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. 2018 Jan 2;9:13. doi: 10.1038/s41467-017-02546-5

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© The Author(s) 2017

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. 3 — Global methylation patterns in the S. lepidophylla genome. a S. lepidophylla lacks gene body methylation. Levels of CHH (green), CHG (blue) and CpG (red) methylation are plotted in the upstream (transcriptional start site; TSS), downstream (transcriptional termination site (TTS), and body of genes. b Intact LTR retrotransposons are highly methylated with decreasing levels at the 5′- and 3′-flanking regions. c Methylation levels are highly variable across the genome with strong correlation of LTR retrotransposon density. Top, genome landscape of genomic features across Contig 1. Bottom, heatmap of genomic features and methylation levels, where blue indicates low abundance and red signifies high abundance