A method for identification of highly conserved elements and evolutionary analysis of superphylum Alveolata.

ABSTRACT:

Background

Perfectly or highly conserved DNA elements were found in vertebrates, invertebrates, and plants by various methods. However, little is known about such elements in protists. The evolutionary distance between apicomplexans can be very high, in particular, due to the positive selection pressure on them. This complicates the identification of highly conserved elements in alveolates, which is overcome by the proposed algorithm.

Results

A novel algorithm is developed to identify highly conserved DNA elements. It is based on the identification of dense subgraphs in a specially built multipartite graph (whose parts correspond to genomes). Specifically, the algorithm does not rely on genome alignments, nor pre-identified perfectly conserved elements; instead, it performs

SUBMITTER: Rubanov LI 

PROVIDER: S-EPMC5028923 | biostudies-literature | 2016 Sep

REPOSITORIES: biostudies-literature