Sequencing of Respiratory Viruses from Wastewater Using Nanotrap Microbiome A Particles

Poster -- Sequencing of Respiratory Viruses from Wastewater Using Nanotrap Microbiome A Pa.

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Wastewater-based epidemiology (WBE) is a powerful tool for population-level monitoring of respiratory viruses, enabling early detection of circulating pathogen strains and variant emergence.(1–3) However, sequencing viruses like influenza A and respiratory syncytial virus (RSV) from wastewater remains technically challenging due to low viral titers, fragmented RNA, and high background from environmental and host nucleic acids.(1,2) Traditional sequencing workflows often yield incomplete genomes, limiting their utility for surveillance and variant tracking.(3) To address these challenges, we applied an enrichment strategy using Nanotrap® Microbiome A Particles with a magnetic bead-based extraction, followed by virus-specific targeted sequencing workflows.(4) For influenza A, we used the NEBNext® iiMS DNA Library Prep Kit with Oxford Nanopore sequencing. For RSV, targeted amplicon generation was performed using NEBNext RSV Primers and Illumina library prep. This combined approach supports high-throughput, same-day sequencing of respiratory viruses from wastewater.

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