Comparison of the root, leaf and internode transcriptomes in sugarcane (Saccharum spp. hybrids)

•The organs of sugarcane use carbon in different ways, leading to differing ratios of insoluble and soluble compounds•Transcription aligned closely with differences in the biomass makeup of insoluble and soluble components.•Large transcriptional differences were observed among organs, and smaller differences we observed according to maturity.•This study may support efforts to develop sugarcane with biomass composition better suited to various end uses.