Skip to main page content
U.S. flag

An official website of the United States government

Dot gov

The .gov means it’s official.
Federal government websites often end in .gov or .mil. Before sharing sensitive information, make sure you’re on a federal government site.

Https

The site is secure.
The https:// ensures that you are connecting to the official website and that any information you provide is encrypted and transmitted securely.

Access keys NCBI Homepage MyNCBI Homepage Main Content Main Navigation
. 2015 Aug;12(8):733-5.
doi: 10.1038/nmeth.3444. Epub 2015 Jun 15.

A complete bacterial genome assembled de novo using only nanopore sequencing data

Nicholas J Loman  1 , Joshua Quick  1 , Jared T Simpson  2
Affiliations

A complete bacterial genome assembled de novo using only nanopore sequencing data

Nicholas J Loman et al. Nat Methods. 2015 Aug.

Abstract

We have assembled de novo the Escherichia coli K-12 MG1655 chromosome in a single 4.6-Mb contig using only nanopore data. Our method has three stages: (i) overlaps are detected between reads and then corrected by a multiple-alignment process; (ii) corrected reads are assembled using the Celera Assembler; and (iii) the assembly is polished using a probabilistic model of the signal-level data. The assembly reconstructs gene order and has 99.5% nucleotide identity.

PubMed Disclaimer

Similar articles

See all similar articles

Cited by

See all "Cited by" articles

References

    1. Bioinformatics. 2014 Dec 1;30(23):3399-401 - PubMed
    1. Nucleic Acids Res. 2002 Jun 1;30(11):2478-83 - PubMed
    1. Curr Opin Microbiol. 2015 Feb;23:110-20 - PubMed
    1. Nat Methods. 2013 Jun;10(6):563-9 - PubMed
    1. Nat Biotechnol. 2012 Jul 01;30(7):693-700 - PubMed

Publication types

LinkOut - more resources