Ruonan Wu

The paper investigates how viral anti-defense systems vary with genomic traits, host immunity, and environmental stress across microbial ecosystems.

This study investigates how cyanophage CP12 modulates host carbon regulation by remodeling interfaces and buffering redox changes during infection.

The paper develops a 4D whole-cell model of Prochlorococcus marinus MED4 to show how spatial organization and redox PTMs regulate carbon fixation under light disturbance.

The paper investigates how D1/D2 subunits of Photosystem II in cyanobacteria and cyanophages adapt to high-light stress through phylogenetic analysis and structural prediction.

An R-Shiny app built on DataFed lets researchers filter metagenomic sample metadata by location, date and environmental variables, then download only matching sequence files via Globus.

The paper integrates AMGs and phage assembly into a genome-scale metabolic model to predict their impact on host metabolism and phage production, revealing synergistic and antagonistic effects.

The paper identifies a truncated viral catechol 1,2-dioxygenase from soil phages that retains catalytic activity and expands host metabolic versatility.

The paper develops and refines methods to sample and sequence cyanobacteria, cyanophages, and their environment in the Salish Sea to study host-pathogen dynamics.

The paper compiles a global soil virus dataset to assess biodiversity and biogeochemical impacts, finding most viral diversity remains unexplored and viruses may influence carbon and nutrient cycling.

This paper analyzes 1512 soil metagenomes to uncover genomic patterns of soil microbiomes across environmental factors and biomes, revealing shifts in microbial functions and biogeographical distributions.

This paper introduces a de novo metaproteomics pipeline using a deep learning model to identify soil microbiome composition and functions without relying on metagenomic data.

The paper identifies 24,000 soil viral sequences and their hosts, revealing new viral diversity and roles in carbon metabolism across soil ecosystems.