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Use of Whole-Genome Sequencing of Adenovirus in Immunocompromised Pediatric Patients to Identify Nosocomial Transmission and Mixed-Genotype Infection
- Source :
- The Journal of Infectious Diseases. 218:1261-1271
- Publication Year :
- 2018
- Publisher :
- Oxford University Press (OUP), 2018.
-
Abstract
- Background Adenoviruses are significant pathogens for the immunocompromised, arising from primary infection or reinfection. Serotyping is insufficient to support nosocomial transmission investigations. We investigate whether whole-genome sequencing (WGS) provides clinically relevant information on transmission among patients in a pediatric tertiary hospital. Methods We developed a target-enriched adenovirus WGS technique for clinical samples and retrospectively sequenced 107 adenovirus-positive residual diagnostic samples, including viremias (>5 × 104 copies/mL), from 37 patients collected January 2011-March 2016. Whole-genome sequencing was used to determine genotype and for phylogenetic analysis. Results Adenovirus sequences were recovered from 105 of 107 samples. Full genome sequences were recovered from all 20 nonspecies C samples and from 36 of 85 species C viruses, with partial genome sequences recovered from the rest. Whole-genome phylogenetic analysis suggested linkage of 3 genotype A31 cases and uncovered an unsuspected epidemiological link to an A31 infection first detected on the same ward 4 years earlier. In 9 samples from 1 patient who died, we identified a mixed genotype adenovirus infection. Conclusions Adenovirus WGS from clinical samples is possible and useful for genotyping and molecular epidemiology. Whole-genome sequencing identified likely nosocomial transmission with greater resolution than conventional genotyping and distinguished between adenovirus disease due to single or multiple genotypes.
- Subjects :
- 0301 basic medicine
Serotype
Adolescent
Genotype
Genomics
Biology
medicine.disease_cause
Adenoviridae
Adenovirus Infections, Human
Immunocompromised Host
03 medical and health sciences
medicine
Humans
Immunology and Allergy
Adenovirus infection
Child
Genotyping
Phylogeny
Whole genome sequencing
Cross Infection
Molecular Epidemiology
Whole Genome Sequencing
Molecular epidemiology
Infant
medicine.disease
Virology
030104 developmental biology
Infectious Diseases
Child, Preschool
Subjects
Details
- ISSN :
- 15376613 and 00221899
- Volume :
- 218
- Database :
- OpenAIRE
- Journal :
- The Journal of Infectious Diseases
- Accession number :
- edsair.doi.dedup.....1a46f1a6af211c6d66db6747c87ac6ab