Exploration of the Drosophila buzzatii transposable element content suggests underestimation of repeats in Drosophila genomes

摘要: Many new Drosophila genomes have been sequenced in recent years using new-generation sequencing platforms and assembly methods. Transposable elements (TEs), being repetitive sequences, are often misassembled, especially the with short reads. Consequently, mobile fraction of many has not analyzed detail or compared that other different methods, which could shed light into understanding genome TE evolution. Here we compare content three genomes: D. buzzatii st-1, j-19, mojavensis. We a (j-19) complements reference (st-1) already published, their contents found an underestimation sequences genus NGS-genomes when to Sanger-genomes. To be able technologies, developed coverage-based method applied it st-1 j-19 genome. Between 10.85 11.16 % is made up TEs, between 7 7,5 genome, while TEs represent 15.35 mojavensis Helitrons most abundant order genomes. less than mojavensis, as expected according size positive correlation. However, alone do explain difference. accumulate dot chromosomes proximal regions chromosomes. also report significantly higher density X chromosomes, under current models. Our easy-to-use correction allowed us identify recently active families belonging LTR-retrotransposon superfamily Gypsy.