Re-annotation of the Saccharopolyspora erythraea genome using a systems biology approach.

ABSTRACT:

Background

Accurate bacterial genome annotations provide a framework to understanding cellular functions, behavior and pathogenicity and are essential for metabolic engineering. Annotations based only on in silico predictions are inaccurate, particularly for large, high G + C content genomes due to the lack of similarities in gene length and gene organization to model organisms.

Results

Here we describe a 2D systems biology driven re-annotation of the Saccharopolyspora erythraea genome using proteogenomics, a genome-scale metabolic reconstruction, RNA-sequencing and small-RNA-sequencing. We observed transcription of more than 300 intergenic regions, detected 59 peptides in intergenic regions, confirmed 164 open reading frames previously annotated as hypothetical proteins and

SUBMITTER: Marcellin E 

PROVIDER: S-EPMC4008361 | biostudies-literature | 2013 Oct

REPOSITORIES: biostudies-literature