Fig. 2 in Latilactobacillus fragifolii sp. nov., isolated from leaves of a strawberry plant (Fragaria x ananassa)

Fig. 2. Core genome phylogenetic tree of the genus Latilactobacillus. Genes were predicted with Prodigal version 2.6.3 [33] and core genes were determined, aligned and concatenated with SCARAP version 7cd24ba [16]. 662 strict core genes were found. Columns with one or more gaps were trimmed from the alignment with trimAl version 1.4.rev15 [34]. A maximum-likelihood phylogeny was inferred with IQ-Tree version 1.6.11 [31], using the LG+F+I+G4 amino acid substitution model. Bootstrap support was determined with the SH-aLRT test with 1000 replicates and the UFboot test with 1000 replicates. Branches with an SH-aLRT support of at least 80% and UFboot support of at least 95% were considered reliable and were indicated with a dark blue dot. The tree was visualized with ggtree version 3.0.2 [32].