GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE145109 Query DataSets for GSE145109
Status Public on Mar 16, 2021
Title The m6A reader CPSF30-L regulates alternative polyadenylation affecting nitrate signaling in Arabidopsis
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Summary As the most ubiquitous internal modification of eukaryotic mRNA, m6A (N6-methyladenosine) modification plays a vital role in almost every aspect of mRNA metabolism. However, the evidence of m6A in regulating the alternative polyadenylation (APA) is limited. APA is controlled by a large protein-RNA complex with many components including CPSF30. Arabidopsis CPSF30 has two isoforms, the longer one named CPSF30-L containing an additional YTH (YT512-B Homology)-domain in the C terminus, which is unique in plant. In this study, we revealed that m6A modification directly regulated APA, by proving the capability of Arabidopsis CPSF30-L YTH domain binding to m6A substrate by using in vitro assay and structural studies. We observed that extensive genes shifted their poly(A) sites in cpsf30-2 and found that numerous genes altered polyadenylation site (PAS) that correlated well with previously identified m6A peaks, indicating that genes carry m6A modification are prone to be regulated by APA. Moreover, we found that several important genes involved in nitrate metabolism are amongst those genes with APA site alteration in cpsf30-2.And we could rescue these APA and nitrate metabolism defects by introducing the wild-type CPSF30-L, but not by m6A-binding defective mutants (W259A, W310A or Y319A), which explained the nitrogen signaling defects of cpsf30-2 discovered previously. Taken together, our results demonstrated that m6A modification could directly regulate APA in Arabidopsis and revealed the function of m6A reader CPSF30-L in nitrate signaling by controlling APA regulation. This study will shed new lights on the roles of m6A modification during RNA 3’-end processing in plant development.
Overall design Investigate the role of AtCPSF30 in Alternative Polyadenylation
Contributor(s) Hou Y, Sun J, Cao X
Citation(s) 33515769
Submission date Feb 11, 2020
Last update date Mar 16, 2021
Contact name Jing Sun
Organization name Chinese Academy of Sciences
Department IGDB
Street address No. 1 West Beichen Road
City Beijing
ZIP/Postal code 100101
Country China
Platforms (2)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
GPL26208 Illumina NovaSeq 6000 (Arabidopsis thaliana)
Samples (24)
GSM4306652 Col-rep1
GSM4306653 Col-rep2
GSM4306654 Col-rep3
BioProject PRJNA606046
SRA SRP248245

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE145109_RAW.tar 782.8 Mb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap