Fig. 3

Development is associated with altered microbiome composition. (A) Shannon Entropy of diversity shows that gut microbiome diversity significantly differs between Watts-diet fed fish to fish fed the Gemma- and ZIRC-diets in 214 days post fertilization (dpf) zebrafish. (B) Capscale ordination based on the Bray-Curtis dissimilarity of gut microbiome composition in 214 dpf zebrafish. (C) Shannon Entropy for diversity shows microbial gut diversity increases with development in 129- to 214 dpf zebrafish fed the Gemma- and ZIRC-diets, but not Watts-diet fed fish. Capscale ordination of gut microbiome composition based on the (D) Bray-Curtis dissimilarity by diet and (E) Canberra measure by time. (F) Body condition score negatively associates with gut microbiome diversity as measured by Simpson’s Index across 129- and 214 dpf zebrafish fed the ZIRC diet. The analysis shows that fish size and gut microbiome composition significantly differs between the diets across development, and there may be diet-dependent link with physiology. A “ns” indicates not significantly different, “*” indicates significant differences below the 0.05 level