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De Swaef, T., Bellocchi, G., Aper, J., Lootens, P., & Roldan-Ruiz, I. (2019). Use of identifiability analysis in designing phenotyping experiments for modelling forage production and quality. J. Experim. Bot., 70(9), 2587–2604.
Abstract: Agricultural systems models are complex and tend to be over-parameterized with respect to observational datasets. Practical identifiability analysis based on local sensitivity analysis has proved effective in investigating identifiable parameter sets in environmental models, but has not been applied to agricultural systems models. Here, we demonstrate that identifiability analysis improves experimental design to ensure independent parameter estimation for yield and quality outputs of a complex grassland model. The Pasture Simulation model (PaSim) was used to demonstrate the effectiveness of practical identifiability analysis in designing experiments and measurement protocols within phe-notyping experiments with perennial ryegrass. Virtual experiments were designed combining three factors: frequency of measurements, duration of the experiment. and location of trials. Our results demonstrate that (i) PaSim provides sufficient detail in terms of simulating biomass yield and quality of perennial ryegrass for use in breeding, (ii) typical breeding trials are insufficient to parameterize all influential parameters, (iii) the frequency of measurements is more important than the number of growing seasons to improve the identifiability of PaSim parameters, and (iv) identifiability analysis provides a sound approach for optimizing the design of multi-location trials. Practical identifiability analysis can play an important role in ensuring proper exploitation of phenotypic data and cost-effective multi-location experimental designs. Considering the growing importance of simulation models, this study supports the design of experiments and measurement protocols in the phenotyping networks that have recently been organized.
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Sandor, R., Ehrhardt, F., Grace, P., Recous, S., Smith, P., Snow, V., et al. (2020). Ensemble modelling of carbon fluxes in grasslands and croplands. Field Crops Research, 252, 107791.
Abstract: Croplands and grasslands are agricultural systems that contribute to land–atmosphere exchanges of carbon (C). We evaluated and compared gross primary production (GPP), ecosystem respiration (RECO), net ecosystem exchange (NEE) of CO2, and two derived outputs – C use efficiency (CUE=-NEE/GPP) and C emission intensity (IntC= -NEE/Offtake [grazed or harvested biomass]). The outputs came from 23 models (11 crop-specific, eight grassland-specific, and four models covering both systems) at three cropping sites over several rotations with spring and winter cereals, soybean and rapeseed in Canada, France and India, and two temperate permanent grasslands in France and the United Kingdom. The models were run independently over multi-year simulation periods in five stages (S), either blind with no calibration and initialization data (S1), using historical management and climate for initialization (S2), calibrated against plant data (S3), plant and soil data together (S4), or with the addition of C and N fluxes (S5). Here, we provide a framework to address methodological uncertainties and contextualize results. Most of the models overestimated or underestimated the C fluxes observed during the growing seasons (or the whole years for grasslands), with substantial differences between models. For each simulated variable, changes in the multi-model median (MMM) from S1 to S5 was used as a descriptor of the ensemble performance. Overall, the greatest improvements (MMM approaching the mean of observations) were achieved at S3 or higher calibration stages. For instance, grassland GPP MMM was equal to 1632 g C m−2 yr-1 (S5) while the observed mean was equal to 1763 m-2 yr-1 (average for two sites). Nash-Sutcliffe modelling efficiency coefficients indicated that MMM outperformed individual models in 92.3 % of cases. Our study suggests a cautious use of large-scale, multi-model ensembles to estimate C fluxes in agricultural sites if some site-specific plant and soil observations are available for model calibration. The further development of crop/grassland ensemble modelling will hinge upon the interpretation of results in light of the way models represent the processes underlying C fluxes in complex agricultural systems (grassland and crop rotations including fallow periods).
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Ma, S., Lardy, R., Graux, A. - I., Ben Touhami, H., Klumpp, K., Martin, R., et al. (2015). Regional-scale analysis of carbon and water cycles on managed grassland systems. Env. Model. Softw., 72, 356–371.
