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Beyond the Venn diagram: the hunt for a core microbiome

Authors

  • Ashley Shade,

    1. Department of Molecular, Cellular, and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT 06520, USA
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  • Jo Handelsman

    Corresponding author
    1. Department of Molecular, Cellular, and Developmental Biology, Yale University, 219 Prospect Street, New Haven, CT 06520, USA
      E-mail jo.handelsman@yale.edu; Tel. (+1) 203 432 9119; Fax (+1) 203 432 6161.
    Search for more papers by this author

E-mail jo.handelsman@yale.edu; Tel. (+1) 203 432 9119; Fax (+1) 203 432 6161.

Summary

Discovering a core microbiome is important for understanding the stable, consistent components across complex microbial assemblages. A core is typically defined as the suite of members shared among microbial consortia from similar habitats, and is represented by the overlapping areas of circles in Venn diagrams, in which each circle contains the membership of the sample or habitats being compared. Ecological insight into core microbiomes can be enriched by 'omics approaches that assess gene expression, thereby extending the concept of the core beyond taxonomically defined membership to community function and behaviour. Parameters defined by traditional ecology theory, such as composition, phylogeny, persistence and connectivity, will also create a more complex portrait of the core microbiome and advance understanding of the role of key microorganisms and functions within and across ecosystems.

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