title: Illumina HiSeq 2500 sequencing; RNAseq of roots and leaves of tender wheat (Triticum aestivum cv chinese Spring) during interactions with mycorhizal fungi (Funneliformis mossae) with and without a pathogen attack by Xanthomonas translucens
design: RNAseq of roots and leaves of tender wheat (Triticum aestivum cv chinese Spring) during interactions with mycorhizal fungi (Funneliformis mossae) with and without a pathogen attack by Xanthomonas translucens
library_construction_protocol: Plants were grown for 50 days in 3 L pots containing a 50/50 mixture of sand and soil carrier containing Funneliformis mossae (sold by MycAgro Lab, Dijon, France). Three replicates per condition, 2 plants per pot. Plants were grown in a light chamber, and half were treated with Xanthomonas translucens CFPB2054 (by infiltration) at 49 days, and all samples (roots, leaves) were collected at 50 days and frozen in liquid nitrogen. Samples were ground to a fine powder in liquid nitrogen and total RNA was isolated (TRI Reagent® (MRC, Cincinnati, OH)). Then, it was treated with DNase and RNA quality was confirmed with Experion™ Automated Electrophoresis System, Nanodrop™ and gel electrophoresis. Total RNA was used for mRNA preparation, fragmentation and cDNA synthesis The preparation of mRNA libraries was done using the TrueSeq Stranded mRNA Sample Preparation kit (Illumina Inc., San Diego, CA). The library quality validation (concentration and length of DNA fragments) was performed by Fragment Analyzer using the standard and high sensitivity DNA kits (Agilent Technologies, Santa Clara, CA) and by qPCR (LightCycler 480; Roche Diagnostics, Meylan, France)
attributes.tag: Experimental Factor: infect
attributes.value: none
attributes.tag: Experimental Factor: organism part
attributes.value: root