Figure 2: Analysis of differentially expressed genes (DEGs) in the four stages of petal development in Rosa chinensis.

(A) Overall cluster analysis of DEGs in four stages (FB_GP, FB_CP, FB_PP, and OF_PP). FPKM (fragments per kilo base of transcript per million base pairs sequenced) was used to estimate the level of gene expression. The colour change from red (highly expressed) to blue (low expression) represents the relative expression level value log2 (ratios). (B) The H_cluster analysis of DEGs in FB_GP, FB_CP, FB_PP, and OF_PP resulted in their categorisation into eight expression pattern types, SC1-SC8. SC1 and SC3: the cluster of genes that were upregulated by a log2 ratio of about one or four from FB_PP to OF_PP. SC2 and SC4: the cluster of genes which average log2 ratio of about negative three or one from FB_GP to OF_PP. SC5 and SC6: the cluster of genes that were up-regulated from FB_GP to FB_PP and down-regulated from FB_PP to OF_PP. The average log2 ratio was less than one in SC5 and more than one in SC6. SC7 and SC8 present the cluster of genes that were down-regulated or up-regulated more than a log2 ratio of four from FB_GP to OF_PP. The mean expression levels of all genes in each of the eight categories (blue line) are displayed relative to a log2 ratio of 0 (red line). The numbers of DEGs in each cluster are displayed.