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| Status |
Public on Oct 25, 2022 |
| Title |
Nm-REP-seq Reveals 2’-O-Methylation Landscape at the 3'-end of Noncoding RNAs with Single-base Resolution |
| Organisms |
Drosophila melanogaster; Mus musculus |
| Experiment type |
Other
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| Summary |
Many non-coding RNAs (ncRNAs), such as piRNAs, miRNAs and siRNAs, contain Nm at the 3'-end nucleotides, protecting the 3’-ends form terminal nucleotide addition or exonucleolytic degradation, but whether other kinds of RNAs contain a 3'-terminal Nm remain unknown. Here, we developed Nm-REP-seq to globally profile the 3'end-Nm sites and we revealed several novel classes of Nm-containing ncRNAs in mice and drosophila. Importantly, we discovered that Nm distribute at the end of miRNA, snoRNA, snRNA, tRNA as well as fragments derived from them. Collectively, our approach precisely redefines the genome-wide distribution of Nm and provides new technologies for functional studies of Nm-mediated gene regulation.
Method: We developed Nm-REP-seq to globally profile the 3'-end Nm sites.
Results: We discovered that Nm distribute at the end of miRNA, snoRNA, snRNA, tRNA as well as fragments derived from them.
Conclusion:Collectively, our approach precisely redefines the genome-wide distribution of Nm and provides new technologies for functional studies of Nm-mediated gene regulation.
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| Overall design |
Total RNA was extracted from mouse testis as well as drosophila Kc167 cell and subjected to modified Nm-REP-seq library construction protocol, in three biological repeats (rep1, rep2 and rep3).
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| Contributor(s) |
Yang J, Zhang P |
| Citation missing |
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| Submission date |
Mar 16, 2022 |
| Last update date |
Oct 28, 2022 |
| Contact name |
Jian-Hua Yang |
| E-mail(s) |
yangjh7@mail.sysu.edu.cn
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| Phone |
86-20-84112517
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| Organization name |
Sun Yat-sen University
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| Department |
School of Life Sciences
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| Street address |
No. 135, Xingang Xi Road
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| City |
Guangzhou |
| ZIP/Postal code |
510275 |
| Country |
China |
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| Platforms (2) |
| GPL21273 |
HiSeq X Ten (Mus musculus) |
| GPL23702 |
HiSeq X Ten (Drosophila melanogaster) |
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| Samples (27)
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| Relations |
| BioProject |
PRJNA816727 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE198748_RAW.tar |
2.9 Gb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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