Transposable element annotation for a Genome Assembly of the stalk-eyed fly, Teleopsis dalmanni

dc.contributor.authorWilkinson, Gerald
dc.contributor.authorBaker, Richard
dc.contributor.authorReinhardt, Josephine
dc.descriptionConsensus fasta sequences of transposable elements annotated from the T. dalmanni ss NLCU04000000 genome assembly (BioProject: PRJNA391339) using RepeatModeler v 1.0.4 (Smit and Hubley 2008) with default parameters. Smit, A., and R. Hubley. 2008. RepeatModeler Open-1.0.en_US
dc.description.abstractStalk-eyed flies in the genus Teleopsis carry selfish genetic elements that induce sex ratio meiotic drive (SR) and impact the fitness of male and female carriers. Here, we assemble and describe a chromosome-level genome assembly of the stalk-eyed fly, Teleopsis dalmanni, to elucidate patterns of divergence associated with SR. The genome contains tens of thousands of transposable element (TE) insertions and hundreds of transcriptionally and insertionally active TE families. By resequencing pools of SR and ST males using short and long-reads, we find widespread differentiation and divergence between XSR and XST associated with multiple nested inversions involving most of the sex ratio haplotype. Examination of genomic coverage and gene expression data revealed seven X-linked genes with elevated expression and coverage in SR males. The most extreme and likely drive candidate involves an XSR-specific expansion of an array of partial copies of JASPer, a gene necessary for maintenance of euchromatin and associated with regulation of TE expression. In addition, we find evidence for rapid protein evolution between XSR and XST for testis expressed and novel genes, i.e. either recent duplicates or lacking a dipteran ortholog, including an X-linked duplicate of maelstrom, which is also involved in TE silencing. Overall, the evidence suggests that this ancient XSR polymorphism has had a variety of impacts on repetitive DNA and its regulation in this species.en_US
dc.relation.isAvailableAtCollege of Computer, Mathematical & Physical Sciencesen_us
dc.relation.isAvailableAtDigital Repository at the University of Marylanden_us
dc.relation.isAvailableAtUniversity of Maryland (College Park, MD)en_us
dc.subjectstalk-eyed flyen_US
dc.subjecttransposable elementen_US
dc.subjectselfish genetic elementen_US
dc.titleTransposable element annotation for a Genome Assembly of the stalk-eyed fly, Teleopsis dalmannien_US


Original bundle
Now showing 1 - 1 of 1
No Thumbnail Available
1.88 MB
Unknown data format
License bundle
Now showing 1 - 1 of 1
No Thumbnail Available
1.57 KB
Item-specific license agreed upon to submission