Study : Phyllostachys edulis Raw sequence reads
Phyllostachys edulis Raw sequence reads
With the development of bioinformatics and RNA deep sequencing, the epigenetic modification of circular RNA has attracted increasing attention of researchers. However, the published methods generally adopt specific RNA methylation modification antibody for immunoprecipitation and high-throughput sequencing, like m6A-seq, to identify RNA methylation modification sites. In this study, we proposed a novel method to detect the epigenetic modification of circular RNAs in Phyllostachys heterocyclaedulis from direct RNA sequence. In this method, circular RNAs were enriched, fragmented and dephosphorylated and then sequenced on the Oxford Nanopore Technologies (ONT) platform. To obtain the epigenetic m6A modification information of circular RNAs, we developed a specific computational pipeline. As a result, 470 circular RNAs from Nanopore-based direct RNA sequencing were identified through back-spliced junction reads and the characterization of circular RNAs was consistent with previous studies based on next generation sequencing (NGS). Moreover, amoung the exonic circular RNAs, approximately 9.78% were prevalent in m6A modifications, which mainly occured at around accept and donor sites, and they may have the potential for translation. The present study not only proposes a novel method to identify circular RNAs from direct RNA sequencing but also predict epigenetic modification sites of circular RNAs in the level resolution of single-base. , which greatly expand the diversity of methods for detecting m6A modifications in circular RNAs.