De novo assembly of Dekkera bruxellensis: a multi technology approach using short and long-read sequencing and optical mapping.

ABSTRACT:

Background

It remains a challenge to perform de novo assembly using next-generation sequencing (NGS). Despite the availability of multiple sequencing technologies and tools (e.g., assemblers) it is still difficult to assemble new genomes at chromosome resolution (i.e., one sequence per chromosome). Obtaining high quality draft assemblies is extremely important in the case of yeast genomes to better characterise major events in their evolutionary history. The aim of this work is two-fold: on the one hand we want to show how combining different and somewhat complementary technologies is key to improving assembly quality and correctness, and on the other hand we present a de novo assembly pipeline we believe to be beneficial to core facility bioinformaticians. To demonstrate both the

SUBMITTER: Olsen RA 

PROVIDER: S-EPMC4661999 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature