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DNA Research Advance Access published online on May 28, 2008
DNA Research, doi:10.1093/dnares/dsn008
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© The Author 2008. Kazusa DNA Research Institute
The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article for non-commercial purposes provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated. For commercial re-use, please contact journals.permissions@oxfordjournals.org

Genome Structure of the Legume, Lotus japonicus

Shusei Sato1, Yasukazu Nakamura1, Takakazu Kaneko1, Erika Asamizu1, Tomohiko Kato1, Mitsuteru Nakao1, Shigemi Sasamoto1, Akiko Watanabe1, Akiko Ono1, Kumiko Kawashima1, Tsunakazu Fujishiro1, Midori Katoh1, Mitsuyo Kohara1, Yoshie Kishida1, Chiharu Minami1, Shinobu Nakayama1, Naomi Nakazaki1, Yoshimi Shimizu1, Sayaka Shinpo1, Chika Takahashi1, Tsuyuko Wada1, Manabu Yamada1, Nobuko Ohmido2, Makoto Hayashi3, Kiichi Fukui3, Tomoya Baba4, Tomoko Nakamichi5, Hirotada Mori5 and Satoshi Tabata1,*

1 Kazusa DNA Research Institute, 2-6-7 Kazusa-kamatari, Kisarazu, Chiba 292-0818, Japan
2 Graduate School of Human Development and Environment, Kobe University, Kobe 657-8501, Japan
3 Department of Biotechnology, Graduate School of Engineering, Osaka University 2-1 Yamadaoka, Suita 565-0871, Osaka, Japan
4 Institute of Advanced Biosciences, Keio University, Tsuruoka, Yamagata 997-0017, Japan
5 Graduate School of Biological Sciences, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara 630-0192, Japan

Received 1 April 2008 ; accepted 18 April 2008.

The legume Lotus japonicus has been widely used as a model system to investigate the genetic background of legume-specific phenomena such as symbiotic nitrogen fixation. Here, we report structural features of the L. japonicus genome. The 315.1-Mb sequences determined in this and previous studies correspond to 67% of the genome (472 Mb), and are likely to cover 91.3% of the gene space. Linkage mapping anchored 130-Mb sequences onto the six linkage groups. A total of 10 951 complete and 19 848 partial structures of protein-encoding genes were assigned to the genome. Comparative analysis of these genes revealed the expansion of several functional domains and gene families that are characteristic of L. japonicus. Synteny analysis detected traces of whole-genome duplication and the presence of synteny blocks with other plant genomes to various degrees. This study provides the first opportunity to look into the complex and unique genetic system of legumes.

Key words: Lotus japonicus; genome structure; Fabaceae; comparative analysis

* To whom correspondence should be addressed. Tel. +81 438-52-3933. Fax. +81 438-52-3934. E-mail: tabata{at}kazusa.or.jp

Edited by Katsumi Isono


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