Systematic identification of NF90 target RNAs by iCLIP analysis.
COVID-19
/ metabolism
Cells, Cultured
HEK293 Cells
Humans
Immunoprecipitation
/ methods
Interferon Regulatory Factor-3
/ genetics
Interferon-Stimulated Gene Factor 3, gamma Subunit
/ genetics
Nuclear Factor 90 Proteins
/ genetics
Protein Binding
RNA
/ genetics
RNA Interference
RNA Stability
RNA, Messenger
/ genetics
RNA-Binding Proteins
/ genetics
RNA-Seq
/ methods
SARS-CoV-2
/ genetics
Journal
Scientific reports
ISSN: 2045-2322
Titre abrégé: Sci Rep
Pays: England
ID NLM: 101563288
Informations de publication
Date de publication:
10 01 2022
10 01 2022
Historique:
received:
20
09
2021
accepted:
01
12
2021
entrez:
11
1
2022
pubmed:
12
1
2022
medline:
27
1
2022
Statut:
epublish
Résumé
RNA-binding proteins (RBPs) interact with and determine the fate of many cellular RNAs directing numerous essential roles in cellular physiology. Nuclear Factor 90 (NF90) is an RBP encoded by the interleukin enhancer-binding factor 3 (ILF3) gene that has been found to influence RNA metabolism at several levels, including pre-RNA splicing, mRNA turnover, and translation. To systematically identify the RNAs that interact with NF90, we carried out iCLIP (individual-nucleotide resolution UV crosslinking and immunoprecipitation) analysis in the human embryonic fibroblast cell line HEK-293. Interestingly, many of the identified RNAs encoded proteins involved in the response to viral infection and RNA metabolism. We validated a subset of targets and investigated the impact of NF90 on their expression levels. Two of the top targets, IRF3 and IRF9 mRNAs, encode the proteins IRF3 and IRF9, crucial regulators of the interferon pathway involved in the SARS-CoV-2 immune response. Our results support a role for NF90 in modulating key genes implicated in the immune response and offer insight into the immunological response to the SARS-CoV-2 infection.
Identifiants
pubmed: 35013429
doi: 10.1038/s41598-021-04101-1
pii: 10.1038/s41598-021-04101-1
pmc: PMC8748789
doi:
Substances chimiques
IRF3 protein, human
0
IRF9 protein, human
0
Interferon Regulatory Factor-3
0
Interferon-Stimulated Gene Factor 3, gamma Subunit
0
Nuclear Factor 90 Proteins
0
RNA, Messenger
0
RNA-Binding Proteins
0
RNA
63231-63-0
Types de publication
Journal Article
Research Support, N.I.H., Extramural
Langues
eng
Sous-ensembles de citation
IM
Pagination
364Informations de copyright
© 2022. The Author(s).
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