Fig. 1

Phylogenetic tree with selected functional properties of 133 sequenced isolates obtained from chicken caecum based on the Bayesian analysis of the full-length sequences of 16S rRNA genes. Families within the phylum Firmicutes are shown in light blue, green and yellow. Families within the phylum Bacteroidetes are shown in shades of purple. Actinobacteria (family Coriobacteriaceae – Cor) are highlighted in red. In the cases when only one or two isolates were sequenced per phylum, these isolates are described by phylum name – Prot – Proteobacteria, Elu – Elusimicrobia, Ver – Verrucomicrobia, Syn – Synergistetes. In the remaining cases, branches with different families are highlighted with different colors. Rik – Rikenellaceae, Porp - Porphyromonadaceae, Bact – Bacteroidaceae, Lach – Lachnospiraceae, Clos - Clostridiaceae, Ery – Erysipelotrichaceae, Entcoc – Enterococcaceae, Lact – Lactobacillaceae, Rum – Ruminococcaceae, Veil – Veillonellaceae. BUK – butyrate kinase, BPT – phosphate butyryltransferase, BTR – butyryl-CoA transferase, AcCo – acetyl CoA pathway, LYS – lysine fermentation pathway, SUC – succinate fermentation pathway, M-MLN presence of methylmalonyl mutase, epimerase and decarboxylase required for conversion of succinate to methyl-malonyl CoA and propionate. AcGen – presence of genes required for reductive acetogenesis