Transcribed ultraconserved noncoding RNAs (T-UCR) are involved in Barrett's esophagus carcinogenesis

Matteo Fassan, Luigi Dall'Olmo, Marco Galasso, Chiara Braconi, Marco Pizzi, Stefano Realdon, Stefano Volinia, Nicola Valeri, Pierluigi Gasparini, Raffaele Baffa, Rhonda F. Souza, Caterina Vicentini, Edoardo D'Angelo, Jan Bornschein, Gerard J. Nuovo, Giovanni Zaninotto, Carlo M. Croce, Massimo Rugge

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Abstract

Barrett's esophagus (BE) involves a metaplastic replacement of native esophageal squamous epithelium (Sq) by columnar-intestinalized mucosa, and it is the main risk factor for Barrett-related adenocarcinoma (BAc). Ultra-conserved regions (UCRs) are a class non-coding sequences that are conserved in humans, mice and rats. More than 90% of UCRs are transcribed (T-UCRs) in normal tissues, and are altered at transcriptional level in tumorigenesis. To identify the T-UCR profiles that are dysregulated in Barrett's mucosa transformation, microarray analysis was performed on a discovery set of 51 macro-dissected samples obtained from 14 long-segment BE patients. Results were validated in an independent series of esophageal biopsy/surgery specimens and in two murine models of Barrett's esophagus (i.e. esophagogastric-duodenal anastomosis). Progression from normal to BE to adenocarcinoma was each associated with specific and mutually exclusive T-UCR signatures that included up-regulation of uc.58-, uc.202-, uc.207-, and uc.223- and down-regulation of uc.214+. A 9 T-UCR signature characterized BE versus Sq (with the down-regulation of uc.161-, uc.165-, and uc.327-, and the up-regulation of uc.153-, uc.158-, uc.206-, uc.274-, uc.472-, and uc.473-). Analogous BE-specific T-UCR profiles were shared by human and murine lesions. This study is the first demonstration of a role for T-UCRs in the transformation of Barrett's mucosa.

Original languageEnglish (US)
Pages (from-to)7162-7171
Number of pages10
JournalOncotarget
Volume5
Issue number16
DOIs
StatePublished - Jan 1 2014

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Keywords

  • Barrett's carcinogenesis
  • Barrett's esophagus
  • Expression signature
  • T-UCRs

ASJC Scopus subject areas

  • Oncology

Cite this

Fassan, M., Dall'Olmo, L., Galasso, M., Braconi, C., Pizzi, M., Realdon, S., Volinia, S., Valeri, N., Gasparini, P., Baffa, R., Souza, R. F., Vicentini, C., D'Angelo, E., Bornschein, J., Nuovo, G. J., Zaninotto, G., Croce, C. M., & Rugge, M. (2014). Transcribed ultraconserved noncoding RNAs (T-UCR) are involved in Barrett's esophagus carcinogenesis. Oncotarget, 5(16), 7162-7171. https://doi.org/10.18632/oncotarget.2249