Lucas Paoli

The paper identifies genomically discrete and ecologically cohesive subspecies in the global ocean microbiome, showing they are biologically meaningful units driven by environmental factors.

The paper introduces the Ocean Microbiomics Database (OMDB) to analyze microbial thermal niches and predict their response to ocean warming, showing richness declines faster than abundance.

This study assesses the microbial biosynthetic potential of reef-building corals using genome-resolved metagenomics, revealing host-specific microbiomes with high biotechnological value.

The paper analyzes antiphage system expression across environmental and physiological conditions in bacteria, finding that these systems are regulated by environmental factors and cellular physiology.

The paper identifies a new deep-branching algal lineage, leptophytes, through metagenomic analysis of Tara Oceans data, revealing hidden plastid genome diversity and evolutionary insights.

The paper shows bacteria use contact-dependent antagonism to acquire nutrients by lysing neighbors during starvation, enhancing growth in spatially structured environments.

The paper analyzes global ocean data to show that physical and biological patchiness are decoupled, using variance slope to quantify spatial patterns.

The paper analyzes defensomes in 7,759 bacterial genomes from diverse environments, revealing variation in defense systems linked to lifestyle and habitat.

The paper evaluates metagenomic software tools using realistic datasets, highlighting improvements in assembly and taxon profiling while identifying remaining challenges in virus/archaea detection and reproducibility.

The paper introduces mOTUs3, a tool for reference genome-independent taxonomic profiling of metagenomes, improving accuracy and coverage for underexplored microbiomes.