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High throughput nanopore sequencing of SARS-CoV-2 viral genomes from patient samples by A. Pater, Adrian (author);S. Bosmeny, Michael (author);A. White, Adam (author);J. Sylvain, Rourke (author);B. Eddington, Seth (author);Parasrampuria, Mansi (author);N. Ovington, Katy (author);E. Metz, Paige (author);O. Yinusa, Abadat (author);L. Barkau, Christopher (author);Chilamkurthy, Ramadevi (author);W. Ben-zinger, Scott (author);M. Hebert, Madison. (author);T. Gagnon, Keith (author) is a Biochemistry, Genetics and Molecular Biology article available to read on EtoBox.

What is High throughput nanopore sequencing of SARS-CoV-2 viral genomes from patient samples about?

In late 2019, a novel coronavirus began spreading in Wuhan, China, causing a potentially lethal respiratory viral infection. By early 2020, the novel coronavirus, called SARS-CoV-2, had spread globally, causing the COVID-19 pandemic. The infection and mutation rates of SARS-CoV-2 make it amenable to tracking introduction, spread and evolution by viral genome sequencing. Efforts to develop effective public health policies, therapeutics, or vaccines to treat or prevent COVID-19 are also expected to benefit from tracking mutations of the SARS-CoV-2 virus. Here we describe a set of comprehensive working protocols, from viral RNA extraction to analysis using established visualization tools, for high throughput sequencing of SARS-CoV-2 viral genomes using a MinION instrument. This set of protocols should serve as a reliable “how-to” reference for generating quality SARS-CoV-2 genome sequences with ARTIC primer sets and long-read nanopore sequencing technology. In addition, many of the preparation, quality control, and analysis steps will be generally applicable to other sequencing platforms.

Who reads High throughput nanopore sequencing of SARS-CoV-2 viral genomes from patient samples?

Author

A. Pater, Adrian (author);S. Bosmeny, Michael (author);A. White, Adam (author);J. Sylvain, Rourke (author);B. Eddington, Seth (author);Parasrampuria, Mansi (author);N. Ovington, Katy (author);E. Metz, Paige (author);O. Yinusa, Abadat (author);L. Barkau, Christopher (author);Chilamkurthy, Ramadevi (author);W. Ben-zinger, Scott (author);M. Hebert, Madison. (author);T. Gagnon, Keith (author)

Publisher

Journal of Biological Methods

Published

2021

Language

EN

Field

Biochemistry, Genetics and Molecular Biology (Life Sciences)