Evolutionary divergence and limits of conserved non-coding sequence detection in plant genomes.

ABSTRACT: The discovery of regulatory motifs embedded in upstream regions of plants is a particularly challenging bioinformatics task. Previous studies have shown that motifs in plants are short compared with those found in vertebrates. Furthermore, plant genomes have undergone several diversification mechanisms such as genome duplication events which impact the evolution of regulatory motifs. In this article, a systematic phylogenomic comparison of upstream regions is conducted to further identify features of the plant regulatory genomes, the component of genomes regulating gene expression, to enable future de novo discoveries. The findings highlight differences in upstream region properties between major plant groups and the effects of divergence times and duplication events. First, clear differen

SUBMITTER: Reineke AR 

PROVIDER: S-EPMC3152334 | biostudies-literature | 2011 Aug

REPOSITORIES: biostudies-literature