Helitron distribution in Brassicaceae and whole Genome Helitron density as a character for distinguishing plant species.

ABSTRACT:

Background

Helitron is a rolling-circle DNA transposon; it plays an important role in plant evolution. However, Helitron distribution and contribution to evolution at the family level have not been previously investigated.

Results

We developed the software easy-to-annotate Helitron (EAHelitron), a Unix-like command line, and used it to identify Helitrons in a wide range of 53 plant genomes (including 13 Brassicaceae species). We determined Helitron density (abundance/Mb) and visualized and examined Helitron distribution patterns. We identified more than 104,653 Helitrons, including many new Helitrons not predicted by other software. Whole genome Helitron density is independent from genome size and shows stability at the species level. Using linear discriminant analysis, de n

SUBMITTER: Hu K 

PROVIDER: S-EPMC6591975 | biostudies-literature | 2019 Jun

REPOSITORIES: biostudies-literature