Fig. 1

Experimental setup for RNA-seq and analysis of differentially expressed genes in three comparisons. Overview of the strategy for RNA-seq and analysis of differentially expressed genes. a RNAs were isolated at two time points. Stage 1: Wild-type plants without inflorescence stem and poco1 plants with inflorescence stem (pre-inflorescence-inflorescence). Stage 2: Wild-type plants with inflorescence stem and poco1 plants with flowers (inflorescence-flowering). Three RNA-seq comparisons were performed between wild-type and poco1. Comparisons 1 and 2 are referred to pre-inflorescence-inflorescence and inflorescence-flowering respectively. Comparison 3 is the comparison between wild-type and poco1 plants of the same developmental stage, in which both have inflorescence stem (inflorescence-inflorescence). b The number of up- and down-regulated differentially expressed genes between three comparisons. Differentially expressed genes were defined as those with a fold change either ≥ 2 or ≤ − 2 and an FDR < 0.05. The highest number of differentially expressed genes was observed for inflorescence-inflorescence. Venn diagrams showing unique or common differentially expressed genes in each gene of interest category as c Flowering-related genes, d ABA-related genes, and e Drought and oxidative stress-related genes. Venn diagrams were made by an online tool (http://bioinformatics.psb.ugent.be/webtools/Venn/)