Abstract:
:RNA can directly bind to purine-rich DNA via Hoogsteen base pairing, forming a DNA:RNA triple helical structure that anchors the RNA to specific sequences and allows guiding of transcription regulators to distinct genomic loci. To unravel the prevalence of DNA:RNA triplexes in living cells, we have established a fast and cost-effective method that allows genome-wide mapping of DNA:RNA triplex interactions. In contrast to previous approaches applied for the identification of chromatin-associated RNAs, this method uses protein-free nucleic acids isolated from chromatin. High-throughput sequencing and computational analysis of DNA-associated RNA revealed a large set of RNAs which originate from non-coding and coding loci, including super-enhancers and repeat elements. Combined analysis of DNA-associated RNA and RNA-associated DNA identified genomic DNA:RNA triplex structures. The results suggest that triplex formation is a general mechanism of RNA-mediated target-site recognition, which has major impact on biological functions.
journal_name
Nucleic Acids Resjournal_title
Nucleic acids researchauthors
Sentürk Cetin N,Kuo CC,Ribarska T,Li R,Costa IG,Grummt Idoi
10.1093/nar/gky1305subject
Has Abstractpub_date
2019-03-18 00:00:00pages
2306-2321issue
5eissn
0305-1048issn
1362-4962pii
5271502journal_volume
47pub_type
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