Engineering natural microbiomes toward enhanced bioremediation by microbiome modeling.

ABSTRACT: Engineering natural microbiomes for biotechnological applications remains challenging, as metabolic interactions within microbiomes are largely unknown, and practical principles and tools for microbiome engineering are still lacking. Here, we present a combinatory top-down and bottom-up framework to engineer natural microbiomes for the construction of function-enhanced synthetic microbiomes. We show that application of herbicide and herbicide-degrader inoculation drives a convergent succession of different natural microbiomes toward functional microbiomes (e.g., enhanced bioremediation of herbicide-contaminated soils). We develop a metabolic modeling pipeline, SuperCC, that can be used to document metabolic interactions within microbiomes and to simulate the performances of different micro

SUBMITTER: Ruan Z 

PROVIDER: S-EPMC11144243 | biostudies-literature | 2024 Jun

REPOSITORIES: biostudies-literature