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Nanopore sequencing offers advantages in all areas of research. Our offering includes DNA sequencing, as well as RNA and gene expression analysis and future technology for analysing proteins.

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Environmental research and conservation

Portable, affordable nanopore sequencing technology delivers unique opportunities for environmental research and has been used extensively to analyse environmental DNA (eDNA) and microbiome samples to support biodiversity assessment, ecosystem biomonitoring, pathogen identification, and animal conservation. Long nanopore sequencing reads provide enhanced species identification, while real-time data analysis delivers immediate access to results, whether in the field or in the lab.  

Entirely off-grid and solar-powered eDNA sequencing 

Watch the video
Off-grid sequencing reduced the time from sample-to-data to under 5 hours… Gowers, G.F. et al. Genes 10:11 (2019)

Oxford Nanopore sequencing

Traditional short-read technologies

Sequence at sample source or lab
Portable, real-time sequencing with MinION

  • Powerful, portable devices — starting at just $1,000, including sequencing reagents 
  • Get faster access to results — no more sample shipping delays
  • Minimise potential for sample degradation — reveal the true biology
  • Sequence in low resource environments with limited access to cold storage using the Field Sequencing Kit

Constrained to the lab

Traditional sequencing technologies are typically bulky, cumbersome to ship, and require substantial site infrastructure, making them difficult to deploy in mobile settings or remote locations — where much of the world’s biodiversity is located.

Real-time data streaming
Real-time results

  • Analyse data as it is generated for rapid insights
  • Stop sequencing when sufficient data obtained — wash and reuse flow cell
  • Use intuitive EPI2ME workflows for real-time microbiome analysis
     

Fixed run time with bulk data delivery

Increased time-to-result and inability to identify workflow errors until it’s too late, plus additional complexities of handing large volumes of bulk data.

Unrestricted read length (>4 Mb achieved)
Long reads offer enhanced taxonomic resolution

  • Get enhanced phylogenetic and taxonomic resolution through metabarcoding with full-length reads of informative loci (e.g. entire 16S and CO1 genes)
  • Assemble complete genomes and plasmids from metagenomic samples — resolving similar species and complex genomic regions
     

Read length typically 50–300 bp

Short sequencing reads may not span complex genomic regions, reducing the contiguity of metagenome assemblies. Metabarcoding of specific regions of interest with short reads has been reported to provide limited phylogenetic resolution. 

Streamlined workflows
Rapid, streamlined sample prep

Laborious workflows

Typically, lengthy sample preparation requirements and long sequencing run times, reducing workflow efficiency. Base modifications (e.g. methylation) are not detected as standard, with extra preparation steps and additional sequencing runs required.

White paper

Addressing the challenges of metagenomics

Microbial communities can have a profound effect on their environment, for example breaking down pollutants or generating useful by-products. In the same manner, environmental pressures, such as climate change, can impact the constitution of microbial communities. As a result, metagenomic analysis, which interrogates the genetic material of all microorganisms in a given community, not only provides significant insights into the structure and function of microbial communities but can also act as an environmental monitoring system. This White paper explores the challenges of metagenomics, with real-world examples of how they are now being addressed through the use of nanopore sequencing technology.

Get more environmental sequencing content, including eDNA, metabarcoding, and metagenomics publications, posters, and videos, in our Resource centre, or visit our Portable sequencing page.

ORG.one

Supporting rapid sequencing of critically endangered species, anywhere, by anyone

ORG.one is a pilot-stage project designed to support faster, more localised sequencing of critically endangered species, by enabling biologists to rapidly sequence those species close to the sample’s origin, using the latest ultra-long read approaches.

Data-rich, de novo whole-genome assemblies will be enabled through the provision of consumable support that can be used with Oxford Nanopore sequencers, on the condition that the data generated will be openly shared with the scientific community.

ORG.one supports the sequencing of species from the IUCN Red List, specifically the critically endangered and extinct in the wild categories (more than 8000 species)

Case study

Metagenomic analysis of microbial communities in permafrost thaw

Taking advantage of the long sequencing reads generated by nanopore technology, Devin Drown and his team at the University of Alaska Fairbanks, USA, have been researching how the thawing of permafrost may affect soil microbial communities. Devin and his team chose nanopore technology for a rapid and thorough characterisation of the complex microbial communities in the active layers. Long, PCR-free nanopore sequencing reads enable access to regions that are difficult to sequence with traditional short-read sequencing technologies, facilitating the assembly of accurate microbial genomes from complex communities.

'long read metagenomic sequences are a useful tool to assess differences in microbial community composition across different environmental conditions'

Seitz et al. Frontiers in Microbiology. 12 (2022).

Discover more about the benefits of nanopore sequencing for species identification, metagenomics, and whole genome assembly in our applications pages. 
 

Case study

ORG.one: a new program to promote sequencing biodiversity

As part of the ORG.one initiative to support faster, more localised sequencing of critically endangered species, Tomas Marques-Bonet and his team at the Institute of Evolutionary Biology in Spain are sequencing nine species (covering birds, mammals, and amphibians) to develop improved genome assemblies to support conservation efforts. Using nanopore sequencing, high-quality genome assemblies for all species were generated within approximately two months. Read N50s ranged between 20-40 kbp, with contig N50s of 30-50 Mbp, which according to Tomas is 'quite remarkable'. The team are now performing population genomics studies to better understand conservation status. The data generated is online and open access to encourage further scientific and community support for this vital initiative. 

'We are in the sixth mass extinction of species, and this time it is because of us... We need to take action from [the] economy perspective, from ecology perspective, from social perspective, and genetics and genomics as well'

Tomas Marques-Bonet, Institute of Evolutionary Biology, Spain

From animal genome assembly to support disease models, breeding programmes, conservation, and evolutionary analysis, through to the analysis of animal pathogens, gene expression, and base modifications, get comprehensive information in our Investigations pages.

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Scalable sequencing for environmental research and conservation

From portable yet powerful Flongle and MinION devices to the flexible, high-throughput benchtop GridION and PromethION platforms — scale your sequencing to match your specific environmental sample sequencing requirements.

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Nanopore sequencing yield chart

Recommended for environmental genomics

MinION Mk1C

A powerful, portable, and affordable all-in-one sequencing and analysis device. Perform real-time sequencing at sample source for the fastest access to results. Ideal for in-field or lab-based analysis of eDNA, metabarcoding, and metagenomics.

MinION

All the benefits of real-time nanopore sequencing in a pocket-sized, USB-powered device — available from just $1,000, including sequencing reagents.

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PromethION 2 & 2 Solo

Offering two independent PromethION Flow Cells for low-cost access to high-output sequencing - ideal for smaller sample number whole-genome and transcriptome projects. Available to preorder now.

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Flongle

Adapting MinION and GridION to run our lowest cost flow cells — ideal for low throughput metabarcoding projects. 

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VolTRAX

Portable, USB-powered, automated sample extraction and library preparation — use predefined or custom protocols.

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GridION

A compact benchtop device offering powerful integrated compute with on-demand access to 5 independent MinION Flow Cells — run multiple eDNA, metabarcoding, or metagenomics projects on a single device. 

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PromethION 24

Offering 24 independent, high-capacity flow cells and powerful, integrated compute, PromethION 24 delivers flexible access to terabases of sequencing data — ideal for high-throughput labs and highly multiplexed samples.

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PromethION 48

Our most powerful platform, offering flexible, high-throughput sequencing using up to 48 independent, high-capacity flow cells — complete genomic and transcriptomic characterisation of large sample numbers. 

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