Hybrid capture shotgun sequencing detected unexpected viruses in the cerebrospinal fluid of children with acute meningitis and encephalitis.

Autor: Launes C; Institut de Recerca Sant Joan de Déu, Hospital Sant Joan de Déu, Barcelona, Spain.; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain.; Departament de Medicina i Especialitats Medicoquirúrgiques, Facultat de Medicina i Ciències de la Salut, Universitat de Barcelona, Barcelona, Spain., Camacho J; Centro Nacional de Microbiología, Instituto de Salud Carlos III, Majadahonda- Pozuelo km 2, 28220, Majadahonda, Spain., Pons-Espinal M; Institut de Recerca Sant Joan de Déu, Hospital Sant Joan de Déu, Barcelona, Spain.; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain., López-Labrador FX; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain.; Genomics & Health Department, FISABIO-Public Health Foundation, Valencia, Spain.; Department of Microbiology and Ecology, Medical School, University of Valencia, Valencia, Spain., Esteva C; Institut de Recerca Sant Joan de Déu, Hospital Sant Joan de Déu, Barcelona, Spain.; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain., Cabrerizo M; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain.; Centro Nacional de Microbiología, Instituto de Salud Carlos III, Majadahonda- Pozuelo km 2, 28220, Majadahonda, Spain., Fernández-García MD; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain.; Centro Nacional de Microbiología, Instituto de Salud Carlos III, Majadahonda- Pozuelo km 2, 28220, Majadahonda, Spain., Fogeda M; Hologic Iberia SL, Madrid, Spain., Masa-Calles J; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain.; Centro Nacional de Epidemiología, Instituto de Salud Carlos III, Avda Monforte de Lemos 5, Madrid, Spain., López-Perea N; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain.; Centro Nacional de Epidemiología, Instituto de Salud Carlos III, Avda Monforte de Lemos 5, Madrid, Spain., Echevarría JE; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain.; Centro Nacional de Microbiología, Instituto de Salud Carlos III, Majadahonda- Pozuelo km 2, 28220, Majadahonda, Spain., Muñoz-Almagro C; Institut de Recerca Sant Joan de Déu, Hospital Sant Joan de Déu, Barcelona, Spain.; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain.; Department of Medicine, Universitat Internacional de Catalunya, Barcelona, Spain., Tarragó D; CIBER Epidemiology and Public Health (CIBERESP), Madrid, Spain. davtarrago@isciii.es.; Centro Nacional de Microbiología, Instituto de Salud Carlos III, Majadahonda- Pozuelo km 2, 28220, Majadahonda, Spain. davtarrago@isciii.es.
Jazyk: angličtina
Zdroj: European journal of clinical microbiology & infectious diseases : official publication of the European Society of Clinical Microbiology [Eur J Clin Microbiol Infect Dis] 2024 May; Vol. 43 (5), pp. 863-873. Date of Electronic Publication: 2024 Mar 04.
DOI: 10.1007/s10096-024-04795-x
Abstrakt: Purpose: Investigation of undiagnosed cases of infectious neurological diseases, especially in the paediatric population, remains a challenge. This study aimed to enhance understanding of viruses in CSF from children with clinically diagnosed meningitis and/or encephalitis (M/ME) of unknown aetiology using shotgun sequencing enhanced by hybrid capture (HCSS).
Methods: A single-centre prospective study was conducted at Sant Joan de Déu University Hospital, Barcelona, involving 40 M/ME episodes of unknown aetiology, recruited from May 2021 to July 2022. All participants had previously tested negative with the FilmArray Meningitis/Encephalitis Panel. HCSS was used to detect viral nucleic acid in the patients' CSF. Sequencing was performed on Illumina NovaSeq platform. Raw sequence data were analysed using CZ ID metagenomics and PikaVirus bioinformatics pipelines.
Results: Forty episodes of M/ME of unknown aetiology in 39 children were analysed by HCSS. A significant viral detection in 30 CSF samples was obtained, including six parechovirus A, three enterovirus ACD, four polyomavirus 5, three HHV-7, two BKV, one HSV-1, one VZV, two CMV, one EBV, one influenza A virus, one rhinovirus, and 13 HERV-K113 detections. Of these, one sample with BKV, three with HHV-7, one with EBV, and all HERV-K113 were confirmed by specific PCR. The requirement for Intensive Care Unit admission was associated with HCSS detections.
Conclusion: This study highlights HCSS as a powerful tool for the investigation of undiagnosed cases of M/ME. Data generated must be carefully analysed and reasonable precautions must be taken before establishing association of clinical features with unexpected or novel virus findings.
(© 2024. The Author(s).)
Databáze: MEDLINE
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