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. 2018 Jun 11;9:2268. doi: 10.1038/s41467-018-04730-7

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© The Author(s) 2018

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. 4 — TIA1 binding correlates with SG enrichment and mRNA decay after stress. a Comparison of TIA1 binding in AS cells and mRNA stability in RC cells. Each dot is a transcript with a defined PAS. Red dots (gene set 1) are transcripts with low TIA1 binding in AS (bottom 20%) and high stability in RC (top 20%). Blue dots (gene set 2) are transcripts with high TIA1 binding in AS (top 20%) and low stability in RC (bottom 20%). b Violin plots of 3′UTR length for three transcript sets defined in a. Significance of difference between transcript sets is indicated (***, P < 0.001, Wilcoxon test). c Cumulative distribution of difference in mRNA stability between RC and AS cells (Δlog2(Ft/4sU)) for transcripts with different TIA1 binding efficiencies. High, medium, and low TIA1 binding transcripts were top 1/3, middle 1/3, and bottom 1/3 based on log2(TIA1/Input), respectively. d Cumulative distribution of difference in stability between APA isoforms in RC (ΔLog2(Ft/4sU, RC), dPAS vs. pPAS) for genes with low (gray), medium (black), or high (blue) difference in TIA1-binding between APA isoforms (ΔLog2(TIA1/Input, AS), dPAS vs. pPAS). e Left, scatter plot showing comparison of TIA1 binding and SG enrichment under AS. Each dot represents a mouse gene and its homologous human gene. SG-enrichment score is based on association of transcripts with G3BP1 in the SG core, and TIA1 binding is log2(TIA1/Input) in AS cells. Right, enriched tetramers in the 3′UTRs of genes from different groups (as colored in the scatter plot). f A model summarizing TIA1 binding to 3′UTR isoforms, SG association during stress, and mRNA decay during recovery. Some transcripts are recruited to SGs independent of TIA1