Journal
SCIENCE ADVANCES
Volume 7, Issue 45, Pages -Publisher
AMER ASSOC ADVANCEMENT SCIENCE
DOI: 10.1126/sciadv.abi7159
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Funding
- NSF Graduate Research Fellowship Program [2016220942, 2013164251]
- Siebel Scholars Foundation
- MIT Institute for Medical Engineering and Science Broshy Fellowship
- Career Award at the Scientific Interface from the Burroughs Wellcome Fund [1010240]
- MIT Deshpande Center Innovation Grant
- Bridge Project grant from the Dana Farber/Harvard Cancer Center
- Koch Institute for Integrative Cancer Research at MIT
- Merkin Institute for Transformative Technologies in Healthcare at the Broad Institute
- United States-Israel Binational Science Foundation [2017179]
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The study used an ultrahigh-throughput coculture platform to measure interactions among 20 soil bacteria in 40 carbon environments, finding that positive interactions were prevalent and primarily occurred as parasitisms between strains with differing carbon consumption profiles. In 85% of cases, non-growing strains were promoted by strongly growing strains, suggesting a simple positive interaction-mediated approach for cultivation, microbiome engineering, and microbial consortium design.
Interspecies interactions shape the structure and function of microbial communities. In particular, positive, growth-promoting interactions can substantially affect the diversity and productivity of natural and engineered communities. However, the prevalence of positive interactions and the conditions in which they occur are not well understood. To address this knowledge gap, we used kChip, an ultrahigh-throughput coculture platform, to measure 180,408 interactions among 20 soil bacteria across 40 carbon environments. We find that positive interactions, often described to be rare, occur commonly and primarily as parasitisms between strains that differ in their carbon consumption profiles. Notably, nongrowing strains are almost always promoted by strongly growing strains (85%), suggesting a simple positive interaction-mediated approach for cultivation, microbiome engineering, and microbial consortium design.
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