A cluster of cases of pneumocystis pneumonia identified by shotgun metagenomics approach

•Metagenomics sequencing performed well in diagnosing PCP compared to conventional methods. •Metagenomics exhibited the ability to detect co-infections in PCP patients. •Blood samples metagenomics might suit patients who couldn't tolerate invasive procedures. •Pathogen reads ranking and proportion rate may be the promising cutoff...