title: Bacterial genomic epidemiology, from local outbreak characterization to species-history reconstruction.
abstract: Bacteriology has embraced the next-generation sequencing revolution, swiftly moving from the time of single genome sequencing to the age of genomic epidemiology. Hundreds and now even thousands of genomes are being sequenced for single bacterial species, allowing unprecedented levels of resolution and insight in the evolution and epidemic diffusion of the main bacterial pathogens. Here, we present a review of some of the most recent and groundbreaking studies in this field.
authors.affiliation: 1 Struttura Complessa di Microbiologia e Virologia, Fondazione IRCCS Policlinico San Matteo , Pavia, Italy.
authors.forename: Stefano
authors.initials: S
authors.lastname: Gaiarsa
authors.forename: Leone
authors.initials: L
authors.lastname: De Marco
authors.forename: Francesco
authors.initials: F
authors.lastname: Comandatore
authors.forename: Piero
authors.initials: P
authors.lastname: Marone
authors.forename: Claudio
authors.initials: C
authors.lastname: Bandi
authors.forename: Davide
authors.initials: D
authors.lastname: Sassera
mesh_terms: D001419:Bacteria / Q000145:classification / Q000235:genetics*; D001424:Bacterial Infections / Q000453:epidemiology*; D004196:Disease Outbreaks; D005798:Genes, Bacterial; D023281:Genomics; D059014:High-Throughput Nucleotide Sequencing; D006801:Humans; D009169:Mycobacterium tuberculosis / Q000235:genetics; D013203:Staphylococcal Infections / Q000453:epidemiology; D013211:Staphylococcus aureus / Q000235:genetics; D014376:Tuberculosis / Q000453:epidemiology
keywords: Bacteria; Carbapenem-resistant Enterobacteriaceae; Genomic epidemiology; Mycobacterium tuberculosis; Next-generation sequencing; Salmonella Typhi; Staphylococcus aureus; Streptococcus pneumoniae