Performance of Metagenomic Next-Generation Sequencing for the Diagnosis of Viral Meningoencephalitis in a Resource-Limited Setting.

Open Forum Infectious Diseases
Nguyen Thi Thu HongLe Van Tan

Abstract

Meningoencephalitis is a devastating disease worldwide. Current diagnosis fails to establish the cause in ≥50% of patients. Metagenomic next-generation sequencing (mNGS) has emerged as pan-pathogen assays for infectious diseases diagnosis, but few studies have been conducted in resource-limited settings. We assessed the performance of mNGS in the cerebrospinal fluid (CSF) of 66 consecutively treated adults with meningoencephalitis in a tertiary referral hospital for infectious diseases in Vietnam, a resource-limited setting. All mNGS results were confirmed by viral-specific polymerase chain reaction (PCR). As a complementary analysis, 6 viral PCR-positive samples were analyzed using MinION-based metagenomics. Routine diagnosis could identify a virus in 15 (22.7%) patients, including herpes simplex virus (HSV; n = 7) and varicella zoster virus (VZV; n = 1) by PCR, and mumps virus (n = 4), dengue virus (DENV; n = 2), and Japanese encephalitis virus (JEV; n = 1) by serological diagnosis. mNGS detected HSV, VZV, and mumps virus in 5/7, 1/1, and 1/4 of the CSF positive by routine assays, respectively, but it detected DENV and JEV in none of the positive CSF. Additionally, mNGS detected enteroviruses in 7 patients of unknown cause. M...Continue Reading

References

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Citations

Jul 15, 2020·Nature Reviews. Neurology·Prashanth S Ramachandran, Michael R Wilson
Jul 1, 2021·ACS Applied Bio Materials·Nagaraj P ShettiTejraj M Aminabhavi

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Datasets Mentioned

BETA
PRJNA58865

Methods Mentioned

BETA
PCR
PCRs
reverse transcription PCR

Software Mentioned

BLASTX
Taxonomer
DIAMOND
Basic Local Alignment Search Tool ( BLAST )

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