Quantifying the RNA cap epitranscriptome reveals novel caps in cellular and viral RNA
Name
gkz751.pdf
Description
Published version
Size
1.48 MB
Format
Adobe PDF
Checksum (MD5)
5dfe6dc030ede214e439b0f63b5c6b9a
Author(s)
Wang, Jin
Alvin Chew, Bing Liang
Lai, Yong
Dong, Hongping
Xu, Luang
Balamkundu, Seetharamsingh
Cai, Weiling Maggie
Cui, Liang
Liu, Chuan Fa
Fu, Xin-Yuan
Date Issued
September 2019
Journal
Nucleic Acids Research
Publisher
Oxford University Press (OUP)
Citation
Wang, Jin et al. "Quantifying the RNA cap epitranscriptome reveals novel caps in cellular and viral RNA." Nucleic Acids Research 47, 20 (September 2020): e130 © 2019 The Author(s)
Version
Final published version
Abstract
Chemical modification of transcripts with 5' caps occurs in all organisms. Here, we report a systems-level mass spectrometry-based technique, CapQuant, for quantitative analysis of an organism's cap epitranscriptome. The method was piloted with 21 canonical caps-m7GpppN, m7GpppNm, GpppN, GpppNm, and m2,2,7GpppG-and 5 'metabolite' caps-NAD, FAD, UDP-Glc, UDP-GlcNAc, and dpCoA. Applying CapQuant to RNA from purified dengue virus, Escherichia coli, yeast, mouse tissues, and human cells, we discovered new cap structures in humans and mice (FAD, UDP-Glc, UDP-GlcNAc, and m7Gpppm6A), cell- and tissue-specific variations in cap methylation, and high proportions of caps lacking 2'-O-methylation (m7Gpppm6A in mammals, m7GpppA in dengue virus). While substantial Dimroth-induced loss of m1A and m1Am arose with specific RNA processing conditions, human lymphoblast cells showed no detectable m1A or m1Am in caps. CapQuant accurately captured the preference for purine nucleotides at eukaryotic transcription start sites and the correlation between metabolite levels and metabolite caps.
MIT Department
Massachusetts Institute of Technology. Synthetic Biology Center
Massachusetts Institute of Technology. Department of Biological Engineering
Massachusetts Institute of Technology. Department of Electrical Engineering and Computer Science
Terms of Use
Creative Commons Attribution NonCommercial License 4.0
Persistent DSpace Link
DOI of Published Version
https://doi.org/10.1093/nar/gkz751
