M. Galardini

Real-time identification of epistatic interactions in SARS-CoV-2 from large genome collections

This paper develops a method to detect epistatic interactions in SARS-CoV-2 genomes using mutual information, demonstrating its ability to identify key interactions in real-time from large sequence datasets.

The bacterial genetic determinants of Escherichia coli capacity to cause bloodstream infections in humans

This study identifies genetic determinants of Escherichia coli's ability to cause bloodstream infections using genomic and machine learning analyses of clinical isolates.

High pathogenicity island, aer and sit operons: a "menage a trois" in Escherichia coli extra-intestinal virulence

The paper shows that virulence in E. coli depends on the presence of the HPI, aer, and sit operons, with their co-occurrence and genomic location shaped by strain phylogeny.

Bacterial retrons encode tripartite toxin/antitoxin systems

The paper identifies retrons as a novel family of tripartite toxin/antitoxin systems in bacteria, with the reverse transcriptase and msDNA functioning as antitoxin components.

Major role of iron uptake systems in the intrinsic extra-intestinal virulence of the genus Escherichia revealed by a genome-wide association study

This study identifies iron uptake systems, particularly the high-pathogenicity island, as key drivers of extra-intestinal virulence in Escherichia through a genome-wide association analysis in a mouse sepsis model.

Improved inference and prediction of bacterial genotype-phenotype associations using pangenome-spanning regressions

This paper introduces a joint modeling framework for bacterial GWAS that improves statistical power and phenotype prediction while maintaining interpretability and computational efficiency.