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. 2022 May 21;23:120. doi: 10.1186/s13059-022-02685-z

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© The Author(s) 2022

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. 3 — sRNA size distribution and DCL2 dependency. a Normalized sRNA counts for P4042 (blue line) compared to lyc (red line) plotted by size for − DESL, + DESL, and non-DESL (top panel) and mapping to each TE order (bottom panels). b Normalized sRNA counts plotted by size in dcl2 mutant (green) compared to its WT (dark blue), from − D2SL (downregulated sRNA loci), + D2SL (upregulated sRNA loci), and non-D2SL (non-differentially expressed sRNA loci). c Normalized sRNA counts plotted by size in P4042 from − DESL, + DESL, and non-DESL that overlap − D2SL, + D2SL, and non-D2SL in dcl2. The red line, sRNA counts for lyc; blue line, sRNA counts for P4042; solid line, counts for all sRNA loci in each group category; dotted line, counts for sRNAs in each category that map to EPRVs. Inset with expanded y-axes for − DESL/ − D2SL. d EPRV contribution to each − D2SL group in c top panel in each F4 plant is represented by different symbols. Box plot elements: box limits, upper and lower quartiles; center line, median; whiskers, from each quartile to the minimum or maximum