Systematic identification of NF90 target RNAs by iCLIP analysis

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 s...

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Vydané v:	Scientific reports Ročník 12; číslo 1; s. 364 - 17
Hlavní autori:	Lodde, Valeria, Floris, Matteo, Munk, Rachel, Martindale, Jennifer L., Piredda, Davide, Napodano, Catello Mario Panu, Cucca, Francesco, Uzzau, Sergio, Abdelmohsen, Kotb, Gorospe, Myriam, Noh, Ji Heon, Idda, M. Laura
Médium:	Journal Article
Jazyk:	English
Vydavateľské údaje:	London Nature Publishing Group UK 10.01.2022 Nature Publishing Group Nature Portfolio
Predmet:	631/250 631/337 631/80 692/4017 692/53 Cells, Cultured COVID-19 - metabolism COVID-19 - virology Embryo fibroblasts HEK293 Cells Humanities and Social Sciences Humans Immune response Immunoprecipitation Immunoprecipitation - methods Interferon Interferon regulatory factor 3 Interferon Regulatory Factor-3 - genetics Interferon Regulatory Factor-3 - metabolism Interferon-Stimulated Gene Factor 3, gamma Subunit - genetics Interferon-Stimulated Gene Factor 3, gamma Subunit - metabolism Metabolism mRNA turnover multidisciplinary Nuclear Factor 90 Proteins - genetics Nuclear Factor 90 Proteins - metabolism Protein Binding Proteins RNA - genetics RNA - metabolism RNA Interference RNA Stability RNA, Messenger - genetics RNA, Messenger - metabolism RNA-binding protein RNA-Binding Proteins - genetics RNA-Binding Proteins - metabolism RNA-Seq - methods SARS-CoV-2 - genetics SARS-CoV-2 - metabolism SARS-CoV-2 - physiology Science Science (multidisciplinary) Severe acute respiratory syndrome coronavirus 2
ISSN:	2045-2322, 2045-2322
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Shrnutí:	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.
Bibliografia:	ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 14 content type line 23
ISSN:	2045-2322 2045-2322
DOI:	10.1038/s41598-021-04101-1