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. 2019 Mar 18;9:4768. doi: 10.1038/s41598-019-41298-8

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© The Author(s) 2019

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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Identification of unique transcripts expressed by mpeg1:GFP+ cells during retinal regeneration. (A) The list of transcripts found to be enriched in mpeg1:GFP+ cells (log2FC > 2) during retinal regeneration (mpeg1:GFP+ regenerating retina, this study) was compared to that published to be enriched in mpeg1:GFP+ cells (log2FC > 2) obtained from steady-state (mpeg1:GFP+ resting brain, Oosterhof et al.¹²). “Regeneration-associated” transcripts (409 transcripts) are those found to be enriched in this study (with log2FC > 2), but not in mpeg1:GFP+ cells in steady-state brain (with log2FC > 2). (B) GO analysis of the 409 “regeneration-associated” transcripts shows enrichment of indicated categories in Cellular Component, Molecular Function, and Biological Process. P < 0.01 for all categories shown. (C) The list of transcripts found to be enriched in mpeg1:GFP+ cells in this study (again with log2FC > 2) was also compared to transcripts found to be upregulated or downregulated in mpeg1:GFP+ cells isolated from acutely damaged (with log2FC > 2, 2 dpi damage, up or down, (C,D) zebrafish brain (Oosterhof et al.¹²). Venn diagrams show the number of transcripts unique or shared between the two studies. Collectively, these comparisons indicate that microglia/macrophages adopt a unique transcriptional program in the context of retinal regeneration. dpi = days post injury.