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Analyzing viral epitranscriptomes using nanopore direct RNA sequencing

Cited 2 time in Web of Science Cited 2 time in Scopus
Authors

Hong, Ari; Kim, Dongwan; Kim, V. Narry; Chang, Hyeshik

Issue Date
2022-09
Publisher
한국미생물학회
Citation
The Journal of Microbiology, Vol.60 No.9, pp.867-876
Abstract
RNA modifications are a common occurrence across all domains of life. Several chemical modifications, including N-6-methyladenosine, have also been found in viral transcripts and viral RNA genomes. Some of the modifications increase the viral replication efficiency while also helping the virus to evade the host immune system. Nonetheless, there are numerous examples in which the host's RNA modification enzymes function as antiviral factors. Although established methods like MeRIP-seq and miCLIP can provide a transcriptome- wide overview of how viral RNA is modified, it is difficult to distinguish between the complex overlapping viral transcript isoforms using the short read-based techniques. Nanopore direct RNA sequencing (DRS) provides both long reads and direct signal readings, which may carry information about the modifications. Here, we describe a refined protocol for analyzing the RNA modifications in viral transcriptomes using nanopore technology.
ISSN
1225-8873
URI
https://hdl.handle.net/10371/185647
DOI
https://doi.org/10.1007/s12275-022-2324-4
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  • College of Natural Sciences
  • School of Biological Sciences
Research Area Molecular Biology & Genetics

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