Figure 2
Statistically significant differences observed between clinical and environmental K. pneumoniae and closest related species genomes analysed. (A) Prevalence (%) of genes (Fisher’s exact test and p-value < 0.05); (B) The Shannon diversity index was determined for the alleles of each gene and the genes with significant differences between clinical and environmental genomes were identified (p-value < 0.05). The prevalence (%) of the alleles of these genes, meaning variants of a single gene that differ in at least one nucleotide, is presented. The prevalence of the genes or of the gene-alleles was determined based on the following formula: Prevalence (%) = 100 × (Number of clinical or environmental genomes containing the gene A/total number of clinical or environmental genomes) or 100 × (Number of observed variants of gene A in clinical or environmental genomes/total number of observations of the gene A in clinical or environmental genomes). *Indicates statistically significant differences between clinical and environmental within K. pneumoniae genomes. Some genes such as blaLEN and blaOKP-A were only observed in the K. variicola and K. quasipneumoniae species, respectively. AR antibiotic resistance, MR metal resistance, Vir virulence, Plasm plasmids, ES efflux systems, OS oxidative stress, QS quorum sensing.
