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Van Oijen, M., & Höglind, M. (2016). Toward a Bayesian procedure for using process-based models in plant breeding, with application to ideotype design. Euphytica, 207(3), 627–643.
Abstract: Process-based grassland models (PBMs) simulate growth and development of vegetation over time. The models tend to have a large number of parameters that represent properties of the plants. To simulate different cultivars of the same species, different parameter values are required. Parameter differences may be interpreted as genetic variation for plant traits. Despite this natural connection between PBMs and plant genetics, there are only few examples of successful use of PBMs in plant breeding. Here we present a new procedure by which PBMs can help design ideotypes, i.e. virtual cultivars that optimally combine properties of existing cultivars. Ideotypes constitute selection targets for breeding. The procedure consists of four steps: (1) Bayesian calibration of model parameters using data from cultivar trials, (2) Estimating genetic variation for parameters from the combination of cultivar-specific calibrated parameter distributions, (3) Identifying parameter combinations that meet breeding objectives, (4) Translating model results to practice, i.e. interpreting parameters in terms of practical selection criteria. We show an application of the procedure to timothy (Phleum pratense L.) as grown in different regions of Norway.
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Bellocchi, G., Rivington, M., Matthews, K., & Acutis, M. (2015). Deliberative processes for comprehensive evaluation of agroecological models. A review. Agron. Sust. Developm., 35(2), 589–605.
Abstract: The use of biophysical models in agroecology has increased in the last few decades for two main reasons: the need to formalize empirical knowledge and the need to disseminate model-based decision support for decision makers (such as farmers, advisors, and policy makers). The first has encouraged the development and use of mathematical models to enhance the efficiency of field research through extrapolation beyond the limits of site, season, and management. The second reflects the increasing need (by scientists, managers, and the public) for simulation experimentation to explore options and consequences, for example, future resource use efficiency (i.e., management in sustainable intensification), impacts of and adaptation to climate change, understanding market and policy responses to shocks initiated at a biophysical level under increasing demand, and limited supply capacity. Production concerns thus dominate most model applications, but there is a notable growing emphasis on environmental, economic, and policy dimensions. Identifying effective methods of assessing model quality and performance has become a challenging but vital imperative, considering the variety of factors influencing model outputs. Understanding the requirements of stakeholders, in respect of model use, logically implies the need for their inclusion in model evaluation methods. We reviewed the use of metrics of model evaluation, with a particular emphasis on the involvement of stakeholders to expand horizons beyond conventional structured, numeric analyses. Two major topics are discussed: (1) the importance of deliberative processes for model evaluation, and (2) the role computer-aided techniques may play to integrate deliberative processes into the evaluation of agroecological models. We point out that (i) the evaluation of agroecological models can be improved through stakeholder follow-up, which is a key for the acceptability of model realizations in practice, (ii) model credibility depends not only on the outcomes of well-structured, numerically based evaluation, but also on less tangible factors that may need to be addressed using complementary deliberative processes, (iii) comprehensive evaluation of simulation models can be achieved by integrating the expectations of stakeholders via a weighting system of preferences and perception, (iv) questionnaire-based surveys can help understand the challenges posed by the deliberative process, and (v) a benefit can be obtained if model evaluation is conceived in a decisional perspective and evaluation techniques are developed at the same pace with which the models themselves are created and improved. Scientific knowledge hubs are also recognized as critical pillars to advance good modeling practice in relation to model evaluation (including access to dedicated software tools), an activity which is frequently neglected in the context of time-limited framework programs.
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Wallach, D., Mearns, L. O., Ruane, A. C., Rötter, R. P., & Asseng, S. (2016). Lessons from climate modeling on the design and use of ensembles for crop modeling. Clim. Change, 139(3-4), 551–564.
