Our group is studying the population biology of bacterial pathogens of public health importance. We aim to describe the phylogenetic diversity of pathogenic species, understand the evolutionary factors that generate and maintain this biodiversity, identify emerging sublineages, analyze the contribution of mobile genetic elements in their microevolution, and define their pathogenic characteristics including virulence and antimicrobial resistance. We establish standardized nomenclatures of strains to enable global collaboration on epidemiological surveillance and population biology. We develop and use bioinformatics tools for genomic epidemiology. We also develop innovative molecular tools for identification of medically important strains.
A population biology study of Listeria ushers in a new era in listeriosis surveillance
Population biology of the bacterial pathogen Klebsiella pneumoniae
Klebsiella pneumoniae is one of the most urgent threats to public health given its increasing resistance to antimicrobial agents including carbapenems, considered as last-resort antibiotics. In this project we aim to understand the ecological, epidemiological and […]
Genomic databases for bacterial epidemiology, population biology and strain nomenclature
High-throughput sequencing has revolutionized our abilities to track and characterize novel bacterial strains as they emerge and disseminate globally. Genome-based typing systems are being developed to replace or complement classical epidemiological markers and have […]
Bioinformatics developments for whole-genome sequencing of microbial agents for epidemiological surveillance
The PIBnet initiative is a large collaborative program that aims at reinforcing microbial strain collection management and characterization approaches and technologies. It involves National Reference Centers, WHO-collaborative centers, biological resources centers and other microbiological expertise laboratories, together […]
2016Whole genome-based population biology and epidemiological surveillance of Listeria monocytogenes, Nat Microbiol 2016 Oct;2:16185.
2016Erratum: Global phylogeography and evolutionary history of Shigella dysenteriae type 1, Nat Microbiol 2016 Oct;1(11):16209.
2016Genomic epidemiology and global diversity of the emerging bacterial pathogen Elizabethkingia anophelis, Sci Rep 2016;6:30379.
2016Liver Abscess Caused by Infection with Community-Acquired Klebsiella quasipneumoniae subsp. quasipneumoniae, Emerging Infect. Dis. 2016 Mar;22(3):529-31.
2016Genome-wide mosaicism within Mycobacterium abscessus: evolutionary and epidemiological implications, BMC Genomics 2016;17:118.
2016Uncovering Listeria monocytogenes hypervirulence by harnessing its biodiversity, Nat. Genet. 2016 Mar;48(3):308-13.
2015Emergence of Antimicrobial-Resistant Escherichia coli of Animal Origin Spreading in Humans, Mol. Biol. Evol. 2016 Apr;33(4):898-914.
2015Phylogenetic lineages, clones and β-lactamases in an international collection of Klebsiella oxytoca isolates non-susceptible to expanded-spectrum cephalosporins, J. Antimicrob. Chemother. 2015 Dec;70(12):3230-7.
2015Clonogrouping, a Rapid Multiplex PCR Method for Identification of Major Clones of Listeria monocytogenes, J. Clin. Microbiol. 2015 Oct;53(10):3355-8.
2015Tracking Nosocomial Klebsiella pneumoniae Infections and Outbreaks by Whole-Genome Analysis: Small-Scale Italian Scenario within a Single Hospital, J. Clin. Microbiol. 2015 Sep;53(9):2861-8.
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