Sequence analysis of the genome of an oil-bearing tree, jatropha curcas L.

Shusei Sato, Hideki Hirakawa, Sachiko Isobe, Eigo Fukai, Akiko Watanabe, Midori Kato, Kumiko Kawashima, Chiharu Minami, Akiko Muraki, Naomi Nakazaki, Chika Takahashi, Shinobu Nakayama, Yoshie Kishida, Mitsuyo Kohara, Manabu Yamada, Hisano Tsuruoka, Shigemi Sasamoto, Satoshi Tabata, Tomoyuki Aizu, Atsushi ToyodaTadasu Shin-I, Yohei Minakuchi, Yuji Kohara, Asao Fujiyama, Suguru Tsuchimoto, Shinichiro Kajiyama, Eri Makigano, Nobuko Ohmido, Nakako Shibagaki, Joyce A. Cartagena, Naoki Wada, Tsutomu Kohinata, Alipour Atefeh, Shota Yuasa, Sachihiro Matsunaga, Kiichi Fukui

Research output: Contribution to journalArticlepeer-review

250 Citations (Scopus)

Abstract

The whole genome of Jatropha curcas was sequenced, using a combination of the conventional Sanger method and new-generation multiplex sequencing methods. Total length of the non-redundant sequences thus obtained was 285 858 490 bp consisting of 120 586 contigs and 29 831 singlets. They accounted for ∼95 of the gene-containing regions with the average G C content was 34.3. A total of 40 929 complete and partial structures of protein encoding genes have been deduced. Comparison with genes of other plant species indicated that 1529 (4) of the putative protein-encoding genes are specific to the Euphorbiaceae family. A high degree of microsynteny was observed with the genome of castor bean and, to a lesser extent, with those of soybean and Arabidopsis thaliana. In parallel with genome sequencing, cDNAs derived from leaf and callus tissues were subjected to pyrosequencing, and a total of 21 225 unigene data have been generated. Polymorphism analysis using microsatellite markers developed from the genomic sequence data obtained was performed with 12 J. curcas lines collected from various parts of the world to estimate their genetic diversity. The genomic sequence and accompanying information presented here are expected to serve as valuable resources for the acceleration of fundamental and applied research with J. curcas, especially in the fields of environment-related research such as biofuel production. Further information on the genomic sequences and DNA markers is available at http://www.kazusa.or.jp/jatropha/.

Original languageEnglish
Pages (from-to)65-76
Number of pages12
JournalDNA Research
Volume18
Issue number1
DOIs
Publication statusPublished - 2011 Feb
Externally publishedYes

Keywords

  • Jatropha curcas L.
  • cDNA sequencing
  • genome sequencing
  • microsatellite markers

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

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