A bench-to-data analysis workflow for respiratory syncytial virus whole-genome sequencing with short and long-read approaches

Genomic surveillance of respiratory syncytial virus (RSV) enables detecting and monitoring of circulating lineages and the emergence of amino acid substitutions affecting transmission, severity, and treatment. We present a comprehensive workflow for RSV whole-genome sequencing, from sample processing to lineage classification. Tiling amplicon protocols adapted for Illumina and Oxford Nanopore Technologies sequencing approaches and an in-house bioinformatic pipeline were developed for the analysis of samples. We validated the workflow on clinical samples, and identified RSV sequences harbouring substitutions associated with monoclonal antibody resistance and the presence of coinfections.

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Publication Details

Journal
Genome Medicine
Published
2026-01-27
DOI
https://doi.org/10.1186/s13073-025-01597-4
Primary Topic
Respiratory viral infections research
Type
article
Field-Weighted Citation Impact
0.00

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article

A bench-to-data analysis workflow for respiratory syncytial virus whole-genome sequencing with short and long-read approaches

Rafaela González-Montelongo, Adrián Gómez-Del Rosario, Carlos Flores, Diego García-Martínez de Artola et al.
Genome Medicine
Respiratory viral infections research
article

A bench-to-data analysis workflow for respiratory syncytial virus whole-genome sequencing with short and long-read approaches

Rafaela González-Montelongo, Adrián Gómez-Del Rosario, Carlos Flores, Diego García-Martínez de Artola, Nora Rodríguez-García, Adrián Muñoz-Barrera, Julia Alcoba-Florez, Jose Miguel Lorenzo-Salazar, Laura Ciuffreda
article en

Abstract

Genomic surveillance of respiratory syncytial virus (RSV) enables detecting and monitoring of circulating lineages and the emergence of amino acid substitutions affecting transmission, severity, and treatment. We present a comprehensive workflow for RSV whole-genome sequencing, from sample processing to lineage classification. Tiling amplicon protocols adapted for Illumina and Oxford Nanopore Technologies sequencing approaches and an in-house bioinformatic pipeline were developed for the analysis of samples. We validated the workflow on clinical samples, and identified RSV sequences harbouring substitutions associated with monoclonal antibody resistance and the presence of coinfections.

Genome MedicineVol. 18(1)
Hospital Universitario de Canarias (ES), Instituto de Salud Carlos III (ES), Hospital Universitario Nuestra Señora de Candelaria (ES), Universidad Fernando Pessoa Canarias (ES), Centro de Investigación Biomédica en Red de Enfermedades Respiratorias (ES), Instituto Tecnológico y de Energías Renovables (ES)
Universidad de La Laguna, Instituto Tecnológico y de Energías Renovables, Ministerio de Economía y Competitividad, Instituto de Salud Carlos III, European Regional Development Fund
Openalex Percentile: Top 77%
Respiratory viral infections research
DOIOpen Access PDFOpenAlex
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A bench-to-data analysis workflow for respiratory syncytial virus whole-genome sequencing with short and long-read approaches — Rafaela González-Montelongo, Adrián Gómez-Del Rosario, et al. · Genome Medicine (2026) | TGRS Research Map | TGRS