title: Illumina HiSeq 2500 paired end sequencing; Arabidopsis tissue atlas
design: Arabidopsis tissue atlas
library_construction_protocol: Tissues were collected at the desired growth stage, pooled, snap-frozen in liquid nitrogen and homogenized to a fine powder.  Arabidopsis thaliana wild type (Columbia-0) plants were grown on soil or MS media respectively. Total RNA was isolated using the NucleoSpin RNA Plant kit (Macherey-Nagel, Düren, Germany). DNA was remove by on-column treatment with rDNAse (Macherey-Nagel, Düren, Germany). For recalcitrant samples (seed, silique, pollen), we adopted a LiCl-based protocol with minor modifications (Onate-Sanchez and Vicente-Carbajosa, 2008). After LiCl precipitation the RNA pellet was dissolved in rDNAse buffer (Macherey-Nagel, Düren, Germany) and treated with rDNAse (Macherey-Nagel, Düren, Germany). The final pellet was re-suspended in DEPC-treated water. cDNA libraries were prepared using the TruSeq Stranded mRNA Sample Preparation kit (Ilumina, San Diego, CA, USA) according to the manufacturer's instructions.
attributes.tag: Experimental Factor: developmental stage
attributes.value: silique stage 5
attributes.tag: Experimental Factor: organism part
attributes.value: silique
attributes.tag: Experimental Factor: sampling site
attributes.value: not applicable