Fig 3. Transcriptome analysis of differentially expressed genes (DEGs) at different developmental stages of Gaocheng and Satsuma mandarin.

(A) Volcano plot showing genes differently expressed between different libraries. Q-value < 0.005 and the absolute value of log₂Ratio > 1 were used as the threshold to judge the significance of the difference in gene expression. Red plots represent genes with significantly different expression; blue plots represent those showing no significant difference. (B) Venn diagram of relationship between DEG groups. The numbers indicate the DEG number in each DEG group shown in Fig. 2. (C) Hierarchical clustering of all differentially expressed genes, classified into 8 sub-clusters. The color (from green to red) represents gene expression intensity from low to high. GCS1, GCS3 and GCS6 represent stages S1, S3 and S6 of Gaocheng, while SMS1, SMS3 and SMS6 represent stages S1, S3 and S6 of Satsuma mandarin.