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. 2020 Jul 6;21:165. doi: 10.1186/s13059-020-02070-8

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© The Author(s) 2020

Open AccessThis 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 licence, and indicate if changes were made. The images or other third party material in this article are included in the article's Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article's Creative Commons licence 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 licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 4 — CP TFs up-regulated in ear primordia harbor TCP binding motifs in promoter footprints. Genomic regions are shown surrounding two class I TCP TFs that were up-regulated in ear primordia compared to tassel. For (a) GRMZM2G107031 and (b) GRMZM2G465091, RNA-seq data show enhanced expression in ear, with increased MNase HS. MNase footprint regions were called by mapping fragment center hotspots, shown in black. The 5′ (green) and 3′ (orange) fragments ends are also indicated. Four motifs (TCP, C2H2. MYC4, WRKY) were significantly enriched in footprints in promoters of genes up-regulated in ear primordia and are color-coded