title: MicroRNA-mediated regulation of gene expression in the response of rice plants to fungal elicitors.
abstract: MicroRNAs (miRNAs) are small non-coding RNAs that have important regulatory functions in plant growth, development, and response to abiotic stress. Increasing evidence also supports that plant miRNAs contribute to immune responses to pathogens. Here, we used deep sequencing of small RNA libraries for global identification of rice miRNAs that are regulated by fungal elicitors. We also describe 9 previously uncharacterized miRNAs in rice. Combined small RNA and degradome analyses revealed regulatory networks enriched in elicitor-regulated miRNAs supported by the identification of their corresponding target genes. Specifically, we identified an important number of miRNA/target gene pairs involved in small RNA pathways, including miRNA, heterochromatic and trans-acting siRNA pathways. We present evidence for miRNA/target gene pairs implicated in hormone signaling and cross-talk among hormone pathways having great potential in regulating rice immunity. Furthermore, we describe miRNA-mediated regulation of Conserved-Peptide upstream Open Reading Frame (CPuORF)-containing genes in rice, which suggests the existence of a novel regulatory network that integrates miRNA and CPuORF functions in plants. The knowledge gained in this study will help in understanding the underlying regulatory mechanisms of miRNAs in rice immunity and develop appropriate strategies for rice protection.
authors.affiliation: a Centre for Research in Agricultural Genomics (CRAG) ; Edifici CRAG ; Barcelona , Spain.
authors.forename: Patricia
authors.initials: P
authors.lastname: Baldrich
authors.forename: Sonia
authors.initials: S
authors.lastname: Campo
authors.forename: Ming-Tsung
authors.initials: MT
authors.lastname: Wu
authors.forename: Tze-Tze
authors.initials: TT
authors.lastname: Liu
authors.forename: Yue-Ie Caroline
authors.initials: YI
authors.lastname: Hsing
authors.forename: Blanca
authors.initials: B
authors.lastname: San Segundo
mesh_terms: D000595:Amino Acid Sequence; D001483:Base Sequence; D015152:Blotting, Northern; D005658:Fungi / Q000254:growth & development* / Q000502:physiology; D020869:Gene Expression Profiling / Q000379:methods*; D018506:Gene Expression Regulation, Plant; D017343:Genes, Plant / Q000235:genetics; D018745:Genome, Plant / Q000235:genetics; D059014:High-Throughput Nucleotide Sequencing; D054884:Host-Pathogen Interactions; D035683:MicroRNAs / Q000235:genetics*; D008969:Molecular Sequence Data; D016366:Open Reading Frames / Q000235:genetics; D012275:Oryza / Q000235:genetics* / Q000382:microbiology; D010935:Plant Diseases / Q000235:genetics / Q000382:microbiology; D018515:Plant Leaves / Q000235:genetics / Q000382:microbiology; D018517:Plant Roots / Q000235:genetics / Q000382:microbiology; D018749:RNA, Plant / Q000235:genetics*; D017386:Sequence Homology, Amino Acid
chemical_list: D035683:MicroRNAs; D018749:RNA, Plant
keywords: Magnaporthe oryzae; conserved peptide upstream open reading frame; degradome; elicitors; miRNAs; rice