An integrative platform for detection of RNA 2'-O-methylation reveals its broad distribution on mRNA
Copyright © 2024 The Author(s). Published by Elsevier Inc. All rights reserved..
Ribose 2'-O-methylation is involved in critical biological processes, but its biological functions and significance in mRNAs remain underexplored. We have developed NJU-seq, a sensitive method for unbiased 2'-O-methylation (Nm) profiling, and Nm-VAQ, a site-specific quantification tool. Using these tools in tandem, we identified thousands of Nm sites on mRNAs of human and mouse cell lines, of which 68 of 84 selected sites were further validated to be more than 1% 2'-O-methylated. Unlike rRNA, most mRNA Nm sites were from 1% to 30% methylated. In addition, mRNA Nm was dynamic, changing according to the circumstance. Furthermore, we show that fibrillarin is involved as a methyltransferase. By mimicking the detected Nm sites and the context sequence, the RNA fragments could be 2'-O-methylated and demonstrated higher stability but lower translation efficiency. Last, profiling of Nm sites in lung surgery samples revealed common signatures of lung cancer pathogenesis, providing potential new diagnostic markers.
| Medienart: |
E-Artikel |
|---|
| Erscheinungsjahr: |
2024 |
|---|---|
| Erschienen: |
2024 |
| Enthalten in: |
Zur Gesamtaufnahme - volume:4 |
|---|---|
| Enthalten in: |
Cell reports methods - 4(2024), 3 vom: 25. März, Seite 100721 |
| Sprache: |
Englisch |
|---|
| Beteiligte Personen: |
Tang, Yao [VerfasserIn] |
|---|
| Links: |
|---|
| Anmerkungen: |
Date Completed 28.03.2024 Date Revised 04.04.2024 published: Print-Electronic Citation Status MEDLINE |
|---|
| doi: |
10.1016/j.crmeth.2024.100721 |
|---|
| funding: |
|
|---|---|
| Förderinstitution / Projekttitel: |
|
| PPN (Katalog-ID): |
NLM369425189 |
|---|
| LEADER | 01000caa a22002652 4500 | ||
|---|---|---|---|
| 001 | NLM369425189 | ||
| 003 | DE-627 | ||
| 005 | 20240404234947.0 | ||
| 007 | cr uuu---uuuuu | ||
| 008 | 240308s2024 xx |||||o 00| ||eng c | ||
| 024 | 7 | |a 10.1016/j.crmeth.2024.100721 |2 doi | |
| 028 | 5 | 2 | |a pubmed24n1364.xml |
| 035 | |a (DE-627)NLM369425189 | ||
| 035 | |a (NLM)38452769 | ||
| 035 | |a (PII)S2667-2375(24)00036-5 | ||
| 040 | |a DE-627 |b ger |c DE-627 |e rakwb | ||
| 041 | |a eng | ||
| 100 | 1 | |a Tang, Yao |e verfasserin |4 aut | |
| 245 | 1 | 3 | |a An integrative platform for detection of RNA 2'-O-methylation reveals its broad distribution on mRNA |
| 264 | 1 | |c 2024 | |
| 336 | |a Text |b txt |2 rdacontent | ||
| 337 | |a ƒaComputermedien |b c |2 rdamedia | ||
| 338 | |a ƒa Online-Ressource |b cr |2 rdacarrier | ||
| 500 | |a Date Completed 28.03.2024 | ||
| 500 | |a Date Revised 04.04.2024 | ||
| 500 | |a published: Print-Electronic | ||
| 500 | |a Citation Status MEDLINE | ||
| 520 | |a Copyright © 2024 The Author(s). Published by Elsevier Inc. All rights reserved. | ||
| 520 | |a Ribose 2'-O-methylation is involved in critical biological processes, but its biological functions and significance in mRNAs remain underexplored. We have developed NJU-seq, a sensitive method for unbiased 2'-O-methylation (Nm) profiling, and Nm-VAQ, a site-specific quantification tool. Using these tools in tandem, we identified thousands of Nm sites on mRNAs of human and mouse cell lines, of which 68 of 84 selected sites were further validated to be more than 1% 2'-O-methylated. Unlike rRNA, most mRNA Nm sites were from 1% to 30% methylated. In addition, mRNA Nm was dynamic, changing according to the circumstance. Furthermore, we show that fibrillarin is involved as a methyltransferase. By mimicking the detected Nm sites and the context sequence, the RNA fragments could be 2'-O-methylated and demonstrated higher stability but lower translation efficiency. Last, profiling of Nm sites in lung surgery samples revealed common signatures of lung cancer pathogenesis, providing potential new diagnostic markers | ||
| 650 | 4 | |a Journal Article | |
| 650 | 4 | |a 2-O-methylation | |
| 650 | 4 | |a CP: molecular biology | |
| 650 | 4 | |a RNA modification | |
| 650 | 4 | |a alternative splicing | |
| 650 | 4 | |a diagnose marker | |
| 650 | 4 | |a epigenetics | |
| 650 | 4 | |a fibrillarin methyltransferase | |
| 650 | 4 | |a mRNA regulation | |
| 650 | 4 | |a translation regulation | |
| 650 | 4 | |a virus response | |
| 650 | 7 | |a RNA, Messenger |2 NLM | |
| 650 | 7 | |a RNA |2 NLM | |
| 650 | 7 | |a 63231-63-0 |2 NLM | |
| 650 | 7 | |a RNA, Ribosomal |2 NLM | |
| 650 | 7 | |a Methyltransferases |2 NLM | |
| 650 | 7 | |a EC 2.1.1.- |2 NLM | |
| 700 | 1 | |a Wu, Yifan |e verfasserin |4 aut | |
| 700 | 1 | |a Wang, Sainan |e verfasserin |4 aut | |
| 700 | 1 | |a Lu, Xiaolan |e verfasserin |4 aut | |
| 700 | 1 | |a Gu, Xiangwen |e verfasserin |4 aut | |
| 700 | 1 | |a Li, Yong |e verfasserin |4 aut | |
| 700 | 1 | |a Yang, Fan |e verfasserin |4 aut | |
| 700 | 1 | |a Xu, Ruilin |e verfasserin |4 aut | |
| 700 | 1 | |a Wang, Tao |e verfasserin |4 aut | |
| 700 | 1 | |a Jiao, Zichen |e verfasserin |4 aut | |
| 700 | 1 | |a Wu, Yan |e verfasserin |4 aut | |
| 700 | 1 | |a Liu, Liwei |e verfasserin |4 aut | |
| 700 | 1 | |a Chen, Jian-Qun |e verfasserin |4 aut | |
| 700 | 1 | |a Wang, Qiang |e verfasserin |4 aut | |
| 700 | 1 | |a Chen, Qihan |e verfasserin |4 aut | |
| 773 | 0 | 8 | |i Enthalten in |t Cell reports methods |d 2021 |g 4(2024), 3 vom: 25. März, Seite 100721 |w (DE-627)NLM327814853 |x 2667-2375 |7 nnns |
| 773 | 1 | 8 | |g volume:4 |g year:2024 |g number:3 |g day:25 |g month:03 |g pages:100721 |
| 856 | 4 | 0 | |u http://dx.doi.org/10.1016/j.crmeth.2024.100721 |3 Volltext |
| 912 | |a GBV_USEFLAG_A | ||
| 912 | |a GBV_NLM | ||
| 951 | |a AR | ||
| 952 | |d 4 |j 2024 |e 3 |b 25 |c 03 |h 100721 | ||