Transcriptome analysis after knocking down class III HD ZIP transcription factors in SAM

We ubiqoutesly expressed mir165a (pUBQ>>mir165a) in ap1 cal background for RNA-Seq studies. Expression of this transgenes in ap1 cal background gives phenotype similar to their expression in wild-type (WT) backgrounds. We induced the transgenes for 8 hours or 16 hours. As a control we used pUBQ::GR-LHG4 transgeneic line. Q-PCR analysis on extracted RNA showed the successful down regulation of known target genes of class III HD ZIPs. Overall design: 2 different transgenic lines (pUBQ>>mir165as, and pUBQ::GR-LHG4) were used in ap1cal background. 2 time points (8hr and 16hr) were used for each transgenic line. 3 biological replicates were used for each time point.