Arabidopsis mutants that maintain stomata open all night long credits the existence of dedicated regulators for stomatal closure in darkness