Single-molecule sequencing detection of N6-methyladenine in microbial reference materials.

ABSTRACT: The DNA base modification N6-methyladenine (m⁶A) is involved in many pathways related to the survival of bacteria and their interactions with hosts. Nanopore sequencing offers a new, portable method to detect base modifications. Here, we show that a neural network can improve m⁶A detection at trained sequence contexts compared to previously published methods using deviations between measured and expected current values as each adenine travels through a pore. The model, implemented as the mCaller software package, can be extended to detect known or confirm suspected methyltransferase target motifs based on predictions of methylation at untrained contexts. We use PacBio, Oxford Nanopore, methylated DNA immunoprecipitation sequencing (MeDIP-seq), and whole-genome bisulfi

SUBMITTER: McIntyre ABR 

PROVIDER: S-EPMC6362088 | biostudies-literature | 2019 Feb

REPOSITORIES: biostudies-literature