Sample collection
The study was conducted in Bichat-Claude Bernard university hospital, one of the mpox referral centers in the Paris Metropolitan area (France), between 21th May and 4thJuly 2022 and between 16th August and 10th September 2022. Patients were diagnosed with mpox infection by quantitative polymerase chain reaction (qPCR). Only patients associated with a cycle threshold < 28 were included for genomic analyses. Samples consisted of skin, pharyngeal or anal swabs.