The aim of the ENNGS network is to bring together professionals involved in microbiological, especially virological diagnostics using next-generation sequencing (NGS). The network focuses on the development, optimization and standardization of microbiological NGS techniques. The network facilitates sharing of NGS data, methodologies and experiences among participants.

The network is established under the auspices of the ESCV.

ENNGS project METASHARE:

Aim of the project:

With this project we aim to assist the implementation of viral metagenomics in the clinical diagnostic setting by sharing protocols and by providing links to databases and pipelines validated for viral metagenomics for pathogen detection.

METASHARE website:

The site METASHARE contains tables with links to databases, pipelines/tools, and standard operating procedures in an interactive format and is accessible for ENNGS members. METASHARE is an ESCV-funded ENNGS project.

Multicenter benchmarking of short and long read wet lab protocols for clinical viral metagenomics

F Xavier Lopez-Labrador ¹, Michael Huber ², Igor A Sidorov ³, Julianne R Brown ⁴, Lize Cuypers ⁵, Lies Laenen ⁵, Bert Vanmechelen ⁶, Piet Maes ⁶, Nicole Fischer ⁷, Ian Pichler ², Nathaniel Storey ⁴, Laura Atkinson ⁴, Stefan Schmutz ², Verena Kufner ², Sander van Boheemen ⁸, Claudia E Mulders ⁸, Adam Grundhoff ⁹, Patrick Blümke ⁹, Alexis Robitaille ⁹, Ondrej Cinek ¹⁰, Klára Hubáčková ¹⁰, Kees Mourik ³, Stefan A Boers ³, Lea Stauber ¹¹, Maud Salmona ¹², Pierre Cappy ¹³, Alban Ramette ¹¹, Alessandra Franze’ ¹⁴, Jerome LeGoff ¹², Eric C J Claas ³, Christophe Rodriguez ¹³, Jutte J C de Vries ¹⁵; European Society of Clinical Virology (ESCV) Network on Next-Generation Sequencing (ENNGS)

J Clin Virol.  2024 Aug:173:105695. doi: 10.1016/j.jcv.2024.105695. Epub 2024 May 25.

Recommendations for the introduction of metagenomic next-generation sequencing in clinical virology, part II: bioinformatic analysis and reporting.

de Vries JJC, Brown JR, Couto N, Beer M, Le Mercier P, Sidorov I, Papa A, Fischer N, Oude Munnink BB, Rodriquez C, Zaheri M, Sayiner A, Hönemann M, Cataluna AP, Carbo EC, Bachofen C, Kubacki J, Schmitz D, Tsioka K, Matamoros S, Höper D, Hernandez M, Puchhammer-Stöckl E, Lebrand A, Huber M, Simmonds P, Claas ECJ, López-Labrador FX; ESCV Network on Next-Generation Sequencing.

J Clin Virol. 2021 May;138:104812. doi: 10.1016/j.jcv.2021.104812. Epub 2021 Mar 26.PMID: 33819811

Benchmark of thirteen bioinformatic pipelines for metagenomic virus diagnostics using datasets from clinical samples.

de Vries JJC, Brown JR, Fischer N, Sidorov IA, Morfopoulou S, Huang J, Munnink BBO, Sayiner A, Bulgurcu A, Rodriguez C, Gricourt G, Keyaerts E, Beller L, Bachofen C, Kubacki J, Samuel C, Florian L, Dennis S, Beer M, Hoeper D, Huber M, Kufner V, Zaheri M, Lebrand A, Papa A, van Boheemen S, Kroes ACM, Breuer J, Lopez-Labrador FX, Claas ECJ; ESCV Network on Next-Generation Sequencing.

J Clin Virol. 2021 Aug;141:104908. doi: 10.1016/j.jcv.2021.104908. Epub 2021 Jul 8.PMID: 34273858

Recommendations for the introduction of metagenomic high-throughput sequencing in clinical virology, part I: Wet lab procedure.

López-Labrador FX, Brown JR, Fischer N, Harvala H, Van Boheemen S, Cinek O, Sayiner A, Madsen TV, Auvinen E, Kufner V, Huber M, Rodriguez C, Jonges M, Hönemann M, Susi P, Sousa H, Klapper PE, Pérez-Cataluňa A, Hernandez M, Molenkamp R, der Hoek LV, Schuurman R, Couto N, Leuzinger K, Simmonds P, Beer M, Höper D, Kamminga S, Feltkamp MCW, Rodríguez-Díaz J, Keyaerts E, Nielsen XC, Puchhammer-Stöckl E, Kroes ACM, Buesa J, Breuer J, Claas ECJ, de Vries JJC; ESCV Network on Next-Generation Sequencing.

J Clin Virol. 2021 Jan;134:104691. doi: 10.1016/j.jcv.2020.104691. Epub 2020 Nov 18.PMID: 33278791