title: Illumina HiSeq 2000 sequencing; Response to salt stress treatment over time in Oryza sativa L. Japonica Nipponbare, RNA-seq dataset
design: Response to salt stress treatment over time in Oryza sativa L. Japonica Nipponbare, RNA-seq dataset
library_construction_protocol: Oryza sativa L. japonica nipponbare seedlings were grown in growth chambers to the 2-3 leaf stage. At 2 weeks old, they were subjected to salt stress treatment by watering with 300 mM NaCl solution (or normal watering for control plants). Treatment was applied at 10:00 PST (2 hours post-dawn). Seedling shoots (stem and leaves) were sampled at 1 hour, 5 hours, and 24 hours post-treatment. Total cellular RNA was extracted using RNA Plant Reagent (Life Technologies) and treated with RNase-free Turbo DNase (Life Technologies) followed by a clean-up step using Plant RNeasy kits (Qiagen). Concentration, integrity and extent of contamination by ribosomal RNA were assessed using ND-1000 spectrophotometer (Thermo Fisher Scientific) and Bioanalyzer 2100 (Agilent Technologies). For details see Fox et al. (2009) Applications for Ultra-high-Throughput Sequencing. In: Belostotsky (ed.), Plant Systems Biology, vol. 553, pp. 79--108. Libraries were prepared using the TruSeq(TM) RNA Sample Preparation Kits (v2).
attributes.tag: Experimental Factor: growth condition
attributes.value: 300 millimolar sodium chloride
attributes.tag: Experimental Factor: sampling time
attributes.value: 24 hour