LncRNA EPR controls epithelial proliferation by coordinating Cdkn1a transcription and mRNA decay response to TGF-β

Martina Rossi, Gabriele Bucci, Dario Rizzotto, Domenico Bordo, Matteo J. Marzi, Margherita Puppo, Arielle Flinois, Domenica Spadaro, Sandra Citi, Laura Emionite, Michele Cilli, Francesco Nicassio, Alberto Inga, Paola Briata, Roberto Gherzi

Research output: Contribution to journalArticle

Abstract

Long noncoding RNAs (lncRNAs) are emerging as regulators of fundamental biological processes. Here we report on the characterization of an intergenic lncRNA expressed in epithelial tissues which we termed EPR (Epithelial cell Program Regulator). EPR is rapidly downregulated by TGF-β and its sustained expression largely reshapes the transcriptome, favors the acquisition of epithelial traits, and reduces cell proliferation in cultured mammary gland cells as well as in an animal model of orthotopic transplantation. EPR generates a small peptide that localizes at epithelial cell junctions but the RNA molecule per se accounts for the vast majority of EPR-induced gene expression changes. Mechanistically, EPR interacts with chromatin and regulates Cdkn1a gene expression by affecting both its transcription and mRNA decay through its association with SMAD3 and the mRNA decay-promoting factor KHSRP, respectively. We propose that EPR enables epithelial cells to control proliferation by modulating waves of gene expression in response to TGF-β.

Original languageEnglish
Article number1969
JournalNature Communications
Volume10
Issue number1
DOIs
Publication statusPublished - Dec 1 2019

ASJC Scopus subject areas

  • Chemistry(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Physics and Astronomy(all)

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    Rossi, M., Bucci, G., Rizzotto, D., Bordo, D., Marzi, M. J., Puppo, M., Flinois, A., Spadaro, D., Citi, S., Emionite, L., Cilli, M., Nicassio, F., Inga, A., Briata, P., & Gherzi, R. (2019). LncRNA EPR controls epithelial proliferation by coordinating Cdkn1a transcription and mRNA decay response to TGF-β. Nature Communications, 10(1), [1969]. https://doi.org/10.1038/s41467-019-09754-1