Extended Data Fig. 8: Isolation and amplification of phages against non-cytolytic E. faecalis strains isolated from patients with alcoholic hepatitis.
From: Bacteriophage targeting of gut bacterium attenuates alcoholic liver disease
a, BHI agar plates showing phage plaque morphology. b, Genetic map of phage genomes. The linear maps are based on nucleotide sequences of the phage genomes and predicted open reading frames. The name and length (in bp) of each genome are indicated to the left of each phage map. Protein-coding sequences are coloured on the basis of functional role categories. Sequences that encode tRNA genes are indicated by a cloverleaf structure. c, Phylogenetic tree of Enterococcus phages. A whole-genome average nucleotide distance tree was constructed for 73 available Enterococcus phage genomes: 54 of these were from GenBank (denoted by black letters) and 19 were from this study (4 phages against cytolysin-positive E. faecalis isolated from mice (shown in blue letters); 7 phages against cytolysin-positive E. faecalis isolated from patients with alcoholic hepatitis (shown in pink letters); and 8 phages against cytolysin-negative E. faecalis isolated from patients with alcoholic hepatitis (shown in green letters)) with Mash43 using a sketch size of s = 5000 and a k-mer size of k = 12 and GGRaSP59 (Methods). Coloured branches denote specific phage genera or subfamily: Sap6virus, P68virus and Spounavirinae. The scale bar represents per cent average nucleotide divergence. All results were generated from at least three independent replicates.
