The transcriptome of Plasmodium vivax reveals divergence and diversity of transcriptional regulation in malaria parasites - PubMed (original) (raw)

Comparative analyses of P. vivax and P. falciparum IDC transcriptomes. Using the best fit Pearson correlations, we correlate gene expression data in TP1–9 in P. vivax to the expression data in TP 9, 13, 17, 20, 23, 29, 35, 40, and 43 in the P. falciparum transcriptome (

Fig. S2

). (A) Histogram of the overall distribution of Pearson correlation coefficients (PCCs) for 2,426 P. vivax–P. falciparum gene pairs, which are syntenic between both species (2,923) and whose expression is also detected in both IDC transcriptomes. The PCC distribution is calculated based on the IDC transcriptome of the P. vivax smru1 isolate and the P. falciparum HB3 strain. To evaluate the timing of transcription, the mRNA expression ratios were log2 transformed, and each expression profile was mean centered. PCCs were calculated based on the visual inspections of the corresponding expression profiles, and we defined arbitrary PCCs thresholds that divide the genes according to their conservation of expression profiles between the P. vivax and P. falciparum IDC. High correlations (PCC 1 to 0.5) include genes with highly conserved IDC expression profiles, low-to-no correlations (PCC 0.5 to −0.2) include genes with a partial shift in their the IDC expression profile, and negative correlations (PCC −0.2 to −1) include genes with a dramatic change in their IDC expression profiles in P. vivax compared with P. falciparum. (B) Examples of the corresponding gene expression profiles for genes with highly conserved expression profiles (dihydrofolate reductase-thymidilate kinase, DHFR-TS, and MSP1), genes with partial shifts in their expression profiles (MSP8 and plasmepsin IV), and genes with a dramatic change of their IDC expression profiles in P. vivax compared with P. falciparum (KAHRP and lactate/malate dehydrogenase). In the plots, the expression values are log2 transformed, and the expression profiles are mean centered. The expression profiles of the P. falciparum genes are represented by raw data (blue circles) and smoothed lines using Loess smoothing method with 3 polynomial degree 3 (blue line) whereas P. vivax expression is represented by raw values only (red circles).