Next generation sequencing approaches for the detection and characterization of enteroviruses in clinical, public health, and research settings: Expert view of the European non-polio enterovirus network (ENPEN).

Enteroviruses (EVs) are a common cause of a wide spectrum of infectious diseases, ranging from mild respiratory illnesses to severe neurological conditions, particularly affecting children. Current molecular methods, such as 5'UTR-based PCR for detection and (partial) VP1 gene sequencing for ty...

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Autores: Benschop KSM, Zwagemaker F, Andersson-Li L, Andrés C, Antón A, Berengua C, Berginc N, Bessaud M, Bisseux M, Bujaki E, Canning B, Christiansen CB, Couderé K, Broberg EK, Cassidy H, Castilletti C, Celma C, Cinek O, Deézsi-Magyar N, Eis-Hübinger AM, Flipse J, Jirincová H, Gatej R, Georgieva I, Giardina F, González-Sánchez A, Hack B, Helfferich J, Hutchings S, Hietanen E, Hönemann M, Virant MJ, Kalogera E, Johannesen CK, Kenicer J, Kleines M, Lagarejos E, Landaas ET, Kandulu CC, Xavier López Labrador F, Lunar MM, Maier M, Majumdar M, Martin J, McClure CP, Muñoz-Almagro C, Ošep A, Øverbø J, Palminha P, Papa A, Pariani E, Pellegrinelli L, Pietsch C, Piralla A, Poljak M, Pomari E, Prats-Méndez I, Rector A, Reuter G, Riess M, Ruta S, Schibler M, Nilsen HS, Simmonds P, Sourvinos G, Szomor K, Susi P, Tabain I, Vallely P, von Eije KJ, Weil M, Wieczorek M, Wollants E, Wolthers KC, Zuckerman NS, Fischer TK, Harvala H
Tipo de recurso: artículo
Estado:Versión publicada
Fecha de publicación:2026
País:España
Institución:Fundació Sant Joan de Déu
Repositorio:r-FSJD. Repositorio Institucional de Producción Científica de la Fundació Sant Joan de Déu
OAI Identifier:oai:dnet:r-fsjd______::e6dc2f3c7bc769c4202b05a5194d4f9a
Acceso en línea:https://fsjd.fundanetsuite.com/Publicaciones/ProdCientif/PublicacionFrw.aspx?id=30174
Access Level:acceso abierto
Palabra clave:Bioinformatics
Dry-lab
Enteroviruses
Next Generation Sequencing
Targeted PCR-based
Viral metagenomics
Wet-lab
Descripción
Sumario:Enteroviruses (EVs) are a common cause of a wide spectrum of infectious diseases, ranging from mild respiratory illnesses to severe neurological conditions, particularly affecting children. Current molecular methods, such as 5'UTR-based PCR for detection and (partial) VP1 gene sequencing for typing, are widely utilized. However, Next-Generation Sequencing (NGS), and bioinformatics offer a comprehensive alternative, enabling full-genome analyses for improved virus characterization, genomic epidemiological surveillance, and outbreak investigation. Despite its advantages, implementation of NGS poses challenges, particularly in standardizing and optimizing laboratory workflows (wet-lab) and bioinformatics analyses (dry-lab), methods that are not often readily accessible in many laboratories. Here, we discuss the potential of NGS as a tool for EV detection/characterization in clinical virology, public health, and research settings. We provide practical options for actions for implementing NGS to advance the understanding and management of enterovirus infections. These recommendations are based on expert discussions during the recent European non-polio enterovirus network (ENPEN) workshop held in Corfu, Greece, on 23-24 May 2024, aiming to guide harmonization of NGS practices across clinical, public health, and research settings.

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