DHX36 binding induces RNA structurome remodeling and regulates RNA abundance via mA reader YTHDF1.
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| Main Authors: | , , , , , , , , , , , , |
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| Format: | Artículo científico |
| Language: | en |
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Nature communications
2024
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| _version_ | 1868266280140668929 |
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| author | Zhang, Yuwei Zhao, Jieyu Chen, Xiaona Qiao, Yulong Kang, Jinjin Guo, Xiaofan Yang, Feng Lyu, Kaixin Ding, Yiliang Zhao, Yu Sun, Hao Kwok, Chun-Kit Wang, Huating |
| author_facet | Zhang, Yuwei Zhao, Jieyu Chen, Xiaona Qiao, Yulong Kang, Jinjin Guo, Xiaofan Yang, Feng Lyu, Kaixin Ding, Yiliang Zhao, Yu Sun, Hao Kwok, Chun-Kit Wang, Huating Zhang, Yuwei Zhao, Jieyu Chen, Xiaona Qiao, Yulong Kang, Jinjin Guo, Xiaofan Yang, Feng Lyu, Kaixin Ding, Yiliang Zhao, Yu Sun, Hao Kwok, Chun-Kit Wang, Huating |
| collection | PubMed - marine biology |
| contents | DHX36 binding induces RNA structurome remodeling and regulates RNA abundance via mA reader YTHDF1. Zhang, Yuwei Zhao, Jieyu Chen, Xiaona Qiao, Yulong Kang, Jinjin Guo, Xiaofan Yang, Feng Lyu, Kaixin Ding, Yiliang Zhao, Yu Sun, Hao Kwok, Chun-Kit Wang, Huating DEAD-box RNA Helicases RNA-Binding Proteins Humans 3' Untranslated Regions Protein Binding Adenosine Binding Sites RNA, Messenger G-Quadruplexes RNA Stability HeLa Cells Nucleic Acid Conformation RNA HEK293 Cells Gene Expression Regulation 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 structural remodeling not only at the localized binding sites but also on the entire mRNA transcript most pronounced in 3'UTR regions. DHX36 binding increases 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 (mA) modification and YTHDF1 binding; and DHX36 induced structural changes may facilitate YTHDF1 binding to mA sites leading to RNA degradation. Altogether, our findings uncover the structural remodeling effect of DHX36 binding and its impact on RNA abundance through regulating mA dependent YTHDF1 binding. |
| format | Artículo científico |
| id | pubmed_39543097 |
| institution | PubMed |
| language | en |
| publishDate | 2024 |
| publisher | Nature communications |
| record_format | pubmed |
| spellingShingle | DHX36 binding induces RNA structurome remodeling and regulates RNA abundance via mA reader YTHDF1. Zhang, Yuwei Zhao, Jieyu Chen, Xiaona Qiao, Yulong Kang, Jinjin Guo, Xiaofan Yang, Feng Lyu, Kaixin Ding, Yiliang Zhao, Yu Sun, Hao Kwok, Chun-Kit Wang, Huating DEAD-box RNA Helicases RNA-Binding Proteins Humans 3' Untranslated Regions Protein Binding Adenosine Binding Sites RNA, Messenger G-Quadruplexes RNA Stability HeLa Cells Nucleic Acid Conformation RNA HEK293 Cells Gene Expression Regulation DHX36 binding induces RNA structurome remodeling and regulates RNA abundance via mA reader YTHDF1. Zhang, Yuwei Zhao, Jieyu Chen, Xiaona Qiao, Yulong Kang, Jinjin Guo, Xiaofan Yang, Feng Lyu, Kaixin Ding, Yiliang Zhao, Yu Sun, Hao Kwok, Chun-Kit Wang, Huating DEAD-box RNA Helicases RNA-Binding Proteins Humans 3' Untranslated Regions Protein Binding Adenosine Binding Sites RNA, Messenger G-Quadruplexes RNA Stability HeLa Cells Nucleic Acid Conformation RNA HEK293 Cells Gene Expression Regulation 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 structural remodeling not only at the localized binding sites but also on the entire mRNA transcript most pronounced in 3'UTR regions. DHX36 binding increases 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 (mA) modification and YTHDF1 binding; and DHX36 induced structural changes may facilitate YTHDF1 binding to mA sites leading to RNA degradation. Altogether, our findings uncover the structural remodeling effect of DHX36 binding and its impact on RNA abundance through regulating mA dependent YTHDF1 binding. |
| title | DHX36 binding induces RNA structurome remodeling and regulates RNA abundance via mA reader YTHDF1. |
| topic | DEAD-box RNA Helicases RNA-Binding Proteins Humans 3' Untranslated Regions Protein Binding Adenosine Binding Sites RNA, Messenger G-Quadruplexes RNA Stability HeLa Cells Nucleic Acid Conformation RNA HEK293 Cells Gene Expression Regulation |
| url | https://pubmed.ncbi.nlm.nih.gov/39543097/ |