First draft genome sequence of the Japanese eel, Anguilla japonica

Christiaan V. Henkel, Ron P. Dirks, Daniëlle L. de Wijze, Yuki Minegishi, Jun Aoyama, Hans J. Jansen, Ben Turner, Bjarne Knudsen, Martin Bundgaard, Kenneth Lyneborg Hvam, Marten Boetzer, Walter Pirovano, Finn Arne Weltzien, Sylvie Dufour, Katsumi Tsukamoto, Herman P. Spaink, Guido E.E.J.M. van den Thillart

Research output: Contribution to journalArticlepeer-review

79 Citations (Scopus)


The Japanese eel is a much appreciated research object and very important for Asian aquaculture; however, its genomic resources are still limited. We have used a streamlined bioinformatics pipeline for the de novo assembly of the genome sequence of the Japanese eel from raw Illumina sequence reads. The total assembled genome has a size of 1.15. Gbp, which is divided over 323,776 scaffolds with an N50 of 52,849. bp, a minimum scaffold size of 200. bp and a maximum scaffold size of 1.14. Mbp. Direct comparison of a representative set of scaffolds revealed that all the Hox genes and their intergenic distances are almost perfectly conserved between the European and the Japanese eel. The first draft genome sequence of an organism strongly catalyzes research progress in multiple fields. Therefore, the Japanese eel genome sequence will provide a rich resource of data for all scientists working on this important fish species.

Original languageEnglish
Pages (from-to)195-201
Number of pages7
Issue number2
Publication statusPublished - 2012 Dec 15


  • Anguilla
  • Assembly pipeline
  • De novo genome
  • Eel
  • Hox genes
  • Illumina sequencing

ASJC Scopus subject areas

  • Genetics


Dive into the research topics of 'First draft genome sequence of the Japanese eel, Anguilla japonica'. Together they form a unique fingerprint.

Cite this