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. 2015 Nov;25(11):1727–1738. doi: 10.1101/gr.188516.114

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© 2015 Beh 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. — In vivo-like nucleosome organization without trans-acting factors. (A) Histograms of nucleosome positions relative to the TSS were computed from yeast and Tetrahymena MNase-seq data using the same bioinformatic pipeline. A phased distribution of nucleosome positions downstream from the TSS is observed in chromatin from log-phase Tetrahymena and yeast grown in rich media. Surprisingly, an in vivo-like pattern of nucleosome positioning is observed in vitro for Tetrahymena but not yeast. (B) Averaged nucleosome dyad counts around the TSS reveal an in vivo-like distribution of called nucleosomes within in vitro data. MNase-digested naked DNA does not resemble in vivo data (green curve), thus ruling out potential sequence biases associated with MNase preferences.