Abstract
BackgroundThe MinION™ is a new, portable single-molecule sequencer developed by Oxford Nanopore Technologies. It measures four inches in length and is powered from the USB 3.0 port of a laptop computer. The MinION™ measures the change in current resulting from DNA strands interacting with a charged protein nanopore. These measurements can then be used to deduce the underlying nucleotide sequence.FindingsWe present a read dataset from whole-genome shotgun sequencing of the model organism Escherichia coli K-12 substr. MG1655 generated on a MinION™ device during the early-access MinION™ Access Program (MAP). Sequencing runs of the MinION™ are presented, one generated using R7 chemistry (released in July 2014) and one using R7.3 (released in September 2014).ConclusionsBase-called sequence data are provided to demonstrate the nature of data produced by the MinION™ platform and to encourage the development of customised methods for alignment, consensus and variant calling, de novo assembly and scaffolding. FAST5 files containing event data within the HDF5 container format are provided to assist with the development of improved base-calling methods.
Highlights
The MinIONTM is a new, portable single-molecule sequencer developed by Oxford Nanopore Technologies
Base-called sequence data are provided to demonstrate the nature of data produced by the MinIONTM platform and to encourage the development of customised methods for alignment, consensus and variant calling, de novo assembly and scaffolding
Data description Single molecule sequencing using biological nanopores was proposed nearly 20 years ago, but formidable technical challenges needed to be overcome before nucleotide sequences could be reliably read [1,2,3,4,5]
Summary
The MinIONTM is a new, portable single-molecule sequencer developed by Oxford Nanopore Technologies. For the R7 chemistry run the Genomic DNA Sequencing Kit (SQK-MAP-002) (Oxford Nanopore Technologies, Oxford, UK) was used to generate a MinIONTM sequencing library. The resulting blunt-ended DNA was cleaned-up using 1.0× by volume AMPure XP beads (Beckman Coulter, High Wycombe, UK) according to the manufacturer’s instructions with the exception that 80% ethanol was used instead of 70%, and eluted in 25 μl molecular grade water.
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