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  • thoughts on using nanopore MinION to DNA sequence for the purpose of genome assembly?

    So I've just discovered this new device called MinION from Oxford Nanopore: https://www.nanoporetech.com/

    And it looks like a potentially cost-effective way to do DNA sequencing. At my lab, we are looking to DNA sequence and assemble the genomes (using genome assemblers like Velvet, SPAdes, etc) of 90 individual strains of Bacillus Subtilis (gram positive bacteria with a 4 MB genome). This is not De Novo assembly because we have many reference genomes available to resequence with.

    Our lab is a bit budget-strapped and it seems like sequencing our 90 strains at an NGS is out of our budget. MinION looks like a cheaper way to sequence DNA. However, I'm unclear as to the efficacy of MinION and whether the results it produces would be good enough for genome assembly.

    Does anyone have any experience or thoughts about using MinION instead of an NGS (like Illumina Miseq or Hiseq) to obtain DNA sequences for the intended downstream application of assembling genomes?

    It looks like exciting tech but I don't know its reputation or whether it would be good for producing dna sequence results acceptable for assembling bacteria genome

    Thanks!

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