Nanomotif: Identification and Exploitation of DNA Methylation Motifs in Metagenomes using Oxford Nanopore Sequencing

Heidelbach, S.; Dall, S. M.; Boejer, J. S.; Nissen, J.; van der Maas, L. N. L.; Sereika, M.; Kirkegaard, R.; Kousgaard, S. J.; Thorlacius-Ussing, O.; Jensen, S. I.; Hose, K.; Nielsen, T. D.; Albertsen, M.

doi:10.1101/2024.04.29.591623

bioRxiv · 10.1101/2024.04.29.591623

Nanomotif: Identification and Exploitation of DNA Methylation Motifs in Metagenomes using Oxford Nanopore Sequencing

Heidelbach, S.·Dall, S. M.·Boejer, J. S.·Nissen, J.·van der Maas, L. N. L.·Sereika, M.·Kirkegaard, R.·Kousgaard, S. J.·Thorlacius-Ussing, O.·Jensen, S. I.·Hose, K.·Nielsen, T. D.·Albertsen, M.

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Abstract

DNA methylation is found across all domains of life but is a rarely used feature in recovery of metagenome-assembled genomes (MAGs). Recently, Oxford Nanopore introduced all context methylation detection models. We leveraged this to develop Nanomotif, which identifies and exploits methylation motifs for enhanced MAG recovery. We demonstrate how Nanomotif enables database-independent contamination removal from high-quality MAGs and host association of plasmids directly from Nanopore sequencing data in complex metagenomes.

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Heidelbach, S., Dall, S. M., Boejer, J. S., Nissen, J., van der Maas, L. N. L., Sereika, M., Kirkegaard, R., Kousgaard, S. J., Thorlacius-Ussing, O., Jensen, S. I., Hose, K., Nielsen, T. D., Albertsen, M.. 2024-05-02. Nanomotif: Identification and Exploitation of DNA Methylation Motifs in Metagenomes using Oxford Nanopore Sequencing. https://doi.org/10.1101/2024.04.29.591623

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