Single-cell metabolite detection and genomics reveals uncultivated talented producer

DOI DOI DOI HANDLE PDF ほか2件をすべて表示 一部だけ表示 研究データあり 被引用文献4件 参考文献66件 オープンアクセス
  • Masato Kogawa
    Department of Life Science and Medical Bioscience, Waseda University , 2-2 Wakamatsu-cho, Shinjuku-ku, Tokyo 162–8480 , Japan
  • Rimi Miyaoka
    Department of Life Science and Medical Bioscience, Waseda University , 2-2 Wakamatsu-cho, Shinjuku-ku, Tokyo 162–8480 , Japan
  • Franziska Hemmerling
    Institute of Microbiology, Eidgenössische Technische Hochschule (ETH) Zurich , Vladimir-Prelog-Weg 4, 8093 Zurich , Switzerland
  • Masahiro Ando
    Research Organization for Nano and Life Innovation, Waseda University , 513 Wasedatsurumaki-cho, Shinjuku-ku, Tokyo 162–0041 , Japan
  • Kei Yura
    Department of Life Science and Medical Bioscience, Waseda University , 2-2 Wakamatsu-cho, Shinjuku-ku, Tokyo 162–8480 , Japan
  • Keigo Ide
    Department of Life Science and Medical Bioscience, Waseda University , 2-2 Wakamatsu-cho, Shinjuku-ku, Tokyo 162–8480 , Japan
  • Yohei Nishikawa
    Department of Life Science and Medical Bioscience, Waseda University , 2-2 Wakamatsu-cho, Shinjuku-ku, Tokyo 162–8480 , Japan
  • Masahito Hosokawa
    Department of Life Science and Medical Bioscience, Waseda University , 2-2 Wakamatsu-cho, Shinjuku-ku, Tokyo 162–8480 , Japan
  • Yuji Ise
    Sesoko Station, Tropical Biosphere Research Center, University of the Ryukyus , 3422 Sesoko, Motobu, Kunigami, Okinawa 905-0227 , Japan
  • Jackson K B Cahn
    Institute of Microbiology, Eidgenössische Technische Hochschule (ETH) Zurich , Vladimir-Prelog-Weg 4, 8093 Zurich , Switzerland
  • Kentaro Takada
    School of Marine Biosciences, Kitasato University , Minami-ku, Sagamihara, Kanagawa 252-0373 , Japan
  • Shigeki Matsunaga
    Laboratory of Aquatic Natural Products Chemistry, Graduate School of Agricultural and Life Sciences, The University of Tokyo , Tokyo 113-8657 , Japan
  • Tetsushi Mori
    Department of Biotechnology and Life Science, Tokyo University of Agriculture and Technology , Koganei, Tokyo 184-8588 , Japan
  • Jörn Piel
    Institute of Microbiology, Eidgenössische Technische Hochschule (ETH) Zurich , Vladimir-Prelog-Weg 4, 8093 Zurich , Switzerland
  • Haruko Takeyama
    Department of Life Science and Medical Bioscience, Waseda University , 2-2 Wakamatsu-cho, Shinjuku-ku, Tokyo 162–8480 , Japan
  • Karen E Nelson
    editor

説明

<jats:title>Abstract</jats:title> <jats:p>The production of bioactive metabolites is increasingly recognized as an important function of host-associated bacteria. An example is defensive symbiosis that might account for much of the chemical richness of marine invertebrates including sponges (Porifera), 1 of the oldest metazoans. However, most bacterial members of sponge microbiomes have not been cultivated or sequenced, and therefore, remain unrecognized. Unequivocally linking metabolic functions to a cellular source in sponge microbiomes is, therefore, a challenge. Here, we report an analysis pipeline of microfluidic encapsulation, Raman microscopy, and integrated digital genomics (MERMAID) for an efficient identification of uncultivated producers. We applied this method to the chemically rich bacteriosponge (sponge that hosts a rich bacterial community) Theonella swinhoei, previously shown to contain ‘Entotheonella’ symbionts that produce most of the bioactive substances isolated from the sponge. As an exception, the antifungal aurantosides had remained unassigned to a source. Raman-guided single-bacterial analysis and sequencing revealed a cryptic, distinct multiproducer, ‘Candidatus Poriflexus aureus’ from a new Chloroflexi lineage as the aurantoside producer. Its exceptionally large genome contains numerous biosynthetic loci and suggested an even higher chemical richness of this sponge than previously appreciated. This study highlights the importance of complementary technologies to uncover microbiome functions, reveals remarkable parallels between distantly related symbionts of the same host, and adds functional support for diverse chemically prolific lineages being present in microbial dark matter.</jats:p>

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  • PNAS Nexus

    PNAS Nexus 1 (1), gab007-, 2022-03

    Oxford University Press (OUP)

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