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RIKEN Center for Sustainable Resource Science Environmental Metabolic Analysis Research team

Team Leader: Jun Kikuchi (Ph.D.)

Research Summary

Jun  Kikuchi(Ph.D.)

Our team intends to develop novel environmental analysis such as by a bird’s-eye view of metabolism caused by ecosystem biodiversity, based on technical advancements of our NMR approaches toward metabolite and biomass mixtures, as well as inorganic elements and microbial ecosystem analyses combined with bioinformatics and chemoinformatics approaches. Namely, we promote both international and industrial collaboration in order to contribute for effective utilization of chemical resources, by analyzing laboratory systems, industrial (agriculture, forestry, and fishery) process, and natural environment (hydrosphere and geosphere, as well as outer space).

Main Research Fields

  • Complex Systems

Related Research Fields

  • Chemistry
  • Agricultural Sciences
  • Informatics
  • Environmental Science
  • Interdisciplinary Science & Engineering
  • Mathematical & Physical Sciences
  • Biological Sciences
  • Life Sciences
  • Environmental Analysis & Modeling
  • Aquatic Ecosystem

Keywords

  • Environmental analysis
  • Data science
  • Magnetic resonance
  • Symbiosis
  • Homeostasis

Selected Publications

  • 1. Ito, K., Tsuboi, Y. and Kikuchi, J.*.:
    "Spatial molecular-dynamically ordered NMR spectroscopy of intact bodies and heterogeneous systems"
    Commun. Chem. (in press).
  • 2. Ichihashi, Y.*, Date, Y., Shino, A., Shimizu, T., Shibata, A., Kumaishi, K., Funahashi, F., Wakayama, K., Yamazaki, K., Umezawa, A., Sato, T., Kobayashi, M., Kamimura, M., Kusano, M., Che, F.-S., O’Brien, M., Tanoi, K., Hayashi, M., Nakamura, R., Shirasu, K., Kikuchi, J. and Nihei, N.*
    "Multi-omics analysis on an agroecosystem reveals the significant role of organic nitrogen to increase agricultural crop yield"
    Proc. Natl. Acad. Sci. USA (in press).
  • 3. Mega, R., Abe, F., Kim, J.-S., Tsuboi, Y., Tanaka, K., Kobayashi, H., Sakata, Y., Hanada, K., Tsujimoto, H., Kikuchi, J., Cutler, S. R. and Okamoto, M.*
    "Tuning water use efficiency and drought tolerance in wheat using ABA receptors"
    Nature Plants 5, 153-159 (2019).
  • 4. Ito, K., Obuchi, Y., Chikayama, E., Date, Y. and Kikuchi, J.*
    "Exploratory machine-learned theoretical chemical shifts can closely predict metabolic mixture signals"
    Chem. Sci. 9, 8213-8220 (2018).
  • 5. Kikuchi, J.*, Ito, K. and Date, Y.
    "Environmental metabolomics with data science as investigation of ecosystem homeostasis"
    Progress in NMR Spectroscopy 104, 56-88 (2018).
  • 6. Date, Y.* and Kikuchi, J.*
    "Application of a deep neural network to metabolomics studies and its performance in determining important variables"
    Anal. Chem. 90, 1805-1810 (2018).
  • 7. Oita, A., Oshima, T., Tsuboi, Y., Moriya, S., Date, Y. and Kikuchi, J.*
    "Profiling physicochemical and planktonic features from discretely/continuously sampled surface water"
    Sci. Total Environ. 636, 12-19 (2018).
  • 8. Komatsu, T., Ohishi, R., Shino, A. and Kikuchi, J.*
    "Structure and metabolic flow analysis of molecular complexity in 13C-labeled tree by 2D and 3D-NMR"
    Angew. Chem. Int. Ed. 55, 6000-6003 (2016).
  • 9. Furusawa, Y., Obata, Y., Fukuda, S.*, Endo, T., Nakato, G., Takahashi, D., Nakanishi, Y., Uetake, C., Kato, K., Kato, T., Takahashi, M., Fukuda, N., Murakami, S., Miyauchi, E., Hino, S., Atarashi, K., Onawa, S., Fujimura, Y., Lockett, T., Clarke, J. M., Topping, D. L., Tomita, M., Hori, S., Ohara, O., Morita, T., Koseki, H., Kikuchi, J., Honda, K., Hase, K.* and Ohno, H.
    "Commensal microbe-derived butyrate induces colonic regulatory T cells"
    Nature 504, 446-450 (2013).
  • 10. Fukuda, S., Toh, H., Hase, K., Nakanishi, Y., Oshima, K., Yoshimura, K., Tobe, T., Clarke, J. M., Topping, D. L., Suzuki, T., Taylor, T. D., Itoh, K., Kikuchi, J., Morita, H., Hattori, M.* and Ohno, H.*
    "Bifidobacteria protect from enteropathogenic infection through production of acetate"
    Nature 469, 543-547 (2011).

Recent Research Results

Events

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Lab Members

Principal investigator

Jun Kikuchi
Team Leader

Core members

Kenichi Akagi
Research Scientist
Hideaki Shima
Research Scientist
Ayari Takamura
Special Postdoctoral Researcher
Kengo Ito
Postdoctoral Researcher
Atsushi Kurotani
Postdoctoral Researcher
Feifei Wei
Postdoctoral Researcher
Daiki Yokoyama
Postdoctoral Researcher
Shunji Yamada
Junior Research Associate
Yuuri Tsuboi
Technical Staff I
kenji Sakata
Technical Staff I
Tomoko Matsumoto
Technical Staff II
Akiyo Tei
Technical Staff II

Careers

Position Deadline
Seeking a Research Scientist or Senior Research Scientist (20Y63) Dec 8, 2020

Contact Information

1-7-22 Suehiro-cho, Tsurumi-ku, Yokohama City, Kanagawa, 230-0045, Japan
Tel: +81-(0)45-508-7549

Email: ikenoa [at] riken.jp

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