IDEAS home Printed from https://ideas.repec.org/a/nat/natcom/v2y2011i1d10.1038_ncomms1597.html
   My bibliography  Save this article

Competitive and cooperative metabolic interactions in bacterial communities

Author

Listed:
  • Shiri Freilich

    (Sackler Faculty of Medicine, Tel Aviv University)

  • Raphy Zarecki

    (Sackler Faculty of Medicine, Tel Aviv University)

  • Omer Eilam

    (Computation Institute, University of Chicago)

  • Ella Shtifman Segal

    (Faculty of Life Sciences, Tel Aviv University)

  • Christopher S. Henry

    (Computation Institute, University of Chicago)

  • Martin Kupiec

    (Faculty of Life Sciences, Tel Aviv University)

  • Uri Gophna

    (Faculty of Life Sciences, Tel Aviv University)

  • Roded Sharan

    (The Blavatnik School of Computer Science, Tel Aviv University)

  • Eytan Ruppin

    (Sackler Faculty of Medicine, Tel Aviv University
    The Blavatnik School of Computer Science, Tel Aviv University)

Abstract

Revealing the ecological principles that shape communities is a major challenge of the post-genomic era. To date, a systematic approach for describing inter-species interactions has been lacking. Here we independently predict the competitive and cooperative potential between 6,903 bacterial pairs derived from a collection of 118 species' metabolic models. We chart an intricate association between competition and cooperation indicating that the cooperative potential is maximized at moderate levels of resource overlap. Utilizing ecological data from 2,801 samples, we explore the associations between bacterial interactions and coexistence patterns. The high level of competition observed between species with mutual-exclusive distribution patterns supports the role of competition in community assembly. Cooperative interactions are typically unidirectional with no obvious benefit to the giver. However, within their natural communities, bacteria typically form close cooperative loops resulting in indirect benefit to all species involved. These findings are important for the future design of consortia optimized towards bioremediation and bio-production applications.

Suggested Citation

  • Shiri Freilich & Raphy Zarecki & Omer Eilam & Ella Shtifman Segal & Christopher S. Henry & Martin Kupiec & Uri Gophna & Roded Sharan & Eytan Ruppin, 2011. "Competitive and cooperative metabolic interactions in bacterial communities," Nature Communications, Nature, vol. 2(1), pages 1-7, September.
  • Handle: RePEc:nat:natcom:v:2:y:2011:i:1:d:10.1038_ncomms1597
    DOI: 10.1038/ncomms1597
    as

    Download full text from publisher

    File URL: https://www.nature.com/articles/ncomms1597
    File Function: Abstract
    Download Restriction: no

    File URL: https://libkey.io/10.1038/ncomms1597?utm_source=ideas
    LibKey link: if access is restricted and if your library uses this service, LibKey will redirect you to where you can use your library subscription to access this item
    ---><---

    Citations

    Citations are extracted by the CitEc Project, subscribe to its RSS feed for this item.
    as


    Cited by:

    1. Vanessa R. Marcelino & Caitlin Welsh & Christian Diener & Emily L. Gulliver & Emily L. Rutten & Remy B. Young & Edward M. Giles & Sean M. Gibbons & Chris Greening & Samuel C. Forster, 2023. "Disease-specific loss of microbial cross-feeding interactions in the human gut," Nature Communications, Nature, vol. 14(1), pages 1-11, December.
    2. Xianglai Li & Zhao Zhou & Wenna Li & Yajun Yan & Xiaolin Shen & Jia Wang & Xinxiao Sun & Qipeng Yuan, 2022. "Design of stable and self-regulated microbial consortia for chemical synthesis," Nature Communications, Nature, vol. 13(1), pages 1-9, December.
    3. Jordán, Ferenc, 2022. "The network perspective: Vertical connections linking organizational levels," Ecological Modelling, Elsevier, vol. 473(C).
    4. Chengyao Xia & Yuqiang Zhao & Lei Zhang & Xu Li & Yang Cheng & Dongming Wang & Changsheng Xu & Mengyi Qi & Jihong Wang & Xiangrui Guo & Xianfeng Ye & Yan Huang & Danyu Shen & Daolong Dou & Hui Cao & Z, 2023. "Myxobacteria restrain Phytophthora invasion by scavenging thiamine in soybean rhizosphere via outer membrane vesicle-secreted thiaminase I," Nature Communications, Nature, vol. 14(1), pages 1-16, December.
    5. Sean M Gibbons & Sean M Kearney & Chris S Smillie & Eric J Alm, 2017. "Two dynamic regimes in the human gut microbiome," PLOS Computational Biology, Public Library of Science, vol. 13(2), pages 1-20, February.
    6. Xiaokan Guo & James Q Boedicker, 2016. "The Contribution of High-Order Metabolic Interactions to the Global Activity of a Four-Species Microbial Community," PLOS Computational Biology, Public Library of Science, vol. 12(9), pages 1-13, September.
    7. Tomas Hessler & Robert J. Huddy & Rohan Sachdeva & Shufei Lei & Susan T. L. Harrison & Spencer Diamond & Jillian F. Banfield, 2023. "Vitamin interdependencies predicted by metagenomics-informed network analyses and validated in microbial community microcosms," Nature Communications, Nature, vol. 14(1), pages 1-12, December.
    8. Meirong Gao & Yuxin Zhao & Zhanyi Yao & Qianhe Su & Payton Van Beek & Zengyi Shao, 2023. "Xylose and shikimate transporters facilitates microbial consortium as a chassis for benzylisoquinoline alkaloid production," Nature Communications, Nature, vol. 14(1), pages 1-13, December.
    9. Itay Mayrose & Shiri Freilich, 2015. "The Interplay between Scientific Overlap and Cooperation and the Resulting Gain in Co-Authorship Interactions," PLOS ONE, Public Library of Science, vol. 10(9), pages 1-10, September.
    10. Yanyan Zhou & Donghui Liu & Fengqiao Li & Yuanhua Dong & Zhili Jin & Yangwenke Liao & Xiaohui Li & Shuguang Peng & Manuel Delgado-Baquerizo & Xiaogang Li, 2024. "Superiority of native soil core microbiomes in supporting plant growth," Nature Communications, Nature, vol. 15(1), pages 1-13, December.

    More about this item

    Statistics

    Access and download statistics

    Corrections

    All material on this site has been provided by the respective publishers and authors. You can help correct errors and omissions. When requesting a correction, please mention this item's handle: RePEc:nat:natcom:v:2:y:2011:i:1:d:10.1038_ncomms1597. See general information about how to correct material in RePEc.

    If you have authored this item and are not yet registered with RePEc, we encourage you to do it here. This allows to link your profile to this item. It also allows you to accept potential citations to this item that we are uncertain about.

    We have no bibliographic references for this item. You can help adding them by using this form .

    If you know of missing items citing this one, you can help us creating those links by adding the relevant references in the same way as above, for each refering item. If you are a registered author of this item, you may also want to check the "citations" tab in your RePEc Author Service profile, as there may be some citations waiting for confirmation.

    For technical questions regarding this item, or to correct its authors, title, abstract, bibliographic or download information, contact: Sonal Shukla or Springer Nature Abstracting and Indexing (email available below). General contact details of provider: http://www.nature.com .

    Please note that corrections may take a couple of weeks to filter through the various RePEc services.

    IDEAS is a RePEc service. RePEc uses bibliographic data supplied by the respective publishers.