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Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota

Author

Listed:
  • Kristoffer Forslund

    (European Molecular Biology Laboratory, Structural and Computational Biology Unit)

  • Falk Hildebrand

    (European Molecular Biology Laboratory, Structural and Computational Biology Unit
    VIB Center for the Biology of Disease, Katholieke Universiteit Leuven
    Vrije Universiteit Brussel)

  • Trine Nielsen

    (The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen)

  • Gwen Falony

    (VIB Center for the Biology of Disease, Katholieke Universiteit Leuven
    Rega Institute for Medical Research, Laboratory of Molecular Bacteriology, Katholieke Universiteit Leuven)

  • Emmanuelle Le Chatelier

    (MICALIS, Institut National de la Recherche Agronomique
    Metagenopolis, Institut National de la Recherche Agronomique)

  • Shinichi Sunagawa

    (European Molecular Biology Laboratory, Structural and Computational Biology Unit)

  • Edi Prifti

    (MICALIS, Institut National de la Recherche Agronomique
    Metagenopolis, Institut National de la Recherche Agronomique
    Institute of Cardiometabolism and Nutrition)

  • Sara Vieira-Silva

    (VIB Center for the Biology of Disease, Katholieke Universiteit Leuven
    Rega Institute for Medical Research, Laboratory of Molecular Bacteriology, Katholieke Universiteit Leuven)

  • Valborg Gudmundsdottir

    (Center for Biological Sequence Analysis, Technical University of Denmark)

  • Helle Krogh Pedersen

    (Center for Biological Sequence Analysis, Technical University of Denmark)

  • Manimozhiyan Arumugam

    (The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen)

  • Karsten Kristiansen

    (University of Copenhagen)

  • Anita Yvonne Voigt

    (European Molecular Biology Laboratory, Structural and Computational Biology Unit
    Institute of Pathology, University Hospital Heidelberg
    Molecular Medicine Partnership Unit, University of Heidelberg and European Molecular Biology Laboratory)

  • Henrik Vestergaard

    (The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen)

  • Rajna Hercog

    (European Molecular Biology Laboratory, Structural and Computational Biology Unit)

  • Paul Igor Costea

    (European Molecular Biology Laboratory, Structural and Computational Biology Unit)

  • Jens Roat Kultima

    (European Molecular Biology Laboratory, Structural and Computational Biology Unit)

  • Junhua Li

    (Bejing Genomics Institute (BGI)-Shenzhen)

  • Torben Jørgensen

    (Research Centre for Prevention and Health
    Faculty of Health and Medical Sciences, University of Copenhagen
    Faculty of Medicine, University of Aalborg)

  • Florence Levenez

    (MICALIS, Institut National de la Recherche Agronomique
    Metagenopolis, Institut National de la Recherche Agronomique)

  • Joël Dore

    (MICALIS, Institut National de la Recherche Agronomique
    Metagenopolis, Institut National de la Recherche Agronomique)

  • H. Bjørn Nielsen

    (Center for Biological Sequence Analysis, Technical University of Denmark)

  • Søren Brunak

    (Center for Biological Sequence Analysis, Technical University of Denmark
    Novo Nordisk Foundation Center for Protein Research, Disease Systems Biology, Faculty of Health and Medical Sciences, University of Copenhagen)

  • Jeroen Raes

    (VIB Center for the Biology of Disease, Katholieke Universiteit Leuven
    Vrije Universiteit Brussel
    Rega Institute for Medical Research, Laboratory of Molecular Bacteriology, Katholieke Universiteit Leuven)

  • Torben Hansen

    (The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen
    Faculty of Health Sciences, University of Southern Denmark)

  • Jun Wang

    (University of Copenhagen
    Bejing Genomics Institute (BGI)-Shenzhen
    Princess Al Jawhara Albrahim Center of Excellence in the Research of Hereditary Disorders, King Abdulaziz University
    Macau University of Science and Technology)

  • S. Dusko Ehrlich

    (MICALIS, Institut National de la Recherche Agronomique
    Metagenopolis, Institut National de la Recherche Agronomique
    Centre for Host-Microbiome Interactions, Dental Institute Central Office, Guy’s Hospital, King’s College London, London SE1 9RT , UK)

  • Peer Bork

    (European Molecular Biology Laboratory, Structural and Computational Biology Unit
    Molecular Medicine Partnership Unit, University of Heidelberg and European Molecular Biology Laboratory
    Max Delbrück Centre for Molecular Medicine
    University of Wuerzburg)

  • Oluf Pedersen

    (The Novo Nordisk Foundation Center for Basic Metabolic Research, Faculty of Health and Medical Sciences, University of Copenhagen)

Abstract

Growing evidence from metagenome-wide association studies link multiple common disorders to microbial dysbiosis but effects of drug treatment are often not accounted for; here, the authors re-analyse two previous metagenomic studies of type 2 diabetes mellitus patients together with a novel cohort to determine the effects of the widely prescribed antidiabetic drug metformin and highlight the need to distinguish the effects of a disease from the effects of treatment on the gut microbiota.

Suggested Citation

  • Kristoffer Forslund & Falk Hildebrand & Trine Nielsen & Gwen Falony & Emmanuelle Le Chatelier & Shinichi Sunagawa & Edi Prifti & Sara Vieira-Silva & Valborg Gudmundsdottir & Helle Krogh Pedersen & Man, 2015. "Disentangling type 2 diabetes and metformin treatment signatures in the human gut microbiota," Nature, Nature, vol. 528(7581), pages 262-266, December.
    • Handle: RePEc:nat:nature:v:528:y:2015:i:7581:d:10.1038_nature15766
    DOI: 10.1038/nature15766
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    Citations

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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. Eryun Zhang & Lihua Jin & Yangmeng Wang & Jui Tu & Ruirong Zheng & Lili Ding & Zhipeng Fang & Mingjie Fan & Ismail Al-Abdullah & Rama Natarajan & Ke Ma & Zhengtao Wang & Arthur D. Riggs & Sarah C. Shu, 2022. "Intestinal AMPK modulation of microbiota mediates crosstalk with brown fat to control thermogenesis," Nature Communications, Nature, vol. 13(1), pages 1-10, December.
    3. Yadid M. Algavi & Elhanan Borenstein, 2023. "A data-driven approach for predicting the impact of drugs on the human microbiome," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
    4. Fiona B. Tamburini & Dylan Maghini & Ovokeraye H. Oduaran & Ryan Brewster & Michaella R. Hulley & Venesa Sahibdeen & Shane A. Norris & Stephen Tollman & Kathleen Kahn & Ryan G. Wagner & Alisha N. Wade, 2022. "Short- and long-read metagenomics of urban and rural South African gut microbiomes reveal a transitional composition and undescribed taxa," Nature Communications, Nature, vol. 13(1), pages 1-18, December.
    5. Feng Tong & Teng Wang & Na L. Gao & Ziying Liu & Kuiqing Cui & Yiqian Duan & Sicheng Wu & Yuhong Luo & Zhipeng Li & Chengjian Yang & Yixue Xu & Bo Lin & Liguo Yang & Alfredo Pauciullo & Deshun Shi & G, 2022. "The microbiome of the buffalo digestive tract," Nature Communications, Nature, vol. 13(1), pages 1-16, December.
    6. Koji Hosomi & Mayu Saito & Jonguk Park & Haruka Murakami & Naoko Shibata & Masahiro Ando & Takahiro Nagatake & Kana Konishi & Harumi Ohno & Kumpei Tanisawa & Attayeb Mohsen & Yi-An Chen & Hitoshi Kawa, 2022. "Oral administration of Blautia wexlerae ameliorates obesity and type 2 diabetes via metabolic remodeling of the gut microbiota," Nature Communications, Nature, vol. 13(1), pages 1-17, December.
    7. Tao Li & Zhi-Jing Xu & Shu-Ting Zhang & Jia Xu & Piaopiao Pan & Ning-Yi Zhou, 2024. "Discovery of a Ni2+-dependent heterohexameric metformin hydrolase," Nature Communications, Nature, vol. 15(1), pages 1-10, December.
    8. Wanting Dong & Xinyue Fan & Yaqiong Guo & Siyi Wang & Shulei Jia & Na Lv & Tao Yuan & Yuanlong Pan & Yong Xue & Xi Chen & Qian Xiong & Ruifu Yang & Weigang Zhao & Baoli Zhu, 2024. "An expanded database and analytical toolkit for identifying bacterial virulence factors and their associations with chronic diseases," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
    9. Cameron Martino & Livia S. Zaramela & Bei Gao & Mallory Embree & Janna Tarasova & Seth J. Parker & Yanhan Wang & Huikuan Chu & Peng Chen & Kuei-Chuan Lee & Daniela Domingos Galzerani & Jivani M. Genga, 2022. "Acetate reprograms gut microbiota during alcohol consumption," Nature Communications, Nature, vol. 13(1), pages 1-11, December.
    10. Kotaro Soeda & Takayoshi Sasako & Kenichiro Enooku & Naoto Kubota & Naoki Kobayashi & Yoshiko Matsumoto Ikushima & Motoharu Awazawa & Ryotaro Bouchi & Gotaro Toda & Tomoharu Yamada & Takuma Nakatsuka , 2023. "Gut insulin action protects from hepatocarcinogenesis in diabetic mice comorbid with nonalcoholic steatohepatitis," Nature Communications, Nature, vol. 14(1), pages 1-18, December.

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