Genome annotation in the presence of insertional RNA editing.

ABSTRACT:

Motivation

Insertional RNA editing renders gene prediction very difficult compared to organisms without such RNA editing. A case in point is the mitochondrial genome of Physarum polycephalum in which only about one-third of the number of genes that are to be expected given its length are annotated. Thus, gene prediction methods that explicitly take into account insertional editing are needed for successful annotation of such genomes.

Results

We annotate the mitochondrial genome of P.polycephalum using several different approaches for gene prediction in organisms with insertional RNA editing. We computationally validate our annotations by comparing the results from different methods against each other and as proof of concept experimentally validate two of the newly predicted

SUBMITTER: Beargie C 

PROVIDER: S-EPMC2579709 | biostudies-literature | 2008 Nov

REPOSITORIES: biostudies-literature