Characterization of active transposable elements and their new insertions in tuber propagated greater yam (Dioscorea alata).

ABSTRACT:

Background

Greater yam is a key staple crop grown in tropical and subtropical regions, while its asexual propagation mode had led to non-flowering mutations. How transposable elements contribute to its genetic variations is rarely analyzed. We used transcriptome and whole genome sequencing data to identify active transposable elements (TEs) and genetic variation caused by these active TEs. Our aim was to shed light on which TEs would lead to its intraspecies variation.

Results

Annotation of de novo assembly transcripts indicated that 0.8 - 0.9% of transcripts were TE related, with LTR retrotransposons (LTR-RTs) accounted for 65% TE transcripts. A large portion of these transcripts were non-autonomous TEs, which had incomplete functional domains. The majority of mapped transc

SUBMITTER: Panhwar SA 

PROVIDER: S-EPMC11403837 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature