Fig. 4

Internode zones have unique RNAseq profiles and contain stem- and zone-specific genes. a Principal component analysis of FPKM values obtained from RNA sequencing of the MsZ, CEZ, TZ, and MZ of internode 5. b Venn diagram of genes up-regulated greater than a log₂ fold change of one against the background levels in the whole plant (WP) transcriptome. c Table showing the number of genes expressed >1 FPKM, number of genes up-regulated against the WP transcriptome with >1 log₂ fold, number of identified ‘stem-specific’ genes with >2.5 log₂ fold change against the WP background and >80 FPKM in any internode zone, and the number of ‘zone-specific’ genes with, in addition to being ‘stem-specific’, >2 log₂ fold change against all other internodal zones (with some exceptions, see Additional file 2)