FIG 3.

Phylogenetic tree of E. cloacae complex isolates. In total, 1,321,589 SNP positions were identified, 24,510 of which occurred in at least 80% of the genomes and were used for the tree construction. Enterobacter aerogenes KCTC 2190 was used as an outgroup. Hoffmann clusters are genetic clusters identified by Hoffmann and Roggenkamp based most exhaustively on hsp60 sequences (64). ST928, ST929, and ST930 are novel sequence types identified in the present study. The dashes in the ST, phylogenetic group, and species/subspecies columns indicate that these properties could not be assigned to the corresponding isolates. In73 contained a bla_IMP-8-aacA4-catB3 cassette array, and In1441 contained a bla_GES-5-bla_OXA-17 cassette array. NTE_KPC is a bla_KPC-bearing non-Tn4401 element. The dashes in the carbapenemase and genetic context columns indicate the absence of carbapenemase-encoding genes. Strains from the Taiwanese hospital wastewater begin with TTHS and are colored red. Strains from the Japanese municipal WWTP begin with JSWP and are colored green. The other strains are reference strains.