Fernando Baquero

Bacterial Mercury Resistance Reveals a Robust Species-Structured Human Antimicrobial Mobilome

The paper investigates mercury resistance in gut microbiota of children, finding high prevalence of Hg-resistant bacteria and strong taxonomic structuring of resistance genes.

Spatiotemporal dynamics and stability of multi-kingdom microbial communities in hospital sinks acting as persistent pathogen reservoirs

The paper characterizes microbial communities in hospital sinks, showing they are stable, multi-kingdom reservoirs harboring MDROs and shaped by environmental factors.

The role of the innate immune system in shaping the dynamics of antimicrobial treatment

This study shows that the innate immune system, not antibiotic type or bacterial resistance, determines treatment success in infections using Galleria mellonella and Staphylococcus aureus.

The Antimicrobial Gut Resistome of the Wayampi reveals a shared background of antibiotic and metal resistance genes with industrialised populations, underscoring the robust-yet-fragile architecture of human gut microbiomes.

The study analyzes the gut resistome of the Wayampi, revealing similar antibiotic resistance gene richness to Europeans but higher metal resistance gene diversity, highlighting shared and distinct resistance patterns.

Ecosystems Oxygen Deficiency and Selection of Antimicrobial Resistance Genes in a One Health Perspective

This study investigates how oxygen levels affect antimicrobial resistance gene performance in Enterobacterales, showing significant variations in resistance under aerobic and anaerobic conditions.

The Tradeoffs Between Persistence and Mutation Rates at Sub-Inhibitory Antibiotic Concentrations in Staphylococcus aureus

This study examines how sub-inhibitory antibiotic concentrations affect mutation rates and persistence in Staphylococcus aureus, showing increased mutation rates and reduced persistence.

PATO: Pangenome Analysis Toolkit

PATO is a toolkit for pangenome analysis that efficiently handles thousands of genomes, offering fast and accurate methods for core-genome definition, population structure, and gene sharedness networks.

Reconstruction of Escherichia coli ancient diversification by layered phylogenomics and polymorphism fingerprinting

This paper uses layered phylogenomics and polymorphism fingerprinting to reconstruct the evolutionary history of Escherichia coli, identifying three root lineages and a new phylogroup, while highlighting adaptive strategies in different lineages.

Simulating multi-level dynamics of antimicrobial resistance in a membrane computing model

The paper uses a membrane computing model to simulate and analyze the multi-level dynamics of antimicrobial resistance across genes, clones, species, hosts, and environments.

Prediction of the intestinal resistome by a novel 3D-based method

The paper develops a 3D-based method to predict antibiotic resistance determinants in the human intestinal microbiota and identifies resistotypes in a cohort.