The nature and genomic landscape of repetitive DNA classes in Chrysanthemum nankingense shows recent genomic changes.

ABSTRACT:

Background and aims

Tandemly repeated DNA and transposable elements represent most of the DNA in higher plant genomes. High-throughput sequencing allows a survey of the DNA in a genome, but whole-genome assembly can miss a substantial fraction of highly repeated sequence motifs. Chrysanthemum nankingense (2n = 2x = 18; genome size = 3.07 Gb; Asteraceae), a diploid reference for the many auto- and allopolyploids in the genus, was considered as an ancestral species and serves as an ornamental plant and high-value food. We aimed to characterize the major repetitive DNA motifs, understand their structure and identify key features that are shaped by genome and sequence evolution.

Methods

Graph-based clustering with RepeatExplorer was used to identify and classify repetitive motif

SUBMITTER: Zhang F 

PROVIDER: S-EPMC9904347 | biostudies-literature | 2023 Feb

REPOSITORIES: biostudies-literature