Available online 12 February 2024, 105652
Author links open overlay panel, , , , , , , , , , , , , Highlights•PML patients frequently harbor JCPyV strains with rearranged NCCR in the brain
•JCPyV with archetype or rearranged NCCR can be found in the CNS of non-PML patients
•Sensitive PCR and NGS can detect and differentiate highly pathogenic JCPyV strains
•Monitoring for emerging JCPyV with rearranged NCCR may improve PML risk assessment
ABSTRACTBackgroundJC polyomavirus (JCPyV) persists asymptomatic in more than half of the human population. Immunocompromising conditions may cause reactivation and acquisition of neurotropic rearrangements in the viral genome, especially in the non-coding control region (NCCR). Such rearranged JCPyV strains are strongly associated with the development of progressive multifocal leukoencephalopathy (PML).
MethodsUsing next-generation sequencing (NGS) and bioinformatics tools, the NCCR was characterized in cerebrospinal fluid (CSF; N=21) and brain tissue (N=16) samples from PML patients (N=25), urine specimens from systemic lupus erythematosus patients (N=2), brain tissue samples from control individuals (N=2) and waste-water samples (N=5). Quantitative PCR was run in parallel for diagnostic PML samples.
ResultsArchetype NCCR (i.e. ABCDEF block structure) and archetype-like NCCR harboring minor mutations were detected in two CSF samples and in one CSF sample and in one tissue sample, respectively. Among samples from PML patients, rearranged NCCRs were found in 8 out of 21 CSF samples and in 14 out of 16 brain tissue samples. Complete or partial deletion of the C and D blocks was characteristic of most rearranged JCPyV strains. From ten CSF samples and one tissue sample NCCR could not be amplified.
ConclusionsRearranged NCCRs are predominant in brain tissue and common in CSF from PML patients. Extremely sensitive detection and identification of neurotropic viral populations in CSF or brain tissue by NGS may contribute to early and accurate diagnosis, timely intervention and improved patient care.
Keywordsdiagnostics
JC polyomavirus
NGS
PML
targeted sequencing
© 2024 The Authors. Published by Elsevier B.V.
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