Skip to main content
. Author manuscript; available in PMC: 2023 Sep 27.
Published in final edited form as: Cell Rep. 2023 Aug 21;42(8):113009. doi: 10.1016/j.celrep.2023.113009

Figure 1. Bt gene expression and genetic fitness determinants shift over the course of colonization and persistence.

Figure 1.

(A) Experimental scheme of transcriptomics (top) and functional genetics (bottom) experiments in germ-free (GF) mice.

(B) Principal coordinates analysis (PCoA) using Bray-Curtis dissimilarity on the global gene expression profile of WT Bt at 0.5, 1, 2, 4, 7, 14, and 42 days of colonization (n = 4–7 per group).

(C) Heatmap visualizing all genes that were significantly differentially expressed at any time point relative to day 1 (criteria: logFDR < −3, |log2FC| > 2, base mean >50 RPM). Each column represents an individual gene (Table S5); data are normalized across all time points for each gene.

(D) PCoA using Bray-Curtis dissimilarity on the abundances of RB-Tn mutant strains in fecal samples, colored by experimental day, shaped by experimental cohort. Four different cohorts of mice (n = 3–5 per cohort) are represented.

See also Tables S3 and S5.