High nucleotide similarity of three Copia lineage LTR retrotransposons among plant genomes Orozco-Arias S. auteur aut IRD Dupeyron M. auteur aut IRD Gutierrez-Duque D. auteur aut IRD Tabares-Soto R. auteur aut IRD Guyot Romain auteur aut IRD text journalArticle eng text/pdf born digital access Transposable elements (TEs) are mobile elements found in the majority of eukaryotic genomes. TEs deeply impact the structure and evolution of chromosomes and can induce mutations affecting coding genes. In plants, the major group of TEs is long terminal repeat retrotransposons (LTR-RTs). They are classified into superfamilies (Gypsy, Copia) and subclassified into lineages. Horizontal transfer (HT), defined as the nonsexual transmission of genetic material between species, is a process allowing LTRRTs to invade a new genome. Although this phenomenon was considered rare, recent studies demonstrate numerous transfers of LTR-RTs. This study aims to determine which LTR-RT lineages are shared with high similarity among 69 plant genomes. We identified and classified 88 450 LTR-RTs and determined 143 cases of high similarities between pairs of genomes. Most of them involved three Copia lineages (Oryco/Ivana, Retrofit/Ale, and Tork/Tar/Ikeros). A detailed analysis of three cases of high similarities involving Tork/Tar/Ikeros group shows an uneven distribution in the phylogeny of the elements and incongruence with between phylogenetic trees topologies, indicating they could be originated from HTs. Overall, our results suggest that LTR-RT Copia lineages share outstanding similarity between distant species and may likely be involved in HT mechanisms more frequent than initially estimated. specialized LTR retrotransposons plant genomes horizontal transfers bioinformatics genomics 076 020 Genome 66 51-61 2023 0831-2796 https://www.documentation.ird.fr/hor/fdi:010086942 10.1139/gen-2022-0026 0831-2796 [F B010086942] https://www.documentation.ird.fr/hor/fdi:010086942 https://www.documentation.ird.fr/intranet/publi/2023-04/010086942.pdf Accès réservé (Intranet de l'IRD) IRD - Base Horizon / Pleins textes 2023-04-14 2023-04-14 fdi:010086942 fre