Figure 1.
Number of transcripts per tissue as compared to RNA-Seq reads across 32 diverse potato tissues.
Values are based on the “Number of RNA-Seq reads”, “Number of mapped reads”, and “Number of transcripts identified” from Tables 1 and 2.
Table 1.
Number of expressed genes and RNA-Seq reads across 16 potato tissues representing different developmental stages.
Table 2.
Number of expressed genes and RNA-Seq reads across 16 libraries from abiotic and biotic treated plants.
Table 3.
Expression of Asterid- and potato-specific genes in the DM transcriptomea.
Figure 2.
Cluster heat map of gene expression data.
The hierarchical clustering was generated using Spearman correlation coefficients of log2-transformed FPKM expression values. A. Correlation among 16 diverse potato organs using 21,630 transcripts. B. Correlation among 16 abiotic and biotic stress-related treatments using 19,704 transcripts. The color scale indicates the degree of correlation (white, low correlation; red, high correlation).
Figure 3.
Principal Component Analysis of 16 diverse potato organs based on 21,630 transcripts (A); and 16 abiotic and biotic stress-related treatments based on 19,704 transcripts (B).
The plots show the projection of the tissue (A) and treatment (B) samples on the two-dimensional space spanned by the first two principal components. The dots are colored according to tissue types (A) or abiotic/biotic treatments (B).
Figure 4.
Heat map of the eigengenes representing each gene co-expression module.
Rows correspond to eigenegenes for each of the 18 identified gene modules. Columns represent tissue samples. The color scale indicates the relative expression levels of all genes in the module.
Figure 5.
Trend plots of the normalized gene expression values for each gene from two representative modules.
A. The 290 genes in module A1 exhibit fruit tissue-specific gene expression. B. The 90 genes in module A15 are most highly expressed in tuber tissues.