PRJNA731333
Bulk time-course RNA-Seq of wound induced de novo organ formation in tomato hypocotyl explants
Micro-Tom cultivar of tomato (Solanum lycopersicum L.) has been recognized as a model for tomato research because it shares some key advantages with Arabidopsis including its small size, short life cycle and easy transformation capability. We studied wound-induced de novo shoot formation and adventitious root development in tomato hypocotyl explants without exogenous application of plant hormones. For each sample, three to four mm of the apical or the basal regions of the hypocotyl of several seedlings were collected at 0, 1, 4 and 8 days and immediately frozen in liquid N2. Total RNA from powdered tissue was extracted using Spectrum Plant Total RNA Kit (Sigma-Aldrich, USA) and treated with DNAse I (ThermoFisher Scientific, USA). Sequencing libraries were obtained with the TruSeq Stranded RNA Sample Preparation Kit v2 (Illumina, USA). NGS sequencing was carried on an Illumina HiSeq4000 in pair-end mode with 100 cycles of sequencing. Additionally, three NGS libraries were sequenced using the BGISEQ-500 pipeline at BGI Genomics (BGI Tech Solutions, Hong Kong, China), in pair-end mode with 150 cycles of sequencing.