Fig. 6: Perturbation on the spatial organization of root-colonized microbial communities by plant metabolites.
From: Spatial profiling of microbial communities by sequential FISH with error-robust encoding
a Representative images of microbial communities in the meristem and elongation zone (~200 μm from the tip, top panels) and in the differentiation zone (~1.7 mm from the tip, bottom panels). Scalebar, 50 μm. b The number of imaged microbial cells and the community compositional profiles given by SEER-FISH. The number of cells imaged by SEER-FISH for a root sample in the control group, the camalexin-treated group and the fraxetin-treated group were 2.7 ± 0.8 × 104, 3.1 ± 1.3 × 104, and 2.5 ± 1.2 × 104, respectively. For each experimental group, 10 roots were imaged. For each root, ~80 FOVs were captured (within ~4 mm from the root tip). c Principal Coordinate Analysis (PCoA) based on Bray-Curtis dissimilarity of community compositional profiles given by imaging. Solid square indicates the compositional profile averaged over 10 root samples. d, e Spatial distribution of Sinorhizobium sp. 2 (d) and Agrobaterium sp. (e) along the root. Error bars are SEMs (n = 10 roots). f Differential spatial association analysis on root-colonized microbial taxa between camalexin-treated (or fraxetin-treated) plants and control plants (see Spatial association analysis in Methods). Fold change refers to log2[(association frequency on camalexin-treated (or fraxetin-treated) roots/simulated random frequency in treated roots)/(association frequency on control roots/simulated random frequency in control roots)]. Gray areas indicate that the analysis is not applicable. Source data are provided as a Source Data file.
