A large scale expression study associates uc.283-plus lncRNA with pluripotent stem cells and human glioma

BACKGROUND: There are 481 ultra-conserved regions (UCRs) longer than 200 bases in the genomes of human, mouse and rat. These DNA sequences are absolutely conserved and show 100% identity with no insertions or deletions. About half of these UCRs are reported as transcribed and many correspond to long...

Descripción completa

Detalles Bibliográficos
Autores principales: Galasso, Marco, Dama, Paola, Previati, Maurizio, Sandhu, Sukhinder, Palatini, Jeff, Coppola, Vincenzo, Warner, Sarah, Sana, Maria E, Zanella, Riccardo, Abujarour, Ramzey, Desponts, Caroline, Teitell, Michael A, Garzon, Ramiro, Calin, George, Croce, Carlo M, Volinia, Stefano
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2014
Materias:
Research
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4210590/
https://www.ncbi.nlm.nih.gov/pubmed/25352916
http://dx.doi.org/10.1186/s13073-014-0076-4
_version_ 1782341405108076544
author Galasso, Marco
Dama, Paola
Previati, Maurizio
Sandhu, Sukhinder
Palatini, Jeff
Coppola, Vincenzo
Warner, Sarah
Sana, Maria E
Zanella, Riccardo
Abujarour, Ramzey
Desponts, Caroline
Teitell, Michael A
Garzon, Ramiro
Calin, George
Croce, Carlo M
Volinia, Stefano
author_facet Galasso, Marco
Dama, Paola
Previati, Maurizio
Sandhu, Sukhinder
Palatini, Jeff
Coppola, Vincenzo
Warner, Sarah
Sana, Maria E
Zanella, Riccardo
Abujarour, Ramzey
Desponts, Caroline
Teitell, Michael A
Garzon, Ramiro
Calin, George
Croce, Carlo M
Volinia, Stefano
author_sort Galasso, Marco
collection PubMed
description BACKGROUND: There are 481 ultra-conserved regions (UCRs) longer than 200 bases in the genomes of human, mouse and rat. These DNA sequences are absolutely conserved and show 100% identity with no insertions or deletions. About half of these UCRs are reported as transcribed and many correspond to long non-coding RNAs (lncRNAs). METHODS: We used custom microarrays with 962 probes representing sense and antisense sequences for the 481 UCRs to examine their expression across 374 normal samples from 46 different tissues and 510 samples representing 10 different types of cancer. The expression in embryonic stem cells of selected UCRs was validated by real time PCR. RESULTS: We identified tissue selective UCRs and studied UCRs in embryonic and induced pluripotent stem cells. Among the normal tissues, the uc.283 lncRNA was highly specific for pluripotent stem cells. Intriguingly, the uc.283-plus lncRNA was highly expressed in some solid cancers, particularly in one of the most untreatable types, glioma. CONCLUSION: Our results suggest that uc.283-plus lncRNA might have a role in pluripotency of stem cells and in the biology of glioma. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13073-014-0076-4) contains supplementary material, which is available to authorized users.
format Online
Article
Text
id pubmed-4210590
institution National Center for Biotechnology Information
language English
publishDate 2014
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-42105902014-10-29 A large scale expression study associates uc.283-plus lncRNA with pluripotent stem cells and human glioma Galasso, Marco Dama, Paola Previati, Maurizio Sandhu, Sukhinder Palatini, Jeff Coppola, Vincenzo Warner, Sarah Sana, Maria E Zanella, Riccardo Abujarour, Ramzey Desponts, Caroline Teitell, Michael A Garzon, Ramiro Calin, George Croce, Carlo M Volinia, Stefano Genome Med Research BACKGROUND: There are 481 ultra-conserved regions (UCRs) longer than 200 bases in the genomes of human, mouse and rat. These DNA sequences are absolutely conserved and show 100% identity with no insertions or deletions. About half of these UCRs are reported as transcribed and many correspond to long non-coding RNAs (lncRNAs). METHODS: We used custom microarrays with 962 probes representing sense and antisense sequences for the 481 UCRs to examine their expression across 374 normal samples from 46 different tissues and 510 samples representing 10 different types of cancer. The expression in embryonic stem cells of selected UCRs was validated by real time PCR. RESULTS: We identified tissue selective UCRs and studied UCRs in embryonic and induced pluripotent stem cells. Among the normal tissues, the uc.283 lncRNA was highly specific for pluripotent stem cells. Intriguingly, the uc.283-plus lncRNA was highly expressed in some solid cancers, particularly in one of the most untreatable types, glioma. CONCLUSION: Our results suggest that uc.283-plus lncRNA might have a role in pluripotency of stem cells and in the biology of glioma. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (doi:10.1186/s13073-014-0076-4) contains supplementary material, which is available to authorized users. BioMed Central 2014-10-02 /pmc/articles/PMC4210590/ /pubmed/25352916 http://dx.doi.org/10.1186/s13073-014-0076-4 Text en © Galasso et al.; licensee BioMed Central Ltd. 2014 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Research
Galasso, Marco
Dama, Paola
Previati, Maurizio
Sandhu, Sukhinder
Palatini, Jeff
Coppola, Vincenzo
Warner, Sarah
Sana, Maria E
Zanella, Riccardo
Abujarour, Ramzey
Desponts, Caroline
Teitell, Michael A
Garzon, Ramiro
Calin, George
Croce, Carlo M
Volinia, Stefano
A large scale expression study associates uc.283-plus lncRNA with pluripotent stem cells and human glioma
title A large scale expression study associates uc.283-plus lncRNA with pluripotent stem cells and human glioma
title_full A large scale expression study associates uc.283-plus lncRNA with pluripotent stem cells and human glioma
title_fullStr A large scale expression study associates uc.283-plus lncRNA with pluripotent stem cells and human glioma
title_full_unstemmed A large scale expression study associates uc.283-plus lncRNA with pluripotent stem cells and human glioma
title_short A large scale expression study associates uc.283-plus lncRNA with pluripotent stem cells and human glioma
title_sort large scale expression study associates uc.283-plus lncrna with pluripotent stem cells and human glioma
topic Research
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4210590/
https://www.ncbi.nlm.nih.gov/pubmed/25352916
http://dx.doi.org/10.1186/s13073-014-0076-4
work_keys_str_mv AT galassomarco alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT damapaola alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT previatimaurizio alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT sandhusukhinder alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT palatinijeff alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT coppolavincenzo alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT warnersarah alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT sanamariae alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT zanellariccardo alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT abujarourramzey alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT despontscaroline alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT teitellmichaela alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT garzonramiro alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT calingeorge alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT crocecarlom alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT voliniastefano alargescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT galassomarco largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT damapaola largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT previatimaurizio largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT sandhusukhinder largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT palatinijeff largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT coppolavincenzo largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT warnersarah largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT sanamariae largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT zanellariccardo largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT abujarourramzey largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT despontscaroline largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT teitellmichaela largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT garzonramiro largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT calingeorge largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT crocecarlom largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma
AT voliniastefano largescaleexpressionstudyassociatesuc283pluslncrnawithpluripotentstemcellsandhumanglioma

Ejemplares similares