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Status |
Public on Jan 23, 2024 |
Title |
N6-methyladenosine modification is not a general trait of viral RNA genomes [Dengue] |
Organisms |
Homo sapiens; Dengue virus |
Experiment type |
Other
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Summary |
N6-methyladenosine (m6A), the most common internal RNA modification in eukaryotic mRNAs, is described to be abundantly present in the genomes of cytoplasmic-replicating RNA viruses. Yet, how the host nuclear m6A writer has access to the viral RNAs in the cytoplasm and what are the associated biological consequences remain unknown. Here, we comprehensively addressed these questions by combining antibody-dependent (m6A-seq) and antibody-independent (SELECT and nanopore direct RNA sequencing) methods on the cytoplasmic-replicating Chikungunya virus (CHIKV) RNA, and found no evidence of m6A modifications. Moreover, depletion of m6A modification machinery components did not affect CHIKV infection, and CHIKV infection did not alter their cellular localization. Consistent with these observations, no m6A modifications were found in the RNA genome of the dengue virus (DENV), another cytoplasmic-replicating virus. Our results challenge the idea that m6A modification is a general trait of cytoplasmic-replicating RNA viruses and stress the need of confirming antibody-dependent detection of m6A modifications with orthogonal antibody-independent methods.
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Overall design |
m6A-RIP on Dengue-infected HEK293T cells, made up of two input and two IP samples, used to perform downstream peakcalling analysis.
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Contributor(s) |
Baquero-Perez B, Yonchev ID, Delgado-Tejedor A, Medina R, Puig-Torrents M, Sudbery I, Begik O, Wilson SA, Novoa EM, Diez J |
Citation(s) |
38467633 |
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Submission date |
May 05, 2023 |
Last update date |
Mar 20, 2024 |
Contact name |
Juana Diez |
E-mail(s) |
juana.diez@upf.edu
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Organization name |
Pompeu Fabra University
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Street address |
Dr. Aiguader, 88
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City |
Barcelona |
ZIP/Postal code |
08003 |
Country |
Spain |
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Platforms (1) |
GPL33380 |
Illumina NextSeq 500 (Dengue virus; Homo sapiens) |
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Samples (4)
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GSM7299915 |
HEK293T, Dengue-infected, Input, replicate 1 |
GSM7299916 |
HEK293T, Dengue-infected, Input, replicate 2 |
GSM7299917 |
HEK293T, Dengue-infected, m6AIP, replicate 1 |
GSM7299918 |
HEK293T, Dengue-infected, m6AIP, replicate 2 |
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This SubSeries is part of SuperSeries: |
GSE231739 |
N6-methyladenosine modification is not a general trait of viral RNA genomes. |
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Relations |
BioProject |
PRJNA967597 |
Supplementary file |
Size |
Download |
File type/resource |
GSE231738_DENV-conserved-m6aViewer-peaks.txt.gz |
4.2 Mb |
(ftp)(http) |
TXT |
GSE231738_RAW.tar |
755.6 Mb |
(http)(custom) |
TAR (of BW, NARROWPEAK) |
SRA Run Selector |
Raw data are available in SRA |
Processed data are available on Series record |
Processed data provided as supplementary file |
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