Lactate and lldD2 variants remodel the Mtb virulence transcriptome.

(A) Principal component analysis of the RNA-seq technical replicates based on normalized counts. (B) Volcano plot of the differential expression (DE) analysis. Grey indicates DE genes with log₂ fold change (L2FC) greater than 0.6 or less than -0.6 (P<0.01), red indicates DE genes with an L2FC greater than 1, blue indicates DE genes with an L2FC less than -1. There are 7 DE genes in 7H9 and 52 DE genes in lactate. (C) Heatmap of the 52 DE genes from the lactate condition, 7H9 shown for comparison. The genes are ordered according to chromosome position. Dots denote genes involved in the pathways shown in (D). (D) STRING protein-protein interaction network of the 52 DE genes from the lactate condition. P-value indicates the significance of Gene Ontology, KEGG, or STRING pathway enrichment after multiple test correction.