ERP116949 PRJEB34094 ena-STUDY-Institute for Infectious Diseases-21-08-2019-17:13:51:266-104 Enterovirus genotyping using Flongle flow cells Enteroviruses affect millions of people worldwide and are of significant clinical importance. The standard method for enterovirus identification and genotyping still relies on Sanger sequencing of short diagnostic amplicons. In this study, we assessed the feasibility of Nanopore sequencing using the new flow cell “Flongle” for fast, cost-effective and accurate genotyping of human enteroviruses from clinical samples. PCR amplification of partial VP1 gene was performed from multiple patient samples, which were multiplexed together after barcoding PCR and sequenced multiple times on Flongle flow cells. The nanopore consensus sequences obtained from mapping reads to a reference database were compared to their Sanger sequence counterparts. Flongle_enterovirus Enteroviruses affect millions of people worldwide and are of significant clinical importance. The standard method for enterovirus identification and genotyping still relies on Sanger sequencing of short diagnostic amplicons. In this study, we assessed the feasibility of Nanopore sequencing using the new flow cell “Flongle” for fast, cost-effective and accurate genotyping of human enteroviruses from clinical samples. PCR amplification of partial VP1 gene was performed from multiple patient samples, which were multiplexed together after barcoding PCR and sequenced multiple times on Flongle flow cells. The nanopore consensus sequences obtained from mapping reads to a reference database were compared to their Sanger sequence counterparts. clinical Enterovirus Nanopore sequencing virus ENA-FIRST-PUBLIC 2019-08-22 ENA-LAST-UPDATE 2019-08-21