Fig. 5

Phylogenetic tree based on core genome SNPs of ECC. Core genome SNP-based phylogenetic analysis was performed with WGS data of 95 ECC clinical isolates. CST-susceptible strains, CST-heteroresistant strains, strains harboring mcr-9, strains harboring mcr-10, and strains lacking the arn operon are indicated by black, red, blue, green, and yellow circles to the right of their names. ^aE. hormaechei (subsp. hoffmannii, subsp. xiangfangensis, subsp. steigerwaltii, and subsp. oharae). ^bE. cloacae (subsp. cloacae and subsp. dissolvens). The GenBank accession numbers of the reference genes are NZ_CP011863 (E. asburiae), NZ_LEDH00000000 (E. asburiae), NZ_FYBA00000000 (E. cancerogenus), NZ_CP043318 (E. chengduensis), NZ_QZCS00000000 (E. chuandaensis), NC_014121 (E. cloacae subsp. cloacae), NZ_LEDL00000000 (E. cloacae subsp. cloacae), NC_018079 (E. cloacae subsp. dissolvens), NZ_VTTY00000000 (E. dykesii), NZ_CP017186 (E. hormaechei subsp. hoffmannii), NZ_AFHR01000000 (E. hormaechei subsp. hormaechei), NZ_CP017180 (E. hormaechei subsp. oharae), NZ_CP017179 (E. hormaechei subsp. steigerwaltii), NZ_AMGJ01000000 (E. hormaechei subsp. steigerwaltii), NZ_CP017183 (E. hormaechei subsp. xiangfangensis), NZ_LABA01000000 (E. hormaechei subsp. xiangfangensis), NZ_CP043342 (E. huaxiensis), NZ_CP01718 (E. kobei), NZ_LEDC01000000 (E. kobei), NZ_JTLO00000000 (E. ludwigii), NC_016514 (E. ludwigii), NZ_GL890773 (E. mori), NZ_AP019007 (E. oligotrophicus), NZ_SJON00000000 (E. quasihormaechei), NZ_CP017184 (E. roggenkampii), NZ_LXES00000000 (E. soli), NZ_FCOP00000000 (E. timonensis), NZ_VTUC00000000 (E. vonholyi), NZ_SJOO00000000 (E. wuhouensis), NZ_JZZB01000000 (ECC), NZ_LEEP01000000 (ECC), and NZ_AXLJ01000000 (ECC)