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KNApSAcK: A Comprehensive Species-Metabolite Relationship Database

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Plant Metabolomics

Part of the book series: Biotechnology in Agriculture and Forestry ((AGRICULTURE,volume 57))

Conclusion and Remarks

We prepared a database, KNApSAcK for accumulation and search of metabolite-species relationships. The power-law distribution observed in the present study is likely to be associated with research activity for finding novel metabolites from nature. In addition, it seems to be derived from searching rare metabolites from the organisms originally exhibiting power-law in the degree distribution of their metabolic networks. This suggests that the database contains chemical diversity of metabolites which occurred through evolution of species. Graph clustering is shown to be useful to extract taxonomic relationships on the basis of common metabolites. As we are continuously accumulating metabolite-species pairs in the database, we continue to advance our understanding of species-metabolite relations in taxonomic hierarchy. Furthermore, we plan to add an option for searching metabolite structures by entering partial structures, which will be helpful for metabolite research.

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Author information

Authors and Affiliations

  1. New Energy and Industrial Technology Development Organization, Toshima, Tokyo, 170-6028, Japan

    Y. Shinbo

  2. Department of Bioinformatics and Genomics, Graduate School of Information Science, Nara Institute of Science and Technology (NAIST), Takayama-cho 8916-5, Ikoma, Nara, 630-0101, Japan

    Y. Nakamura, M. Altaf-Ul-Amin, H. Asahi, K. Kurokawa & S. Kanaya

  3. Ehime Women’s College, Baba 421, Ibuki-cho, Uwazima, Ehime, 798-0025, Japan

    Y. Nakamura

  4. Department of Computational Biology, Graduate School of Frontier Sciences, The University of Tokyo, Kashiwanoha 5-1-5, Kashiwa Chiba, 277-8561, Japan

    M. Arita

  5. Metabolomics Research Group, RIKEN Plant Science Center, Suehiro-cho 1-7-22, Tsurumi-ku, Yokohama, Kanagawa, 230-0045, Japan

    K. Saito

  6. Department of Plant Genes and Physiology, Graduate School of Agriculture and Biological Sciences, Osaka Prefecture University, Gakuen-cho 1-1, Sakai, Osaka, 599-8531, Japan

    D. Ohta

  7. Kazusa DNA Research Institute, Kazusakamatari 2-6-7, Kisarazu, Chiba, 292-0818, Japan

    D. Shibata

Authors
  1. Y. Shinbo
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  2. Y. Nakamura
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  3. M. Altaf-Ul-Amin
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  4. H. Asahi
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  5. K. Kurokawa
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  6. M. Arita
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  7. K. Saito
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  8. D. Ohta
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  9. D. Shibata
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  10. S. Kanaya
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Editor information

Editors and Affiliations

  1. Graduate School of Pharmaceutical Sciences, Chiba University, Yayoi-cho 1-33, Inage-ku, Chiba, 263-8522, Japan

    Kazuki Saito

  2. RIKEN Plant Science Center, Yokohama, 230-0045, Japan

    Kazuki Saito

  3. Plant Biology Division, Samuel Roberts Noble Foundation, 2510 Sam Noble Parkway, Ardmore, OK, 73401, USA

    Richard A. Dixon

  4. Max Planck Institute of Molecular Plant Physiology, Am Mühlenberg 1, 14476, Golm, Germany

    Lothar Willmitzer

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© 2006 Springer-Verlag Berlin Heidelberg

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Shinbo, Y. et al. (2006). KNApSAcK: A Comprehensive Species-Metabolite Relationship Database. In: Saito, K., Dixon, R.A., Willmitzer, L. (eds) Plant Metabolomics. Biotechnology in Agriculture and Forestry, vol 57. Springer, Berlin, Heidelberg. https://doi.org/10.1007/3-540-29782-0_13

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