Figure 2
RNA-seq data analysis of cytoadherent and wild-type P. knowlesi. (A) Correlation of the fold change of the transcript levels between samples at 4 h after RBC invasion. The coordinate axes show log2 fold changes of transcript amounts by panning selection of the 6th and 8th pans of exp-1 (left), wells 1 and 2 samples of exp-2 13th pan (middle), and samples after the 8th pan of exp-1 and well-1 of exp-2 13th pan (right). Spearman's rank correlation coefficients (ρ) are shown. (B) Volcano plots showing log2 fold changes of transcript amounts by panning selection plotted against the − log10 of q value obtained by the comparison between non-binding control samples (pre-1, -2, and -3) and binding parasites samples (8th pan of exp-1, wells 1 and 2 of exp-2 13th pan) at three different time points. The dashed and solid lines indicate absolute log2 fold change = 2 and q = 0.05, respectively. Genes significantly differentially expressed (q < 0.05) and at least fourfold changed are shown in orange dots. Genes with non-significant differences or less than fourfold changed are shown in black dots. Gene fragments of PKNH_0814200 and PKNH_0814300 are highlighted in red and blue, respectively. (C) A schematic depiction of the sica-huvec exon–intron structure, which contains 12 exons. Locations are indicated for the primers used to amplify the fragments to determine the cDNA sequence. (D) Predicted domains of SICA-HUVEC. CRD, cysteine-rich domain; TM, transmembrane domain. The size is not to scale.
