Illumina HiSeq 2000 paired end sequencing; RNA-Seq of water-stressed shoot and root transcriptomes of the emerging biomass and bioenergy species Arundo donax L.
RNA-Seq of water-stressed shoot and root transcriptomes of the emerging biomass and bioenergy species Arundo donax L.
Collection of shoot and root samples has been carried out with scissors. Samples have been immediately frozen in liquid nitrogen. Roots have been quickly rinsed in water and gently blotted on paper before freezing. For shoots the aerial part of plants have been cut with a sharp scissor with a single cut above the third leaf. The whole root system has been collected. Plants were grown in hydroponic culture (1% Hoagland solution) in a growth chamber for about 2-4 weeks with the following settings: long day illumination (16hrs light, 8hrs dark), light intensity of 150 micromol of photons m-2 s-1, temperature 24Â°C, humidity 60% RH. At the three leaves stage, two cohorts of cuttings were transferred to 1% Hoagland solution containing either 10% or 20% PEG 6000, while a third cohort used as control was transferred to 1% Hoagland solution without PEG. After 1 hr the tissues above the third leaf and roots were separately collected from each cohort, quickly rinsed in distilled water and snap-frozen in liquid nitrogen. 'Extraction of total RNA was carried out with the Spectrum Plant Total RNA Extraction Kit (Sigma) according to manufacturer''s instructions' 'Paired-end RNA-Seq libraries were prepared using the TrueSeq RNA Sample Prep V2 Kit (Illumina, San Diego, CA) according to manufacturer''s instructions'