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Interplay between the human gut microbiome and host metabolism

Author

Listed:
  • Alessia Visconti

    (King’s College London)

  • Caroline I. Le Roy

    (King’s College London)

  • Fabio Rosa

    (King’s College London)

  • Niccolò Rossi

    (King’s College London
    University of Lisbon)

  • Tiphaine C. Martin

    (King’s College London
    Icahn School of Medicine at Mount Sinai
    Icahn School of Medicine at Mount Sinai)

  • Robert P. Mohney

    (Metabolon, Inc.)

  • Weizhong Li

    (Human Longevity, Inc
    J. Craig Venter Institute)

  • Emanuele Rinaldis

    (Immunology & Inflammation, Cluster of Precision Immunology, Sanofi)

  • Jordana T. Bell

    (King’s College London)

  • J. Craig Venter

    (Human Longevity, Inc
    J. Craig Venter Institute)

  • Karen E. Nelson

    (Human Longevity, Inc
    J. Craig Venter Institute)

  • Tim D. Spector

    (King’s College London)

  • Mario Falchi

    (King’s College London)

Abstract

The human gut is inhabited by a complex and metabolically active microbial ecosystem. While many studies focused on the effect of individual microbial taxa on human health, their overall metabolic potential has been under-explored. Using whole-metagenome shotgun sequencing data in 1,004 twins, we first observed that unrelated subjects share, on average, almost double the number of metabolic pathways (82%) than species (43%). Then, using 673 blood and 713 faecal metabolites, we found metabolic pathways to be associated with 34% of blood and 95% of faecal metabolites, with over 18,000 significant associations, while species showed less than 3,000 associations. Finally, we estimated that the microbiome was involved in a dialogue between 71% of faecal, and 15% of blood, metabolites. This study underlines the importance of studying the microbial metabolic potential rather than focusing purely on taxonomy to find therapeutic and diagnostic targets, and provides a unique resource describing the interplay between the microbiome and the systemic and faecal metabolic environments.

Suggested Citation

  • Alessia Visconti & Caroline I. Le Roy & Fabio Rosa & Niccolò Rossi & Tiphaine C. Martin & Robert P. Mohney & Weizhong Li & Emanuele Rinaldis & Jordana T. Bell & J. Craig Venter & Karen E. Nelson & Tim, 2019. "Interplay between the human gut microbiome and host metabolism," Nature Communications, Nature, vol. 10(1), pages 1-10, December.
    • Handle: RePEc:nat:natcom:v:10:y:2019:i:1:d:10.1038_s41467-019-12476-z
    DOI: 10.1038/s41467-019-12476-z
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    Cited by:

    1. Koen F. Dekkers & Sergi Sayols-Baixeras & Gabriel Baldanzi & Christoph Nowak & Ulf Hammar & Diem Nguyen & Georgios Varotsis & Louise Brunkwall & Nynne Nielsen & Aron C. Eklund & Jacob Bak Holm & H. Bj, 2022. "An online atlas of human plasma metabolite signatures of gut microbiome composition," Nature Communications, Nature, vol. 13(1), pages 1-12, December.
    2. Lixiang Zhai & Haitao Xiao & Chengyuan Lin & Hoi Leong Xavier Wong & Yan Y. Lam & Mengxue Gong & Guojun Wu & Ziwan Ning & Chunhua Huang & Yijing Zhang & Chao Yang & Jingyuan Luo & Lu Zhang & Ling Zhao, 2023. "Gut microbiota-derived tryptamine and phenethylamine impair insulin sensitivity in metabolic syndrome and irritable bowel syndrome," Nature Communications, Nature, vol. 14(1), pages 1-14, December.
    3. Yunjia Lai & Chih-Wei Liu & Yifei Yang & Yun-Chung Hsiao & Hongyu Ru & Kun Lu, 2021. "High-coverage metabolomics uncovers microbiota-driven biochemical landscape of interorgan transport and gut-brain communication in mice," Nature Communications, Nature, vol. 12(1), pages 1-16, December.
    4. Ruiqing Wang & Xinyu Yang & Jinting Liu & Fang Zhong & Chen Zhang & Yuhong Chen & Tao Sun & Chunyan Ji & Daoxin Ma, 2022. "Gut microbiota regulates acute myeloid leukaemia via alteration of intestinal barrier function mediated by butyrate," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
    5. Efrat Muller & Itamar Shiryan & Elhanan Borenstein, 2024. "Multi-omic integration of microbiome data for identifying disease-associated modules," Nature Communications, Nature, vol. 15(1), pages 1-13, December.
    6. Kui Deng & Jin-jian Xu & Luqi Shen & Hui Zhao & Wanglong Gou & Fengzhe Xu & Yuanqing Fu & Zengliang Jiang & Menglei Shuai & Bang-yan Li & Wei Hu & Ju-Sheng Zheng & Yu-ming Chen, 2023. "Comparison of fecal and blood metabolome reveals inconsistent associations of the gut microbiota with cardiometabolic diseases," Nature Communications, Nature, vol. 14(1), pages 1-12, December.

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