Computational workflow for analysis of gain and loss of genes in distantly related genomes.

ABSTRACT:

Background

Early evolution of animals led to profound changes in body plan organization, symmetry and the rise of tissue complexity including formation of muscular and nervous systems. This process was associated with massive restructuring of animal genomes as well as deletion, acquisition and rapid differentiation of genes from a common metazoan ancestor. Here, we present a simple but efficient workflow for elucidation of gene gain and gene loss within major branches of the animal kingdom.

Methods

We have designed a pipeline of sequence comparison, clustering and functional annotation using 12 major phyla as illustrative examples. Specifically, for the input we used sets of ab initio predicted gene models from the genomes of six bilaterians, three basal metazoans (Cnidaria,

SUBMITTER: Ptitsyn A 

PROVIDER: S-EPMC3439731 | biostudies-literature | 2012

REPOSITORIES: biostudies-literature