The repeat element landscape of O. gracilis mostly consists of retrotransposons, including long interspersed elements (LINEs), short interspersed elements (SINEs) and long terminal repeats (LTRs).
Thus, our TE-mining pipeline is an improvement in analytical tools available to characterize the repeat element landscape of large unexplored genomes using low-coverage shotgun sequences.
Our aim here was thus to obtain comprehensive sequence-based comparative insight into snake genomic diversity, particularly the diversity and structure of the repetitive element landscape.
Excised DNA is a non-random sample of the germline repeat element landscape; younger elements, and high frequency DNA transposons and LINEs, are disproportionately eliminated from the somatic genome.
To obtain an overview of the repetitive element landscape of F elements in the four Drosophila species, we analyzed the types and distribution of repeats using four different approaches: WindowMasker, tantan, Tandem Repeats Finder, and RepeatMasker with species-specific transposon libraries.
Our work, as well as other recent studies using low-coverage data to characterize repeat element landscapes, suggests that such analyses are now feasible, despite the fact that assembling large repetitive genomes remains intractable (Macas et al. 2007; Castoe et al. 2011).
Mr. Ackley and Ms. Havinga build the exhibition around the elements of landscape -- trees, rocks, fields, water.
"We wanted to create an exchange between the two elements — the landscape is coming in and mixing with the house," Lisa Ros said.
