Nanopore-based, long-range Parvovirus B19 amplicon sequencing for near-whole genome characterization.

Authors

C Akile, B M Hogema, M W A Molenaar-de Backer, M Molier, M C W Feltkamp, S A Boers

Published in

Journal of clinical virology : the official publication of the Pan American Society for Clinical Virology. Volume 186. Pages 106002. Sep 14, 2026. Epub Sep 14, 2026.

Abstract

Whole-Genome Sequencing (WGS) enables monitoring of genomic variation and evaluation of diagnostic PCR assays. However, WGS data for Parvovirus B19 (B19V) remains limited despite its relevance for clinical care and transfusion safety. To increase the availability of high-quality B19V genomic data, a near-WGS protocol was developed and validated.
The protocol combines long-range PCR to generate a 4.6-kb amplicon, covering ∼82% of the B19V genome, with Oxford Nanopore sequencing. Validation was performed using six reference samples and nineteen B19V-positive donor plasma samples.
After quality control, samples achieved a median sequencing depth of 152x. Sequences generated from the six reference samples showed 100% concordance with previously published data. Genomic analysis of donor samples explained atypical amplification profiles observed during routine PCR screening.
The newly developed protocol provides a scalable method for B19V genome characterization, enabling assessment of oligonucleotide-binding regions for PCR assay monitoring and facilitating the generation of genomic data for future epidemiological investigations.

PMID:
42753460
Bibliographic data and abstract were imported from PubMed on 18 Sep 2026.

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