Metagenomics
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.
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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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.
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Rapid identification of respiratory pathogens with Oxford Nanopore metagenomics
This end-to-end workflow introduces how to rapidly identify bacterial, fungal, and viral pathogens from respiratory research samples using metagenomic Oxford Nanopore sequencing on a MinION or GridION.
Most viewed
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Oxford Nanopore sequencing solutions for microbiology and infectious disease research
In this brochure, discover Oxford Nanopore sequencing techniques that can reveal multidimensional insights for your microbial research applications.
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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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EPI2ME: data analysis for all levels of expertise
Discover EPI2ME and how it provides data analysis for all levels of expertise
Featured resources
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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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.
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Genomics for a changing planet: sequencing the living world
Discover how a global community of researchers are harnessing Oxford Nanopore sequencing to study the far-reaching impacts of climate change, revealing deep insights across environmental research, agriculture, and pathogen surveillance.
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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
使用 SQK-RPB114.24 进行细菌、真菌和病毒病原体监测的快速宏基因组测序
本实验指南提供了一种快速的宏基因组测序方法，用于鉴定细菌、真菌和病毒性病原体。
此指南具有以下特点：
- 采用二合一流程，可将同一样品分别进行细菌/真菌与病毒/非细胞前处理；
- 提供针对呼吸道样品的宿主去除与核酸提取方法；
- 采用 RT-PCR “鸟枪法”策略；
- 包含酶切法片段化、条形码标记及 PCR 扩增步骤；
- 适用于 R10.4.1 测序芯片。
仅供研究使用
Analysis workflows
wf-amplicon
This Nextflow workflow provides a simple way to analyse Oxford Nanopore reads generated from haploid amplicons.
Latest research
Metagenomics and microbial bioinformatics: latest tools and workflows
In this video, researchers discuss practical research applications, current challenges, and future directions in microbial bioinformatics. We explore how Oxford Nanopore sequencing can characterise complex microbial communities at greater resolution than legacy methods.
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Advancing clinical metagenomics for patient care in India
Explores how distributed clinical metagenomics could be implemented at a large scale across India, with insights that can extend to healthcare systems globally.
Clinical long-read metagenomic sequencing of culture-negative infective endocarditis reveals genomic features and antimicrobial resistance
Authors: Worarat Kruasuwan, Ditthawat Pathomchareansukchai, Watcharaphon Tangsawad, Natnicha Wankaew, Tantip Arigul, Perapon Nitayanon, Pattaraporn Nimsamer, Rapeephan Duangjanchot, Sopacha Arayamethakorn, Narut Chancharussin, Piroon Jenjaroenpun, Witchuda Kamolvit, Yupin Suputtamongkol, et al.
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From culture to clarity in four hours: accelerating clinical management of bloodstream infections using metagenomics
Authors: Jawad Ali, Anurag Basavaraj Bellankimath, Silje Therese Opgård, Emil Varman Manivannan,
Gunnar Skov Simonsen, Rafi Ahmad
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The planktonic microbiome of the Great Barrier Reef
Authors: Steven Robbins, Marko Terzin, Katherine Dougan, Julian Zaugg, Sara C. Bell, Patrick W. Laffy, J. Pamela Engelberts, Kim-Anh Lê Cao, Renee K. Gruber, Nicole S. Webster, David G. Bourne, Philip Hugenholtz, Yun Kit Yeoh
