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RNA polymerase II promoter-proximal pausing in mammalian long non-coding genes.
Bunch, Heeyoun; Lawney, Brian P; Burkholder, Adam; Ma, Duanduan; Zheng, Xiaofeng; Motola, Shmulik; Fargo, David C; Levine, Stuart S; Wang, Yaoyu E; Hu, Guang.
Affiliation
  • Bunch H; Department of Genetics and Complex Diseases, Harvard School of Public Health, Boston, MA 02115, USA. Electronic address: heeyounbunch@gmail.com.
  • Lawney BP; Center for Cancer Computational Biology, Dana Farber Cancer Institute, Boston, MA 02130, USA.
  • Burkholder A; Integrative Bioinformatics, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, NC 27705, USA.
  • Ma D; BioMicro Center, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
  • Zheng X; Epigenetics and Stem Cell Biology Laboratory, National Institute of Environmental Health Sciences, National Institute of Health, Research Triangle Park, NC 27705, USA.
  • Motola S; BioMicro Center, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
  • Fargo DC; Integrative Bioinformatics, National Institute of Environmental Health Sciences, National Institutes of Health, Research Triangle Park, NC 27705, USA.
  • Levine SS; BioMicro Center, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.
  • Wang YE; Center for Cancer Computational Biology, Dana Farber Cancer Institute, Boston, MA 02130, USA.
  • Hu G; Epigenetics and Stem Cell Biology Laboratory, National Institute of Environmental Health Sciences, National Institute of Health, Research Triangle Park, NC 27705, USA.
Genomics ; 108(2): 64-77, 2016 08.
Article in En | MEDLINE | ID: mdl-27432546
ABSTRACT
Mammalian genomes encode a large number of non-coding RNAs (ncRNAs) that greatly exceed mRNA genes. While the physiological and pathological roles of ncRNAs have been increasingly understood, the mechanisms of regulation of ncRNA expression are less clear. Here, our genomic study has shown that a significant number of long non-coding RNAs (lncRNAs, >1000 nucleotides) harbor RNA polymerase II (Pol II) engaged with the transcriptional start site. A pausing and transcriptional elongation factor for protein-coding genes, tripartite motif-containing 28 (TRIM28) regulates the transcription of a subset of lncRNAs in mammalian cells. In addition, the majority of lncRNAs in human and murine cells regulated by Pol II promoter-proximal pausing appear to function in stimulus-inducible biological pathways. Our findings suggest an important role of Pol II pausing for the transcription of mammalian lncRNA genes.
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Repressor Proteins / Transcription, Genetic / RNA Polymerase II / Nuclear Proteins / RNA, Long Noncoding Limits: Animals / Humans Language: En Journal: Genomics Journal subject: GENETICA Year: 2016 Type: Article
Fulltext
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Full text: 1 Collection: 01-internacional Database: MEDLINE Main subject: Repressor Proteins / Transcription, Genetic / RNA Polymerase II / Nuclear Proteins / RNA, Long Noncoding Limits: Animals / Humans Language: En Journal: Genomics Journal subject: GENETICA Year: 2016 Type: Article