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Whole-Genome Analysis Uncovers Long-Noncoding RNAs Regulating Rhizoctonia solani Resistance via Metabolic Pathways in
Wei Li1, Yifan Huang1, Yanhui Xia1
1State Key Laboratory of Hybrid Rice, Hubei Hongshan Laboratory, College of Life Science, Wuhan University, Wuhan 430072, China.
This study reveals how long-noncoding RNAs (lncRNAs) regulate rice defense against the devastating sheath blight pathogen Rhizoctonia solani, highlighting key metabolic pathways and enzymes involved in plant immunity.
Area of Science:
- Plant molecular biology
- Plant pathology
- Genomics
Background:
- Rice sheath blight, caused by Rhizoctonia solani, is a major threat to rice production.
- Understanding the molecular mechanisms of rice defense against R. solani is crucial for developing resistant varieties.
- Long-noncoding RNAs (lncRNAs) are increasingly recognized for their roles in gene regulation, but their function in rice-pathogen interactions remains underexplored.
Purpose of the Study:
- To identify and characterize lncRNAs involved in rice defense against R. solani.
- To elucidate the regulatory networks mediated by lncRNAs, including cis-regulation and competing endogenous RNA (ceRNA) pathways.
- To identify key enzymes and metabolic pathways crucial for rice immunity.
Main Methods:
- RNA sequencing to identify R. solani-responsive lncRNAs.
- Bioinformatic analyses to predict lncRNA-target mRNA interactions (cis-regulation and ceRNA networks).
- Functional enrichment analysis of target genes.
- Genetic knockout experiments to validate enzyme function in plant defense.
- Antifungal assays to assess the activity of specific metabolites.
Main Results:
- Identified 833 R. solani-responsive lncRNAs in rice, organized into distinct expression modules.
- Predicted 551 mRNA targets for 366 lncRNAs, revealing 648 cis-regulatory relationships linked to metabolic pathways (terpenoid, jasmonic acid, tryptophan).
- Discovered 40 lncRNAs acting as ceRNAs, regulating 73 metabolism-enriched mRNAs via 22 miRNAs.
- Identified three key metabolic nodes (OsKSL12, OsSANRL.1, OsCYP87C2) involved in rice defense, with OsSANRL.1-metabolized sanguinarine showing antifungal activity.
Conclusions:
- lncRNAs play a significant role in regulating rice defense responses against R. solani.
- lncRNA-mediated cis-regulation and ceRNA networks are critical for metabolic reprogramming during plant-pathogen interactions.
- Specific enzymes and their metabolic products, such as sanguinarine, contribute directly to rice immunity against sheath blight.
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