A pipeline for completing bacterial genomes using in silico and wet lab approaches.

ABSTRACT:

Background

Despite the large volume of genome sequencing data produced by next-generation sequencing technologies and the highly sophisticated software dedicated to handling these types of data, gaps are commonly found in draft genome assemblies. The existence of gaps compromises our ability to take full advantage of the genome data. This study aims to identify a practical approach for biologists to complete their own genome assemblies using commonly available tools and resources.

Results

A pipeline was developed to assemble complete genomes primarily from the next generation sequencing (NGS) data. The input of the pipeline is paired-end Illumina sequence reads, and the output is a high quality complete genome sequence. The pipeline alternates the employment of computational

SUBMITTER: Puranik R 

PROVIDER: S-EPMC4331810 | biostudies-literature | 2015

REPOSITORIES: biostudies-literature