Infectious disease
Getting started guides
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A guide to microbial sequencing with Oxford Nanopore
A guide to get started with sequencing microbial samples with Oxford Nanopore.
Most viewed
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A successor to Sanger: accurate, full-length, and haplotype-resolved amplicon sequencing with Oxford Nanopore
In this application note, we evaluate Oxford Nanopore sequencing for amplicon analysis using matched datasets generated with both Oxford Nanopore and Sanger sequencing.
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Oxford Nanopore sequencing provides superior metagenome-assembled genome recovery and strain-level resolution from a complex microbiome
In this application note, we demonstrate the
capabilities of Oxford Nanopore metagenomics by
sequencing and analysing the well-characterised
ZymoBIOMICS Fecal Reference.
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Oxford Nanopore whole-genome sequencing of foodborne pathogens
In this application note, we demonstrate the suitability of Oxford Nanopore sequencing as a standalone platform for foodborne pathogen whole-genome sequencing.
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GridION: one sequencer for many
Made with multiple projects and teams in mind, GridION gives you the freedom to start, stop, and scale your sequencing experiments without impacting others. Meanwhile, onboard compute keeps your real-time data optimised. Discover more.
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MinION: palm sized, world ready
Discover how the portable yet powerful MinION Mk1D sequencing device can take your insights further afield. Start generating rapid, real-time results without compromise.
Workflow overviews
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Performing accurate species-level bacterial identification with nanopore sequencing
This end-to-end workflow provides a rapid solution for species-level bacterial identification.
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Nanopore-only microbial isolate sequencing solution (NO-MISS): flexible, rapid bacterial and fungal isolate whole-genome sequencing
This end-to-end workflow provides a rapid solution for whole-genome Oxford Nanopore sequencing of bacterial and fungal isolates.
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Streamlined identification of bacteria, archaea, and fungi with Oxford Nanopore microbial amplicon barcoding
This end-to-end workflow introduces how to sequence the full length 16S gene and ITS region with Oxford Nanopore technology.
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Rapid and complete plasmid characterisation with Oxford Nanopore sequencing
This end-to-end workflow is a rapid method for complete, high-quality whole-plasmid characterisation.
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Rapid viral sequencing for genomic surveillance of mpox using metagenomic or targeted approaches
This end-to-end workflow provides guidance for both metagenomic and targeted viral genome sequencing to deliver rapid and actionable results.
Featured resources
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Which library prep workflow is right for my experiment?
Whether you’re sequencing DNA, RNA, or cDNA, a single sample or many in multiplex, there’s an Oxford Nanopore library prep kit for you. In this masterclass, discover how to choose the right one for your workflow.
Pan-microbial pathogen detection in hours using metagenomic sequencing
In this case study, discover how the UK NHS Respiratory Metagenomics Network have developed a rapid Oxford Nanopore sequencing workflow that can detect the bacteria, viruses, fungi, and parasitic pathogens underlying respiratory infections in a matter of hours.
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Delivering the future of genomic pathogen surveillance with Oxford Nanopore sequencing
Achieve comprehensive, affordable, and real-time analysis of human and animal pathogens with nanopore sequencing.
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Addressing the challenges of metagenomics with Oxford Nanopore sequencing
Explore how reads with unrestricted length are revealing unprecedented insight into microbial communities.
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High-quality bacterial genomes without the complexity
In this case study, researchers show that near-complete bacterial genomes can be assembled using nanopore sequencing alone.
Protocols
Rapid Sequencing gDNA Barcoding Protocol (SQK‑RBK114) | Oxford Nanopore Technologies
Learn how to perform rapid genomic DNA barcoding using the Rapid Barcoding Kit V14 (SQK‑RBK114.24 / SQK‑RBK114.96). This fast, high‑yield library preparation workflow enables multiplexing of up to 96 gDNA samples with ~60‑minute prep time and compatibility with R10.4.1 flow cells.
Ligation sequencing gDNA - Native Barcoding Kit 24 V14 (SQK-NBD114.24)
This protocol describes how to carry out native barcoding of genomic DNA (gDNA) using the Native Barcoding Kit 24 V14 (SQK-NBD114.24).
Ligation sequencing gDNA - Native Barcoding Kit 96 V14 (SQK-NBD114.96)
This document describes the barcoding of native genomic DNA libraries.
For Research Use Only
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SARS-CoV-2 virus PCR tiling and sequencing from RNA using SQK-RBK114.96
This protocol is for the extraction and sequencing of ultra-high molecular weight (uHMW) genomic DNA.
Influenza virus sequencing from RNA using SQK-NBD114 (.24 or .96)
This document describes the sequencing of the influenza virus.
For Research Use Only
Analysis workflows
Latest research
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Validation of a long-read 16S rRNA-gene sequencing approach for analysis of clinical samples and bacterial identification in a routine clinical laboratory
Authors: Otto Van de gaer, Reinoud Cartuyvels, Timo Froyen, Petra Hilskens, Koen Magerman, Steven Martens, Britt Van Meensel, Jozef Dingemans
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MinION Essentials: Everything you need to know about the world’s most cost-effective and accessible sequencer
Unlock the full potential of MinION with this on-demand webinar designed for researchers at every stage of their nanopore sequencing journey.
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An open-source nanopore-only sequencing workflow for analysis of clonal outbreaks delivers short-read level accuracy
Authors: Nick Vereecke, Thomas B. Yoon, Ting L. Luo, Brendan W. Corey, Francois Lebreton, Patrick T. Mc Gann, John P. Dekker
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The Midnight Kit: sequencing whole SARS-CoV-2 genomes with Oxford Nanopore
Event abstract During this Knowledge Exchange, three presenters from Oxford Nanopore Technologies shared a comprehensive overview of the rapid, cost-effective sequencing of SARS-CoV-2 genomes using the Midnight Kit. After an introduction to the use of nanopore sequencing for genomic epidemiology,
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Core lab webinar series: A new 'gold standard' solution for complete plasmid sequencing
Event overview During our second installment of the series, the speakers shared how nanopore sequencing can be used to validate plasmids. Members of the Oxford Nanopore team took us through the protocol for plasmid sequencing using Oxford Nanopore Rapid Barcoding Kits and how to approach an
