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. 2020 Mar 13;11:1362. doi: 10.1038/s41467-020-15149-4

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© The Author(s) 2020

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/.

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Fig. 1 — Species trees are drawn with thick gray branches, red branches representing phylogenies of TEs with HTT events shown as horizontal arrows. Hits between TE copies are represented by horizontal square brackets above tree tips, those reflecting vertical inheritance of TEs (hits within clades) are represented as dashed brackets. t1 and t2 represent the divergence of species within clades. a A single HTT event should result in similarities between TEs of different clades (shown above hits) that are lower than the similarities of TEs (and of species, as estimated from synonymous divergence at orthologous genes) within at least one of the clades. b The divergence time (inferred from DNA sequence divergence) between TEs from the different clades is always lower than species divergence within the oldest clade (t1). These hits cannot result from a single HTT event, even though divergence of TE copies within the right-hand clade can be lower than that of copies between clades.