GSM8785405: Long day samples at Zeitgeber time 16 h replicate B; Arabidopsis thaliana; RNA-Seq
Total RNA was extracted from approximately 200 mg of pulverized whole Arabidopsis seedlings (shoot, hypocotyl, and root) using TRIzol reagent (ThermoFisher) according to manufacturer's protocol. RNA samples were treated with RNase-free DNase (QIAGEN, 79254) to remove DNA contaminants. Protein contaminants were removed by extraction with phenol-chloroform mixture (phenol:chloroform:isoamyl-alchohol 25:24:1; Thermo Fisher, AM9730) followed by precipitation using 3 M sodium acetate solution. All sequencing libraries were prepared at Yale Center for Genome Analysis (YCGA). All samples passed a quality check with ≥7.0 in RNA integration number (Agilent Bio-analyzer). For sRNA-sequencing, small RNAs (expected size ≤40 nucleotides) were size-selected from total RNA samples through gel electrophoresis at YCGA. The NEBNext Small RNA Library Prep Set for Illumina kit was used.