Low-pass nanopore sequencing for measurement of global methylation levels in plants.

ABSTRACT: Nanopore sequencing enables detection of DNA methylation at the same time as identification of canonical sequence. A recent study validated low-pass nanopore sequencing to accurately estimate global methylation levels in vertebrates with sequencing coverage as low as 0.01x. We investigated the applicability of this approach to plants by testing three plant species and analysed the effect of technical and biological parameters on estimate precision and accuracy. Our results indicate that higher coverage (0.1x) is required to achieve accuracy in assessing plant global methylation comparable to that in vertebrates. Shorter read length and a closer sequence match between sample and reference genome improved measurement accuracy. Application of this method in Vitis vinifera showed consistent gl

SUBMITTER: Liau Y 

PROVIDER: S-EPMC11668104 | biostudies-literature | 2024 Dec

REPOSITORIES: biostudies-literature