Fig. 4: Spatial profiling of microbial communities colonized on Arabidopsis roots by SEER-FISH.
From: Spatial profiling of microbial communities by sequential FISH with error-robust encoding
a The protocol of synthetic microbial community colonization on Arabidopsis roots. Arabidopsis seeds were germinated on an MS plate and then colonized by a synthetic community of 12 bacterial species for 7 days under hydroponic conditions. b–d The colonization of 12-species synthetic community on different regions of 3 independent roots as identified by SEER-FISH. The edges of the root (white lines) are drawn manually based on the phase-contrast image. Scale bars, 100 μm. Numbers below each image indicate the distance to the root tip. Circles and numbers indicate the location of bacteria clusters shown in Fig. 5f. e The composition of the communities colonized on root measured by 16 S amplicon sequencing (mixture of 10 roots) and SEER-FISH (the Pearson correlation is indicated by orange dash lines). The Pearson correlation between the community compositions on 3 roots measured by SEER-FISH is indicated by blue lines. Source data are provided as a Source Data file.
