LTR retrotransposon dynamics in the evolution of the olive (Olea europaea) genome.
Bottom Line: Mapping a large set of Illumina whole-genome shotgun reads onto the identified retroelement set revealed that Gypsy elements are more redundant than Copia elements.The occurrence of numerous solo-LTRs related to isolated full-length retroelements was ascertained for two Gypsy elements and one Copia element.Overall, the results reported in this study show that RE activity (both retrotransposition and DNA loss) has impacted the olive genome structure in more ancient times than in other angiosperms.
Affiliation: Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Pisa I-56124, Italy.Show MeSH
Related in: MedlinePlus
Mentions: Phylogenetic analyses were performed by the neighbour-joining method to evaluate the relationship between isolated LTR-REs. Two phylogenetic trees were constructed based on the transcribed putative retrotranscriptase sequence of 93 Copia and 43 Gypsy REs (Figs 4 and 5). The bootstrap values suggest the occurrence of distinct families, indicated in the figures by different colours.Figure 4.
Affiliation: Department of Agricultural, Food, and Environmental Sciences, University of Pisa, Pisa I-56124, Italy.