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Vladimir Benes *,Jonathan Landry, Jonathon Blake, Bettina Haase, Dinko Pavlinic, Jan Provaznik EMBL, Germany |
Abstract
Advances in sequencing technologies have provided the scien- tific community with ample opportunities for almost unrestricted exploration of organisms of their choice. However, complete de novo assembly of ‘larger’ genomes continues to be technically chal- lenging. Among other things, this barrier hinders genomics core facilities from offering this application to their user base.
Ultimately, a straightforward system able to deliver compre- hensive information also on the primary code of organisms with uncharacterized genomes would ideally complement core facil- ities’ otherwise wide range of methods, which they utilize for description of other nucleic-acid cellular components.
EMBL GeneCore has applied nanopore sequencing for finish- ing several de novo genome sequencing projects. With simplified DNA isolation protocol enabling ‘reads’ over 100 kb long we have been able to considerably improve assembly of several 0.5–1 Gb genomes. Positive results from our first attempts with new R9 flow- cells indicate that to achieve worthwhile genomes’ assemblies, we will be able to reduce amount of data generated by short-read sequencing technology soon.
http://dx.doi.org/10.1016/j.bdq.2017.02.033
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