Institut Pasteur - Mathematical Modelling of Infectious Diseases Unit, University of Paris-Saclay - Institut Pasteur, French National Public Health Agency - Santé Publique France, University of Paris-Saclay - Institut Pasteur, Laboratoire Cerba, Biomnis Eurofins, University of Paris-Saclay - Institut Pasteur, University of Cambridge - Department of Genetics, Université Paris Cité - Institut Pasteur, Biodiversity and Epidemiology of Bacterial Pathogens, Santé Publique France - Direction des Maladies Infectieuses, Institut Pasteur - Mathematical Modelling of Infectious Diseases Unit and Université de Paris - Department of General Paediatrics