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. 2019 Jun;29(6):920–931. doi: 10.1101/gr.245001.118

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© 2019 Saint-Leandre et al.; Published by Cold Spring Harbor Laboratory Press

This article is distributed exclusively by Cold Spring Harbor Laboratory Press for the first six months after the full-issue publication date (see http://genome.cshlp.org/site/misc/terms.xhtml). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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Figure 1. — Phylogenetic relationships among previously and newly defined jockey subclade elements. Unrooted phylogenetic trees built from gag domain (A) and RT domain (B) consensus sequences. Node support values are posterior probabilities generated by MrBayes. Gray designates jockey elements that passed the final pipeline filter but are distantly related to the telomere-specialized subclade. Various colors delineate candidate telomere-specialized elements along with previously characterized elements that form monophyletic clades. Only the D. rhopaloa–restricted element, TARTAHRE (green), occupies different positions across the two trees and may represent long branch attraction or, instead, a chimera of the two lineages. The black arrow corresponds to the closest D. biarmipes jockey family element to the telomere-specialized subclade.