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Microphenomics for Interactions of Barley with Fungal Pathogens

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Genomics of Plant Genetic Resources

Abstract

Current high-throughput plant phenotyping pipelines are mainly focused on quantitative assessment of macroscopic parameters. Such morphological or physiological parameters measured on entire plants or major plant parts are not well adapted to the accurate description of plant-pathogen interactions because plant pathogens are microorganisms causing only microscale changes in their hosts or non-hosts during the initial stages on infection, which often decide about susceptibility or resistance. This makes the use of microscopic phenomics techniques unavoidable. However, the high-throughput requirements of modern phenomics screens represent a considerable challenge to the available microscopic approaches and underlying instruments used to characterize plant-pathogen interactions. To meet this challenge we have developed a platform that combines high-throughput DNA cloning, single cell transformation protocols, and automated microscopy and phenotyping that we called “microphenomics”. It was used to address the function of genes in nonhost- and race-nonspecific host resistance of barley interacting with the powdery mildew fungus Blumeria graminis. More than 1,300 genes derived from plant or fungal genomes were tested by silencing and approximately 100 of them had a significant effect on the resistance or susceptibility to the pathogen. The chapter gives an overview on the current status of this microphenomics platform for very early and early stages of plant-pathogen interactions.

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Acknowledgements

We would like to tank to Aura Navarro-Quezada and Wolfgang Knogge from the Leibniz-Institute of Plant Biochemistry, Department of Stress and Developmental Biology, Weinberg 3, 06120 Halle (Saale), Germany for providing the R. secalis fluorescence microscopy images. We are especially grateful to Stefanie Lück and Gabriele Brantin from IPK for the excellent technical work. Work of own research was supported by IPK (to P.S.), the German Ministry of Education and Research BMBF (to P.S. and U.S.), and by BASF Plant Science GmbH (to P.S.).

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Authors and Affiliations

  1. Leibniz-Institute of Plant Genetics and Crop Plant Research (IPK), Pathogen-Stress Genomics, Corrensstrasse 3, 06466, Gatersleben, Germany

    Dimitar Douchkov & Patrick Schweizer

  2. Fraunhofer-Institute for Factory Operation and Automation (IFF), Biosystems Engineering, Sandtorstrasse 22, 39106, Magdeburg, Germany

    Tobias Baum & Udo Seiffert

  3. Ilmenau University of Technology, Institute for Information Technology, P.O. Box 100565, 98684, Ilmenau, Germany

    Alexander Ihlow

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  1. Dimitar Douchkov
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  2. Tobias Baum
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  4. Patrick Schweizer
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  5. Udo Seiffert
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Correspondence to Dimitar Douchkov .

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Editors and Affiliations

  1. Agricultural Sciences, University of Bologna, Bologna, Italy

    Roberto Tuberosa

  2. Genebank, IPK, Gatersleben, Sachsen-Anhalt, Germany

    Andreas Graner

  3. Bioversity International, Rome, Italy

    Emile Frison

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Douchkov, D., Baum, T., Ihlow, A., Schweizer, P., Seiffert, U. (2014). Microphenomics for Interactions of Barley with Fungal Pathogens. In: Tuberosa, R., Graner, A., Frison, E. (eds) Genomics of Plant Genetic Resources. Springer, Dordrecht. https://doi.org/10.1007/978-94-007-7575-6_5

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