Rapid metagenomic next-generation sequencing during an investigation of hospital-acquired human parainfluenza virus 3 infections

摘要: Metagenomic next-generation sequencing (mNGS) is increasingly used for the unbiased detection of viruses, bacteria, fungi, and eukaryotic parasites in clinical samples. Whole genome (WGS) bacterial isolates has been shown to inform hospital infection prevention practices, but use this technology during potential respiratory virus outbreaks not taken advantage of. Here, we report on mNGS real-time response a cluster hospital-acquired human parainfluenza 3 (HPIV3) infections at children's hospital. Isolates from patients with HPIV3 identified over 12-day period general medical unit 10 temporally-associated community-acquired were analyzed. Our sample-to-sequencer time was 1 read HPIV3. Phylogenetic clustering revealed presence identical genomic sequence two cases infection, consistent concern recent transmission within unit. Adequate coverage recovered third case. This work demonstrates promise provide actionable information control addition microbial detection.