Fig. 3
From: Impact of commercial gut health interventions on caecal metagenome and broiler performance
Phylogeny and taxonomic diversity of MAGs recovered from C1 (n = 60) and C2 (n = 58). a A phylogenetic tree of 65 MAGs recovered via GToTree using 25 bacterial and archaeal specific single copy genes. The tree also features G-C content, quality index (genome completion — 5 × genome contamination), and novelty (represented by phylogenetic gain (PG) values calculated using the GTDB-Toolkit). b Ten most novel MAGs (indicated by high PG). Finally, alpha diversity (c) is represented by Fisher alpha, Pielou’s evenness, rarefied richness, and Shannon and Simpson index, with ANOVA significance: p < 0.001 (***), p < 0.01 (**), p < 0.05 (*). d Beta diversity is represented by PCoA plot of Bray–Curtis indices, with PERMANOVA (p < 0.001)