Engineering microbial consortia for controllable outputs

Lindemann, Stephen R.; Bernstein, Hans C.; Song, Hyun-Seob; Fredrickson, Jim K.; Fields, Matthew W.; Shou, Wenying; Johnson, David R.; Beliaev, Alexander S.

doi:10.1038/ismej.2016.26

Title: Engineering microbial consortia for controllable outputs

Journal Article · Fri Mar 11 00:00:00 EST 2016 · The ISME Journal

DOI:https://doi.org/10.1038/ismej.2016.26· OSTI ID:1324901

Lindemann, Stephen R.;

; Song, Hyun-Seob; Fredrickson, Jim K.;

; Shou, Wenying; Johnson, David R.; Beliaev, Alexander S.

Much research has been invested into engineering microorganisms to perform desired biotransformations; nonetheless, these efforts frequently fall short of expected results due to the unforeseen effects of biofeedback regulation and functional incompatibility. In nature, metabolic function is compartmentalized into diverse organisms assembled into resilient consortia, in which the division of labor is thought to lead to increased community efficiency and productivity. Here, we consider whether and how consortia can be designed to perform bioprocesses of interest beyond the metabolic flexibility limitations of a single organism. Advances in post-genomic analysis of microbial consortia and application of high-resolution global measurements now offer the promise of systems-level understanding of how microbial consortia adapt to changes in environmental variables and inputs of carbon and energy. We argue that when combined with appropriate modeling framework that predictive knowledge generates testable hypotheses and orthogonal synthetic biology tools, such understanding can dramatically improve our ability to control the fate and functioning of consortia. In this article, we articulate our collective perspective on the current and future state of microbial community engineering and control while placing specific emphasis on ecological principles that promote control over community function and emergent properties.

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Research Organization:: Pacific Northwest National Laboratory (PNNL), Richland, WA (United States)

Sponsoring Organization:: USDOE

DOE Contract Number:: AC05-76RL01830

OSTI ID:: 1324901

Report Number(s):: PNNL-SA-110327; KP1601010

Journal Information:: The ISME Journal, Vol. 10, Issue 9; ISSN 1751-7362

Publisher:: Nature Publishing Group

Country of Publication:: United States

Language:: English

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Prediction of Neighbor-Dependent Microbial Interactions From Limited Population Data Lee, Joon-Yong; Haruta, Shin; Kato, Souichiro Frontiers in Microbiology, Vol. 10 https://doi.org/10.3389/fmicb.2019.03049	journal	January 2020
Detection of stable community structures within gut microbiota co-occurrence networks from different human populations Jackson, Matthew A.; Bonder, Marc Jan; Kuncheva, Zhana PeerJ, Vol. 6 https://doi.org/10.7717/peerj.4303	journal	February 2018

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