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  A class of circadian long non-coding RNAs mark enhancers modulating long-range circadian gene regulation.

Fan, Z., Zhao, M., Joshi, P. D., Li, P., Zhang, Y., Guo, W., et al. (2017). A class of circadian long non-coding RNAs mark enhancers modulating long-range circadian gene regulation. Nucleic Acids Research, 45(10), 5720-5738. doi:10.1093/nar/gkx156.

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Item Permalink: http://hdl.handle.net/11858/00-001M-0000-002D-7D19-A Version Permalink: http://hdl.handle.net/21.11116/0000-0001-1F6A-7
Genre: Journal Article

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 Creators:
Fan, Z., Author
Zhao, M., Author
Joshi, P. D.1, Author              
Li, P., Author
Zhang, Y., Author
Guo, W., Author
Xu, Y., Author
Wang, H., Author
Zhao, Z., Author
Yan, J., Author
Affiliations:
1Department of Genes and Behavior, MPI for Biophysical Chemistry, Max Planck Society, ou_persistent34              

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 Abstract: Circadian rhythm exerts its influence on animal physiology and behavior by regulating gene expression at various levels. Here we systematically explored circadian long non-coding RNAs (lncRNAs) in mouse liver and examined their circadian regulation. We found that a significant proportion of circadian lncRNAs are expressed at enhancer regions, mostly bound by two key circadian transcription factors, BMAL1 and REV-ERB alpha. These circadian lncRNAs showed similar circadian phases with their nearby genes. The extent of their nuclear localization is higher than protein coding genes but less than enhancer RNAs. The association between enhancer and circadian lncRNAs is also observed in tissues other than liver. Comparative analysis between mouse and rat circadian liver transcriptomes showed that circadian transcription at lncRNA loci tends to be conserved despite of low sequence conservation of lncRNAs. One such circadian lncRNA termed lnc-Crot led us to identify a super-enhancer region interacting with a cluster of genes involved in circadian regulation of metabolism through long-range interactions. Further experiments showed that lnc-Crot locus has enhancer function independent of lnc-Crot's transcription. Our results suggest that the enhancer-associated circadian lncRNAs mark the genomic loci modulating long-range circadian gene regulation and shed new lights on the evolutionary origin of lncRNAs.

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Language(s): eng - English
 Dates: 2017-03-082017-06-02
 Publication Status: Published in print
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 Rev. Method: Peer
 Identifiers: DOI: 10.1093/nar/gkx156
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Title: Nucleic Acids Research
Source Genre: Journal
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Pages: - Volume / Issue: 45 (10) Sequence Number: - Start / End Page: 5720 - 5738 Identifier: -