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2016 ; 14
(5
): 265-279
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Oxford Nanopore MinION Sequencing and Genome Assembly
#MMPMID27646134
Lu H
; Giordano F
; Ning Z
Genomics Proteomics Bioinformatics
2016[Oct]; 14
(5
): 265-279
PMID27646134
show ga
The revolution of genome sequencing is continuing after the successful
second-generation sequencing (SGS) technology. The third-generation sequencing
(TGS) technology, led by Pacific Biosciences (PacBio), is progressing rapidly,
moving from a technology once only capable of providing data for small genome
analysis, or for performing targeted screening, to one that promises high quality
de novo assembly and structural variation detection for human-sized genomes. In
2014, the MinION, the first commercial sequencer using nanopore technology, was
released by Oxford Nanopore Technologies (ONT). MinION identifies DNA bases by
measuring the changes in electrical conductivity generated as DNA strands pass
through a biological pore. Its portability, affordability, and speed in data
production makes it suitable for real-time applications, the release of the long
read sequencer MinION has thus generated much excitement and interest in the
genomics community. While de novo genome assemblies can be cheaply produced from
SGS data, assembly continuity is often relatively poor, due to the limited
ability of short reads to handle long repeats. Assembly quality can be greatly
improved by using TGS long reads, since repetitive regions can be easily expanded
into using longer sequencing lengths, despite having higher error rates at the
base level. The potential of nanopore sequencing has been demonstrated by various
studies in genome surveillance at locations where rapid and reliable sequencing
is needed, but where resources are limited.