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Webber, H., Ewert, F., Kimball, B. A., Siebert, S., White, J. W., Wall, G. W., et al. (2016). Simulating canopy temperature for modelling heat stress in cereals. Env. Model. Softw., 77, 143–155.
Abstract: Crop models must be improved to account for the effects of heat stress events on crop yields. To date, most approaches in crop models use air temperature to define heat stress intensity as the cumulative sum of thermal times (TT) above a high temperature threshold during a sensitive period for yield formation. However, observational evidence indicates that crop canopy temperature better explains yield reductions associated with high temperature events than air temperature does. This study presents a canopy level energy balance using Monin ObukhovSimilarity Theory (MOST) with simplifications about the canopy resistance that render it suitable for application in crop models and other models of the plant environment. The model is evaluated for a uniform irrigated wheat canopy in Arizona and rainfed maize in Burkina Faso. No single variable regression relationships for key explanatory variables were found that were consistent across sowing dates to explain the deviation of canopy temperature from air temperature. Finally, thermal times determined with simulated canopy temperatures were able to reproduce thermal times calculated with observed canopy temperature, whereas those determined with air temperatures were not. (C) 2015 Elsevier Ltd. All rights reserved.
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Brylińska, M., Sobkowiak, S., Stefańczyk, E., & Śliwka, J. (2016). Potato cultivation system affects population structure of Phytophthora infestans. Fungal Ecology, 20, 132–143.
Abstract: Phytophthora infestans is one of the most destructive potato pathogens. Many factors influence the population structure of P. infestans, including migration, climate and type of potato cultivation. Here, we analyse 365 P. infestans isolates collected from three regions of Poland over three years. We determined mating type, mitochondrial haplotype, resistance to metalaxyl, virulence and polymorphism at 14 simple sequence repeat (SSR) loci. Analysis of SSR markers showed high genetic diversity associated with this population. Model-based structure analysis grouped 299 unique genotypes into four main clusters. The P. infestans isolates collected from the Mlochow region, which has the most intensive level of potato cultivation, formed a distinct cluster, indicating a strong effect of the cultivation system on pathogen population structure. Three clusters contained isolates with frequent presence of three alleles at one locus, which may affect their capacity for sexual reproduction and preserve groups of fit genotypes that propagate asexually. (C) 2016 Elsevier Ltd and The British Mycological Society.
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van Bussel, L. G. J., Ewert, F., Zhao, G., Hoffmann, H., Enders, A., Wallach, D., et al. (2016). Spatial sampling of weather data for regional crop yield simulations. Agricultural and Forest Meteorology, 220, 101–115.
Abstract: Field-scale crop models are increasingly applied at spatio-temporal scales that range from regions to the globe and from decades up to 100 years. Sufficiently detailed data to capture the prevailing spatio-temporal heterogeneity in weather, soil, and management conditions as needed by crop models are rarely available. Effective sampling may overcome the problem of missing data but has rarely been investigated. In this study the effect of sampling weather data has been evaluated for simulating yields of winter wheat in a region in Germany over a 30-year period (1982-2011) using 12 process-based crop models. A stratified sampling was applied to compare the effect of different sizes of spatially sampled weather data (10, 30, 50,100, 500, 1000 and full coverage of 34,078 sampling points) on simulated wheat yields. Stratified sampling was further compared with random sampling. Possible interactions between sample size and crop model were evaluated. The results showed differences in simulated yields among crop models but all models reproduced well the pattern of the stratification. Importantly, the regional mean of simulated yields based on full coverage could already be reproduced by a small sample of 10 points. This was also true for reproducing the temporal variability in simulated yields but more sampling points (about 100) were required to accurately reproduce spatial yield variability. The number of sampling points can be smaller when a stratified sampling is applied as compared to a random sampling. However, differences between crop models were observed including some interaction between the effect of sampling on simulated yields and the model used. We concluded that stratified sampling can considerably reduce the number of required simulations. But, differences between crop models must be considered as the choice for a specific model can have larger effects on simulated yields than the sampling strategy. Assessing the impact of sampling soil and crop management data for regional simulations of crop yields is still needed.
