TDP-43 and FUS RNA-binding proteins bind distinct sets of cytoplasmic messenger RNAs and differently regulate their post-transcriptional fate in motoneuron-like cells

Claudia Colombrita, Elisa Onesto, Francesca Megiorni, Antonio Pizzuti, Francisco E. Baralle, Emanuele Buratti, Vincenzo Silani, Antonia Ratti

Research output: Contribution to journalArticle

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Abstract

The RNA-binding proteins TDP-43 and FUS form abnormal cytoplasmic aggregates in affected tissues of patients with amyotrophic lateral sclerosis and frontotemporal lobar dementia. TDP-43 and FUS localize mainly in the nucleus where they regulate pre-mRNA splicing, but they are also involved in mRNA transport, stability, and translation. To better investigate their cytoplasmic activities, we applied an RNA immunoprecipitation and chip analysis to define the mRNAs associated to TDP-43 and FUS in the cytoplasmic ribonucleoprotein complexes from motoneuronal NSC-34 cells. We found that they bind different sets of mRNAs although converging on common cellular pathways. Bioinformatics analyses identified the (UG)n consensus motif in 80% of 3′-UTR sequences of TDP-43 targets, whereas for FUS the binding motif was less evident. By in vitro assays we validated binding to selected target 3′-UTRs, including Vegfa and Grn for TDP-43, and Vps54, Nvl, and Taf15 for FUS. We showed that TDP-43 has a destabilizing activity on Vegfa and Grn mRNAs and may ultimately affect progranulin protein content, whereas FUS does not affectmRNAstability/translation of its targets. We also demonstrated that three different point mutations in TDP-43 did not change the binding affinity for Vegfa and Grn mRNAs or their protein level. Our data indicate that TDP-43 and FUS recognize distinct sets of mRNAs and differently regulate their fate in the cytoplasm of motoneuronlike cells, therefore suggesting complementary roles in neuronal RNA metabolism and neurodegeneration.

Original languageEnglish
Pages (from-to)15635-15647
Number of pages13
JournalJournal of Biological Chemistry
Volume287
Issue number19
DOIs
Publication statusPublished - May 4 2012

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RNA-Binding Protein FUS
Motor Neurons
Messenger RNA
3' Untranslated Regions
RNA
Ribonucleoproteins
RNA-Binding Proteins
RNA Precursors
RNA Stability
Protein Biosynthesis
Computational Biology
Immunoprecipitation
Point Mutation
Bioinformatics
Cytoplasm
Proteins
Metabolism
Assays
Tissue

ASJC Scopus subject areas

  • Biochemistry
  • Cell Biology
  • Molecular Biology

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TDP-43 and FUS RNA-binding proteins bind distinct sets of cytoplasmic messenger RNAs and differently regulate their post-transcriptional fate in motoneuron-like cells. / Colombrita, Claudia; Onesto, Elisa; Megiorni, Francesca; Pizzuti, Antonio; Baralle, Francisco E.; Buratti, Emanuele; Silani, Vincenzo; Ratti, Antonia.

In: Journal of Biological Chemistry, Vol. 287, No. 19, 04.05.2012, p. 15635-15647.

Research output: Contribution to journalArticle

Colombrita, Claudia ; Onesto, Elisa ; Megiorni, Francesca ; Pizzuti, Antonio ; Baralle, Francisco E. ; Buratti, Emanuele ; Silani, Vincenzo ; Ratti, Antonia. / TDP-43 and FUS RNA-binding proteins bind distinct sets of cytoplasmic messenger RNAs and differently regulate their post-transcriptional fate in motoneuron-like cells. In: Journal of Biological Chemistry. 2012 ; Vol. 287, No. 19. pp. 15635-15647.
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