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)

Benschop, Kimberley (avtor), Jevšnik Virant, Monika (avtor), Lunar, Maja M. (avtor), Ošep, Anja (avtor), Poljak, Mario (avtor)

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.

• Jezik: Angleški jezik
• Ključne besede: bioinformatics, dry-lab, enteroviruses, next generation sequencing, targeted PCR-based, viral metagenomics, wet-lab
• Vrsta gradiva: Članek v reviji
• Tipologija: 1.02 - Pregledni znanstveni članek
• Organizacija: MF - Medicinska fakulteta
• Status publikacije: Objavljeno
• Različica publikacije: Objavljena publikacija
• Leto izida: 2026
• Št. strani: 10 str.
• Številčenje: Vol. 184, iss. 2026, art. 105940
• PID: 20.500.12556/RUL-185870
• UDK: 61:578
• ISSN pri članku: 1386-6532
• DOI: 10.1016/j.jcv.2026.105940
• COBISS.SI-ID: 274121475
• Datum objave v RUL: 21.08.2026

Gradivo je del revije

• Naslov: Journal of clinical virology
• Skrajšan naslov: J. clin. virol.
• Založnik: Elsevier
• ISSN: 1386-6532
• COBISS.SI-ID: 11769049

Licence

• Licenca: CC BY-NC 4.0, Creative Commons Priznanje avtorstva-Nekomercialno 4.0 Mednarodna
• Povezava: http://creativecommons.org/licenses/by-nc/4.0/deed.sl
• Opis: Licenca Creative Commons, ki prepoveduje komercialno uporabo, vendar uporabniki ne rabijo upravljati materialnih avtorskih pravic na izpeljanih delih z enako licenco.

Sekundarni jezik

• Jezik: Slovenski jezik
• Ključne besede: bioinformatika, laboratorij, enetrovirusi, sekvenciranje naslednje generacije, ciljno usmerjena PCR, virusna metagenomika