Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance

Fort, Alexandre, Hashimoto, Kosuke, Yamada, Daisuke, Salimullah, Md, Keya, Chaman A., Saxena, Alka, Bonetti, Alessandro, Voineagu, Irina, Bertin, Nicolas, Kratz, Anton, Noro, Yukihiko, Wong, Chee-Hong, de Hoon, Michiel, Andersson, Robin, Sandelin, Albin, Suzuki, Harukazu, Wei, Chia-Lin, Koseki, Haruhiko, Hasegawa, Yuki, Forrest, Alistair R. R., Carninci, Piero, FANTOM Consortium, Beckhouse, Anthony, Blumenthal, Antje, Briggs, James, Hitchens, Kelly, Kenna, Tony, Ovchinnikov, Dmitry, Vijayan, Dipti, Wells, Christine and Wolvetang, Ernst (2014) Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance. Nature Genetics, 46 6: 558-566. doi:10.1038/ng.2965

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Author Fort, Alexandre
Hashimoto, Kosuke
Yamada, Daisuke
Salimullah, Md
Keya, Chaman A.
Saxena, Alka
Bonetti, Alessandro
Voineagu, Irina
Bertin, Nicolas
Kratz, Anton
Noro, Yukihiko
Wong, Chee-Hong
de Hoon, Michiel
Andersson, Robin
Sandelin, Albin
Suzuki, Harukazu
Wei, Chia-Lin
Koseki, Haruhiko
Hasegawa, Yuki
Forrest, Alistair R. R.
Carninci, Piero
FANTOM Consortium
Beckhouse, Anthony
Blumenthal, Antje
Briggs, James
Hitchens, Kelly
Kenna, Tony
Ovchinnikov, Dmitry
Vijayan, Dipti
Wells, Christine
Wolvetang, Ernst
Title Deep transcriptome profiling of mammalian stem cells supports a regulatory role for retrotransposons in pluripotency maintenance
Journal name Nature Genetics   Check publisher's open access policy
ISSN 1061-4036
1546-1718
Publication date 2014-06-01
Year available 2014
Sub-type Article (original research)
DOI 10.1038/ng.2965
Volume 46
Issue 6
Start page 558
End page 566
Total pages 9
Place of publication New York, United States
Publisher Nature
Language eng
Abstract The importance of microRNAs and long noncoding RNAs in the regulation of pluripotency has been documented; however, the noncoding components of stem cell gene networks remain largely unknown. Here we investigate the role of noncoding RNAs in the pluripotent state, with particular emphasis on nuclear and retrotransposon-derived transcripts. We have performed deep profiling of the nuclear and cytoplasmic transcriptomes of human and mouse stem cells, identifying a class of previously undetected stem cell–specific transcripts. We show that long terminal repeat (LTR)-derived transcripts contribute extensively to the complexity of the stem cell nuclear transcriptome. Some LTR-derived transcripts are associated with enhancer regions and are likely to be involved in the maintenance of pluripotency.
Q-Index Code C1
Q-Index Status Confirmed Code
Institutional Status UQ

 
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Created: Thu, 26 Jun 2014, 20:54:55 EST by Cathy Fouhy on behalf of Aust Institute for Bioengineering & Nanotechnology