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Common principles and best practices for engineering microbiomes
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
hat structuring research and technology developments around a design-build-test-learn (DBTL)
cycle will advance microbiome engineering and spur new discoveries on 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 analyze 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