Mycoplasma pneumoniae Raw sequence reads

Mycoplasma pneumoniae is responsible for acute respiratory tract infections in children and young adults with epidemics occurring in 4-7 years intervals. Due to the risk of potentially severe outbreaks, it is essential to rapidly identify grouped cases for outbreak investigation and for epidemiological monitoring. Molecular typing is hampered by the fact that M. pneumoniae is a genetically homogeneous species. Multiple loci variable-number tandem-repeat analysis (MLVA) typing, based on the study of repeated sequences, is widely used for the genotyping of M. pneumoniae with a high resolution but a lack of stability of one of its markers was described. Consequently, a typing method less subject to a rapid evolution of its markers was needed. Based on the data provided by whole genome sequencing of eight isolates of M. pneumoniae, we developed a new genotyping method based on Single Nucleotide Polymorphisms (SNPs) markers,