Fig. 7

Lysosome-rich enterocyte (LRE) activity and dietary protein impact gut microbiome. (A) Cartoon of 16 S rRNA gene sequencing experimental design. Homozygous cubn mutant and heterozygote larvae from the same clutch were fed a high-protein (HP) or low-protein (LP) diet from 6 to 30 dpf prior to whole larvae DNA extraction. (B) MDS plot of Bray Curtis distance between zebrafish samples. (C) Boxes show Bray Curtis distance p-values comparing genotype and diet effects on beta diversity. (D) Box plot of observed features between conditions. (E) Heat map of classes with the highest relative abundance across all samples. (F) Table of differentially abundant taxa counts at the class and genus levels. Boxes show the number of differentially abundant taxa per compared condition. Dietary comparisons are in the left column. Genotype comparisons are in the right column. (G) Heat map of the genera with the highest relative abundance across all samples. (H) Box plot showing relative abundance of Aeromonas spp. across genotypes and controls. The relative abundance of Aeromonas spp. was significantly higher in cubn mutants than heterozygotes (DESeq2, padj = 0.01).