Additional file 1 of Integrative transcriptome and proteome analyses provide new insights into different stages of Akebia trifoliata fruit cracking during ripening

Additional file 1: Fig. S1. The size distribution of the assembled transcript and unigene sequences of A. trifoliate. Fig. S2. Volcano plot depicting the transcriptome and proteome data of A. trifoliate. a, c Volcano plot depicting the transcriptome and proteome  data in PM_PS. b, d Volcano plot depicting the transcriptome and proteome  data in PL_PM. Absolute log10 and log2 fold changes are plotted on the y-axis and x-axis, respectively. Horizontal dotted line presents p values of 0.05 cut-off position while the vertical dotted lines discriminate between genes and proteins having absolute log2 fold change of 1. Red dots represent significantly different upregulated genes. Green dots represent significantly different downregulated genes. Pink dots represent a log2 fold change >1 with p < 0.05 in protein expression. Black dots indicate no difference in gene and protein expression. Fig. S3. Molecular weight and peptide count distribution were identified from TMT proteomics by searching against the database. a Distribution of the proteins that were identified among different molecular weights. b Distribution of peptide count of the proteins were identified from TMT data. Fig. S4. GO and KEGG pathway functional enrichment analysis of co-regulated genes and proteins in A. trifoliate. a, b GO enrichment analysis of co-regulated genes and proteins in PM_PS and PL_PM, respectively. c, d KEGG pathways enrichment analysis of co-regulated genes and proteins in PM_PS and PL_PM, respectively. Table S1. Sequencing statistics for A. trifoliate. Table S2. Statistical data of unigenes annotation. Table S3. The summary of the total number of transcripts and proteins identified from different stages and replicates. Table S4. The summary of the DEGs and DAPs identified from different stages and replicates. Table S5. Sequences of specific primers used for qPCR experiment.