Nanopore sequencing

Research sequencing using Oxford Nanopore Technology

KCCG operates Australia’s leading Oxford Nanopore research sequencing service. Nanopore sequencing is an emerging technology that enables sequencing of long, native DNA/RNA molecules, with no theoretical upper limit on read-length. Common research applications for nanopore sequencing include:

  • Genome sequencing & assembly
  • Resolving challenging genomic features, such as repetitive regions & structural variation
  • Characterisation of full-length RNA isoforms & alternative splicing
  • Detection of DNA/RNA base modifications, such as 5-methylcytosine
  • Metagenomics & pathogen sequencing

We offer genome, transcriptome and metagenome sequencing projects of any size/specifications and pride ourselves on supporting custom research projects that push the boundaries.

Contact us

For enquiries about nanopore sequencing please email: nanopore@garvan.org.au

For sample submission, please use the following shipping address:

Attn: Genomic Technologies Group 
Garvan Institute of Medical Research, Precinct Loading Dock
West Street (off Burton Street)
Darlinghurst NSW 2010
Australia

Sequencing capabilities

KCCG was Australia’s first certified provider for nanopore sequencing and strives to maintain the most advanced capabilities available. We currently operate state-of-the-art GridION X5 and PromethION P24 instruments, which differ primarily in their sequencing throughput.

The PromethION (right) is the largest instrument from Oxford Nanopore and enables comprehensive sequencing of large Eukaryotic genomes/transcriptomes. A single PromethION flow cell has 3,000 nanopore channels providing up to 12,000 pores for sequencing. We typically obtain ~50-100 Gigabases of sequenced reads from a single PromethION flow cell (~15-30X human genome coverage).

The GridION uses the same flow cell as the popular, portable MinION device, which has up to 512 nanopore channels and provides up to 2,048 pores. A GridION flow cell produces moderate outputs that are suitable for analysis of organisms with smaller genomes, such as microbial samples, or where shallow genome coverage is sufficient. We typically obtain ~8-20 Gigabases of sequenced output from a single GridION flow cell.

For small, rapid jobs, a third flow cell type is available. The Flongle flow cell has up to 126 pores and is useful for projects where only a small amount of data is required, such as sequencing of PCR amplicons or viral genomes. We typically obtain 0.1-1.0 Gigabases of sequenced output from a single Flongle flow cell.

The expected output from each of these platforms varies depending on sample quality, fragment sizes and other sample-specific variables. Please contact us for expected outputs for your sample type and recommendations on the appropriate platform.