Fig. 5.

Pangenomic and phylogenetic analysis of Methylobacterium sp. K003. (A) Pangenome distribution illustrating three gene categories across genomes: core genes (present in 99 % to 100 % of the genomes), shell genes (present in 15 % to 95 % of the genomes), and cloud genes (present in 0 % to 15 % of the genomes). (B) Venn diagram showing the number of genes common between Methylobacterium sp. K003 and its closest strain Methylobacterium radiotolerans JCM 2831. (C) Maximum-likelihood phylogenetic tree based on the presence and absence of genes from Methylobacterium sp. K003 pangenome. Blue bar represents the pangenome, with each line corresponding to a strain and each column indicating gene variation. Gene presence is depicted in a descending frequency, with empty spaces representing gene absence. Genome comparison includes Methylobacterium sp. K003 and its closest genomes, using a minimum blastp identity of 80 % for grouping genes into the core genomes.