A transposable element annotation pipeline and expression analysis reveal potentially active elements in the microalga Tisochrysis lutea.

ABSTRACT:

Background

Transposable elements (TEs) are mobile DNA sequences known as drivers of genome evolution. Their impacts have been widely studied in animals, plants and insects, but little is known about them in microalgae. In a previous study, we compared the genetic polymorphisms between strains of the haptophyte microalga Tisochrysis lutea and suggested the involvement of active autonomous TEs in their genome evolution.

Results

To identify potentially autonomous TEs, we designed a pipeline named PiRATE (Pipeline to Retrieve and Annotate Transposable Elements, download: https://doi.org/10.17882/51795 ), and conducted an accurate TE annotation on a new genome assembly of T. lutea. PiRATE is composed of detection, classification and annotation steps. Its detection step combines m

SUBMITTER: Berthelier J 

PROVIDER: S-EPMC5963040 | biostudies-literature | 2018 May

REPOSITORIES: biostudies-literature