Fig. 2

Biological function analysis of differentially expressed genes (DEGs) in the embryo and endosperm. A Principal component analysis (PCA) results from transcriptome of the embryo and endosperm at 30, 45, and 60 DAH. Data for each maturation stage of the embryo and endosperm are represented in different colors; biological replicates of samples from the same maturation stage are depicted in the same color. B, C Venn diagram of the relationship based on the number of DEGs during seed maturation stages in the embryo (B) and endosperm (C). 30 vs. 45: DEGs between 30 and 45 DAH. 45 vs. 60: DEGs between 45 and 60 DAH. 30 vs. 60: DEGs between 30 and 60 DAH. D, E, F Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) enrichment terms based on DEGs between 30 and 45 DAH (D), 45 and 60 DAH (E), and 30 and 60 DAH (F). The Y-axis represents the enriched GO and KEGG pathway terms. The X-axis represents the amount of fold enrichment of GO and KEGG pathway terms. The top five GO terms associated with “biological process”, “molecular function”, and “cellular component”, and the top five KEGG terms based on fold enrichment > 2 and false discovery rate (FDR) < 0.05 were selected. The enriched KEGG pathway terms were obtained using ShinyGO