Fig. 4: Response of zebrafish host-microbe systems to black- and whitewater sterile and non-sterile treatments.

a, b Heatmap showing the transcript abundances of overexpressed genes in zebrafish larvae exposed to white- and blackwater non-sterile treatments. c, d Same as a, b but in sterile treatments. b, d The shared response is constituted of genes that are overexpressed in both non-sterile and sterile treatments. e Stacked barplot showing the relative abundance of the bacterial classes detected on the heads of zebrafish larvae in non-sterile black- and whitewater treatments (16 S rRNA dataset). f Stacked barplot showing the relative transcript abundance of the different Comamonadaceae taxa detected in our dataset (dual RNA-Seq dataset). In the stacked barplots, the bacterial taxa are annotated to the best taxonomic resolution possible. BWN stands for “non-sterile blackwater with native bacterioplankton”; BWI for “inverted non-sterile blackwater” (with whitewater bacterioplankton); BWS for “sterile blackwater”; BWIS for “inverted sterile blackwater” (with sterilized whitewater bacterioplankton); WWN stands for “non-sterile whitewater with native bacterioplankton”; WWI for “inverted non-sterile whitewater” (with blackwater bacterioplankton); WWS for “sterile whitewater”; WWIS for “inverted sterile whitewater” (with sterilized blackwater bacterioplankton). In the heatmaps, yellow/beige colors are associated with a low relative abundance of the transcripts from the gene in a treatment, while dark red colors are associated with high relative abundance. Source data are provided as a Source Data file.