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. 2018 Oct 11;8:15162. doi: 10.1038/s41598-018-33506-8

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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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Analysis of differentially expressed genes (DEGs) in dwarf and non-dwarf progenies. (a) Principle component analysis (PCA) of the RNA-seq datasets. The blue triangles indicate the non-dwarf samples and the red circles indicate the dwarf samples. (b) Volcano plot of gene differential analysis of dwarf vs. non-dwarf (D VS. S). Filter of differential genes is padj <0.05. Every plot represents a gene. The blue circles indicate genes without significant difference, the red circles indicate up-regulated genes and the green circles indicate down-regulated genes. (c) Overall cluster analysis of DEGs in the transcriptomic comparisons of D vs. S. FPKM was used to estimate the level of gene expression. The color that changes from red (highly expressed) to blue (low expression) represents the relative expression level value log₂ (ratios). (d) Top 20 KEGG pathway enrichment of up- and down-regulated DEGs. The number of genes in each pathway is equal to the dot size. The dot color represents the q-value. The smaller the q-value, the redder the dot. Rich factor = number of DEGs enriched in certain pathway term/ number of unigenes annotated in this pathway term. All up- and down-regulated DEGs are listed in detail in Supplementary Table S10.