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Bannink, A., van Lingen, H. J., Ellis, J. L., France, J., & Dijkstra, J. (2016). The contribution of mathematical modeling to understanding dynamic aspects of rumen metabolism. Frontiers in Microbiology, 7, 1820.
Abstract: All mechanistic rumen models cover the main drivers of variation in rumen function, which are feed intake, the differences between feedstuffs and feeds in their intrinsic rumen degradation characteristics, and fractional outflow rate of fluid and particulate matter. Dynamic modeling approaches are best suited to the prediction of more nuanced responses in rumen metabolism, and represent the dynamics of the interactions between substrates and micro-organisms and inter-microbial interactions. The concepts of dynamics are discussed for the case of rumen starch digestion as influenced by starch intake rate and frequency of feed intake, and for the case of fermentation of fiber in the large intestine. Adding representations of new functional classes of micro-organisms (i.e., with new characteristics from the perspective of whole rumen function) in rumen models only delivers new insights if complemented by the dynamics of their interactions with other functional classes. Rumen fermentation conditions have to be represented due to their profound impact on the dynamics of substrate degradation and microbial metabolism. Although the importance of rumen pH is generally acknowledged, more emphasis is needed on predicting its variation as well as variation in the processes that underlie rumen fluid dynamics. The rumen wall has an important role in adapting to rapid changes in the rumen environment, clearing of volatile fatty acids (VFA), and maintaining rumen pH within limits. Dynamics of rumen wall epithelia and their role in VFA absorption needs to be better represented in models that aim to predict rumen responses across nutritional or physiological states. For a detailed prediction of rumen N balance there is merit in a dynamic modeling approach compared to the static approaches adopted in current protein evaluation systems. Improvement is needed on previous attempts to predict rumen VFA profiles, and this should be pursued by introducing factors that relate more to microbial metabolism. For rumen model construction, data on rumen microbiomes are preferably coupled with knowledge consolidated in rumen models instead of relying on correlations with rather general aspects of treatment or animal. This helps to prevent the disregard of basic principles and underlying mechanisms of whole rumen function.
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Schauberger, B., Rolinski, S., & Müller, C. (2016). A network-based approach for semi-quantitative knowledge mining and its application to yield variability. Environ. Res. Lett., 11(12), 123001.
Abstract: Variability of crop yields is detrimental for food security. Under climate change its amplitude is likely to increase, thus it is essential to understand the underlying causes and mechanisms. Crop models are the primary tool to project future changes in crop yields under climate change. Asystematic overview of drivers and mechanisms of crop yield variability (YV) can thus inform crop model development and facilitate improved understanding of climate change impacts on crop yields. Yet there is a vast body of literature on crop physiology and YV, which makes a prioritization of mechanisms for implementation in models challenging. Therefore this paper takes on a novel approach to systematically mine and organize existing knowledge from the literature. The aim is to identify important mechanisms lacking in models, which can help to set priorities in model improvement. We structure knowledge from the literature in a semi-quantitative network. This network consists of complex interactions between growing conditions, plant physiology and crop yield. We utilize the resulting network structure to assign relative importance to causes of YV and related plant physiological processes. As expected, our findings confirm existing knowledge, in particular on the dominant role of temperature and precipitation, but also highlight other important drivers of YV. More importantly, our method allows for identifying the relevant physiological processes that transmit variability in growing conditions to variability in yield. We can identify explicit targets for the improvement of crop models. The network can additionally guide model development by outlining complex interactions between processes and by easily retrieving quantitative information for each of the 350 interactions. We show the validity of our network method as a structured, consistent and scalable dictionary of literature. The method can easily be applied to many other research fields.
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