Recommendations for the introduction of metagenomic next-generation sequencing in clinical virology, part II: bioinformatic analysis and reporting
Jutte J.C. de Vries, Julianne R. Brown, Natacha Couto, Martin Beer, Philippe Le Mercier, Igor A. Sidorov, Anna Papa, Nicole Fischer, Bas B. Oude Munnink, Christophe Rodriquez, Maryam Zaheri, Arzu Sayıner, Mario Hönemann, Alba Pérez‐Cataluña, Ellen C. Carbo, Claudia Bachofen, Jakub Kubacki, Dennis Schmitz, Katerina Tsioka, Sébastien Matamoros, Dirk W. Höper, Marta Hernández, Elisabeth Puchhammer‐Stöckl, Aitana Lebrand, Michael Huber, Peter Simmonds, Eric C. J. Claas, F. Xavier López‐Labrador
Abstract
Metagenomic next-generation sequencing (mNGS) is an untargeted technique for determination of microbial DNA/RNA sequences in a variety of sample types from patients with infectious syndromes. mNGS is still in its early stages of broader translation into clinical applications. To further support the development, implementation, optimization and standardization of mNGS procedures for virus diagnostics, the European Society for Clinical Virology (ESCV) Network on Next-Generation Sequencing (ENNGS) has been established. The aim of ENNGS is to bring together professionals involved in mNGS for viral diagnostics to share methodologies and experiences, and to develop application guidelines. Following the ENNGS publication Recommendations for the introduction of mNGS in clinical virology, part I: wet lab procedure in this journal, the current manuscript aims to provide practical recommendations for the bioinformatic analysis of mNGS data and reporting of results to clinicians.