Evaluation and validation of de novo and hybrid assembly techniques to derive high-quality genome sequences.

ABSTRACT:

Motivation

To assess the potential of different types of sequence data combined with de novo and hybrid assembly approaches to improve existing draft genome sequences.

Results

Illumina, 454 and PacBio sequencing technologies were used to generate de novo and hybrid genome assemblies for four different bacteria, which were assessed for quality using summary statistics (e.g. number of contigs, N50) and in silico evaluation tools. Differences in predictions of multiple copies of rDNA operons for each respective bacterium were evaluated by PCR and Sanger sequencing, and then the validated results were applied as an additional criterion to rank assemblies. In general, assemblies using longer PacBio reads were better able to resolve repetitive regions. In this study, the combinati

SUBMITTER: Utturkar SM 

PROVIDER: S-EPMC4173024 | biostudies-literature | 2014 Oct

REPOSITORIES: biostudies-literature