GSM5572229: BB10_TGACCA; Solanum lycopersicum; RNA-Seq
At 3 dpi, fruit pericarp and epidermal tissue of the blossom end halves of healthy, mock-inoculated, and inoculated fruit were collected and immediately frozen in liquid nitrogen. Frozen tissue was ground to a fine powder in liquid nitrogen. 2 gram of ground material was used during for RNA extraction as described in Blanco-Ulate et al., 2013. Purity and concentration of the extracted RNA were determined with the use of the NanoDrop One Spectrophotometer (Thermo Scientific), followed by a more precise concentration measurement with the Qubit 3 (Invitrogen). The integrity of the RNA was confirmed via agarose gel electrophoresis. cDNA libraries were barcoded individually and analyzed for quantity and quality with the High Sensitivity DNA Analysis Kit in the Agilent 2100 Bioanalyzer (Agilent, USA). cDNA libraries were pooled in equal amounts for sequencing (single end, 50 bp) at the Expression Analysis Core Facility (UC Davis, CA, USA) in an Illumina HiSeq 2000 sequencer.