MinION nanopore sequencing of an influenza genome

Frontiers in Microbiology
Jing WangRichard J Hall

Abstract

Influenza epidemics and pandemics have significant impacts on economies, morbidity and mortality worldwide. The ability to rapidly and accurately sequence influenza viruses is instrumental in the prevention and mitigation of influenza. All eight influenza genes from an influenza A virus were amplified by PCR simultaneously and then subjected to sequencing on a MinION nanopore sequencer. A complete influenza virus genome was obtained that shared greater than 99% identity with sequence data obtained from Illumina MiSeq and traditional Sanger-sequencing. The laboratory infrastructure and computing resources used to perform this experiment on the MinION nanopore sequencer would be available in most molecular laboratories around the world. Using this system, the concept of portability, and thus sequencing influenza viruses in the clinic or field is now tenable.

Citations

May 14, 2016·Cell Host & Microbe·Angela L Rasmussen, Michael G Katze
May 19, 2016·Emerging Infectious Diseases·Andy KilianskiC Nicole Rosenzweig
Mar 23, 2017·GigaScience·Bonnie L BrownRima B Franklin
Jul 3, 2017·Intervirology·Andriniaina Andy Nkili-MeyongNicolas Berthet
Oct 11, 2017·Journal of Experimental Botany·Richard M Leggett, Matthew D Clark
Sep 8, 2016·Antimicrobial Agents and Chemotherapy·Mónika SzabóJános Kiss
Feb 3, 2016·F1000Research·Camilla L C IpUNKNOWN MinION Analysis and Reference Consortium
Nov 2, 2019·Journal of Clinical Microbiology·Kuiama LewandowskiPhilippa C Matthews
Jun 23, 2020·Briefings in Bioinformatics·Sergey KnyazevAlexander Zelikovsky
Dec 27, 2016·Frontiers in Physiology·Alejandra V ContrerasOsbaldo Resendis-Antonio
Sep 28, 2018·Frontiers in Microbiology·Svetalana KhaiboullinaSubhash C Verma
Dec 16, 2018·Scientific Reports·Denis FillouxPhilippe Roumagnac
Sep 28, 2018·Scientific Reports·Matthew W KellerJohn R Barnes
Sep 5, 2020·BMC Infectious Diseases·Jacqueline KingAnne Pohlmann
Jan 26, 2021·The Canadian Journal of Infectious Diseases & Medical Microbiology = Journal Canadien Des Maladies Infectieuses Et De La Microbiologie Médicale·Xiaojian ZhuShaogui Wan
Mar 9, 2021·Frontiers in Microbiology·Kwan Woo KimHana Yi
May 1, 2021·Microorganisms·Selim Ben ChehidaPierre Lefeuvre
Jun 4, 2021·Frontiers in Veterinary Science·Emma BrownDavid King

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Datasets Mentioned

BETA
PRJEB9812

Methods Mentioned

BETA
PCR
amplicon sequencing

Software Mentioned

LASTAL
LAST
DNASTAR Lasergene
Tablet
SAMTools
BWA
Geneious R8
Metrichor
poretools
Bowtie2

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