Sequencing of methylase-accessible regions in integral circular extrachromosomal DNA reveals differences in chromatin structure.

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Date: Aug. 23, 2021
From: Epigenetics & Chromatin(Vol. 14, Issue 1)
Publisher: BioMed Central Ltd.
Document Type: Article
Length: 6,074 words
Lexile Measure: 1380L

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Abstract :

Background Although extrachromosomal DNA (ecDNA) has been intensively studied for several decades, the mechanisms underlying its tumorigenic effects have been revealed only recently. In most conventional sequencing studies, the high-throughput short-read sequencing largely ignores the epigenetic status of most ecDNA regions except for the junctional areas. Methods Here, we developed a method of sequencing enzyme-accessible chromatin in circular DNA (CCDA-seq) based on the use of methylase to label open chromatin without fragmentation and exonuclease to enrich ecDNA sequencing depth, followed by long-read nanopore sequencing. Results Using CCDA-seq, we observed significantly different patterns in nucleosome/regulator binding to ecDNA at a single-molecule resolution. Conclusions These results deepen the understanding of ecDNA regulatory mechanisms. Keywords: ecDNA, Chromatin accessibility, Methylation, m.sup.6A, Methyltransferase

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Gale Document Number: GALE|A675221067