Abstract: Predicting regional and global carbon (C) and water dynamics on grasslands has become of major interest, as grasslands are one of the most widespread vegetation types worldwide, providing a number of ecosystem services (such as forage production and C storage). The present study is a contribution to a regional-scale analysis of the C and water cycles on managed grasslands. The mechanistic biogeochemical model PaSim (Pasture Simulation model) was evaluated at 12 grassland sites in Europe. A new parameterization was obtained on a common set of eco-physiological parameters, which represented an improvement of previous parameterization schemes (essentially obtained via calibration at specific sites). We found that C and water fluxes estimated with the parameter set are in good agreement with observations. The model with the new parameters estimated that European grassland are a sink of C with 213 g C m(-2) yr(-1), which is close to the observed net ecosystem exchange (NEE) flux of the studied sites (185 g C m(-2) yr(-1) on average). The estimated yearly average gross primary productivity (GPP) and ecosystem respiration (RECO) for all of the study sites are 1220 and 1006 g C m(-2) yr(-1), respectively, in agreement with observed average GPP (1230 g C m(-2) yr(-1)) and RECO (1046 g C m(-2) yr(-1)). For both variables aggregated on a weekly basis, the root mean square error (RMSE) was similar to 5-16 g C week(-1) across the study sites, while the goodness of fit (R-2) was similar to 0.4-0.9. For evapotranspiration (ET), the average value of simulated ET (415 mmyr(-1)) for all sites and years is close to the average value of the observed ET (451 mm yr(-1)) by flux towers (on a weekly basis, RMSE similar to 2-8 mm week(-1); R-2 = 0.3-0.9). However, further model development is needed to better represent soil water dynamics under dry conditions and soil temperature in winter. A quantification of the uncertainties introduced by spatially generalized parameter values in C and water exchange estimates is also necessary. In addition, some uncertainties in the input management data call for the need to improve the quality of the observational system.
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Leclère, D., Jayet, P. - A., & de Noblet-Ducoudré, N. (2013). Farm-level Autonomous Adaptation of European Agricultural Supply to Climate Change. Ecol. Econ., 87, 1–14.
Abstract: The impact of climate change on European agriculture is subject to a significant uncertainty, which reflects the intertwined nature of agriculture. This issue involves a large number of processes, ranging from field to global scales, which have not been fully integrated yet. In this study, we intend to help bridging this gap by quantifying the effect of farm-scale autonomous adaptations in response to changes in climate. To do so, we use a modelling framework coupling the STICS generic crop model to the AROPAj microeconomic model of European agricultural supply. This study provides a first estimate of the role of such adaptations, consistent at the European scale while detailed across European regions. Farm-scale autonomous adaptations significantly alter the impact of climate change over Europe, by widely alleviating negative impacts on crop yields and gross margins. They significantly increase European production levels. However, they also have an important and heterogeneous impact on irrigation water withdrawals, which exacerbate the differences in ambient atmospheric carbon dioxide concentrations among climate change scenarios. (c) 2012 Elsevier B.V. All rights reserved.
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Müller, C., & Robertson, R. D. (2014). Projecting future crop productivity for global economic modeling. Agric. Econ., 45(1), 37–50.
Abstract: Assessments of climate change impacts on agricultural markets and land-use patterns rely on quantification of climate change impacts on the spatial patterns of land productivity. We supply a set of climate impact scenarios on agricultural land productivity derived from two climate models and two biophysical crop growth models to account for some of the uncertainty inherent in climate and impact models. Aggregation in space and time leads to information losses that can determine climate change impacts on agricultural markets and land-use patterns because often aggregation is across steep gradients from low to high impacts or from increases to decreases. The four climate change impact scenarios supplied here were designed to represent the most significant impacts (high emission scenario only, assumed ineffectiveness of carbon dioxide fertilization on agricultural yields, no adjustments in management) but are consistent with the assumption that changes in agricultural practices are covered in the economic models. Globally, production of individual crops decrease by 10-38% under these climate change scenarios, with large uncertainties in spatial patterns that are determined by both the uncertainty in climate projections and the choice of impact model. This uncertainty in climate impact on crop productivity needs to be considered by economic assessments of climate change.
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