Physiologic recovery of Mycobacterium tuberculosis from drug injury: A molecular study of post antibiotic effect in vitro and in vivo
Fig 2
Overview of recovery in axenic culture.
(a) OD600, (b) change in CFU, and (c) RS ratio of samples during the PAE phase of recovery after being diluted to OD600 of 0.05 and allowed to grow in the absence of HRZE. Each dot represents one sample, and lines connect the median values across timepoints for untreated control (green), 6-hour treatment (orange), and 48-hour treatment (purple) group. (b) Timeline for sampling each in vitro treatment group for SEARCH-TB sequencing and analysis. (e) Hierarchical clustering of genes differentially expressed during PAE phase (N = 3,507 genes). The heatmap shows the batch-adjusted, VST-normalized, scaled gene expression averaged across samples. Clustering identified four broad patterns. Dot plots show the average expression for each cluster across time points. Each point represents an individual sample from 6-hour treatment (orange) or 48-hour treatment (purple) groups. Horizontal lines indicate average values. Values are centered around the average value for the pre-treated samples so that points above and below zero represent upregulation and downregulation relative to pre-treatment, respectively.