FUGAsseM predicts protein function in microbiomes using coexpression patterns from metatranscriptomes and diverse community-wide data.

Diversity-generating retroelements (DGRs) accelerate evolution by rapidly diversifying variable proteins. The human gastrointestinal microbiota harbors the greatest density of DGRs known in nature, su...

In this Perspective, Estrela and Huang discuss nutrient starvation in the context of the gut microbiome, outlining what is known and highlighting key questions for future research to address knowledge gaps.

Abstract. Understanding the complex interactions between microbes and their environment requires robust model systems such as synthetic communities (SynCom

Nature Reviews Bioengineering, Published online: 24 September 2025; doi:10.1038/s44222-025-00354-xMicrobial synthetic biology might greatly benefit from the application of non-model organisms, which have been evolutionarily optimized for the production of specific proteins and metabolites. This Review discusses the design and application of endogenous production in non-model organisms.

Gene redundancy complicates systematic characterization of gene function as single-gene deletions may not produce discernible phenotypes. We report dual transposon sequencing (dual Tn-seq), a platform...