Table 1.
Assembly optimization/validation of Illumina data of C. roseus.
Figure 1.
Number of transcripts representing different transcription factor families in C. roseus transcriptome.
Figure 2.
Identification of simple sequence repeats (SSRs) in C. roseus transcriptome.
(A) Distribution of SSRs in different classes (B) Frequency of most common SSRs motifs is shown by bar graph.
Figure 3.
Differential expression analysis of C. roseus transcriptome.
(A) Number of differentially expressed genes in different tissues in pairwise comparisons. Number of up-regulated genes are in bold, while down-regulated are in normal font. (B) Venn diagram showing number of up- and down-regulated (in parentheses) genes in leaf and root tissues as compared to flower. Asterisk represents genes up-regulated in one tissue and down-regulated in another tissue. (C) Heat-map showing expression patterns of differentially up-regulated TF encoding genes in different tissues. The scale at the bottom represents log2 fold change. (D) Graphical view showing GO terms associated with biological process enriched in up-regulated genes of leaf. The GO enrichment was performed using BiNGO. Node size is proportional to the number of genes in each category and shades represent the scale denoting significance level (white- no significant difference).
Table 2.
Mapping of non-redundant high-quality reads on C. roseus transcriptome.
Figure 4.
Expression patterns of transcripts involved in TIA biosynthesis.
(A) Vindoline biosynthetic pathway showing important enzymes involved in different reactions. The IDs of C. roseus transcript encoding for the respective enzymes are also indicated. The important intermediates have been highlighted in bold font. (B) Heat-map showing expression patterns of TIA genes in different tissues and treatment. The scale at the bottom of each study represents log2 value of RPKM. Transcript IDs are given at left side and their putative annotation is on right side. (C) The correlation of gene expression results obtained from RNA-seq and real time RT-PCR analysis (D) Heat-map showing expression pattern of TF encoding genes in different tissues and treatment. The scale at the bottom of each study represents log2 value of RPKM. Transcript IDs are given at left side and their putative annotation is on right side.