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. 2018 Jul;28(7):983–997. doi: 10.1101/gr.233874.117

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© 2018 Lazar 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 7. — Gibbon BOS maintain their ancestral epigenetic identity and resemble nonsyntenic regions. (A) Examples of BOS showing a noticeable difference in CpG density (green track) and methylation (black track) between the two sides of the rearrangement with the switch occurring at the BOS (black blocks). Homology with the human chromosomes is shown below each BOS. Gibbon-specific repeats within the breakpoint explain the gap with the human alignment. (NLE) Nomascus leucogenys; (Meth) methylation. (B) Ranked barbell plots show the difference in residual methylation and CpG density between the two sides of each of the gibbon BOS. Each point represents a BOS side, and a line segment joins the two sides from the same BOS. BOS are ordered vertically by magnitude of the difference between sides. Black lines on the left show the rank associated with percentiles of distal permutation regions, whereas blue lines on the right show ranks for percentiles for adjacent permutation regions. Color-coding by age of the rearrangement highlights that old BOS (5–18 mya) are as likely as young ones (<5 mya) to show a large difference between the two sides. (C) Scatterplots of Δ residual methylation (left) and Δ CpG density (right) between gibbon and human BOS regions; each point represents one BOS. The line shows a least-squared linear regression, and the points are color-coded as in B.