期刊
NATURE REVIEWS MICROBIOLOGY
卷 17, 期 12, 页码 725-741出版社
NATURE PUBLISHING GROUP
DOI: 10.1038/s41579-019-0255-9
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资金
- College of Engineering at the University of Wisconsin-Madison
- National Sciences and Engineering Research Council of Canada
- Wisconsin Distinguished Graduate Fellowship
- National Science Foundation [CBET-1803055, MCB-1518130, CBET-1703504, MCB1716594, DEB1831599]
- University of Wisconsin-Madison Wisconsin Alumni Research Foundation via the Microbiome Initiative
- US Department of Energy (DOE) Great Lakes Bioenergy Research Center grants (DOE Office of Science) [BER DE-SC0018409]
- DOE Joint BioEnergy Institute - US DOE, Office of Science, Office of Biological and Environmental Research [DE-AC02-05CH11231]
- DOE Agile BioFoundry - US DOE, Energy Efficiency and Renewable Energy, Bioenergy Technologies Office [DE-AC02-05CH11231]
- Basque Government through the Basque Center for Applied Mathematics 2018-2021 programme
- Spanish Ministry of Economy and Competitiveness (MINECO) through BCAM Severo Ochoa excellence [SEV-2017-071]
- US Department of Defense's Strategic Environmental Research and Development Program
- University of Tennessee
- Oak Ridge National Laboratory
- Swiss National Science Foundation (Chemical Engineering Division) [151977]
- Department of Biotechnology of the TU Delft
- Netherlands Organisation for Scientific Research (NWO, Applied and Engineering Sciences Division) [15812]
- Soehngen Institute of Anaerobic Microbiology (SIAM)
- European Commission Horizon 2020 (Research and Innovation Action Saraswati 2.0)
- European Commission Horizon 2020 (Twinning Project REPARES)
- Gordon and Betty Moore Foundation [GBMF5999]
- National Science Foundation (RII Track-2 FEC award) [1736255]
Despite broad scientific interest in harnessing the power of Earth's microbiomes, knowledge gaps hinder their efficient use for addressing urgent societal and environmental challenges. We argue that structuring research and technology developments around a design-build-test-learn (DBTL) cycle will advance microbiome engineering and spur new discoveries of the basic scientific principles governing microbiome function. In this Review, we present key elements of an iterative DBTL cycle for microbiome engineering, focusing on generalizable approaches, including top-down and bottom-up design processes, synthetic and self-assembled construction methods, and emerging tools to analyse microbiome function. These approaches can be used to harness microbiomes for broad applications related to medicine, agriculture, energy and the environment. We also discuss key challenges and opportunities of each approach and synthesize them into best practice guidelines for engineering microbiomes. We anticipate that adoption of a DBTL framework will rapidly advance microbiome-based biotechnologies aimed at improving human and animal health, agriculture and enabling the bioeconomy.
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