Major Components of RNAi Gene Families in Cultivar : Discovery and Characterization

Overview

Journal Heliyon

Specialty Social Sciences

Date 2024 Dec 3

PMID 39624287

Authors

Md Darun Naim

Md Alamin

Md Parvez Mosharof

Ahmed Imtiaj

Md Nurul Haque Mollah

Affiliations

Soon will be listed here.

Abstract

Background: The cultivar is a promising new model rice for research due to its short life cycle (9 weeks), adaptability to greenhouse conditions, readily accepts foreign genes, and its complete genome sequence is accessible, providing a valuable blueprint for researchers. However, its major RNA interference (RNAi) gene families (DCLs, AGOs, RDRs) have not yet been studied. These gene families influence target-specific protein-coding gene expression and biotic and abiotic stresses, regulating plant growth and development.

Objectives: This study aims to identify and characterize RNAi gene families from the rice.

Methods: This study has been designed by analysis to explore major RNAi genes highlighting their molecular functions, phylogenetic groups, regulatory factors, and other vital characteristics of rice corresponding to OsRNAi genes.

Results: This study has identified 10 DCLs, 21 AGOs, and 7 RDRs as major RNAi proteins of rice corresponding to OsRNAi by BLASTP search. Domain analysis has been revealed the RNase III, PAZ, and Piwi domains are related to gene silencing processes. According to synteny study, and rice have the most homology in 33 RNAi gene pairs, suggesting they share a chromosomal order and similar functions. The majority of OsKRNAi proteins have been located in the nucleus and chloroplast, which are related to gene silencing. Gene silencing and ribonuclease III activity are key terms from gene ontology (GO) analysis, which is part of the gene silencing process. Gene regulatory analysis has identified some important transcription factors including ERE, which participates in DNA binding and microRNAs (miRNAs) including 'Osa-MIR168' improves rice resistance to blast disease. The investigation of -acting regulatory elements in OsKRNAi genes has shown various crucial components, including MBS, W-box, LTR, ABRE, ARE that are linked with the different stresses. Genes (such as ) were found to be overexpressed in target of rapamycin (TOR), increasing susceptibility to pathogens.

Conclusion: The findings of this study may be useful resources for further experimental investigation on the improvement of rice crop against different stresses.

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