Finished bacterial genomes from shotgun sequence data
- Filipe Ribeiro,
- Dariusz Przybylski,
- Shuangye Yin,
- Ted Sharpe,
- Sante Gnerre,
- Amr Abouelleil,
- Aaron M Berlin,
- Anna Montmayeur,
- Terrance P Shea,
- Bruce J Walker,
- Sarah K Young,
- Carsten Russ,
- Iain MacCallum,
- Chad Nusbaum and
- David B Jaffe1
- ↵* Corresponding author; email: jaffe{at}broad.mit.edu
Abstract
Exceptionally accurate genome reference sequences have proven to be of great value to microbial researchers. Thus, to date about 1800 bacterial genome assemblies have been "finished" at great expense with the aid of manual laboratory and computational processes that typically iterate over a period of months or even years. By applying a new laboratory design and new assembly algorithm to sixteen samples, we demonstrate that assemblies exceeding finished quality can be obtained from whole-genome shotgun data and automated computation. Cost and time requirements are thus dramatically reduced.
- Received April 9, 2012.
- Accepted June 13, 2012.
- © 2012, Published by Cold Spring Harbor Laboratory Press
This manuscript is Open Access.
This article is distributed exclusively by Cold Spring Harbor Laboratory Press for the first six months after the full-issue publication date (see http://genome.cshlp.org/site/misc/terms.xhtml). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 3.0 Unported License), as described at http://creativecommons.org/licenses/by-nc/3.0/.
