Microbiome and human health: current understanding, engineering, and enabling technologies

N Aggarwal, S Kitano, GRY Puah, S Kittelmann… - Chemical …, 2022 - ACS Publications
The human microbiome is composed of a collection of dynamic microbial communities that
inhabit various anatomical locations in the body. Accordingly, the coevolution of the …

Soil microbiome engineering for sustainability in a changing environment

JK Jansson, R McClure, RG Egbert - Nature Biotechnology, 2023 - nature.com
Recent advances in microbial ecology and synthetic biology have the potential to mitigate
damage caused by anthropogenic activities that are deleteriously impacting Earth's soil …

High-throughput microbial culturomics using automation and machine learning

Y Huang, RU Sheth, S Zhao, LA Cohen… - Nature …, 2023 - nature.com
Pure bacterial cultures remain essential for detailed experimental and mechanistic studies in
microbiome research, and traditional methods to isolate individual bacteria from complex …

Species-and site-specific genome editing in complex bacterial communities

BE Rubin, S Diamond, BF Cress, A Crits-Christoph… - Nature …, 2022 - nature.com
Understanding microbial gene functions relies on the application of experimental genetics in
cultured microorganisms. However, the vast majority of bacteria and archaea remain …

Defining and combating antibiotic resistance from One Health and Global Health perspectives

S Hernando-Amado, TM Coque, F Baquero… - Nature …, 2019 - nature.com
Several interconnected human, animal and environmental habitats can contribute to the
emergence, evolution and spread of antibiotic resistance, and the health of these contiguous …

Examining horizontal gene transfer in microbial communities

IL Brito - Nature Reviews Microbiology, 2021 - nature.com
Bacteria acquire novel DNA through horizontal gene transfer (HGT), a process that enables
an organism to rapidly adapt to changing environmental conditions, provides a competitive …

CRISPR RNA-guided integrases for high-efficiency, multiplexed bacterial genome engineering

PLH Vo, C Ronda, SE Klompe, EE Chen, C Acree… - Nature …, 2021 - nature.com
Existing technologies for site-specific integration of kilobase-sized DNA sequences in
bacteria are limited by low efficiency, a reliance on recombination, the need for multiple …

Microbiome engineering: synthetic biology of plant-associated microbiomes in sustainable agriculture

J Ke, B Wang, Y Yoshikuni - Trends in Biotechnology, 2021 - cell.com
To support an ever-increasing population, modern agriculture faces numerous challenges
that pose major threats to global food and energy security. Plant-associated microbes, with …

Common principles and best practices for engineering microbiomes

CE Lawson, WR Harcombe, R Hatzenpichler… - Nature Reviews …, 2019 - nature.com
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 …

In situ targeted base editing of bacteria in the mouse gut

AK Brödel, LH Charpenay, M Galtier, FJ Fuche… - Nature, 2024 - nature.com
Microbiome research is now demonstrating a growing number of bacterial strains and genes
that affect our health. Although CRISPR-derived tools have shown great success in editing …