Surveillance of 3′ Noncoding Transcripts Requires FIERY1 and XRN3 in Arabidopsis

G3: Genes, Genomes, Genetics

Motoaki Seki⁵  Yukio Kurihara⁶  Joseph R. Ecker¹  Matthew D. Schultz²  Emiko Okubo-Kurihara⁶  Joseph R. Nery²  Taeko Morosawa⁵  Maho Tanaka⁵  Tetsuro Toyoda³  Robert J. Schmitz⁴ 

[1] Plant Biology LaboratoryGenomic Analysis LaboratoryHoward Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, California 92037Plant Biology LaboratoryPlant Biology LaboratoryGenomic Analysis LaboratoryHoward Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, California 92037Genomic Analysis LaboratoryPlant Biology LaboratoryGenomic Analysis LaboratoryHoward Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, California 92037Howard Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, California 92037Plant Biology LaboratoryGenomic Analysis LaboratoryHoward Hughes Medical Institute, Salk Institute for Biological Studies, La Jolla, California 92037;Genomic Analysis LaboratoryGenomic Analysis LaboratoryGenomic Analysis Laboratory;Bioinformatics and Systems Engineering Division, RIKEN Yokohama Institute, Yokohama, Kanagawa 230-0045, JapBioinformatics and Systems Engineering Division, RIKEN Yokohama Institute, Yokohama, Kanagawa 230-0045, JapBioinformatics and Systems Engineering Division, RIKEN Yokohama Institute, Yokohama, Kanagawa 230-0045, Jap;Plant Biology LaboratoryGenomic Analysis LaboratoryPlant Biology LaboratoryPlant Biology LaboratoryGenomic Analysis LaboratoryGenomic Analysis LaboratoryPlant Biology LaboratoryGenomic Analysis Laboratory;RIKEN Plant Science CenterRIKEN Plant Science CenterRIKEN Plant Science Center;Plant Biology LaboratoryPlant Biology LaboratoryPlant Biology Laboratory

关键词: FRY1;    XRN3;    genome-wide;    Arabidopsis;    methylation;   

DOI  :  10.1534/g3.111.001362

学科分类：生物科学（综合）

来源: Genetics Society of America

【 摘 要 】

Eukaryotes possess several RNA surveillance mechanisms that prevent undesirable aberrant RNAs from accumulating. Arabidopsis XRN2, XRN3, and XRN4 are three orthologs of the yeast 5′-to-3′ exoribonuclease, Rat1/Xrn2, that function in multiple RNA decay pathways. XRN activity is maintained by FIERY1 (FRY1), which converts the XRN inhibitor, adenosine 3′, 5′-bisphosphate (PAP), into 5′AMP. To identify the roles of XRNs and FRY1 in suppression of non-coding RNAs, strand-specific genome-wide tiling arrays and deep strand-specific RNA-Seq analyses were carried out in fry1 and xrn single and double mutants. In fry1-6, about 2000 new transcripts were identified that extended the 3′ end of specific mRNAs; many of these were also observed in genotypes that possess the xrn3-3 mutation, a partial loss-of-function allele. Mutations in XRN2 and XRN4 in combination with xrn3-3 revealed only a minor effect on 3′ extensions, indicating that these genes may be partially redundant with XRN3. We also observed the accumulation of 3′ remnants of many DCL1-processed microRNA (miRNA) precursors in fry1-6 and xrn3-3. These findings suggest that XRN3, in combination with FRY1, is required to prevent the accumulation of 3′ extensions that arise from thousands of mRNA and miRNA precursor transcripts.

【 授权许可】

Unknown