Transcriptome profiling of three fruit tissues from the sun NILs in cultivated background

Experiment description: Lines nearly isogenic for SUN in the cultivated background Solanum lycopersicum c.v. Sun1642 were grown in the greenhouse in a completely randomized design. Flowers at anthesis were tagged and self-pollinated on successive days. Anthesis is defined as when the flower opens. Pollination of flowers was staggered so fruit of all developmental stages would be harvested on the same day. Fruits at stage four, seven, and ten days post anthesis (dpa) were harvested and brought back to the laboratory. Septum, seed, and pericarp tissue were isolated and frozen in liquid nitrogen. Four dpa septum tissues is a mixture of septum and seed tissue. Four dpa pericarp is a mixture of pericarp and exocarp tissue due to small size of four dpa fruits. Seven and 10 dpa pericarp don’t contain the exocarp (epidermal) tissues. Four replicates were collected. RNA was extracted using Trizol and Stand-specific libraries were prepared from total RNA and sequences of 51 bp were generated on an Illumina HiSeq2000.

Author: Josh P. Clevenger

Contact: Esther van der Knaap (, Department of Horticulture, Institute of Plant Breeding, Genetics and Genomics, University of Georgia

PubMed ID: 25941316