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Rapid and Accurate Sequencing of Enterovirus Genomes Using MinION Nanopore Sequencer. | LitMetric

AI Article Synopsis

  • The study emphasizes the importance of sequencing enterovirus genomes for tracking outbreaks, with the MinION sequencer being highlighted for its portability and cost-effectiveness.
  • The researchers developed an amplicon-based whole genome sequencing method for Enterovirus 71 (EV71) and Coxsackievirus A16 (CA16), assessing the MinION's efficiency compared to traditional Sanger sequencing.
  • Results showed high accuracy and rapid sequencing capabilities with MinION, indicating its potential as a reliable tool for enterovirus genomics in epidemiological investigations.

Article Abstract

Objective: Knowledge of an enterovirus genome sequence is very important in epidemiological investigation to identify transmission patterns and ascertain the extent of an outbreak. The MinION sequencer is increasingly used to sequence various viral pathogens in many clinical situations because of its long reads, portability, real-time accessibility of sequenced data, and very low initial costs. However, information is lacking on MinION sequencing of enterovirus genomes.

Methods: In this proof-of-concept study using Enterovirus 71 (EV71) and Coxsackievirus A16 (CA16) strains as examples, we established an amplicon-based whole genome sequencing method using MinION. We explored the accuracy, minimum sequencing time, discrimination and high-throughput sequencing ability of MinION, and compared its performance with Sanger sequencing.

Results: Within the first minute (min) of sequencing, the accuracy of MinION was 98.5% for the single EV71 strain and 94.12%-97.33% for 10 genetically-related CA16 strains. In as little as 14 min, 99% identity was reached for the single EV71 strain, and in 17 min (on average), 99% identity was achieved for 10 CA16 strains in a single run.

Conclusion: MinION is suitable for whole genome sequencing of enteroviruses with sufficient accuracy and fine discrimination and has the potential as a fast, reliable and convenient method for routine use.

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Source
http://dx.doi.org/10.3967/bes2017.097DOI Listing

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