Nature Reviews Microbiology, Published online: 04 August 2025; doi:10.1038/s41579-025-01211-9In this Review, Oh and Voigt explore the major characteristics and functions of the skin microbiome, and they highlight potential therapeutic targets in the skin microbiome and ongoing progress in the development of skin microbiome-based therapeutics.

Fecal microbiota transplants (FMTs) involve transferring stool from a donor to a recipient for therapeutic purposes. When did FMTs start? How are they used today—and what does the future hold?

Clues are emerging about the ghostly clan that settled eastern Asia and left a genetic legacy in people today.

Nature Reviews Microbiology, Published online: 13 May 2025; doi:10.1038/s41579-025-01183-wThe human intestinal microbiota ferments dietary fibre to short-chain fatty acids, which make an important contribution to host health. In this Review, Mukhopadhya and Louis discuss the luminal microbial production of short-chain fatty acids and their local and systemic actions on the host.

Nature Microbiology has launched a joint collection on the clinical microbiome with Nature Communications, Nature Medicine and Communications Medicine.

Gene editing and many other useful biotechnology tools came from studies of bacteria fighting off viral invaders. But scientists have only begun to unlock the secrets of this ancient arms race.

We are delighted to invite everyone to the seventh annual Harvard Chan Microbiome in Public Health Center (HCMPH) symposium on May 19, 2025. We are happy to

This Review summarizes recent and compelling examples of microbiome-based interventions that are ripe for clinical adoption while also discussing the challenges and opportunities facing the field.

Nature Metabolism, Published online: 10 April 2025; doi:10.1038/s42255-025-01283-0Pathway analysis, originally developed for gene expression data, has been adapted for metabolomics. However, owing to the unique characteristics and constraints of metabolites compared with genes, pathway analysis in metabolomics often yields misleading or nonsensical results.

A computational framework to integrate microbial GWAS and single-cell RNA-sequencing profiles of 24 human organs reveals interactions between the host cells and microbes.

Nature Reviews Microbiology, Published online: 21 March 2025; doi:10.1038/s41579-025-01166-xEach human hosts a unique microbiome, but only recently have we started to uncover how such uniqueness can arise. In this Review, Heidrich, Valles-Colomer and Segata highlight studies that surveyed how we acquire and transmit our microbiome strains through interactions with other humans and the environment.

Nature Reviews Microbiology, Published online: 11 March 2025; doi:10.1038/s41579-025-01157-yIn this Review, Lang and colleagues present an overview of the current knowledge landscape regarding mobile genetic elements in bacteria, with a focus on their…

Applying WAAFLE to metagenomic data from human samples reveals over 100,000 putative LGTs not currently found in reference genomes, highlighting an underappreciated microbiome phenomenon.

Atopic dermatitis (AD) is a prevalent inflammatory skin disorder characterized by chronic inflammation, skin barrier dysfunction, and microbial dysbiosis, wi...

Coffee consumption is associated with the presence and abundance of a specific member of the human gut microbiome, Lawsonibacter asaccharolyticus, and changes to the plasma metabolome.