A machine learning model trained on whole-cell simulations predicts gene deletion effects on cell division. This approach enables rapid genome minimization and the design of a viable reduced E. coli g...

Delphi-2M forecasts a person’s future health, covering more than 1,000 diseases, provides insights into co-morbidity dynamics and generates synthetic data for the training of AI models that have never seen actual data.

Microbes release a wide range of metabolites into their environment, yet the reasons for this release and the factors that influence release rates are not well understood. Here, using a combination of...

In contrast to decades of research on gut bacteria, human genetic determinants of the gut fungal community (mycobiome) remain understudied. This investigation presents the first GWAS on the number and...

Liang et al. estimate the prevalence of text modified by large language models in recent scientific papers and preprints, finding widespread use (up to 17.5% of papers in computer science).

Recent efforts in protein language modeling have focused on scaling single-sequence models and their training data, requiring vast compute resources that limit accessibility. Although models that use ...

In this study, we asked whether normalization by host reads alone was sufficient to estimate absolute bacterial biomass directly from stool metagenomic data, without the need for synthetic spike-ins, ...

Cross-feeding of small metabolites is known to drive carbon exchange among microbial species, but the role of extracellular polymeric substances (EPS) has been poorly understood. This study shows that EPS, formed during chitin degradation, drives microbial diversity by acting as a major, sequentially degraded, carbon source.

All cells require a continuous supply of the universal energy currency, adenosine triphosphate (ATP), to drive countless cellular reactions. The un...

Here, the authors reveal that protozoal communities shape rumen microbiome structure, offering fresh insights into how these complex communities coordinate essential metabolic tasks across multiple mi...

Documenting Six Months of the Trump Administration’s Destructive Actions

Nature Reviews Gastroenterology & Hepatology, Published online: 18 July 2025; doi:10.1038/s41575-025-01097-1The global burden of inflammatory bowel disease (IBD) is shifting as countries transition through four epidemiologic stages. This Perspective explores the global evolution of IBD over the next 20 years and proposes strategies for prevention and health-care innovation.

Experimental perturbation of soil pH leads to a generalizable model of the soil microcosm comprising three functional regimes with distinct mechanisms linking environmental change to metabolite dynami...

The move would undo years of work, leaving advisory councils understaffed, and without the full expertise needed for reviews. The move would undo years of work, leaving advisory councils understaffed, and without the full expertise needed for reviews.

By combining structural biology and evolutionary genomics analyses, the evolution of enzymes over 400 million years is shown to be governed by catalytic function, metabolic network architecture, cost ...

Excess words track LLM usage in biomedical publications.