 |
 |
GEO help: Mouse over screen elements for information. |
|
| Status |
Public on Oct 03, 2024 |
| Title |
DHX36 binding induces RNA structurome remodeling and regulates RNA abundance via m6A/YTHDF1 |
| Organism |
Homo sapiens |
| Experiment type |
Other
|
| Summary |
RNA structure constitutes a new layer of gene regulatory mechanisms. RNA binding proteins can modulate RNA secondary structures, thus participating in post-transcriptional regulation. The DEAH-box helicase 36 (DHX36) is known to bind and unwind RNA G-quadruplex (rG4) structure but the transcriptome-wide RNA structure remodeling induced by DHX36 binding and the impact on RNA fate remain poorly understood. Here, we investigate the RNA structurome alteration induced by DHX36 depletion. Our findings reveal that DHX36 binding induces structure remodeling not only at the localized binding sites but also on the entire mRNA transcript most pronounced in3’UTR regions. DHX36 binding increase structural accessibility at 3’UTRs which is correlated with decreased post-transcriptional mRNA abundance. Further analyses and experiments uncover that DHX36 binding sites are enriched for N6-methyladenosine (m6A) modification and YTHDF1 binding; and DHX36 induced structural change may facilitate YTHDF1 binding to m6A sites leading to RNA degradation. Altogether, our findings uncover the structural remodeling effect of DHX36 binding and its impact on RNA abundance through regulating m6A dependent YTHDF1 binding.
|
| |
|
| Overall design |
To investigate the effect of m6A levels on RNA structure changes, we conducted RNA Structure-seq in STM2457-treated and control HEK293T cells.
|
| |
|
| Contributor(s) |
Zhang Y, Zhao J, Kwok CK, Wang H |
| Citation(s) |
39543097 |
| |
| Submission date |
Apr 23, 2024 |
| Last update date |
Nov 22, 2024 |
| Contact name |
Yuwei ZHANG |
| E-mail(s) |
[email protected]
|
| Phone |
95390159
|
| Organization name |
The Chinese University of Hong Kong
|
| Department |
Chemical Pathology
|
| Street address |
Rm503, Li Ka Shing Medical Sciences Building, Prince of Wales Hospital, Shatin, NT, HK
|
| City |
Hong Kong |
| State/province |
Hong Kong |
| ZIP/Postal code |
000000 |
| Country |
Hong Kong |
| |
|
| Platforms (1) |
| GPL34284 |
Illumina NovaSeq X Plus (Homo sapiens) |
|
| Samples (8)
|
| GSM8224454 |
Structure-seq, HEK293T, Control, NAI, Rep1 |
| GSM8224455 |
Structure-seq, HEK293T, Control, NAI, Rep2 |
| GSM8224456 |
Structure-seq, HEK293T, Control, DMSO, Rep1 |
| GSM8224457 |
Structure-seq, HEK293T, Control, DMSO, Rep2 |
| GSM8224458 |
Structure-seq, HEK293T, STM2457, NAI, Rep1 |
| GSM8224459 |
Structure-seq, HEK293T, STM2457, NAI, Rep2 |
| GSM8224460 |
Structure-seq, HEK293T, STM2457, DMSO, Rep1 |
| GSM8224461 |
Structure-seq, HEK293T, STM2457, DMSO, Rep2 |
|
| Relations |
| BioProject |
PRJNA1103721 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE264642_HEK293T_STM2457_statistic_reactivity.csv.gz |
797.8 Kb |
(ftp)(http) |
CSV |
| GSE264642_HEK293T_control_statistic_reactivity.csv.gz |
794.0 Kb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
|
|
|
|
 |
Less...
More...