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RIKEN Center for Integrative Medical Sciences Laboratory for Microbiome Sciences

Team Leader: Hiroshi Ohno (M.D., Ph.D)

Research Summary

Hiroshi Ohno (M.D., Ph.D)

The aim of the microbiome research team (Laboratory for Microbiome Sciences) is to comprehensively elucidate the host-microbial interaction by the analysis of the ecological, functional, and medical features of the microbial communities such as human gut, oral, skin microbiomes, and various symbiotic communities in other species. Our team also develops technologies of bioinformatics and statistics for the analysis of large metagenomic and genomic datasets of microbiomes and microbes produced by the next-generation sequencers.

Main Research Fields

  • Biological Sciences

Related Research Fields

  • Informatics
  • Biological Sciences
  • Biology
  • Medicine, Dentistry & Pharmacy


  • Microbiome
  • Metagenome
  • Gut microbiota
  • Commensal bacteria
  • Bacterial genome

Selected Publications

Papers with an asterisk(*) are based on research conducted outside of RIKEN.

  • 1.Takayasu L, Suda W, Watanabe E, Fukuda S, Takanashi K, Ohno H, Takayasu M, Takayasu H, Hattori M.:
    "A 3-dimensional mathematical model of microbial proliferation that generates the characteristic cumulative relative abundance distributions in gut microbiomes"
    PLoS One 12: e0180863 (2017).
  • 2.*Takayasu L, Suda W, Takanashi K, Erica Iioka E, Kurokawa R, Shindo C, Hattori Y, Yamashita N, Nishijima S, Oshima K, and Hattori M.:
    "Circadian oscillations of microbial and functional composition in the human salivary microbiome"
    DNA Res., 24: 261-270 (2017).
  • 3.*Iwasawa K, Suda W, Tsunoda T, Oikawa-Kawamoto M, Umetsu S, Inui A, Fujisawa T, Morita H, Sogo T, Hattori M.:
    "Characterisation of the faecal microbiota in Japanese patients with paediatric-onset primary sclerosing cholangitis"
    Gut, 66: 1344-1346 (2017).
  • 4.*Nishijima S, Suda W, Oshima K, Kim S-W, Hirose Y, Morita H, Hattori M.:
    "The gut microbiome of healthy Japanese and its microbial and functional uniqueness"
    DNA Res. 23: 125-133 (2016).
  • 5.*Atarashi K, Tanoue T, Ando M, Kamada N, Nagano Y, Narushima S, Suda W, Imaoka A, Setoyama H, Nagamori T, Ishikawa E, Shima T, Hara T, Kado S, Jinnohara T, Ohno H, Kondo T, Toyooka K, Watanabe E, Yokoyama SI, Tokoro S, Mori H, Noguchi Y, Morita H, Ivanov II, Sugiyama T, Nuñez G, Camp JG, Hattori M, Umesaki Y, Honda K.:
    "Th17 Cell Induction by Adhesion of Microbes to Intestinal Epithelial Cells"
    Cell 163: 367-380 (2015).
  • 6.*Miyake S, Kim S, Suda W, Oshima K, Nakamura M, Matsuoka T, Chihara N, Tomita A, Sato W, Kim SW, Morita H, Hattori M, Yamamura T.:
    "Dysbiosis in the Gut Microbiota of Patients with Multiple Sclerosis, with a Striking Depletion of Species Belonging to Clostridia XIVa and IV Clusters"
    PLoS One. 10: e0137429 (2015).
  • 7.*Kawamoto S, Maruya M, Kato LM, Suda W, Atarashi K, Doi Y, Tsutsui Y, Qin H, Honda K, Okada T, Hattori M, Fagarasan S.:
    "Symbiotic regulatory loop between Foxp3+ T cells, IgA and gut microbiota"
    Immunity 41: 152-65 (2014).
  • 8.*Said HS, Suda W, Nakagome S, Chinen H, Oshima K, Kim S, Kimura R, Iraha A, Ishida H, Fujita J, Mano S, Morita H, Dohi T, Oota H, Hattori M.:
    "Dysbiosis of salivary microbiota in inflammatory bowel diseases and its association with oral immunological biomarkers"
    DNA Res. 21: 15-25 (2014).
  • 9.*Atarashi K, Tanoue T, Oshima K, Suda W, Nagano Y, Kim S, Narushima S, Fukuda S, Hase K, Ohno H, Olle B, Taniguchi T, Morita H, Hattori M, Honda K.:
    "Treg induction by a rationally selected mixture of Clostridia strains from the human microbiota"
    Nature 500: 232-236 (2013).
  • 10.*Kim SW, Suda W, Kim S, Oshima K, Fukuda S, Ohno H, Morita H, Hattori M.:
    "Robustness of gut microbiota of healthy adult in response to probiotic intervention revealed by high-throughput pyrosequencing"
    DNA Res. 20: 241-253 (2013).

Lab Members

Principal investigator

Hiroshi Ohno
Team Leader

Contact Information

West Research Building,
1-7-22 Suehiro-cho, Tsurumi-ku,
Yokohama City, Kanagawa,
230-0045, Japan
Tel: +81-(0)45-503-9302
Fax: +81-(0)45-503-9613