Fig. 4: Diel dark-light cycles drive extensive transcriptional rhythms in Porphyrobacter sp. ULC335.
From: Diurnal cycles drive rhythmic physiology and promote survival in facultative phototrophic bacteria
A Summary of the experiment: number of genes upregulated (right) or downregulated (left) in the Bchla null mutant compared to the wild type at different timepoints (ED: early day; LD: late day; EN: early night; LN: late night). B KEGG categories enriched among differentially regulated genes in the Bchla null mutant compared to the wild type; ED and LD on one side and EN and LN on the other side are considered together in this analysis. C The figure summarizes information about the temporal regulation of genes in the wild type strain and its Bchla null mutant. The Venn diagram indicates the number of temporally regulated genes in the two strains. The major clusters of genes showing a consistent light-response pattern in either of the two strains are presented based on their temporal profile (upper plot; the datapoints represent the relative transcription rates [the Z-scores of the rlog-transformed count data]) and the fraction they represent among temporally regulated genes in both strains (lower plot; light colors represent genes falling in the same cluster in the wild type and the Bchla null mutant). The same data split by strain is presented in Suplementary Fig. 20. D Heatmap of gene expression for the AAnP-associated genes. The first two columns show the relative expression of each gene in the two strains; the next eight columns represent the variation over time of the two strains. The gene number and name are shown in cyan for Bchla biosynthesis genes, gold for reaction center genes, orange for carotenoid biosynthesis genes, and red for regulators; gray is used for genes whose function is dubious.