Abstract: Working with ensembles of crop models is a recent but important development in crop modeling which promises to lead to better uncertainty estimates for model projections and predictions, better predictions using the ensemble mean or median, and closer collaboration within the modeling community. There are numerous open questions about the best way to create and analyze such ensembles. Much can be learned from the field of climate modeling, given its much longer experience with ensembles. We draw on that experience to identify questions and make propositions that should help make ensemble modeling with crop models more rigorous and informative. The propositions include defining criteria for acceptance of models in a crop MME, exploring criteria for evaluating the degree of relatedness of models in a MME, studying the effect of number of models in the ensemble, development of a statistical model of model sampling, creation of a repository for MME results, studies of possible differential weighting of models in an ensemble, creation of single model ensembles based on sampling from the uncertainty distribution of parameter values or inputs specifically oriented toward uncertainty estimation, the creation of super ensembles that sample more than one source of uncertainty, the analysis of super ensemble results to obtain information on total uncertainty and the separate contributions of different sources of uncertainty and finally further investigation of the use of the multi-model mean or median as a predictor.
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Witkowska-Walczak, B., Sławiński, C., Bartmiński, P., Melke, J., & Cymerman, J. (2014). Water conductivity of arctic zone soils (Spitsbergen). International Agrophysics, 28(4), 529–535.
Abstract: The water conductivity of arctic zone soils derived in different micro-relief forms was determined. The greatest water conductivity at the 0-5 cm depth for the higher values of water potentials (> -7 kJ m(-3)) was shown by tundra polygons (Brunic-Turbic Cryosol, Arenic) – 904-0.09 cm day(-1), whereas the lowest were exhibited by Turbic Cryosols – 95-0.05 cm day(-1). Between -16 and -100 kJ m(-3), the water conductivity for tundra polygons rapidly decreased to 0.0001 cm day(-1), whereas their decrease for the other forms was much lower and in consequence the values were 0.007, 0.04, and 0.01 cm day(-1) for the mud boils (Turbic Cryosol (Siltic, Skeletic)), cell forms (Turbic Cryosol (Siltic, Skeletic)), and sorted circles (Turbic Cryosol (Skeletic)), respectively. In the 10-15 cm layer, the shape of water conductivity curves for the higher values of water potentials is nearly the same as for the upper layer. Similarly, the water conductivity is the highest -0.2 cm day(-1) for tundra polygons. For the lower water potentials, the differences in water conductivity increase to the decrease of soil water potential. At the lowest potential the water conductivity is the highest for sorted circles -0.02 cm day(-1) and the lowest in tundra polygons -0.00002 cm day(-1).
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Fan, F., Henriksen, C. B., & Porter, J. (2018). Long-term effects of conversion to organic farming on ecosystem services – a model simulation case study and on-farm case study in Denmark. Agroecology and Sustainable Food Systems, 42(5), 504–529.
Abstract: Organic agriculture aims to produce food while establishing an ecological balance to augment ecosystem services (ES) and has been rapidly expanding in the world since the 1980s. Recently, however, in several European countries, including Denmark, organic farmers have converted back to conventional farming. Hence, understanding how agricultural ES are affected by the number of years since conversion to organic farming is imperative for policy makers to guide future agricultural policy. In order to investigate the long-term effects of conversion to organic farming on ES we performed i) a model simulation case study by applying the Daisy model to simulate 14 different conversion scenarios for a Danish farm during a 65 year period with increasing number of years under organic farming, and ii) an on-farm case study in Denmark with one conventional farm, one organic farm under conversion, and three organic farms converted 10, 15 and 58 years ago, respectively. Both the model simulation case study and the on-farm case study showed that non-marketable ES values increased with increasing number of years under organic farming. Trade-offs between marketable and non-marketable ES were not evident, since also marketable ES values generally showed an increasing trend, except when the price difference between organic and conventional products in the model simulation study was the smallest, and when an alfalfa pre-crop in the on-farm case study resulted in a significantly higher level of plant available nitrogen, which boosted the yield and the associated marketable ES of the subsequent winter rye crop. These results indicate a possible benefit of preserving long-term organic farms and could be used to argue for agricultural policy interventions to offset further reduction in the number of organic farms or the land area under organic farming.
Keywords: Long-term; conversion; economic value; ecosystem services; organic farming; agricultural policytrade-offs; Greenhouse-Gas Emissions; Former Arable Soils; Daisy Model; Crop; Production; Conventional Agriculture; Straw Incorporation; Production; Systems; Nitrogen Dynamics; Climate-Change; Water-Balance
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