Fig. 3: Transcriptional regulation follows a trajectory from planktonic to biofilm growth. | Nature Communications

Fig. 3: Transcriptional regulation follows a trajectory from planktonic to biofilm growth.

From: Bacterial single-cell RNA sequencing captures biofilm transcriptional heterogeneity and differential responses to immune pressure

Fig. 3

A The S. aureus transcriptional regulatory network. Regulatory categories are comprised of iModulon sets, where each iModulon is comprised of an independently modulated set of genes. The size of the bars corresponds to the number of genes in the iModulon. B Transcriptional regulatory categories are overlaid on UMAP plots (right). Color represents normalized expression score per cell. For reference, the cluster identities (left) are shown as defined in Fig. 2C. C Autolysin, LrgAB, and PSM iModulon expression scores, linked to their respective transcriptional regulatory category. D Overlay of total mRNA counts on the UMAP plot, where color represents mRNA counts per cell. E Trajectory analysis (Palantir algorithm) identified a differentiation pathway through the integrated biofilm and planktonic samples, moving through pseudotime from planktonic to biofilm. F Subsets of genes display positive and negative correlation with the pseudotime trajectory, p-values are noted. Additional genes are listed in Supplementary Data 8–9. Source data are provided as a Source Data file.

Back to article page