Fig. 4

Expression of AtSOAR1 in rice alters global transcriptomic profiles as determined by RNA-seq analysis. A Volcano plots showing the status of differential expressed genes between different comparison groups. Red dots represent up-regulated genes and blue dots represent down-regulated genes. Horizontal axis and vertical axis represent the Log2 of fold change and the adjusted P value (FDR) of indicated genes, respectively. WT-S/WT, salt-treated WT relative to WT without treatment; OE/WT, OE-1 relative to WT without treatment; OE-S/OE, salt-treated OE-1 relative to OE-1 without treatment; OE-S/WT-S, salt-treated OE-1 relative to salt-treated WT. B Statistics of pathway enrichment of differential expressed genes between OE-1 and WT under salt treatment. Each dot represents a KEGG pathway as indicated at the vertical axis. Horizontal axis is rich factor of which value represent significance of enrich level to a certain pathway of differential expressed transcripts. C Heat map showing the clustering of the differentially expressed genes of the four comparisons groups. The clustering was drawn based on the normalized, log-scaled FPKM (fragments per kilo base of exon per million reads mapped) values. D Validation of the representative differential expressed genes by qPCR and semi-quantitative RT-PCR. The bands from left to right indicates WT without treatment, OE-1 without treatment, salt-treated WT and salt-treated OE-1, respectively. Hydroponic cultured two-week-old seedlings were treated with 140 mM NaCl for 2 d before sampled for total RNA extraction and cDNA synthesis. Actin1 was used for internal control and all the values are means ± SE from three independent biological determinations