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Cell type identity determines transcriptomic immune responses in Arabidopsis thaliana roots.

By Charlotte Rich-Griffin, Marco U. Reitz, Ruth Eichmann, Sophie Hermann, Dafyd J Jenkins, Karl-Heinz Kogel, Eddi Esteban, Sascha Ott, Patrick Schäfer

Posted 16 Apr 2018
bioRxiv DOI: 10.1101/302448

Root pathogens are a major threat in global crop production and protection strategies are required to sustainably enhance the efficiency of root immunity. Our understanding of root immunity is still limited relative to our knowledge of immune responses in leaves. In an effort to reveal the organisation of root immunity in roots, we undertook a cell type-specific transcriptome analysis to identify gene networks in epidermis, cortex and pericycle cells of Arabidopsis thaliana roots upon treatment with two immunity elicitors, the bacterial microbe- associated molecular pattern flagellin, and the endogenous damage-associated molecular pattern Pep1. Our analyses revealed that both elicitors induced cell type- specific immunity gene networks. Interestingly, both elicitors did not alter cell identity determining gene networks. Using sophisticated paired motif promoter analyses, we identified key transcription factor pairs involved in the regulation of cell type-specific immunity networks. In addition, our data show that cell identity networks integrate with cell immunity networks to activate cell type-specific immune response according to the functional capabilities of each cell type.

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