Fig. 4: Analysing colonization stage-specific gene expression.
From: Spatial co-transcriptomics reveals discrete stages of the arbuscular mycorrhizal symbiosis
a, The expression of canonical pre- and post-AM marker genes shown in a UMAP plot of single-nuclei dataset, coloured by normalized mRNA counts (scale, log(UMI counts + 1)). b, Module scores based on average expression level of a list of known AM marker genes; cells with module scores in the 98th percentile were selected as ‘CCCs’ and clustering was performed on this subset. Three AM marker genes known to be expressed at different colonization stages are expressed in different subclusters of the colonized cluster. c, Spatial feature plots of four AM marker genes known to be expressed at different colonization stages: MtPDR1, MtCCD1, MtPT4 and MtMYB1. Zoom in red blocks focuses on voxels that switch expression profiles.
