Rapid de novo assembly of the European eel genome from nanopore sequencing reads

Hans J. Jansen, Michael Liem, Susanne A. Jong-Raadsen, Sylvie Dufour, Finn Arne Weltzien, William Swinkels, Alex Koelewijn, Arjan P. Palstra, Bernd Pelster, Herman P. Spaink, Guido E. van den Thillart, Ron P. Dirks, Christiaan V. Henkel*

*Corresponding author for this work

Research output: Contribution to journalArticleAcademicpeer-review

74 Citations (Scopus)


We have sequenced the genome of the endangered European eel using the MinION by Oxford Nanopore, and assembled these data using a novel algorithm specifically designed for large eukaryotic genomes. For this 860 Mbp genome, the entire computational process takes two days on a single CPU. The resulting genome assembly significantly improves on a previous draft based on short reads only, both in terms of contiguity (N50 1.2 Mbp) and structural quality. This combination of affordable nanopore sequencing and light weight assembly promises to make high-quality genomic resources accessible for many non-model plants and animals.
Original languageEnglish
Article number7213
JournalScientific Reports
Issue number1
Publication statusPublished - 2017


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