Integrated Transcriptomic and Metabolomic Analysis Reveals the Regulation Network of CEBiP in Rice Defense Against...

Rice blast disease is a major threat to rice yields. Sustainable control relies on resistant varieties, where plant immunity is triggered by pattern recognition receptors like receptor-like proteins (RLPs). The rice RLP chitin-elicitor binding protin (CEBiP) recognizes fungal chitin and confers blast resistance to pathogen Magnaporthe oryzae. However, understanding of the broader signaling and metabolomic pathways associated with CEBiP activation remains limited. Here, we performed an integrated transcriptomic and metabolomic analysis of the rice Zhonghua 11 genotype and CEBiP knockout plants. Both plants were infected with M. oryzae, and infected leaves were harvested at 24, 48, and 72 hpi for RNA sequencing and Liquid Chromatography-Tandem Mass Spectrometry analysis. Transcriptomics identified a total of 655 genes that were differentially regulated upon knockout of CEBiP; they were mainly related to diterpenoid/phenylpropanoid biosynthesis, nitrogen metabolism, the mitogen-activated protein kinasesignaling pathway, plant-pathogen interaction, and plant hormone signal transduction. The presence of a large number of pathogenesis-related protein 1 family genes indicates the key role of salicylic acid (SA) in CEBiP immunity. Metabolomics detected a total of 962 differentially accumulated metabolites and highlights the roles of caffeine and glutathione metabolism in CEBiP-mediated immunity. Since caffeine and glutathione metabolism can regulate SA signaling, we propose that SA signaling plays a central role in the CEBiP immune function.