Survey of the genetic information carried in the genome of Eucalyptus camaldulensis

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  • Hirakawa Hideki
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Nakamura Yasukazu
    Department of Plant Genome Research, Kazusa DNA Research Institute Center for Information Biology and DNA Data Bank of Japan, National Institute of Genetics, Research Organization for Information and Systems
  • Kaneko Takakazu
    Department of Plant Genome Research, Kazusa DNA Research Institute Faculty of Life Sciences, Kyoto Sangyo University
  • Isobe Sachiko
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Sakai Hiroe
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Kato Tomohiko
    Forestry Research Institute, Oji Paper Co. Ltd.
  • Hibino Takashi
    Forestry Research Institute, Oji Paper Co. Ltd.
  • Sasamoto Shigemi
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Watanabe Akiko
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Yamada Manabu
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Nakayama Shinobu
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Fujishiro Tsunakazu
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Kishida Yoshie
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Kohara Mitsuyo
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Tabata Satoshi
    Department of Plant Genome Research, Kazusa DNA Research Institute
  • Sato Shusei
    Department of Plant Genome Research, Kazusa DNA Research Institute

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Description

The genetic information in the genome of Eucalyptus camaldulensis was investigated by sequencing the genome and the cDNA using a combination of the conventional Sanger method and next-generation sequencing methods, followed by intensive bioinformatics analyses. The total length of the non-redundant genomic sequences thus obtained was 654,922,307 bp consisting of 81,246 scaffolds and 121,194 singlets. These sequences accounted for approximately 92% of the gene-containing regions with an average G+C content of 33.6%. A total of 77,121 complete and partial structures of protein-encoding genes have been deduced. Comparison of the genes mapped on the KEGG pathways or located in the KOG classification with those in other plant species revealed the characteristics of the E. camaldulensis genome, and it was found that 23 pathways contained enzymes present only in the E. camaldulensis genome. Polymorphism analysis using microsatellite markers developed from the genomic sequence data obtained was performed with six Eucalyptus species collected from various parts of the world to estimate their genetic diversity, and the usefulness of these markers was demonstrated. The genomic sequence and accompanying information presented here are expected to serve as valuable resources for the acceleration of fundamental and applied research with Eucalyptus, especially in the fields of paper production and industrial materials. Further information on the genomic and cDNA sequences and microsatellite markers is available at http://www.kazusa.or.jp/eucaly/.

Journal

  • Plant Biotechnology

    Plant Biotechnology 28 (5), 471-480, 2011

    Japanese Society for Plant Biotechnology

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