Pathogen kinetics and detection by next-generation sequencing in pediatric complicated pneumonia.
Diagn Microbiol Infect Dis
; 110(2): 116468, 2024 Oct.
Article
in En
| MEDLINE
| ID: mdl-39094237
ABSTRACT
Pediatric pneumonia can be severe and result in empyema. Next-generation sequencing (NGS) may broadly detect pathogens though, optimal timing and impact of sample type on diagnostic yield is unknown. This is a prospective, single-center pilot study of children aged 3 months through 17 years admitted to the PICU with a primary diagnosis of complicated pneumonia. Plasma, endotracheal, nasopharyngeal, and pleural fluid samples were collected at three time points during hospitalization. After nucleic acid extraction, combined libraries were enriched with an NGS enrichment panel kit (RPIP, Illumina), sequenced and quantitative organism detections were analyzed. NGS identified the same bacterial pathogen as traditional testing in all samples, regardless of antibiotic pre-treatment or time collected. Conventional culture methods only identified the pathogen reliably in invasively obtained pleural fluid or endotracheal aspirates. Future application of NGS may allow for non-invasive pathogen detection at a broader range of time points and more targeted antibiotic coverage.
Key words
Full text:
1
Collection:
01-internacional
Database:
MEDLINE
Main subject:
High-Throughput Nucleotide Sequencing
Limits:
Adolescent
/
Child
/
Child, preschool
/
Female
/
Humans
/
Infant
/
Male
Language:
En
Journal:
Diagn Microbiol Infect Dis
Year:
2024
Document type:
Article
Affiliation country:
Canada
Country of publication:
United States